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Publications

Publications in 2017

  1. Shin, K., Sarker, M., Huang, S.K., and Rainey, J.K., (2017) Apelin conformational and binding equilibria upon micelle interaction primarily depend on membrane-mimetic headgroup Sci Rep Under review:
  2. Bearne, S.L.*, and St. Maurice, M.*, (2017) A paradigm for C–H bond cleavage: Structural and functional aspects of transition state stabilization by mandelate racemase Adv. Protein Chem. Struct. Biol. 109:113-160
  3. Gandier, J.A., Langelaan, D.N., Won, A., O'Donnell, K., Grondin, J.L., Spencer, H.L., Wong, P., Tillier, E., Yip, C., Smith, S.P. and Master, E.R., (2017) Characterization of a Basidiomycota hydrophobin reveals the structural basis for a high-similarity Class I subdivision Sci. Rep. 10(7):45863 [PubMed]
  4. Conroy, B.S., Weiss, E.R., Smith, S.P. and Langelaan, D.N., (2017) Backbone (1)H, (13)C, and (15)N NMR resonance assignments of the Krüppel-like factor 4 activation domain Biomol NMR Assign 11(1):95-98 [PubMed]
  5. Muñoz-Gómez, S.A., Mejía-Franco, F.G., Durnin, K., Colp, M., Grisdale, C.J., Archibald, J.M., and Slamovits, C.H., (2017) The New Red Algal Subphylum Proteorhodophytina Comprises the Largest and Most Divergent Plastid Genomes Known Curr. Biol. In Press Corrected Proof: [Article]
  6. Zhao, K., Ridgway N.D. , (2017) ORP1L regulates cholesterol egress from the endo-lysosomal system Cell Reports 19:1807-1809 [PubMed]
  7. Charman, M., Goto, A. N., Ridgway, N.D. , (2017) Oxysterol binding protein recruitment and activity at the ER-Golgi interface are independent of Sac1 Traffic In Press: [PubMed]
  8. Grondin, J.M, Langelaan, D.N, Smith S.P., (2017) Quantifying protein-carbohydrate interactions by NMR. Methods in Molecular Biology, Wade Abbott Springer-Verlag, New York:143-156 [PubMed]
  9. Yoo BH, Khan IA, Koomson A, Gowda P, Sasazuki T, Shirasawa S, Gujar S, Rosen KV, (2017) Oncogenic RAS-induced downregulation of ATG12 is required for survival of malignant intestinal epithelial cells. Autophagy IN PRESS:
  10. Langelaan, D.N., Pandey, A., Sarker, M. and Rainey, J.K., (2017) Preserved transmembrane segment topology, structure, and dynamics in disparate micellar environments J Phys Chem Lett 8:2381-2386 [PubMed] [Article]
  11. Archibald, J.M., Simpson, A.G.B, & Slamovits, C. (Eds.)., (2017) Edited work: Handbook of the Protists (2nd edition of the Handbook of Protoctista by Margulis et al.) Springer:In Press
  12. Sibbald, S., Cenci, U., Colp, M., Eglit, Y., O’Kelly, C.J., & Archibald, J. M., (2017) Diversity and evolution of Paramoeba sp. and their kinetoplastid endosymbionts. J. Eukaryot. Microbiol. Online-Early :doi: 10.1111/jeu.12394.
  13. de Vries, J., Archibald, J. M., and Gould, S. B, (2017) The carboxy terminus of YCF1 contains a motif conserved throughout >500 million years of streptophyte evolution. Genome Biol. Evol. Online-Early:doi: 10.1093/gbe/evx013.
  14. Eme, L., Gentekaki, E., Curtis, B., Archibald, J. M., and Roger, A. J., (2017) Lateral gene transfer in adaptation of the anaerobic parasite Blastocystis to the gut. Curr. Biol. 27:807-820
  15. Simpson, A. G. B., Slamovits, C. H. & Archibald, J. M., (2017) Protist diversity and eukaryote phylogeny. In: Handbook of the Protists (2nd edition of the Handbook of Protoctista by Margulis et al.) Archibald, J.M., Simpson, A.G.B, & Slamovits, C. (eds.). Springer:
  16. Sibbald, S. J. & Archibald J. M., (2017) More protist genomes needed. Nature Ecol. Evol. :In Press.
  17. de Vries, J. & Archibald J. M., (2017) Endosymbiosis: did plastids evolve from a freshwater cyanobacterium? Curr. Biol. 27:R103-105
  18. Thomas, L.N., Chedrawe, E.R., Barnes, P.J. and Too, C.K.L., (2017) Prolactin/androgen-inducible carboxypeptidase-D increases with nitrotyrosine and Ki67 for breast cancer progression in vivo, and upregulates progression markers VEGF-C and Runx2 in vitro. Breast Cancer Research and Treatment (in press):
  19. Patterson, R.E., Weatherbee-Martin, N. and Rainey, J.K., (2017) Pyrene-Apelin Conjugation Modulates Fluorophore- and Peptide-Micelle Interactions. J Phys Chem B 121:4768–4777 [PubMed] [Article]
  20. Bhar, P., and Bearne, S.L.*, (2017) Unexpected side product formed during LDA-induced phosphonylation of uridine Chem. Lett. 46:609-611
  21. Bearne, S.L.*, (2017) The interdigitating loop of the enolase superfamily as a specificity binding determinant or ‘flying buttress’ Biochim. Biophys. Acta 1865:619-630 [PubMed]
  22. Giffin, J.C., Richards, R.C., Craft, C., Jahan, N., Leggiadro, C., Chopin, T., Szemerda, M., MacKinnon, S.L. and Ewart, K.V., (2017) An extract of the marine alga Alaria esculenta modulates α-synuclein folding and amyloid formation Neurosci. Lett. 644:87-93 [PubMed]
  23. Muñoz-Gómez, S.A., Wideman, J.G., Roger, A.J., and Slamovits, C.H., (2017) The origin of mitochondrial cristae from alphaproteobacteria. Molecular Biology and Evolution. 34(4):943-956: [PubMed] [Article]
  24. Shin, K., Chapman, N.A., Sarker, M., Kenward, K., Huang, S.K., Weatherbee-Martin, N., Pandey, A., Dupré, D.J. and Rainey, J.K., (2017) Bioactivity of the putative apelin proprotein expands the repertoire of apelin receptor ligands. Biochim Biophys Acta - General Subjects 1861:1901-1912 [PubMed] [Article]
  25. Young, B.M., Nguyen, E., Chedrawe, M.A.J., Rainey, J.K. and Dupré, D.J., (2017) Differential contribution of transmembrane domains IV, V, VI, and VII to human angiotensin II type 1 receptor homomer formation J. Biol. Chem. 292:3341-3350 [PubMed] [Article]
  26. Rémi Buisson, Joshi Niraj, Amélie Rodrigue, Chu Kwen Ho, Johannes Kreuzer, Tzeh Keong Foo, Emilie J.-L. Hardy, Graham Dellaire, Wilhelm Haas, Bing Xia, Jean-Yves Masson, Lee Zou, (2017) Coupling of Homologous Recombination and the Checkpoint by ATR Molecular Cell (in press): [Article]
  27. Salsman, J. and G. Dellaire , (2017) Precision Genome Editing in the CRISPR Era Biochemistry & Cell Biology (in press): [Article]
  28. Pauty, J., A. Couturier,A. Rodrigue, M. Caron, Y. Coulombe. G. Dellaire and J.-Y. Masson , (2017) Cancer-causing mutations in the tumour suppressor PALB2 reveals a novel cancer mechanism using hidden nuclear export signal in the WD40 repeat motif Nucleic Acids Research (in press):
  29. Zhong, X.Z., Zou, Y., Sun, X., Dong, G., Cao, Q., Pandey, A., Rainey, J.K., Zhu, X. and Dong, X-P., (2017) Inhibition of TRPML1 by lysosomal adenosine involved in severe combined immunodeficiency diseases. J. Biol. Chem. 292:3445-3455 [PubMed] [Article]
  30. Doolittle W.F., (2017) Darwinizing Gaia. J. Theor. Biol.: In Press :
  31. Doolittle W.F., (2017) Making the most of clade selection. Philosophy of Science: In Press : [Article]
  32. Inkpen SA, Doolittle WF., (2017) Molecular phylogenetics and the perennial problem of homology. J. Molec. Evol. 83:184-192 [PubMed]
  33. Huang, S.K., Shin, K., Sarker, M. and Rainey, J.K., (2017) Apela exhibits isoform- and headgroup-dependent modulation of micelle binding, peptide conformation and dynamics. Biochim Biophys Acta - Biomembranes 1859:767-778 [PubMed] [Article]
  34. Hoef-Emden, K. & Archibald, J. M., (2017) Phylum Cryptophyta (Cryptomonads). Handbook of the Protists (2nd edition of the Handbook of Protoctista by Margulis et al.). Archibald, J.M., Simpson, A.G.B, & Slamovits, C. (eds.). Springer:

Publications in 2016

  1. Maekawa, M., Lee, M., Wei, K., Ridgway, N.D., and Fairn, G.D. , (2016) Staurosporines decrease ORMDL proteins and enhance sphingomyelin synthesis resulting in depletion of plasmalemmal phosphatidylserine Sci Reports 6:35726 [PubMed]
  2. Caron, D. A., Alexander, H., Allen, A. E., Archibald, J. M., Armbrust, E. V., Bachy, C., Bharti, A., Bell, C. J., Dyhrman, S. T., Guida, S., Heidelberg, K. B., Kaye, J. Z., Metzner, J., Smith, S. R., & Worden, A. Z. , (2016) Probing the evolution, ecology and physiology of marine protists using transcriptomics. Nature Rev. Microbiol. 15:6-20
  3. David, V. & Archibald J. M., (2016) Evolution: plumbing the depths of diplonemid diversity. Curr. Biol. :R1290-1292
  4. Too, C.K.L. and Abdelmagid, S.A. , (2016) L-Arginine uptake and its role in the survival of breast cancer cells. In: L-Arginine in Clinical Nutrition (Eds: VB Patel, VR Preedy and R Rajendram. Series Ed: A Bendich. Humana Press) Chap. 20:253-268 [Article]
  5. Parmar, H. and Duncan, R., (2016) A novel tribasic Golgi export signal directs cargo protein interaction with activated Rab11 and AP-1–dependent Golgi–plasma membrane trafficking Mol. Biol. Cell 27:1320-1331
  6. Muñoz-Gómez, S.A., and Roger, A.J., (2016) Leaving negative ancestors behind. eLife. 5:e20061 [Article]
  7. Langelaan, D.N., Liburd, J., Yang, Y., Miller, E., Chitayat, S., Crawley, S.W., Côté, G.P. and Smith, S.P. , (2016) Structure of the single-lobe myosin light chain C in complex with the light chain-binding domains of myosin-1C provides insights into divergent IQ-motif recognition J. Biol. Chem. 291:19607-17 [PubMed]
  8. Couturier AM, Fleury H, Patenaude AM, Bentley VL, Rodrigue A, Coulombe Y, Niraj J, Pauty J, Berman JN, Dellaire G, Di Noia JM, Mes-Masson AM, Masson JY., (2016) Roles for APRIN (PDS5B) in homologous recombination and in ovarian cancer prediction. Nucleic Acids Research 44(22):10879-10897. [PubMed] [Article]
  9. George VC, Dellaire G, Rupasinghe HP., (2016) Plant flavonoids in cancer chemoprevention: role in genome stability. Journal of Nutritional Biochemistry 45:1-14 [PubMed] [Article]
  10. Wertman J, Veinotte CJ, Dellaire G, Berman JN., (2016) The Zebrafish Xenograft Platform: Evolution of a Novel Cancer Model and Preclinical Screening Tool. Adv Exp Med Biol. 916:289-314 [PubMed]
  11. Rajan V, Dellaire G, Berman JN., (2016) Modeling Leukemogenesis in the Zebrafish Using Genetic and Xenograft Models. Methods Mol Biol. 1451:171-89 [PubMed]
  12. Khan IA, Yoo BH, Masson O, Baron S, Corkery D, Dellaire G, Attardi LD, Rosen KV., (2016) ErbB2-dependent downregulation of a pro-apoptotic protein Perp is required for oncogenic transformation of breast epithelial cells. Oncogene 35(44):5759-5769. [PubMed]
  13. Lahsaee S, Corkery DP, Anthes LE, Holly A, Dellaire G., (2016) Estrogen receptor alpha (ESR1)-signaling regulates the expression of the taxane-response biomarker PRP4K. Experimental Cell Research 340(1):125-31. [PubMed] [Article]
  14. McCluskey, G.D., Mohamady, S., Taylor, S.D., Bearne, S.L.*, (2016) Exploring the potent inhibition of CTP synthase by gemcitabine-5'-triphosphate ChemBioChem 17:2240-2249 [PubMed]
  15. Thomas, M.L., de Antueno, R., Coyle, K.M., Sultan, M., Cruickshank, B.M., Giacomantonio MA, Giacomantonio, C.A., Duncan, R., Marcato, P., (2016) Citral reduces breast tumor growth by inhibiting the cancer stem cell marker ALDH1A3. Mol Oncol. 10(9):1485-1496
  16. Booth A., Mariscal C. and Doolittle W.F., (2016) The Modern Synthesis in the light of microbial genomics. Annu. Rev. Microbiol. 70:279-297 [PubMed]
  17. Doolittle W.F. and Booth, A., (2016) It's the song, not the singer: an exploration of holobiosis and evolutionary theory. Biology and Philosophy: In Press : [Article]
  18. Doolittle W.F. and Brunet, T.D.P., (2016) What is the Tree of Life? PLoS Genetics 12(4):e1005912 [PubMed]
  19. Bartlett JJ, Trivedi PC, Yeung P, Kienesberger PC, Pulinilkunnil T., (2016) Doxorubicin Impairs Cardiomyocyte Viability by Suppressing Transcription Factor EB Expression and Disrupting Autophagy Biochem J. BCJ20160385: [PubMed]
  20. Trivedi PC, Bartlett JJ, Perez LJ, Brunt KR, Legare JF, Hassan A, Kienesberger PC, Pulinilkunnil T., (2016) Glucolipotoxicity diminishes cardiomyocyte TFEB and inhibits lysosomal autophagy during obesity and diabetes Biochim Biophys Acta. 1861(12 Pt A):1893-1910 [PubMed]
  21. Lauren Davey,Alejandro Martin Cohen, Jason LeBlanc, Scott A Halperin, Song F Lee, (2016) The disulfide oxidoreductase SdbA is active in Streptococcus gordonii using a single C‐terminal cysteine of the CXXC motif Molecular microbiology 99(2):236-253
  22. Lusine Demirkhanyan, Kunitoshi Uchida, Swapna Asuthkar, Alejandro Martin Cohen, Makoto Tominaga, Eleonora Zakharian, (2016) TRPM3 Exhibits Slight Temperature Sensitivity in the Planar Lipid Bilayer System and Requires the Presence of PIP2 Biophysical Journal 3(110):612a
  23. Swapna Asuthkar, Alejandro Martin Cohen Lusine Demirkhanyan, Eleonora Zakharian, (2016) Ubiquitin-Mediated TRPM8 Protein Degradation in the Pathogenesis of Prostate Cancer Biophysical Journal 3(110):613a
  24. Kunitoshi Uchida, Lusine Demirkhanyan, Swapna Asuthkar, Alejandro Martin Cohen, Makoto Tominaga, Eleonora Zakharian, (2016) Stimulation-dependent gating of TRPM3 channel in planar lipid bilayers The FASEB Journal 30(3):1306-1316
  25. Alejandro Martin Cohen, Axel Juan Soto and James P Fawcett, (2016) Determination of Flow Rates in Capillary Liquid Chromatography Coupled to a Nano Electrospray Source using Droplet Image Analysis Software Analytical Chemistry 88 (15):7476-7480
  26. Lin, S., Chen, G., Liu, X., Meng, Q., (2016) Chimeric spider silk proteins mediated by intein result in artificial hybrid silks. Biopolymers 105(7):385-392 [PubMed] [Article]
  27. Kennedy B.E., Hundert A.S., Goguen D., Weaver I.C.G., and Karten B., (2016) Pre-symptomatic alterations in amino acid metabolism and DNA methylation in the cerebellum of a murine model of Niemann-Pick Type C disease. Am. J. Pathol. 186:1582-1597 [PubMed] [Article]
  28. Martin L.A., Kennedy B.E., and Karten B., (2016) Mitochondrial Cholesterol: Mechanisms of Import and Effects on Mitochondrial Function. J. Bioenerg. Biomembr. 48:137-151 [PubMed] [Article]
  29. Dubé, A., Leggiadro, C. and Ewart, K.V., (2016) Rapid amyloid fibril formation by a winter flounder antifreeze protein requires specific interaction with ice. FEBS Lett. 590:1335-1344 [PubMed]
  30. Ding Y., Nash J., Berezuk A., Khursigara C.M., Langelaan D.N., Smith S.P., and Jarrell K.F., (2016) Identification of the First Transcriptional Activator of an Archaellum Operon in a Euryarchaeon. Mol. Microbiol. 102:54-70 [PubMed]
  31. Tremblay, M-L., Xu, L., Sarker, M., Liu, X-Q. and Rainey, J.K., (2016) Characterizing aciniform silk repetitive domain backbone dynamics and hydrodynamic modularity. Int. J. Mol. Sci. 147:E1305 [PubMed] [Article]
  32. Weatherbee-Martin, N., Xu, L., Hupe, A., Kreplak, L., Fudge, D.S., Liu, X-Q. and Rainey, J.K., (2016) Identification of wet-spinning and post-spin stretching methods amenable to recombinant spider aciniform silk Biomacromolecules 17:2737-2746 [PubMed] [Article]
  33. Sarker, M., Orrell, K.E., Xu, L., Tremblay, M-L., Bak, J.J., Liu, X-Q. and Rainey, J.K., (2016) Tracking transitions in spider wrapping silk conformation and dynamics by 19F nuclear magnetic resonance spectroscopy Biochemistry 55:3048–3059 [PubMed] [Article]
  34. de Vries, J., Stanton, A., Archibald, J. M., & Gould, S. B. , (2016) Streptophyte terrestrialization in light of plastid evolution. Trends Plant Sci. 21:467-476
  35. Tanifuji, G., Archibald, J. M., and Hashimoto, T., (2016) Comparative genomics of mitochondria in chlorarachniophyte algae: endosymbiotic gene transfer and organellar genome dynamics. Scientific Rep. 6 :21016. doi:10.1038/srep21016.
  36. Cenci, U., Moog, D., Curtis, B. A., Tanifuji, G., Eme, L., Lukeš, J., and Archibald, J.M., (2016) Heme pathway evolution in kinetoplastid protists. BMC Evolutionary Biology 16:109, (doi:10.1186/s12862-016-0664-6)
  37. Wideman J.G., and Muñoz-Gómez S.A., (2016) The evolution of ERMIONE in mitochondrial biogenesis and lipid homeostasis: An evolutionary view from comparative cell biology. Biochim. Biophys. Acta - Mol. Cell Biol. L. 1861(8):900-912 [PubMed] [Article]
  38. Vila-Leahey A, Oldford S, Marignani PA, Haidl I and Marshall JS, (2016) Ranitidine modifies myeloid cell populations and inhibits breast tumor development and spread in mice. Oncoimmunology 10;5(7):e1151591 [PubMed] [Article]
  39. Ahmed M1, Azam F, Gbaj A, Zetrini AE, Abodlal AS, Rghigh A, Almahdi E, Hamza A, Salama M, Ben Saber SM, (2016) Ester Prodrugs of Ketoprofen: Synthesis, in vitro Stability and in vivo Biological Evaluation, and In Silico Comparative Docking Studies against COX-1 and COX-2 Current Drug Discovery Technologies : [PubMed]
  40. Harty, M., and Bearne, S.L.*, (2016) Measuring benzohydroxamate complexation with Mg2+, Mn2+, Co2+, and Ni2+ using isothermal titration calorimetry J. Therm. Anal. Calorim. 123:2573–2582
  41. Khan IA, Yoo BH, Masson O, Corkery D, Dellaire G, Baron S, Attardi LD and Rosen KV, (2016) ErbB2-dependent downregulation of a pro-apoptotic protein Perp is required for oncogenic transformation of breast epithelial cells. Oncogene 35:5759-57 [PubMed]
  42. Pal, M., Khanal, M., Marko, R., Thirumalairajan, S., and Bearne, S.L.*, (2016) Rational design and synthesis of substrate‐product analogue inhibitors of α­‐methylacyl­‐coenzyme A racemase from Mycobacterium tuberculosis Chem. Commun. 52:2740-2743 [PubMed]
  43. Klionsky D.J., ….Rosen K.V…et al. (multiple authors), (2016) Guidelines for the use and interpretation of assays for monitoring autophagy (3d edition). Autophagy 12(1):1-222 [PubMed]
  44. Ridgway, N.D., (2016) Analysis of sphingolipid synthesis and transport by metabolic labeling of cultured cells with [3H]serine Methods Mol. Biol. 1376:195-202 [PubMed]
  45. Goto, A., Charman, M. and Ridgway N.D., (2016) Oxysterol Binding Protein Activation at Endoplasmic Reticulum-Golgi Contact Sites Reorganizes Phosphatidylinositol 4-Phosphate Pools J. Biol. Chem. 219:1336-1347 [PubMed]
  46. Pandey, A., Shin, K., Patterson, R.E., Liu, X-Q. and Rainey, J.K., (2016) Current strategies for protein production and purification enabling membrane protein structural biology. Biochem. Cell Biol. 94(6):507-527 [PubMed] [Article]
  47. Cenci, U., Moog, D, & Archibald, J. M. , (2016) Origin and spread of plastids endosymbiosis. Algae symbioses. Grube, M., Muggia, L. & Seckbach, J. (eds.). Springer-Verlag:

Publications in 2015

  1. Orthwein A, Noordermeer SM, Wilson MD, Landry S, Enchev RI, Sherker A, Munro M, Pinder J, Salsman J, Dellaire G, Xia B, Peter M, Durocher D., (2015) A mechanism for the suppression of homologous recombination in G1 cells. Nature 528(7582):422-6 [PubMed] [Article]
  2. Corkery DP, Holly AC, Lahsaee S, Dellaire G., (2015) Connecting the speckles: Splicing kinases and their role in tumorigenesis and treatment response. Nucleus 6(4):279-88 [PubMed] [Article]
  3. El-Naggar AM, Veinotte CJ, Cheng H, Grunewald TG, Negri GL, Somasekharan SP, Corkery DP, Tirode F, Mathers J, Khan D, Kyle AH, Baker JH, LePard NE, McKinney S, Hajee S, Bosiljcic M, Leprivier G, Tognon CE, Minchinton AI, Bennewith KL, Delattre O, Wang Y, Dellaire G, Berman JN, Sorensen PH., (2015) Translational Activation of HIF1α by YB-1 Promotes Sarcoma Metastasis. Cancer Cell 27(5):682-97 [PubMed] [Article]
  4. Sidik SM, Salsman J, Dellaire G, Rohde JR., (2015) Shigella infection interferes with SUMOylation and increases PML-NB number. PLoS ONE 10(4):e0122585 [PubMed] [Article]
  5. Kalousi A, Hoffbeck AS, Selemenakis PN, Pinder J, Savage KI, Khanna KK, Brino L, Dellaire G, Gorgoulis VG, Soutoglou E., (2015) The nuclear oncogene SET controls DNA repair by KAP1 and HP1 retention to chromatin. Cell Reports 11(1):149-63. [PubMed] [Article]
  6. Corkery DP, Le Page C, Meunier L, Provencher D, Mes-Masson AM, Dellaire G., (2015) PRP4K is a HER2-regulated modifier of taxane sensitivity Cell Cycle 14(7):1059-69 [PubMed] [Article]
  7. Mariscal, C. and Doolittle, W.F. , (2015) Eukaryotes first: how could that be? Phil. Trans. R. Soc. Lond. B. 370(1678):20140322 [PubMed]
  8. Brunet, T.D. and Doolittle, W.F. , (2015) Multilevel selection theory and the evolutionary functions of transposable elements. Genome Biol. Evol. 7(8):2445-2457 [PubMed] [Article]
  9. Booth, A. and Doolittle, W.F., (2015) Eukaryogenesis, how special really? Proc. Natl. Acad. Sci. USA 112(33):10278-85 [PubMed]
  10. Pia A Elustondo, Alexander Negoda, Alejandro Martin Cohen, Evgeny Pavlov, (2015) Activation of the Mitochondrial Permeability Transition Pore Leads to the Increase in Amount of C-Subunit of ATP Synthase Associated with Channel-Forming Complex of Polyhydroxybutyrate and Inorganic Polyphosphate Biophysical Journal 108(2):608a
  11. Catherine Béliveau, Alejandro Martin Cohen, Don Stewart, Georges Periquet, Abdelmadjid Djoumad, Lisa Kuhn, Don Stoltz, Brian Boyle, Anne-Nathalie Volkoff, Elisabeth A Herniou, Jean-Michel Drezen, Michel Cusson, (2015) Genomic and Proteomic Analyses Indicate that Banchine and Campoplegine Polydnaviruses Have Similar, if Not Identical, Viral Ancestors American Society for Microbiology 89(17):8909-8921
  12. Jiao, G., Hui, J.P., Burton, I.W., Thibault, M.H., Pelletier, C., Boudreau, J., Tchoukanova, N., Subramanian, B., Djaoued, Y., Ewart, S., Gagnon, J., Ewart, K.V. and Zhang, J., (2015) Characterization of shrimp oil from Pandalus borealis by high performance liquid chromatography and high resolution mass spectrometry. Mar. Drugs 13:3849-3876 [PubMed]
  13. Read J., Clancy E.K., Sarker M., de Antueno R., Langelaan D.N., Parmar H.B., Shin K., Rainey J.K., and Duncan R., (2015) Reovirus FAST Proteins Drive Pore Formation and Syncytiogenesis Using a Novel Helix-Loop-Helix Fusion-Inducing Lipid Packing Sensor. PLoS Pathog. 11(6): [PubMed]
  14. Bearne, S.L.*, (2015) Comment on “A better magnetic stir bar retriever” J. Chem. Educ. 92:1777-1777 [Article]
  15. Muñoz-Gómez, S.A., Slamovits, C.H., Dacks, J.B., and Wideman, J.G., (2015) The evolution of MICOS: ancestral and derived functions and interactions. Commun. Integr. Biol. 8(6):e1094593 [Article]
  16. Muñoz-Gómez, S.A., Slamovits, C.H., Dacks, J.B., Baier, K.A., Spencer, K.D., and Wideman, J.G., (2015) Ancient Homology of the Mitochondrial Contact Site and Cristae Organizing System Points to an Endosymbiotic Origin of Mitochondrial Cristae. Curr. Biol. 25(11):1489–1495 [PubMed] [Article]
  17. Nagar, M., Bearne, S.L.*, (2015) An additional role for the Brønsted acid-base catalysts of mandelate racemase in transition state stabilization Biochemistry 54:6743-6752 [PubMed]
  18. Dai X, Liu XQ, Meng Q., (2015) Segmental expression and C-terminal labeling of protein ERp44 through protein trans-splicing. Protein Expr Purif. 112:29-36 [PubMed]
  19. Dai X, Xun Q, Liu XQ, Meng Q., (2015) Cysteine-free non-canonical C-intein for versatile protein C-terminal labeling through trans-splicing. Appl Microbiol Biotechnol. 99(19):8151-61 [PubMed]
  20. Schoiswohl G, Stefanovic-Racic M, Menke MN, Wills RC, Surlow BA, Basantani MK, Sitnick MT, Cai L, Yazbeck CF, Stolz DB, Pulinilkunnil T, O'Doherty RM, Kershaw EE., (2015) Impact of Reduced ATGL-Mediated Adipocyte Lipolysis on Obesity-Associated Insulin Resistance and Inflammation in Male Mice. Endocrinology. 156:3610-3624 [PubMed]
  21. O'Neill HM, Lally JS, Galic S, Pulinilkunnil T, Ford RJ, Dyck JR, van Denderen BJ, Kemp BE, Steinberg GR., (2015) Skeletal muscle ACC2 S212 phosphorylation is not required for the control of fatty acid oxidation during exercise. Physiol Rep. 3:e12444 [PubMed]
  22. David, V., Flegontov, P., Gerasimov, E.,Tanifuji, G.,Hashimi, H., Logacheva, M.G., Maruyama, S., Onodera, N.T., Gray, M.W., Archibald, J.M. and Lukeš, J., (2015) Gene loss and error-prone RNA editing in the mitochondrion of Perkinsela, an endosymbiotic kinetoplastid. mBio 6:e01498-15
  23. Archibald, J. M. , (2015) Evolution: Gene transfer in complex cells. Nature 524:423-424
  24. David, V., Flegontov, P., Gerasimov, E., Tanifuji, G., Hashimi, H., Logacheva, M.D., Maruyama, S., Onodera, N. T., Gray, M. W., Archibald, J. M., and Lukeš, J., (2015) Gene loss and error-prone RNA editing in the mitochondrion of Perkinsela, an endosymbiotic kinetoplastid. mBio. :6, e01498-15
  25. Moog, D., Rensing, S. A., Archibald, J. M., Maier, U.-G., and Ullrich, K. K. , (2015) Localization and evolution of putative triose phosphate translocators in the diatom Phaeodactylum tricornutum. Genome Biol. Evol. On-line early (doi:10.1093/gbe/evv190):
  26. Ridgway, N.D. and McLeod, R.S., (2015) Biochemistry of Lipids, Lipoproteins and Membranes, 6th Edition Ridgeway, N.D. and McLeod, R.S. (Eds.) Elsevier: [Article]
  27. McLeod, R.S. and Yao, Z., (2015) Assembly and Secretion of Triglyceride-rich Lipoproteins Biochemistry of Lipids, Lipoproteins and Membranes, 6th Edition, Ridgeway, N.D. and McLeod, R.S. (Eds.) Elsevier:pp 459-488
  28. Pinder, J., J. Salsman, and G. Dellaire, (2015) Nuclear domain “knock-in” screen for the evaluation and identification of small molecule enhancers of CRISPR-based genome editing Nucleic Acids Research 43(19):9379-92 [PubMed] [Article]
  29. Chung, D., and G. Dellaire. , (2015) The role of the COP9 signalosome and neddylation in DNA damage signaling and repair Biomolecules in press:
  30. Corkery, D., A. Holly, S. Lahsaee, and G. Dellaire, (2015) Connecting the Speckles: Splicing kinases and their role in tumorigenesis and treatment response Nucleus 6(4):279-88 [PubMed] [Article]
  31. El-Naggar, A.M., C.J Veinotte, H. Cheng, T.G.P. Grunewald, G. Luca Negri, S. Prakash Somasekharan, D.P. Corkery, F. Tirode, J. Mathers, D. Khan, A.H Kyle, J.H Baker, N.E. LePard, S.McKinney, S.Hajee, M. Bosiljcic, G. Leprivier, C.E. Tognon, A.I. Minchinton, K.L. Bennewith, O.Delattre, Y. Wang, G. Dellaire, J.N. Berman, and P.H. Sorensen., (2015) Tranlsational activation of HIF1a by YB-1 promotes sarcoma metastasis Cancer Cell 27(5):682-97 [PubMed] [Article]
  32. Corkery, D.P., L. Meunier , C. Le Page , D.M. Provencher , A-M Mes-Masson and G. Dellaire, (2015) PRP4K is a novel Her2-regulated biomarker of taxane sensitivity Cell Cycle 14(7):1059-69 [PubMed] [Article]
  33. Kalousi, A., A-S. Hoffbeck, P. Selemenakis, J. Pinder, K.I. Savage, K.K. Khanna, L. Brino, G. Dellaire, V.G. Gorgoulis, and E. Soutoglou , (2015) The nuclear oncogene SET controls DNA repair by KAP1 and HP1 retention on chromatin Cell Reports 11(1):149-63 [PubMed] [Article]
  34. Sidik, S., J. Salsman, G. Dellaire, and J. Rohde, (2015) Shigella infection interferes with SUMOylation and increases PML-NB number PLoS ONE 10(4):e0122585 [PubMed] [Article]
  35. Bentley, V., C. Veinotte, D. Corkery, J. Pinder, M.A. Leblanc, K. Bedard, A.P Weng, J.N. Berman, and G. Dellaire, (2015) Focused chemical genomics using zebrafish xenotransplantation as a preclinical therapeutic platform for T-cell acute lymphoblastic leukemia Haematologica 100(1):70-6 [PubMed] [Article]
  36. Lu, S. Boyd, R. J. and Grindley, T. B., (2015) Role of Fluoride in Accelerating the Reactions of Dialkylstannylene Acetals The Journal of Organic Chemistry 80(6):2989-3002 [PubMed] [Article]
  37. Majdalawieh, A.F. and Ro, H.-S., (2015) Sesamol and sesame (Sesamum indicum) oil enhance macrophage cholesterol efflux via up-regulation of PPARγ1 and LXRα transcriptional activity in a MAPK-dependent manner. Eur J Nutr 54(5):691-800 [PubMed]
  38. Sultana S, Reichbauer J, Schüle R, Mochel F, Synofzik M, and van der Spoel AC, (2015) Lack of enzyme activity in GBA2 mutants associated with hereditary spastic paraplegia/cerebellar ataxia (SPG46) Biochem Biophys Res Com 465:35-40 [PubMed] [Article]
  39. Vieira DB, Thur KE, Sultana S, Priestman D, and van der Spoel AC, (2015) Verification and refinement of cellular glycosphingolipid profiles using HPLC Biochemistry & Cell Biology in press: [Article]
  40. Ridgway , N.D. and McLeod, R.S., (2015) Biochemistry of Lipids, Lipoproteins and Membranes Editors: Ridgway and McLeod : [Article]
  41. Aitchison, A.J., Arsenault, D.J., and Ridgway, N., (2015) Nuclear-localized CTP: phosphocholine cytidylyltransferase α regulates phosphatidylcholine synthesis required for lipid droplet biogenesis Mol. Biol. Cell 26(16):2927-2938 [PubMed] [Article]
  42. Nagar, M., Wyatt, B.N., St. Maurice, M., Bearne, S.L.*, (2015) Inactivation of mandelate racemase by 3-hydroxypyruvate reveals a potential mechanistic link between enzyme superfamilies Biochemistry 54:2747-2757 [PubMed]
  43. Cornell, R.B. and Ridgway N.D., (2015) CTP: phosphocholine cytidylyltransferase: Function, regulation, and structure of an amphitropic enzyme required for membrane biogenesis. Prog. Lipid Res. 59:147-171 [PubMed]
  44. Sharpe, S.C., Eme, L., Brown, M.W. and Roger, A.J. , (2015) Timing the origins of multicellular eukaryotes through phylogenomics and relaxed molecular clock analyses. Evolutionary Transitions to Multicellular Life, Advances in Marine Genomics 2, I. Ruiz-Trillo and A.M. Nedelcu (Eds.) Springer Science:In Press
  45. Thomas, L.N., Merrimen, J., Bell, D.G., Rendon, R. and Too, C.K.L., (2015) Prolactin- and testosterone-induced carboxypeptidase-D correlates with increased nitrotyrosines and Ki67 in prostate cancer. The Prostate 75:1726-1736 [PubMed] [Article]
  46. Nývltová E, Stairs CW, Hrdý I, Rídl J, Mach J, Pačes J, Roger AJ, Tachezy J., (2015) Lateral gene transfer and gene duplication played a key role in the evolution of Mastigamoeba balamuthi hydrogenosomes. Mol Biol Evol. 2(4):1039-55 [PubMed]
  47. Leger MM, Petrů M, Žárský V, Eme L, Vlček Č, Harding T, Lang BF, Eliáš M, Doležal P, Roger AJ., (2015) An ancestral bacterial division system is widespread in eukaryotic mitochondria. Proc Natl Acad Sci U S A. pii: 201421392: [PubMed]
  48. Gawryluk RM, Eme L, Roger AJ., (2015) Gene fusion, fission, lateral transfer, and loss: Not-so-rare events in the evolution of eukaryotic ATP citrate lyase. Mol Phylogenet Evol. 91:12-16 [PubMed]
  49. Archibald, J. M. , (2015) Endosymbiosis and eukaryotic cell evolution. Curr. Biol. 25:R911-R921
  50. Archibald, J. M. , (2015) Genomic perspectives on the birth and spread of plastids. Proc. Natl. Acad. Sci. USA. 112:10147-10153
  51. Muñoz-Gómez, S.A., Slamovits, C.H., Dacks, J.B., Baier, K.A., Spencer, K.D. and Wideman, J.G. , (2015) Ancient homology of the mitochondrial contact site and cristae organizing system points to an endosymbiotic origin of mitochondrial cristae. Current Biology 25(11):1489–1495 [PubMed] [Article]
  52. Chevrier, G.S., Mitchell, P.L., Rioux, L.E., Hasan, F., Jin, T., Roland Roblet, C., Doyen, A., Pilon, G., St-Pierre, P., Bazinet, L., Gill, T.A., McLeod, R.S., and Marette, A., (2015) Small peptides isolated from salmon protein alleviates components of the metabolic syndrome in obese atherosclerotic mice J. Nutr. 145 (7):1415-22 [PubMed]
  53. DeClercq, V., d’Eon, B. and McLeod, R.S. , (2015) Fatty acids increase adiponectin secretion through both classical and exosome pathways Biochim. Biophys. Acta Mol. Cell Biol. Lipids 1851 (9):1123-1133 [PubMed]
  54. Dubé JJ, Sitnick MT, Schoiswohl G, Wills RC, Basantani MK, Cai L, Pulinilkunnil T, Kershaw EE., (2015) Adipose triglyceride lipase deletion from adipocytes, but not skeletal myocytes, impairs acute exercise performance in mice. Am J Physiol Endocrinol Metab. : [PubMed]
  55. Jason Power, Nathan Weatherbee-Martin, Michael Boudreau, Michael O'Brien, Gary Conboy, and Todd Smith, (2015) Diversity and Ecology of Pulmonary Metastrongyloidosis in Coyotes (Canis latrans) of Nova Scotia, Canada No Access Comparative Parasitology 82:85-93
  56. Read, J., Clancy, E.K., Sarker, M., de Antueno, R., Langelaan, D.N., Parmar, H.B., Shin, K., Rainey, J.K. and Duncan, R., (2015) Reovirus FAST proteins drive pore formation and syncytiogenesis using a novel helix-loop-helix fusion-inducing lipid packing sensor PLoS Pathog 11(6):e1004962 [PubMed] [Article]
  57. Kienesberger, P., (2015) Myocardial metabolic abnormalities and cardiac dysfunction. Pathophysiology and Pharmacotherapy of Cardiovascular Disease. Springer:in press
  58. Rachakonda, V.P., Reeves, V.L., Aljammal J., Wills, R.C., Trybula, J.S., DeLany, J.P., Kienesberger, P.C., Kershaw, E.E., (2015) Serum autotaxin is independently associated with hepatic steatosis in women with severe obesity. Obesity (Silver Spring) in press: [PubMed]
  59. Clattenburg, L., Wigerius, M., Qi, J., Rainey, J.K., Rourke, J.L., Muruganandan, S., Sinal, C.J. and Fawcett, J.P., (2015) NOS1AP functionally associates with YAP to regulate Hippo signaling Mol. Cell. Biol. 35:2265-2277 [PubMed] [Article]
  60. Key, T., Sarker, M., de Antueno, R., Rainey JK, Duncan R., (2015) The p10 FAST protein fusion peptide functions as a cystine noose to induce cholesterol-dependent liposome fusion without liposome tubulation. Biochim. Biophys. Acta. 1848:408-416.
  61. Falkenham, A., de Antueno, R., Rosin N, Betsch D, Lee TD, Duncan R, Légaré JF. , (2015) Nonclassical resident macrophages are important determinants in the development of myocardial fibrosis. Am. J. Pathol. 185 :927-942.
  62. Yoo BH, Zagryazhskaya A, Li Y, Koomson A, Khan IA, Sasazuki T, Shirasawa S, and Rosen KV, (2015) Upregulation of ATG3 contributes to autophagy induced by the detachment of intestinal epithelial cells from the extracellular matrix, but promotes autophagy-independent apoptosis of the attached cells. Autophagy 11(8):1230-46 [PubMed]
  63. Gray, M.W., (2015) The mosaic nature of the mitochondrial proteome: implications for the origin and evolution of mitochondria. Proc. Natl. Acad. Sci. U.S.A. 112:10133-10138 [PubMed] [Article]
  64. Tremblay, M-L., Xu, L., Lefèvre, T., Sarker, M., Orrell, K.E., Leclerc, J., Meng, Q., Pezolet, M., Auger, M., Liu, X-Q. and Rainey, J.K., (2015) Spider wrapping silk fiber architecture arising from its modular soluble protein precursor. Sci. Rep. 5:11502 [PubMed] [Article]
  65. Gaspard, GJ and McMaster, CR, (2015) The mitochondrial quality control protein Yme1 is necessary to prevent defective mitophagy in a yeast model of Barth Syndrome. J.Biol.Chem 2015 Feb 16. pii: jbc.M115.641878. [Epub ahead of print]: [PubMed] [Article]
  66. Gile, G.H., Moog, D., Maier, U.-G., Slamovits, C., and Archibald, J. M., (2015) Dual organellar targeting of aminoacyl-tRNA synthetases in diatoms and cryptophytes. Genome Biol. Evol. 7(6):1728-42 [PubMed]
  67. Kai, F., Fawcett, J., and Duncan, R., (2015) Synaptopodin-2 induces assembly of peripheral actin bundles and immature focal adhesions to promote lamellipodia formation and prostate cancer cell migration Oncotarget 6:11162-11174
  68. Vila-Leahey, A., Oldford, S., Marignani, PA. and Marshall, JS., (2015) Histamine receptor 2 blockade reduces breast tumor development and metastasis The Journal of Immunology vol.194 (1 Supplement):210.12 [Article]
  69. Falkenham, A., de Antueno, R., Rosin, N., Betsch, D., Lee, T.D.G., Duncan, R., Légaré, J.-F., (2015) Non-classical resident macrophages are important determinants in the development of myocardial fibrosis. Amer. J. Pathol. 185:927-942
  70. Jha, A., Yadav, Y., Naidu, A.B., Rao, V.K., Kumar, A., Parmar, V.S., MacDonald, W.J., Too, C.K.L., Balzarini, J., Barden, C.J. and Cameron, T.S., (2015) Design, synthesis and bioevaluation of novel 6-(4-hydroxypiperidino)naphthalen-2-ol-based potential Selective Estrogen Receptor Modulators for breast cancer. Eur. J. Med. Chem. 92:103-114 [PubMed] [Article]
  71. Yoo BH, Masson O, Li Y, Khan I, Gowda P and Rosen KV, (2015) Anoikis of colon carcinoma cells triggered by β-catenin loss can be enhanced by Tumor Necrosis Factor Receptor 1 antagonists. Oncogene 34(38):4939-51 [PubMed]
  72. Eftaiha, A.F., Tremblay, M-L., Rainey, J.K. and Paige, M.F, (2015) The effect of perfluorooctadecanoic acid on a model phosphatidylcholine-peptide pulmonary lung surfactant mixture. J. Fluorine Chem. 177:55-61 [Article]
  73. Key, T., Sarker, M., de Antueno, R., Rainey, J.K. and Duncan, R., (2015) The p10 FAST protein fusion peptide functions as a cystine noose to induce cholesterol-dependent liposome fusion without liposome tubulation. Biochim Biophys Acta - Biomembranes 1848:408-416 [PubMed] [Article]
  74. Andrade-Vieira, R, Marignani PA, multi-author, (2015) Assessing the carcinogenic potential of low-dose exposures to chemical mixtures in the environment: the challenge ahead Carcinogenesis Vol 36 (Suppl):S254-S296 [PubMed] [Article]
  75. Sarker, M., Fraser, R.E., Lumsden, M.D., Anderson, D.J. and Rainey, J.K., (2015) Characterization of variant soft nanoparticle structure and morphology in solution by NMR spectroscopy. J Phys Chem C 119:7461-7471 [Article]
  76. Nahta, R., Andrade-Vieira R., multi-author., Marignani PA, (2015) Mechanisms of environmental chemicals that enable the cancer hallmark of evasion of growth suppression. Carcinogenesis 36 (Suppl 1):S2-S18 [PubMed] [Article]

Publications in 2014

  1. Doolittle, W.F., (2014) Natural selection through survival alone, and the possibility of Gaia. Biology and Philosophy 29:415-423 [Article]
  2. H Awad, MJ Stoudemayer, L Usher, IJ Amster, Alejandro Martin Cohen, U Das, RM Whittal, J Dimmock, A El‐Aneed, (2014) The unexpected formation of [M− H]+ species during MALDI and dopant‐free APPI MS analysis of novel antineoplastic curcumin analogues Journal of Mass Spectrometry 49(11):1139-1147
  3. Kennedy B.E., Madreiter C.T., Vishnu N., Malli R., Graier W.F., and Karten B., (2014) Adaptations of energy metabolism associated with increased levels of mitochondrial cholesterol in Niemann-Pick Type C1-deficient cells. J. Biol. Chem. 289:16278-16289 [PubMed] [Article]
  4. Vance J.E. and Karten B., (2014) Niemann-Pick C Disease and Mobilization of Lysosomal Cholesterol by Cyclodextrin J. Lipid Res. 55:1609-1621 [PubMed] [Article]
  5. Denis C.M., Langelaan D.N., Kirlin A.C., Chitayat S., Munro K., Spencer H.L., LeBrun D.P., and Smith S.P., (2014) Functional redundancy between the transcriptional activation domains of E2A is mediated by binding to the KIX domain of CBP/p300. Nucleic Acids. Res. 42(11):7370-7382 [PubMed]
  6. Salah M. Bensaber • H. A. Allafe • Nouri B. Ermeli • Salah B. Mohamed • Abdulmottaleb A. Zetrini • Sami G. Alsabri • Mabrouk Erhuma • Anton Hermann • Mousa I. Jaeda • Abdul M. Gbaj, (2014) Chemical synthesis, molecular modelling, and evaluationof anticancer activity of some pyrazol-3-one Schiff basederivatives Med Chem Res :
  7. TDP Brunet, WF Doolittle, (2014) Getting “function” right Proceedings of the National Academy of Sciences 111 (33):E3365-E3365 [Article]
  8. WF Doolittle, TDP Brunet, S Linquist, TR Gregory, (2014) Distinguishing between “function” and “effect” in genome biology Genome Biology and Evolution 6 (5):1234-1237 [Article]
  9. Klement, K., M.S. Luijsterburg, J. Pinder, C.S. Cena, V. Del Nero1, C.M. Wintersinger, G. Dellaire, H. van Attikum, A.A. Goodarzi, (2014) Opposing ISWI- and CHD-class chromatin remodeling activities orchestrate heterochromatic DNA repair Journal of Cell Biology 207(6):717-733 [PubMed] [Article]
  10. Lemaître, C., A. Grabarz, K.Tsouroula, L. Andronov, A. Furst, T. Pankotai, V.Heyer, M. Rogier, K.M. Attwood, P. Kessler, G. Dellaire, B. Reina-San-Martin, and E. Soutoglou , (2014) Nuclear position dictates DNA repair pathway choice Genes & Development 28(22):2450-63 [PubMed] [Article]
  11. Liu, Y., A. Asnani, L. Zou, V.L. Bentley, M. Yu, Y.Wang, G.Dellaire, K.S. Sarkar, M. Dai, H.H. Chen, D.E. Sosnovik, J.T. Shin, D.A. Haber, J.N. Berman, W. Chao, and R.T. Peterson , (2014) Visnagin protects against doxorubicin-induced cardiomyopathy through modulation of mitochondrial malate dehydrogenase Science Translational Medicine 6(266):266ra170 [PubMed] [Article]
  12. Majdalawieh, A.F. and Ro, H.-S., (2014) The anti-atherogenic properties of sesamin are mediated via improved macrophage cholesterol efflux through PPARγ1-LXRα and MAPK signaling. Int J Vitam Nutr Res 84(1-2):79-91 [PubMed]
  13. Gentekaki, E., Kolisko, M., Boscaro, V., Bright, K.J., Dini ,F., Di Giuseppe, G., Gong, Y., Miceli, C., Modeo, L., Molestina, R.E,. Petroni, G., Pucciarelli, S., Roger, A.J., Strom, S.L. and Lynn, DH. , (2014) Large-scale phylogenomic analysis reveals the phylogenetic position of the problematic taxon Protocruzia and unravels the deep phylogenetic affinities of the ciliate lineages. Mol. Phylogenet. Evol. 78C:36-42
  14. Tsaousis AD, Gentekaki E, Eme L, Gaston D, Roger AJ., (2014) Evolution of the cytosolic iron-sulfur cluster assembly machinery in Blastocystis species and other microbial eukaryotes. Eukaryot Cell. 13(1):143-53 [PubMed]
  15. Wang HC, Susko E, Roger AJ., (2014) An amino acid substitution-selection model adjusts residue fitness to improve phylogenetic estimation. Mol Biol Evol. 31(4):779-92 [PubMed]
  16. Kamikawa R, Kolisko M, Nishimura Y, Yabuki A, Brown MW, Ishikawa SA, Ishida K, Roger AJ, Hashimoto T, Inagaki Y., (2014) Gene content evolution in Discobid mitochondria deduced from the phylogenetic position and complete mitochondrial genome of Tsukubamonas globosa. Genome Biol Evol. 6(2):306-15 [PubMed]
  17. Tanifuji G, Onodera NT, Brown MW, Curtis BA, Roger AJ, Ka-Shu Wong G, Melkonian M, Archibald JM., (2014) Nucleomorph and plastid genome sequences of the chlorarachniophyte Lotharella oceanica: convergent reductive evolution and frequent recombination in nucleomorph-bearing algae. BMC Genomics. 15(1):374 [PubMed]
  18. Klimeš V, Gentekaki E, Roger AJ, Eliáš M., (2014) A large number of nuclear genes in the human parasite blastocystis require mRNA polyadenylation to create functional termination codons. Genome Biol Evol. 6(8):1956-61 [PubMed]
  19. Eme L, Sharpe SC, Brown MW, Roger AJ., (2014) On the age of eukaryotes: evaluating evidence from fossils and molecular clocks. Cold Spring Harb Perspect Biol. 1;6(8): [PubMed]
  20. Adisesh A, Melville S, Pulinilkunnil T, Lutchmedial S, Brunt KR., (2014) Holiday reading. Diving into the ice bucket challenge. CMAJ 186:1404-5 [PubMed]
  21. O'Neill HM, Lally JS, Galic S, Thomas M, Azizi PD, Fullerton MD, Smith BK, Pulinilkunnil T, Chen Z, Samaan MC, Jorgensen SB, Dyck JR, Holloway GP, Hawke TJ, van Denderen BJ, Kemp BE, Steinberg GR., (2014) AMPK phosphorylation of ACC2 is required for skeletal muscle fatty acid oxidation and insulin sensitivity in mice. Diabetologia :1693-702 [PubMed]
  22. Zordoky BN, Nagendran J, Pulinilkunnil T, Kienesberger PC, Masson G, Waller TJ, Kemp BE, Steinberg GR, Dyck JR., (2014) AMPK-dependent inhibitory phosphorylation of ACC is not essential for maintaining myocardial fatty acid oxidation. Circ Res. 115:518-524 [PubMed]
  23. Parmar, H., Barry, C., Kai, F., and Duncan, R., (2014) Golgi complex-plasma membrane trafficking directed by an autonomous, tri-basic Golgi export signal Mol. Biol. Cell 25:866-878 [PubMed]
  24. Parmar, H., Barry, C., and Duncan, R., (2014) Polybasic trafficking signal mediates Golgi export, ER retention or ER export and retrieval based on membrane-proximity PLOS One 9:e94194 [PubMed]
  25. Gaspard, GJ,Maclean, J,Rioux, D,Pasumarthi, KB, (2014) A novel β adrenergic response element regulates both basal and agonist-induced expression of cyclin-dependent kinase 1 gene in cardiac fibroblasts Am. J. Physiol., Cell Physiol. 306:C540-550 [PubMed] [Article]
  26. Rourke JL, Muruganandan S, Dranse HJ, McMullen NM and Sinal CJ., (2014) Gpr1 is an active chemerin receptor influencing glucose homeostasis in obese mice. J. Endocrinol. 222(2):201-215 [PubMed]
  27. Duncan, R., J Lewis, R J De Antueno, R-L Nesbitt, E. K. Clancy, (2014) Recombinant polypeptides for membrane fusion and uses thereof. PATENT, Assignee: Innovascreen Inc.:
  28. Ciechonska, M. and Duncan, R. , (2014) Reovirus FAST proteins: virus-encoded cellular fusogens. Trends in Microbiology 22:715-724 [PubMed]
  29. Ciechonska, M. and Duncan, R., (2014) Lysophosphatidylcholine arrests fusion pore expansion following reovirus FAST protein- and influenza virus hemagglutinin-induced cell-cell membrane fusion. J. Virol. 88:6528-6531 [PubMed]
  30. Ciechonska, M., Key, T., and Duncan, R., (2014) Efficient reovirus- and measles virus-mediated pore expansion during syncytium formation is dependent on annexin A1 and intracellular calcium. J. Virol. 88:6137-6147 [PubMed]
  31. Key, T. and Duncan, R., (2014) A compact, multifunctional fusion module directs cholesterol-dependent homomultimerization and syncytiogenic efficiency of reovirus p10 FAST proteins. PLOS Pathogens 10:e1004023 [PubMed]
  32. Pal, M., and Bearne S.L.*, (2014) Synthesis of coenzyme A thioesters using methyl acyl phosphates in an aqueous medium Org. Biomol. Chem. 12:9760-9763 [PubMed]
  33. Valach, M., Burger, G., Gray, M.W. and Lang, B.F., (2014) Widespread occurrence of mitochondrial genome-encoded 5S rRNAs including permuted molecules. Nucleic Acids Res. 42:13764-13777 [PubMed] [Article]
  34. Gawryluk, R.M.R., Chisholm, K.A., Pinto, D.M. and Gray, M.W., (2014) Data showing the compositional complexity of the mitochondrial proteome of a unicellular eukaryote (Acanthamoeba castellanii, supergroup Amoebozoa). Data in Brief 1:12-14
  35. Charman, M., Colbourne, T.R., Pietrangelo, A., Kreplak, L., Ridgway, N.D., (2014) Oxysterol-binding protein (OSBP)-related protein 4 (ORP4) is essential for cell proliferation and survival J.Biol.Chem 289:15705-15804 [PubMed]
  36. Liu, X. and Ridgway, N.D., (2014) Characterization of the sterol and phosphatidylinositol 4-phosphate binding properties of Golgi-associated OSBP-related protein 9 (ORP9) Plos One 9 (9):e108368: [PubMed]
  37. Zordoky, B.N., Nagendran, J., Pulinilkunnil, T., Kienesberger, P.C., Masson, G., Waller, T.J., Kemp, B.E., Steinberg, G., Dyck, J.R., (2014) AMPK-Dependent Inhibitory Phosphorylation of ACC Is Not Essential for Maintaining Myocardial Fatty Acid Oxidation. Circ Res. 115(5):518-524 [PubMed]
  38. Archibald, J. M., (2014) One plus one equals one: symbiosis and the evolution of complex life. Oxford University Press.:
  39. Tanifuji, G. & Archibald, J. M., (2014) Nucleomorph comparative genomics Endosymbiosis, Löffelhardt, W. Springer Wein New York:197-213
  40. Keeling, P. J., (75 other authors, including Archibald, J. M.), & Worden, A. Z., (2014) The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing. PLoS Biol. 12:e1001889 [PubMed] [Article]
  41. Tanifuji, G., Onodera, N. T., Brown, M. W., Curtis, B. A., Roger, A. J., Wong, G. K.-S., Melkonian, M. & Archibald, J. M., (2014) Nucleomorph and plastid genome sequences of the chlorarachniophyte Lotharella oceanica: convergent reductive evolution and frequent recombination in nucleomorph-bearing algae. BMC Genomics 15:374 [PubMed] [Article]
  42. Hirakawa, Y., Suzuki, S., Archibald, J. M., Keeling, P. J. & Ishida, K.-I. , (2014) Overexpression of molecular chaperone genes in nucleomorph genomes. Mol. Biol. Evol. 31:1437-1443 [PubMed] [Article]
  43. McRose, D., Guo, J., Monier, A., Sudek, S., Wilken, S., Yan, S., Mock, T., Archibald, J. M., Begley, T. P., Reyes-Prieto, A. & Worden A. Z. , (2014) Alternatives to vitamin B1 uptake revealed with discovery of riboswitches in multiple marine eukaryotic lineages. ISME Journal Dec;8(12):2517-29 [PubMed] [Article]
  44. Nakayama, T., Kamikawa, R., Tanifuji, G., Kashiyama, Y., Ohkouchi, N., Archibald J. M., and Inagaki, Y., (2014) Complete genome of a non-photosynthetic cyanobacterium in a diatom reveals recent adaptations to an intracellular lifestyle Proc. Natl. Acad. Sci. USA. 111:11407-11412 [PubMed] [Article]
  45. Fisher, E.A., Lake, E.J., and McLeod, R.S., (2014) Apolipoprotein B100 quality control and the regulation of hepatic very low density lipoprotein secretion. J. Biomedical Res. 28 (3):178-93 [PubMed] [Article]
  46. Gawryluk, R.M.R., Chisholm, K.A., Pinto, D.M. and Gray, M.W., (2014) Compositional complexity of the mitochondrial proteome of a unicellular eukaryote (Acanthamoeba castellanii, supergroup Amoebozoa) rivals that of animals, fungi, and plants. J. Proteomics 109:400-416 [PubMed] [Article]
  47. Stairs CW, Eme L, Brown MW, Mutsaers C, Susko E, Dellaire G, Soanes DM, van der Giezen M, Roger AJ., (2014) A SUF Fe-S Cluster Biogenesis System in the Mitochondrion-Related Organelles of the Anaerobic Protist Pygsuia Curr. Biol 24(11):1176-1186 [PubMed] [Article]
  48. Chapman, N.A., Dupré, D.J. and Rainey, J.K., (2014) The apelin receptor: Physiology, pathology, cell signalling, and ligand modulation of a peptide-activated class A GPCR. Biochem Cell Biol 92:431-440 [PubMed] [Article]
  49. Gile, G. and Slamovits, C.H., (2014) Transcriptomic Analysis Reveals Evidence for a Cryptic Plastid in the Colpodellid Voromonas pontica, a Close Relative of Chromerids and Apicomplexan Parasites PLOS One 10.1371/journal.pone.0096258: [Article]
  50. Abad, M.G., Long, Y., Kinchen, D., Schindel, E.T., Gray, M.W. and Jackman, J.E., (2014) Mitochondrial tRNA 5′-editing in Dictyostelium discoideum and Polysphondylium pallidum. J. Biol. Chem. 289:15155-15165 [PubMed] [Article]
  51. Kraus D, Yang Q, Kong D, Banks AS, Zhang L, Rodgers JT, Pirinen E, Pulinilkunnil TC, Gong F, Wang YC, Cen Y, Sauve AA, Asara JM, Peroni OD, Monia BP, Bhanot S, Alhonen L, Puigserver P, Kahn BB., (2014) Nicotinamide N-methyltransferase knockdown protects against diet-induced obesity Nature 00:00 [PubMed]
  52. Nagar, M., Lietzan, A.D., St. Maurice, M., Bearne, S.L.*, (2014) Potent Inhibition of Mandelate Racemase by a Fluorinated Substrate-Product Analogue with a Novel Binding Mode. Biochemistry 53(7):1169-1178 [PubMed] [Article]
  53. Harty, M., Nagar, M., Atkinson, L., LeGay, C.M., Derksen, D.J.*, Bearne, S.L.*, (2014) Inhibition of Serine and Proline Racemases by Substrate-Product Analogues. Bioorg. Med. Chem. Lett. 24:390-393 [PubMed] [Article]
  54. Nagar, M., Lietzan, A.D., St. Maurice, M., Bearne, S.L.*, (2014) Potent inhibition of mandelate racemase by a fluorinated substrate-product analogue with a novel binding mode Biochemistry 53:1169-1178 [PubMed]
  55. Maselli, G.A., Slamovits, C.H., Bianchi, J.I., Vilarrasa-Blasi, J., Caño-Delgado, A.I. and Mora-García, S., (2014) Revisiting the evolutionary history and roles of protein phosphatases with Kelch-like domains in plants Plant Physiology 164(2): [Article]
  56. Lee, R., Lai, H., Malik, S.B., Saldarriaga, J.F., Keeling, P.J. and Slamovits, C.H., (2014) Analysis of EST data of the marine protist Oxyrrhis marina, an emerging model for alveolate biology and evolution BMC Genomics 15:122 [Article]
  57. Thomas, L.N., Merrimen, J., Bell, D.G., Rendon, R., Goffin, V. and Too, C.K.L., (2014) Carboxypeptidase-D is elevated in prostate cancer and its anti-apoptotic activity is abolished by combined androgen and prolactin receptor targeting The Prostate 74:732-742. [PubMed] [Article]
  58. Pandey, A., Sarker, M., Liu, X-Q. and Rainey, J.K., (2014) Small expression tags enhance bacterial expression of the first three transmembrane segments of the apelin receptor. Biochem Cell Biol 92:269-278 [PubMed] [Article]
  59. Gray, M.W., (2014) Organelle evolution, fragmented ribosomal RNAs, and Carl. RNA Biol. 11:213-216 [PubMed] [Article]
  60. Koirala, S., Thomas, L.N. and Too, C.K.L., (2014) Prolactin/Stat5 and androgen R1881 co-activate carboxypeptidase-D gene in breast cancer cells. Mol. Endocrinology 28:331-343. [PubMed] [Article]
  61. Pal, M., and Bearne, S.L.*, (2014) Inhibition of glutamate racemase by substrate-product analogues Bioorg. Med. Chem. Lett. 24:1432-1436 [PubMed]
  62. Harty, M., Nagar, M., Atkinson, L., LeGay, C.M., Derksen, D.J.*, Bearne, S.L.*, (2014) Inhibition of serine and proline racemases by substrate-product analogues Bioorg. Med. Chem. Lett. 24:390-393. [PubMed]
  63. Bearne, S.L.*, (2014) Illustrating the effect of pH on enzyme activity using Gibbs energy profiles J. Chem. Educ. 91:84-90
  64. Tanifuji, G., Onodera, N. T., Moore, C. E. & Archibald, J. M. , (2014) Reduced Nuclear Genomes Maintain High Gene Transcription Levels Mol. Biol. Evol 31 (3):625-635 [PubMed] [Article]
  65. Andrade-Vieira, R., Bentley H, Goguen, D. Bowen C and Marignani P, (2014) Pre-clinical study of drug combinations that reduce breast cancer burden due to aberrant mTOR and metabolism promoted by LKB1 loss. Oncotarget Published November 25, 2014: [PubMed]
  66. McDonald, W.J., Thomas, L.N., Koirala, S. and Too, C.K.L., (2014) Progestin-inducible EDD E3 ubiquitin ligase binds to α4 phosphoprotein to regulate ubiquitination and degradation of protein phosphatase PP2Ac. Mol. Cell. Endocrinol. (382):254-261. [PubMed] [Article]

Publications in 2013

  1. Doolittle, W.F., (2013) Is junk DNA bunk? A critique of ENCODE. Proc. Natl. Acad. Sci. USA 110(14):5294-5300 [PubMed]
  2. Pia A Elustondo, Alejandro Martin Cohen, Michał Kawalec, Michał Michalak, Elena Dedkova, Piotr Kurcok, Evgeny Pavlov, (2013) Polyhydroxybutyrate derivative induces cyclosporin a sensitive mitochondrial depolarization in mammalian cultured cells Biophysical Journal 104(2):660a
  3. Alejandro Martin Cohen, Edwin Wang, Kenneth A Chisholm, Ripsik Kostyleva, Maureen O'Connor-McCourt, Devanand M Pinto, (2013) A mass spectrometry-based plasma protein panel targeting the tumor microenvironment in patients with breast cancer Journal of proteomics 81:135-147
  4. Chike Cao, Yevgen Yudin, Yann Bikard, Wei Chen, Tong Liu, Hong Li, Dieter Jendrossek, Alejandro Martin Cohen, Evgeny Pavlov, Tibor Rohacs, Eleonora Zakharian, (2013) Polyester modification of the mammalian TRPM8 channel protein: implications for structure and function Cell reports 4(2):302-315
  5. Fernandez-Murray, J.P., Ngo, M.H., and McMaster, C.R., (2013) Choline Transport Activity Regulates Phosphatidylcholine Synthesis Through Choline Transporter Hnm1 Stability. J. Biol. Chem 288:36106-36115 [PubMed]
  6. Kennedy BE., LeBlanc VG., Mailman TM., Fice D., Burton I., Karakach TK., and Karten B, (2013) Pre-symptomatic activation of antioxidant responses and alterations in glucose and pyruvate metabolism in Niemann-Pick Type C1-deficient murine brain PLoS One 8:e82658 [PubMed] [Article]
  7. Ridley CM, Thur KE, Shanahan J, Thillaiappan NB, Shen A, Uhl K, Walden CM, Rahim AA, Waddington SN, Platt FM, van der Spoel AC, (2013) Beta-glucosidase 2 (GBA2) activity and imino sugar pharmacology J Biol Chem 288:26052-26066 [PubMed] [Article]
  8. Cruz IN, Barry CS, Kramer HB, Chuang CC, Lloyd S, van der Spoel AC, Platt FM, Yang M, and Davis BG. , (2013) Glycomimetic Affinity-enrichment Proteomics Identifies Partners for Clinically-Utilized Iminosugar Chem Sci 4:3442-3446 [Article]
  9. Susko E, Roger AJ., (2013) Problems with estimation of ancestral frequencies under stationary models. Syst Biol. 62(2):330-8 [PubMed]
  10. Harding T, Brown MW, Plotnikov A, Selivanova E, Park JS, Gunderson JH, Baumgartner M, Silberman JD, Roger AJ, Simpson AG., (2013) Amoeba stages in the deepest branching heteroloboseans, including Pharyngomonas: evolutionary and systematic implications. Protist 164(2):272-86 [PubMed]
  11. Wang HC, Susko E, Roger AJ., (2013) The site-wise log-likelihood score is a good predictor of genes under positive selection. J Mol Evol. 6(5):280-94 [PubMed]
  12. Kamikawa R, Brown MW, Nishimura Y, Sako Y, Heiss AA, Yubuki N, Gawryluk R, Simpson AG, Roger AJ, Hashimoto T, Inagaki Y., (2013) Parallel re-modeling of EF-1α function: divergent EF-1α genes co-occur with EFL genes in diverse distantly related eukaryotes. BMC Evol Biol. 13:131 [PubMed]
  13. Gaston D, Roger AJ., (2013) Functional divergence and convergent evolution in the plastid-targeted glyceraldehyde-3-phosphate dehydrogenases of diverse eukaryotic algae. PLoS One. 8(7):70396 [PubMed]
  14. Suga H1, Chen Z, de Mendoza A, Sebé-Pedrós A, Brown MW, Kramer E, Carr M, Kerner P, Vervoort M, Sánchez-Pons N, Torruella G, Derelle R, Manning G, Lang BF, Russ C, Haas BJ, Roger AJ, Nusbaum C, Ruiz-Trillo I., (2013) The Capsaspora genome reveals a complex unicellular prehistory of animals. Nat Commun. 4:2325 [PubMed]
  15. Brown MW, Sharpe SC, Silberman JD, Heiss AA, Lang BF, Simpson AG, Roger AJ., (2013) Phylogenomics demonstrates that breviate flagellates are related to opisthokonts and apusomonads. Proc Biol Sci. 280(1769):20131755 [PubMed]
  16. Leger MM, Gawryluk RM, Gray MW, Roger AJ., (2013) Evidence for a hydrogenosomal-type anaerobic ATP generation pathway in Acanthamoeba castellanii. PLoS One. 8(9):e69532 [PubMed] [Article]
  17. Muruganandan S, Dranse HJ, Rourke JL, McMullen NM, Sinal CJ., (2013) Chemerin neutralization blocks hematopoietic stem cell osteoclastogenesis. Stem Cells 31(10):2172-2182 [PubMed]
  18. Wang, X., Zhou, S., Chen, Y., Wei, M., Xiong, W., Yi, X., Jiang, S. and Pan, C* , (2013) Multiple amino acid mutations in viral RNA polymerase may synergistically enhance the transmissibility and/or virulence of the 2009 pandemic influenza (H1N1) virus. Acta virologica 57:35-40, (*Corresponding author)
  19. Lu, L., Wei, M., Chen, Y., Xiong, W.,Yu, F., Qi, Z., Jiang, S.* and Pan, C.* , (2013) F(ab)2 fragment of a gp41 NHR-trimer-induced IgM monoclonal antibody neutralizes HIV-1 infection and blocks viral fusion by targeting the conserved gp41 pocket. Microbes Infect. 15(13):887-894. (*Corresponding author)
  20. Kai, F., and Duncan, R., (2013) Prostate cancer cell migration induced by myopodin isoforms is associated with formation of morphologically and biochemically distinct actin networks. FASEB J. 27:5046-5058 [PubMed]
  21. Nibert, M. L., and Duncan, R., (2013) Bioinformatics of recent aqua- and orthoreovirus isolates from fish: evolutionary gain or loss of FAST and fiber proteins and taxonomic implications PLOS One 8:e68607 [PubMed]
  22. Key, T., Read, J. A., Nibert, M. L., and Duncan, R., (2013) Piscine reovirus encodes apparent homologs of orthoreovirus outer-clamp and fiber proteins and a novel non-fusogenic cytotoxic integral membrane protein. J. Gen. Virol. 94:1039-1050 [PubMed]
  23. Nagendran J, Pulinilkunnil T, Kienesberger PC, Sung MM, Fung D, Febbraio M, Dyck JR, (2013) Cardiomyocyte-specific ablation of CD36 improves post-ischemic functional recovery J Mol Cell Cardiol 63:180-188 [PubMed]
  24. Willis MS, Bevilacqua A, Pulinilkunnil T, Kienesberger P, Tannu M, Patterson C, (2013) The role of ubiquitin ligases in cardiac disease J Mol Cell Cardiol 00:00 [PubMed]
  25. Orton DJ, Arsenault DJ, Thomas NA, Doucette AA., (2013) GELFrEE fractionation combined with mass spectrometry for proteome analysis of secreted toxins from Enteropathogenic Escherichia coli (EPEC). Mol Cell Probes : [Article]
  26. Willis MS, Bevilacqua A, Pulinilkunnil T, Kienesberger P, Tannu M, Patterson C., (2013) The role of ubiquitin ligases in cardiac disease. J Mol Cell Cardiol. in press: [PubMed] [Article]
  27. Breckenridge RA, Piotrowska I, Ng KE, Ragan TJ, West JA, Kotecha S, Towers N, Bennett M, Kienesberger PC, Smolenski RT, Siddall HK, Offer JL, Mocanu MM, Yelon DM, Dyck JR, Griffin JL, Abramov AY, Gould AP, Mohun TJ., (2013) Hypoxic regulation of hand1 controls the fetal-neonatal switch in cardiac metabolism. PLoS Biol 11(9):e1001666 [PubMed] [Article]
  28. Nagendran J, Pulinilkunnil T, Kienesberger PC, Sung MM, Fung D, Febbraio M, Dyck JR., (2013) Cardiomyocyte-specific ablation of CD36 improves post-ischemic functional recovery. J Mol Cell Cardiol Cardiomyocyte-specific ablation of CD36 improves post-ischemic functional recovery.:180-8 [PubMed] [Article]
  29. Nagendran J, Pulinilkunnil T, Kienesberger PC, Sung MM, Fung D, Febbraio M, Dyck JR., (2013) Cardiomyocyte-specific ablation of CD36 improves post-ischemic functional recovery. J Mol Cell Cardiol. 63:180-88 [PubMed]
  30. Sitnick MT, Basantani MK, Cai L, Schoiswohl G, Yazbeck CF, Distefano G, Ritov V, DeLany JP, Schreiber R, Stolz DB, Gardner NP, Kienesberger PC, Pulinilkunnil T, Zechner R, Goodpaster BH, Coen P, Kershaw EE., (2013) Skeletal muscle triacylglycerol hydrolysis does not influence metabolic complications of obesity. Diabetes 62:3350-61 [PubMed]
  31. Fullerton MD, Galic S, Marcinko K, Sikkema S, Pulinilkunnil T, Chen ZP, O'Neill HM, Ford RJ, Palanivel R, O'Brien M, Hardie DG, Macaulay SL, Schertzer JD, Dyck JR, van Denderen BJ, Kemp BE, Steinberg GR., (2013) Single phosphorylation sites in Acc1 and Acc2 regulate lipid homeostasis and the insulin-sensitizing effects of metformin. Nat Med : [PubMed]
  32. Morton, C.C., Aitchison, A.J., Karsten, G. and and Ridgway, N.D., (2013) A mechanism for suppression of the CDP-choline pathway during apoptosis J. Lipid Res. 54:3373-3381 [PubMed]
  33. Eveleigh, R. J. M., Meehan, C.J., Archibald, J. M. & Beiko, R. G. , (2013) Being Aquifex aeolicus: untangling a hyperthermophile’s checkered past Genome Biol. Evol 5:2478-2497 [PubMed] [Article]
  34. Kim E, Archibald JM, (2013) Ultrastructure and molecular phylogeny of the cryptomonad Goniomonas avonlea sp. nov. Protist 164(2):160-82 [PubMed] [Article]
  35. Smith DR, Hua J, Archibald JM, Lee RW., (2013) Palindromic Genes in the Linear Mitochondrial Genome of the Nonphotosynthetic Green Alga Polytomella magna Genome Biol Evol. 5(9):1661-7 [PubMed] [Article]
  36. Flegontov P, Votýpka J, Skalický T, Logacheva MD, Penin AA, Tanifuji G, Onodera NT, Kondrashov AS, Volf P, Archibald JM, Lukeš J., (2013) Paratrypanosoma is a novel early-branching trypanosomatid Curr Biol. 23(18):1787-93 [PubMed] [Article]
  37. Maruyama, S., Eveleigh, R. J. M. & Archibald, J. M. , (2013) TreeTrimmer: a method for phylogenetic dataset size reduction BMC Research Notes 6:145 [PubMed] [Article]
  38. Morton, CC., Aitchison, AJ., Gehrig, K., and Ridgway, ND, (2013) A mechanism for suppression of the CDP-choline pathway during apoptosis J. Lipid. Res 54:3373-3384 [PubMed] [Article]
  39. Rafaela Andrade-Vieira, Jae H Han and Paola A Marignani, (2013) Omega-3 polyunsaturated fatty acid promotes the inhibition of glycolytic enzymes and mTOR signaling by regulating the tumor suppressor LKB1. Cancer Biology and Therapy 14 (11):1-9 [PubMed] [Article]
  40. Junkins RD, Shen A, Rosen K, McCormick C, Lin TJ, (2013) Autophagy Enhances Bacterial Clearance during P. aeruginosa Lung Infection PLoS One 8(8): [PubMed]
  41. Park, IW., Ndjomou, J., Wen, Y., Liu Z, Ridgway, ND., Kao, CC., He, JJ., (2013) Inhibition of HCV Replication by Oxysterol-Binding Protein-Related Protein 4 (ORP4) through Interaction with HCV NS5B and Alteration of Lipid Droplet Formation. PloS One 17:e75648 [PubMed]
  42. Gray, M.W., (2013) The pre-endosymbiont hypothesis: a new perspective on the origin and evolution of mitochondria. Cold Spring Harb. Perspect. Biol. 6: a016097 [PubMed]
  43. Lagace, T.A. and Ridgway, N.D. , (2013) The role of phospholipids in the biological activity of the endoplasmic reticulum Biochim. Biophys. ACTA 1833:2499-2510 [PubMed]
  44. Pombert J.-F., Smirnov, A, James, E.R., Janouškovec, J., Gray, M.W. and Keeling, P.J., (2013) The complete mitochondrial genome from an unidentified Phalansterium species. Protist Genomics 1:26-32 [Article]
  45. Sitnick MT, Basantani MK, Cai L, Schoiswohl G, Yazbeck CF, Distefano G, Ritov V, Delany JP, Schreiber R, Stolz DB, Gardner NP, Kienesberger PC, Pulinilkunnil T, Zechner R, Goodpaster BH, Coen P, Kershaw EE., (2013) Skeletal muscle triacylglycerol hydrolysis does not influence metabolic complications of obesity. Diabetes in press.: [PubMed]
  46. Pulinilkunnil T, Kienesberger PC, Nagendran J, Sharma N, Young ME, Dyck JR., (2013) Cardiac-specific adipose triglyceride lipase overexpression protects from cardiac steatosis and dilated cardiomyopathy following diet-induced obesity. Int J Obes (Lond). in press.: [PubMed]
  47. Wideman, J.G., Gawryluk, R.M.R., Gray, M.W. and Dacks, J.B., (2013) The ancient and widespread nature of the ER-Mitochondria Encounter Structure. Mol. Biol. Evol. 30:2044-2049 [PubMed]
  48. Giffin, J. and Ewart, K.V., (2013) Marine natural products for protein misfolding modulation. pp. 95-120 In: Using old solutions to new problems - Natural drug discovery in the 21st century. M. Kulka (ed.). InTech, Rijeka.:
  49. Leger, M.M., Gawryluk, R.M.R., Gray, M.W. and Roger, A.J. , (2013) Evidence for a hydrogenosomal-type ATP generation system in Acanthamoeba castellanii. PLoS One 8:e69532 [PubMed] [Article]
  50. Shin, K., Pandey, A., Liu, X-Q., Anini, Y. and Rainey, J.K., (2013) Preferential apelin-13 production by the proprotein convertase PCSK3 is implicated in obesity. FEBS Open Bio. 3:328-333 [PubMed] [Article]
  51. Kehoe, S., Tremblay, M-L., Coughlan, A., Towler, M.R., Rainey, J.K., Abraham, R.J. and Boyd, D., (2013) Preliminary Investigation of the Dissolution Behavior, Cytocompatibility, Effects of Fibrinogen Conformation and Platelet Activation for Radiopaque Embolic Particles. J. Funct. Biomater. 4:89-113 [Article]
  52. Kienesberger PC, Pulinilkunnil T, Nagendran J, Young ME, Bogner-Strauss JG, Hackl H, Khadour R, Heydari E, Haemmerle G, Zechner R, Kershaw EE, Dyck JR, (2013) Early structural and metabolic cardiac remodelling in response to inducible adipose triglyceride lipase ablation Cardiovasc Res. 99:442-51 [PubMed]
  53. Nagendran J, Kienesberger PC, Pulinilkunnil T, Zordoky BN, Sung MM, Kim T, Young ME, Dyck JR., (2013) Cardiomyocyte specific adipose triglyceride lipase overexpression prevents doxorubicin induced cardiac dysfunction in female mice Heart 99:1041-47 [PubMed]
  54. Lin Y, Li M, Song H, Xu L, Meng Q, Liu XQ., (2013) Protein trans-splicing of multiple atypical split inteins engineered from natural inteins. PLoS One 8(4):e59516 [PubMed]
  55. Pinder JB, Attwood KM, Dellaire G., (2013) Reading, writing, and repair: the role of ubiquitin and the ubiquitin-like proteins in DNA damage signaling and repair. Front Genet. 4:45 [PubMed]
  56. Zencir, S., Sike, A., Dobson, M.J., Ayaydin, F., Boros, I., and Topcu, Z. , (2013) Identification of transcriptional and phosphatase regulators as interaction partners of human ADA3, a component of histone acetyltransferase complexes. Biochem. J. 450:311-320 [PubMed]
  57. Zencir,S., Banerjee,M., Dobson.M.J., Ayaydin, F., Ayaydin Fodor, E., Topcu, Z. and Mohanty, S. , (2013) New partner proteins containing novel internal recognition motif for human Glutaminase Interacting Protein (hGIP). Biochem Biophys Res Commun. 432:10-15 [PubMed]
  58. Pinder, J.B, McQuaid, M.E. and Dobson, M.J., (2013) Deficient sumoylation of yeast 2-micron plasmid proteins Rep1 and Rep2 associated with their loss from the plasmid-partitioning locus and impaired plasmid inheritance. PLoS One 8 (3):e60384 [PubMed]
  59. Gray, M.W., (2013) RNA editing: evolutionary implications. eLS 2013 John Wiley & Sons, Ltd., Chichester: DOI: 10.1002/9780470015902.a0003069.pub3
  60. Arsenault DJ, Yoo BH, Rosen KV, Ridgway ND, (2013) ras-Induced up-regulation of CTP:phosphocholine cytidylyltransferase α contributes to malignant transformation of intestinal epithelial cells. J. Biol. Chem. 288:633-43 [PubMed]
  61. Kienesberger PC, Pulinilkunnil T, Nagendran J, Dyck JR., (2013) Myocardial triacylglycerol metabolism. J Mol Cell Cardiol. 55:101-10. [PubMed]
  62. Lou PH, Zhang L, Lucchinetti E, Heck M, Affolter A, Gandhi M, Kienesberger PC, Hersberger M, Clanachan AS, Zaugg M., (2013) Infarct-remodelled hearts with limited oxidative capacity boost fatty acid oxidation after conditioning against ischaemia/reperfusion injury. Cardiovasc Res. 97(2):251-61. [PubMed]
  63. McLean BA, Kienesberger PC, Wang W, Masson G, Zhabyeyev P, Dyck JR, Oudit GY., (2013) Enhanced recovery from ischemia-reperfusion injury in PI3Kα dominant negative hearts: investigating the role of alternate PI3K isoforms, increased glucose oxidation and MAPK signaling. J Mol Cell Cardiol. 54:9-18 [PubMed]
  64. Pulinilkunnil T, Kienesberger PC, Nagendran J, Waller TJ, Young ME, Kershaw EE, Korbutt G, Haemmerle G, Zechner R, Dyck JR., (2013) Myocardial Adipose Triglyceride Lipase Overexpression Protects Diabetic Mice From the Development of Lipotoxic Cardiomyopathy. Diabetes. 62(5):1464-77 [PubMed]
  65. Xu, L., Tremblay, M-L., Orrell, K.E., Leclerc, J., Meng, Q., Liu, X-Q. and Rainey, J.K., (2013) Nanoparticle self-assembly by a highly stable recombinant spider wrapping silk protein subunit. FEBS Lett 587:3273-3280 [PubMed] [Article]
  66. Langelaan, D.N., Reddy, T., Banks, A.W., Dellaire, G., Dupré, D. and Rainey, J.K., (2013) Structural features of the apelin receptor N-terminal tail and first transmembrane segment implicated in ligand binding and receptor trafficking. Biochimica et Biophysica Acta - Biomembranes 1828:1471-1483 [PubMed] [Article]
  67. Smithen DA, Forrester AM, Corkery DP, Dellaire G, Colpitts J, McFarland SA, Berman JN, Thompson A., (2013) Investigations regarding the utility of prodigiosenes to treat leukemia. Org. Biomol. Chem. 11(1):62-8 [PubMed]
  68. Burger, G., Gray, M.W., Forget, L. and Lang, B.F., (2013) Strikingly bacteria-like and gene-rich mitochondrial genomes throughout jakobid protists. Genome Biol. Evol. 5:418-438 [PubMed]
  69. Andrade-Vieira RA, Colp P., Xu, Z., Marignani PA, (2013) Loss of lkb1 expression reduces the latency of ErbB2-mediated mammary gland tumorigenesis, promoting changes in metabolic pathways. Plos One 8(2):e56567 [PubMed] [Article]
  70. Gray, M. W., (2013) Mitochondrial genomes. Molecular Life Sciences: An Encyclopedic Reference, E. Bell, J. S. Bond, J. P. Klinman, B. S. S. Masters and R. D. Wells (eds.), Springer:DOI: 10.1007/SpringerReference_333640 2014-03-20 13:49:09 UTC
  71. Li, L., Nelson, C.J., Carrie, C., Gawryluk, R.M.R., Solheim, C., Gray, M.W., Whelan, J. and Millar, A.H., (2013) Subcomplexes of ancestral respiratory complex I subunits rapidly turn over in vivo as productive assembly intermediates in Arabidopsis. J. Biol. Chem. 288:5707-5717 [PubMed]
  72. Ramu, T., Prasad, M., Connors, E., Mishra, A., Thomassin, J-L., Leblanc, J., Rainey, J.K. and Thomas, N., (2013) A novel C-terminal region within the multicargo type III secretion chaperone CesT contributes to effector secretion. J. Bacteriol. 195:740-756 [PubMed]
  73. Uribe, E. Venkatesan, M., Rose, D.M. and Ewart, K.V. , (2013) Expression of recombinant Atlantic salmon serum C-type lectin in Drosophila melanogaster Schneider 2 cells. Cytotechnology 65:513-521 [PubMed]
  74. Uribe, E., Steele, T.J., Richards, R.C. and Ewart, K.V., (2013) Ligand and pathogen specificity of the Atlantic salmon serum C-type lectin. Biochim. Biophys. Acta 1830:2129–2138 [PubMed]
  75. Rao, B.S., Mohammad, F., Gray, M.W. and Jackman, J.E. , (2013) Absence of a universal element for tRNAHis identity in Acanthamoeba castellanii. Nucleic Acids Res. 41:1885-1894 [PubMed]

Publications in 2012

  1. Alejandro Martin Cohen, Ripsik Kostyleva, Kenneth A Chisholm, Devanand M Pinto, (2012) Iodination on tyrosine residues during oxidation with sodium periodate in solid phase extraction of N-linked glycopeptides Journal of The American Society for Mass Spectrometry 23(1):68-75
  2. RM Rideout, MJ Morgan, Y Lambert, Alejandro Martin Cohen, JH Banoub, M Treble, (2012) Oocyte development and vitellogenin production in Northwest Atlantic Greenland halibut Reinhardtius hippoglossoides J. Northw. Atl. Fish. Sci 44:15-29
  3. Kennedy BE., Charman M., and Karten B., (2012) Niemann-Pick Type C2 protein contributes to the transport of endosomal cholesterol to mitochondrial without interacting with NPC1 J. Lipid Res. 12:2632-2642 [PubMed] [Article]
  4. Sami G. Alsabri1 , Abdulmottaleb E. Zetrini1 , Nouri B. Ermeli2 , Salah B. Mohamed1 , Salah M. Bensaber1, 3, Anton Hermann4 and Abdul Gbaj1,, (2012) Study of eight medicinal plants for antioxidant activities Journal of Chemical and Pharmaceutical Research :
  5. Ahmed MA1, Azam F, Rghigh AM, Gbaj A, Zetrini AE., (2012) Structure-based design, synthesis, molecular docking, and biological activities of 2-(3-benzoylphenyl) propanoic acid derivatives as dual mechanism drugs J Pharm Bioallied Sci : [PubMed]
  6. Platt FM, Boland B, and van der Spoel AC. , (2012) Lysosomal storage disorders: the cellular impact of lysosomal dysfunction. The Journal of Cell Biology 199:723-734 [PubMed] [Article]
  7. Takishita K, Chikaraishi Y, Leger MM, Kim E, Yabuki A, Ohkouchi N, Roger AJ, (2012) Lateral transfer of tetrahymanol-synthesizing genes has allowed multiple diverse eukaryote lineages to independently adapt to environments without oxygen. Biol Direct. 7:5 [PubMed]
  8. Susko E1, Roger AJ, (2012) The probability of correctly resolving a split as an experimental design criterion in phylogenetics. Syst Biol. 61(5):811-21 [PubMed]
  9. Zou L, Susko E, Field C, Roger AJ., (2012) Fitting nonstationary general-time-reversible models to obtain edge-lengths and frequencies for the barry-hartigan model. Syst Biol. 61(6):927-40 [PubMed]
  10. Brown MW, Kolisko M, Silberman JD, Roger AJ., (2012) Aggregative multicellularity evolved independently in the eukaryotic supergroup Rhizaria. Curr Biol. 22(12):1123-7 [PubMed]
  11. Tsaousis AD, Ollagnier de Choudens S, Gentekaki E, Long S, Gaston D, Stechmann A, Vinella D, Py B, Fontecave M, Barras F, Lukeš J, Roger AJ., (2012) Evolution of Fe/S cluster biogenesis in the anaerobic parasite Blastocystis. Proc Natl Acad Sci U S A. 109(26):10426-31 [PubMed]
  12. Cai, L.,* Pan, C.,* Xu, L., Shui, Y., Liu, K. and Jiang, S., (2012) Interactions between different generation HIV-1 fusion inhibitors and the putative mechanism underlying the synergistic anti-HIV-1 effect resulting from their combination. The FASEB Journal. 26(3):1018-26. (*Co-first author).
  13. Pan, C., * Ma, X. and Jiang, S., (2012) What can academia learn from XMRV studies? Nature Reviews Urology. 9(3):174 (*Corresponding author)
  14. Ma, X., Zhou, S., Wei, M., Li, J., Chen, Y., Wang, X., Jiang, S. and Pan, C*. , (2012) Phylogenetic and biological analysis of a laboratory-generated gammaretrovirus - xenotropic murine leukemia virus-related virus (XMRV). Virus Genes 45(2):218-224 (*Corresponding author)
  15. Wang, X., Xiong, W., Ma, X., Wei M., Chen, Y., Lu, L., Debnath, AK, Jiang, S. and Pan, C*. , (2012) The conserved residue Arg46 in the N-terminal heptad repeat domain of HIV-1 gp41 is critical for vial fusion and entry. PLoS One 7(9):e44874 (*Corresponding author)
  16. Lu, L., Pan, C., Li, Y., Lu, H., He, W. and Jiang, S., (2012) A bivalent recombinant protein inactivates HIV-1 by targeting the gp41 prehairpin fusion intermediate induced by CD4 D1D2 domains. Retrovirology 9:104
  17. Reid, L., MacLeod, A., Byers, D., Delva, D., Fedak, T., Mann, K., Marrie, T., Merritt, B., and Simpson, C., (2012) Deliberative curriculum inquiry for integration in an MD curriculum: Dalhousie University’s curriculum renewal process Medical Teacher 34:e785-e793
  18. Klionsky DJ, ...Rosen KV,... (multiple authors), (2012) Guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy 8:445-544 [PubMed]
  19. Kok BP, Kienesberger PC, Dyck JR, Brindley DN., (2012) Relationship of glucose and oleate metabolism to cardiac function in lipin-1 deficient (fld) mice. J Lipid Res. 53(1):105-18. [PubMed]
  20. Kienesberger PC, Pulinilkunnil T, Sung MM, Nagendran J, Haemmerle G, Kershaw EE, Young ME, Light PE, Oudit GY, Zechner R, Dyck JR., (2012) Myocardial ATGL overexpression decreases the reliance on fatty acid oxidation and protects against pressure overload-induced cardiac dysfunction. Mol Cell Biol. 32(4):740-50. [PubMed]
  21. Curtis, B.A., Tanifuji, G., Burki, F., Gruber, A., Irimia, M., Maruyama, S., Arias, M., Ball, S., Gile, G., Hirakawa, Y., Hopkins, J., [28 authors], Malik, S.-B, [13 authors], Slamovits, C.H., [14 authors], McFadden, G., Lane, C., Keeling, P., Gray, M., Grigoriev, I., Archibald, J., (2012) Algal nuclear genomes reveal evolutionary mosaicism and the fate of nucleomorphs. Nature. 492:59-65 [PubMed]
  22. Chen G, Liu X, Zhang Y, Lin S, Yang Z, Johansson J, Rising A, Meng Q., (2012) Full-length minor ampullate spidroin gene sequence. PLoS One 7(12):e52293 [PubMed]
  23. Konantz M, Balci TB, Hartwig UF, Dellaire G, André MC, Berman JN, Lengerke C., (2012) Zebrafish xenografts as a tool for in vivo studies on human cancer. Ann N Y Acad Sci. 1266:124-37 [PubMed]
  24. Salsman J, Jagannathan M, Paladino P, Chan PK, Dellaire G, Raught B, Frappier L., (2012) Proteomic profiling of the human cytomegalovirus UL35 gene products reveals a role for UL35 in the DNA repair response. J. Virol. 86(2):806-20. [PubMed]
  25. Andrin C, McDonald D, Attwood KM, Rodrigue A, Ghosh S, Mirzayans R, Masson JY, Dellaire G, Hendzel MJ., (2012) A requirement for polymerized actin in DNA double-strand break repair. Nucleus 3(4):384-95 [PubMed]
  26. Kai, F.B., Tanner, K., King, C., and Duncan, R., (2012) Myopodin isoforms alter the chemokinetic response of PC3 cells in response to different migration stimuli via differential effects on Rho-ROCK signaling pathways. Carcinogenesis 33:2100-2107 [PubMed]
  27. Maruyama, S. & Archibald, J. M. , (2012) Endosymbiosis, gene transfer, and algal cell evolution. Advances in algal cell biology,Heimann, K. & Katsaros, C. (eds.) Walter de Gruyter:In Press
  28. Archibald, J. M., (2012) The evolution of algae by secondary and tertiary endosymbiosis. Genomic insights into the biology of algae. Piganeau, G. (ed.) Elsevier Ltd: Academic Press:87-118
  29. Nakayama, T. & Archibald, J. M, (2012) Evolving a photosynthetic organelle. BMC. Biol 10:35 [PubMed]
  30. Hopkins, J. F., Eveleigh, R. J. M., Spencer, D. F., Laboissiere, S., Neilson, J. A. D., Durnford, D. G., Gray, M. W. & Archibald J. M., (2012) Proteomics reveals plastid- and periplastid-targeted proteins in the chlorarachniophyte alga Bigelowiella natans. Genome Biol. Evol 4:1391-1406 [PubMed] [Article]
  31. Nakayama, T., Ishida, K.-I., & Archibald J. M., (2012) Broad distribution of TPI-GAPDH fusion proteins among eukaryotes: evidence for glycolysis in the mitochondrion? PLoS One 7:e52340 [PubMed]
  32. Curtis, B. A., Tanifuji, G., Burki, F., Gruber, A., Irimia, M., Maruyama, S., Arias, M. C., Ball, S. G., Gile, G. H., Hirakawa, Y., Hopkins, J. F., [56 AUTHORS], McFadden, G. I., Lane, C. E., Keeling, P. J., Gray, M. W., Grigoriev, I. V., Archibald, J. M , (2012) Algal nuclear genomes reveal evolutionary mosaicism and the fate of nucleomorphs. Nature 492:59-65 [PubMed]
  33. Moore, C., Curtis, B. A., Tanifuji, G. & Archibald J. M., (2012) Nucleomorph genome sequence of the cryptophyte alga Chroomonas mesostigmatica reveals lineage-specific gene loss and genome complexity. Genome Biol. Evol 4:1162-1175. [PubMed]
  34. Onodera, N., Ryu, J., Durbic, T., Nislow, C., Archibald, J. M., & Rohde, J. R., (2012) Genome sequence of Shigella flexneri serotype 5a strain M90T Sm. J. Bacteriol 194:3022 [PubMed]
  35. Beh, C.T., McMaster, C.R., Kozmonski, K.G., and Menon, A.K. , (2012) A Detour for Oxysterol-Binding Proteins J. Biol. Chem. 287:11481-11488
  36. Beaulieu, C.L. Samuels, M.E., Ekins, S., McMaster, C.R., Edwards, A.M., Krainer, A.R., Hicks, G.G., Frey, B.J., Boycott, K.M., and MacKenzie, A.E, (2012) Generalizable Pre-clinical Research Approach for Orphan Disease Therapy Orphanet Journal of Rare Diseases 6:39
  37. Mitchell, P.L., Karakach, T., Currie, D.L., and McLeod, R.S., (2012) t-10, c-12 CLA dietary supplementation inhibits atherosclerosis despite adverse cardiovascular and hepatic metabolic marker profiles. PLoS One 7(12): e52634 [PubMed]
  38. Hopkins, J. F., Spencer, D. F., Laboissiere, S., Neilson, J. A. D., Eveleigh, R. J. M., Durnford, D. G., Gray, M. W. and Archibald, J. M., (2012) Proteomics reveals plastid- and periplastid-targeted proteins in the chlorarachniophyte alga Bigelowiella natans. Genome Biol. Evol. 4:1391-1405 [PubMed]
  39. Xu, L., Rainey, J.K., Meng, Q. and Liu, X-Q. , (2012) Recombinant minimalist spider wrapping silk proteins capable of native-like fiber formation. PLOS ONE 7:e50227 [PubMed]
  40. Ridgway, N.D., (2012) The role of phosphatidylcholine and choline metabolites in cell proliferation and survival Critical Reviews in Biochemistry and Molecular Biology 48:20-38 [PubMed]
  41. Curtis, B.A. et al., (2012) Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs. Nature 492:59-65 [PubMed]
  42. Song, H., Meng, Q., and Liu, X.-Q., (2012) Protein trans-splicing of an atypical split intein showing structural flexibility and cross-reactivity. PLoS One 7(9):e45355 [PubMed]
  43. Pulinilkunnil, T, Nagendran, J, and Dyck JR, (2012) AMPK and Metabolic Remodeling in Cardiac Disease Translational Cardiology Molecular Basis of Cardiac Metabolism, Cardiac Remodeling, Translational Therapies and Imaging Techniques, C.Patterson, M.S. Willis (Eds) :113
  44. Kienesberger PC, Pulinilkunnil T, Nagendran J, Dyck JR., (2012) Myocardial triacylglycerol metabolism. J Mol Cell Cardiol. 55:101-10 [PubMed]
  45. Holloway, R.W., Bogachev, O., Bharadwaj, A.G., McCluskey, G.D., Majdalawieh, A.F., Zhang, L., and Ro, H.-S., (2012) Stromal adipocyte enhancer-binding protein 1 (AEBP1) promotes mammary epithelial cell hyperplasia via proinflammatory and hedgehog signaling J. Biol. Chem. 287:39171-39181 [PubMed]
  46. Desin, T., Wisner, A., White, A., Potter, A., Köster, W. , (2012) The Salmonella Pathogenicity Island encoded Type III Secretion Systems and their Role in Infection of Poultry Salmonella: Classification, Genetics and Disease Outbreaks, A. S. Monte and P. E. De Santos (eds.) Nova Publishers:39-75 ISBN: 978-1-61942-928-4
  47. Wisner, A., Desin, T., White, A., Potter, A., Köster, W., (2012) The Salmonella Pathogenicity Island-1 and -2 encoded Type III Secretion Systems Salmonella - A diversified superbug, Y. Kumar (ed.) InTech:469-494 ISBN 978-953-307-781-9
  48. A. Goto, X. Liu, C. Robinson and N. Ridgway, (2012) Multi-Site Phosphorylation of Oxysterol Binding Protein (OSBP) Regulates Sterol Binding and Activation of Sphingomyelin Synthesis Mol. Biol. Cel 23:3624-3635 [PubMed]
  49. Gray, M.W., (2012) Evolutionary origin of RNA editing. Biochemistry 51:5235-5242 [PubMed]
  50. Gawryluk, R.M.R., Chisholm, K.A., Pinto, D.M. and Gray, M.W., (2012) Composition of the mitochondrial electron transport chain in Acanthamoeba castellanii: structural and evolutionary insights Biochim. Biophys. Acta 1817:2027-2037 [PubMed]
  51. Gray, M.W., (2012) Mitochondrial evolution Cold Spring Harb Perspect Biol 4:a011403 [PubMed]
  52. Tsaousis, A.D, Leger, M. M., Stairs C.W., and Roger, A.J., (2012) The Biochemical Adaptations of Mitochondrion-Related Organelles of Parasitic and Free-Living Microbial Eukaryotes to Low Oxygen Environments Anoxia: Cellular Origin, Life in Extreme Habitats and Astrobiology 21(2):51-81
  53. Reddy, T. and Rainey, J.K., (2012) The multifaceted substrate capture scheme of a rhomboid protease. J. Phys. Chem. B 116:8942-8954 [PubMed]
  54. Hleap, J.S., Mejía-Falla, P.A. and Cárdenas, H., (2012) Morphometric relationships of the round ray Urotrygon rogersi: quantitative implications under linear models Revista de Biología Marina y Oceanografía 47(1):35-50
  55. Qiu, F., Imai, A., McAlpine, J.B., Lankin, D.C., Burton, I., Karakach, T.K., Fansworth, N.R., Chen, S.-N. and Pauli, G.F., (2012) Dereplication and Rational Naming Schemes for Triterpenes from the Genus Actaea J Nat Prod 75(3):432-443 [PubMed]
  56. Jackman, J.E., Gott, J.M. and Gray, M.W., (2012) Doing it in reverse: 3′-to-5′ polymerization by the Thg1 superfamily. RNA 18:886-899 [PubMed]
  57. Lietzan, A.D., Nagar, M., Pellmann, E.A., Bourque, J.R., Bearne, S.L., St. Maurice, M.*, (2012) Structure of mandelate racemase with bound intermediate analogues benzohydroxamate and cupferron. Biochemistry 51 (6):1160-1170 [PubMed]
  58. Bearne, S.L.*, (2012) Illustrating enzyme inhibition using free energy profiles J. Chem. Educ. 89:732-737.
  59. Archibald, J. M., (2012) Obituary: Lynn Margulis (1938-2011) Curr. Biol. :R4-6
  60. Volkmann G, Volkmann V, Liu X.-Q., (2012) Site-specific protein cleavage in vivo by an intein-derived protease. FEBS Lett. 586:79-84 [PubMed]
  61. Top, D., Read, J., Dawe, S., Syvitski, R., and Duncan, R., (2012) Cell-cell membrane fusion induced by the p15 FAST protein requires a novel fusion peptide motif containing a myristoylated polyproline type II helix. J. Biol. Chem. 287:3403-3414 [PubMed]
  62. Xu, L.*, Tremblay, M-L.*, Meng, Q., Liu, X-Q. and Rainey, J.K. (* contributed equally), (2012) 1H, 13C and 15N NMR assignments of the aciniform spidroin (AcSp1) repetitive domain of Argiope trifasciata wrapping silk. Biomol. NMR Assign. 6:147-151 [PubMed]
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Publications in 2011

  1. Alejandro Martin Cohen, Joseph H Banoub, (2011) Application of Mass Spectrometry for the Analysis of Vitellogenin, a Unique Biomarker for Xenobiotic Compounds Detection of Biological Agents for the Prevention of Bioterrorism, Springer Netherlands :301-318
  2. Jiang, S., Pan, C., (2011) Highly potent synergistic combinations of human immunodeficiency virus (HIV) fusion inhibitors. US Patent :7,919,101.
  3. Pan, C.,* Cai, L.,* Lu, H., Lu, L., Jiang, S. , (2011) A novel chimeric protein-based HIV-1 fusion inhibitor targeting gp41 with high potency and stability. J Biol Chem. 286 (32):28425-34. (*Co-first author).
  4. Volkmann, G., Murphy, P.W., Rowland, E.E., Cronan, J.E., Jr., Byers, D.M., (2011) Probing protein dynamics in vivo using backbone cyclization: bacterial acyl carrier protein as a case study. Methods in Protein Chemistry” (H. Tschesche, ed.) DeGruyter Publishing, Berlin:271-294
  5. Haemmerle G, Moustafa T, Woelkart G, Büttner S, Schmidt A, van de Weijer T, Hesselink M, Jaeger D, Kienesberger PC, Zierler K, Schreiber R, Eichmann T, Kolb D, Kotzbeck P, Schweiger M, Kumari M, Eder S, Schoiswohl G, Wongsiriroj N, Pollak NM, Radner FP, P, (2011) ATGL-mediated fat catabolism regulates cardiac mitochondrial function via PPAR-α and PGC-1. Nat Med. 17(9):1076-85. [PubMed]
  6. Bauer DC, Willadsen K, Buske FA, Lê Cao KA, Bailey TL, Dellaire G, Bodén M., (2011) Sorting the nuclear proteome. Bioinformatics 27(13):i7-14. [PubMed]
  7. Corkery DP, *Dellaire G, *Berman JN., (2011) Leukaemia xenotransplantation in zebrafish--chemotherapy response assay in vivo. *Co-corresponding authors Brit. J. Haematol. 153(6):786-9 [PubMed]
  8. Cann KL, Dellaire G., (2011) Heterochromatin and the DNA damage response: the need to relax Biochem Cell Biol. 89(1):45-60 [PubMed]
  9. Pulinilkunnil T, He H, Kong D, Asakura K, Peroni OD, Lee A, Kahn BB., (2011) Adrenergic regulation of AMP-activated protein kinase in brown adipose tissue in vivo. J Biol Chem 286(11):8798-8809 [PubMed]
  10. Puthanveetil P, Wang Y, Zhang D, Wang F, Kim MS, Innis S, Pulinilkunnil T, Abrahani A, Rodrigues B., (2011) Cardiac triglyceride accumulation following acute lipid excess occurs through activation of a FoxO1-iNOS-CD36 pathway. Free Radic Biol Med. 51(2):352-363 [PubMed]
  11. Desin, T. S., Wisner, A. L., Lam, P-K., Berberov, E., Mickael, C. S., Potter, A. A., Köster, W, (2011) Evaluation of Salmonella enterica serovar Enteritidis pathogenicity island-1 proteins as vaccine candidates against S. Enteritidis challenge in chickens Vet Microbiol. 148(2-4):298-307 [PubMed]
  12. Wisner, A. L., Potter, A. A., Köster, W., (2011) Effect of the Salmonella Pathogenicity Island 2 Type III Secretion System on Salmonella survival in activated Chicken Macrophage-like HD11 cells PLoS ONE 6(12):e29787 [PubMed]
  13. Wisner, A. L., Desin, T. S., Lam, P-K., Berberov, E., Mickael, C. S., Townsend, H. G., Potter, A. A., Köster, W., (2011) Immunization of chickens with Salmonella enterica subspecies enterica serovar Enteritidis pathogenicity island-2 proteins Vet Microbiol. 153(3-4):274-307 [PubMed]
  14. Oko R, Donald A, Xu W, van der Spoel AC, (2011) Fusion failure of dense-cored proacrosomal vesicles in an inducible mouse model of male infertility Cell Tissue Res. 346(1):119-134 [PubMed]
  15. Hill R, Madureira PA, Waisman DM, Lee PW., (2011) DNA-PKCS binding to p53 on the p21WAF1/CIP1 promoter blocks transcription resulting in cell death Oncotarget 2 (12):1094-1108 [PubMed]
  16. Zhang, L., Reidy, S.P., Bogachev, O., Hall, B.K., Majdalawieh, A. and Ro, H.-S., (2011) Lactation defect with impaired secretory activation in AEBP1-null mice. PLoS One 6(11):e27795 [PubMed]
  17. Maruyama, S., Suzaki, T., Weber, A. P., Archibald, J. M., & Nozaki, H., (2011) Eukaryote-to-eukaryote gene transfer gives rise to genome mosaicism in euglenids. BMC Evol. Biol. 11:105 [PubMed]
  18. Tanifuji, G., Onodera, N. T., Gibeault, R., Dlutek, M., Cawthorn, R. J., Fiala, I., Lukes, J., Greenwood, S. J. & Archibald, J. M., (2011) Genomic characterization of Neoparamoeba pemaquidensis (Amoebozoa) and its kinetoplastid endosymbiont. Eukaryot. Cell 10:1143-1146 [PubMed]
  19. McInerney, J. O., Martin, W. F., Koonin, E. V., Allen, J. F., Galerin, M. Y., Lane, N., Archibald, J. M. & Embley, T. M., (2011) Planctomycetes and eukaryotes: A case of analogy not homology. BioEssays 33:810-817 [PubMed]
  20. Archibald, J. M., (2011) Origin of eukaryotic cells: 40 years on Symbiosis 54:69-86
  21. Madureira PA, Hill R, Miller VA, Giacomantonio C, Lee PW, Waisman DM., (2011) Annexin A2 is a novel Cellular Redox Regulatory Protein involved in Tumorigenesis Oncotarget 2 (12):1075-1093 [PubMed]
  22. Read, J. A. and Duncan, R., (2011) Biophysical and functional assays for viral membrane fusion peptides. Methods 55:122-126 [PubMed]
  23. Noyce, R. S., Taylor, K., Ciechonska, M., Collins, S. E., Duncan, R., and Mossman, K. L., (2011) Membrane perturbation elicits an IRF3-dependent IFN-independent antiviral response. J. Virol. 85:10926-10931. [PubMed]
  24. Yan, X., Parent, K. N., Goodman, R. P., Tang, J., Shou, J., Nibert, M. L., Duncan, R., and Baker, T.S. , (2011) Virion structure of baboon reovirus, a fusogenic orthoreovirus that lacks an adhesion fiber. J. Virol. 85:7483-7495 [PubMed]
  25. Clancy, E.K. and Duncan, R., (2011) Helix-destabilizing, beta-branched and polar residues in the baboon reovirus p15 transmembrane domain influence the modularity of the FAST proteins. J. Virol. 85:4707-4719 [PubMed]
  26. Madureira PA, Surette AP, Phipps KD, Taboski MA, Miller VA, Waisman DM, (2011) The role of the annexin A2 heterotetramer in vascular fibrinolysis Blood 118(18):4789-97 [PubMed]
  27. Phipps KD, Surette AP, O'Connell PA, Waisman DM, (2011) Plasminogen Receptor S100A10 Is Essential for the Migration of Tumor-Promoting Macrophages into Tumor Sites Cancer Research 71(21):6676-6683 [PubMed]
  28. Soanes, K.H., Achenbach, J.C., Burton, I.W., Hui, J.P., Penny, S.L. and Karakach, T.K., (2011) Molecular characterization of zebrafish embryogenesis via DNA microarrays and multiplatform time course metabolomics Studies J Proteome Res. 10(11):5102-5117 [PubMed]
  29. Surette AP, Madureira PA, Phipps KD, Miller VA, Svenningsson P, Waisman DM, (2011) Regulation of fibrinolysis by S100A10 in vivo. Blood 118(11):3172-81 [PubMed]
  30. O'Connell PA, Madureira PA, Berman JN, Liwski RS, Waisman DM, (2011) Regulation of S100A10 by the PML-RAR-α oncoprotein Blood 117(15):4095-105 [PubMed]
  31. Nagar, M., Narmandakh, A., Khalak, Y., Bearne, S.L.*, (2011) Redefining the minimal substrate tolerance of mandelate racemase. Racemization of trifluorolactate. Biochemistry 50(41):8846-8852 [PubMed]
  32. Mailman, TM., Hariharan, M., and Karten B. , (2011) Inhibition of neuronal cholesterol biosynthesis with lovastatin leads to impaired synaptic vesicle release even in the presence of lipoproteins or geranylgeraniol. J. Neurochem. :Sept 7. Epub ahead of print, doi: 10.1111/j.1471-4159.2011.07474 [PubMed]
  33. Yoo B.H., Wang Y, Erdogan M, Sasazuki S, Shirasawa S , Corcos L., Sabapathy K. and Rosen K.V. , (2011) Oncogenic ras-induced downregulation of a pro-apoptotic protease caspase-2 is required for malignant transformation of intestinal epithelial cells. J Biol Chem 286:38894-903 [PubMed]
  34. Stevens, J.R., O'Donnell, A.F., Perry, T.F., Benjamin, J.J.R., Barnes, C.A., Johnston, G.C. and Singer, R.A., (2011) FACT, the Bur kinase pathway, and the histone co-repressor HirC have overlapping nucleosome-related roles in yeast transcription elongation. PLoS ONE 6:e25644 [PubMed]
  35. Halary, S.*, MALIK, S.-B.*, Lildhar, L., Slamovits, C.H., Hijri, M. and Corradi, N. (*equal contibutions), (2011) Conserved meiotic machinery in Glomus spp., a putatively ancient asexual fungal lineage. Genome Biology and Evolution 3:950-958 [PubMed]
  36. Steeves, C.H., and Bearne, S.L.*, (2011) Activation and inhibition of CTP synthase from Trypanosoma brucei, the causative agent of African sleeping sickness Bioorg. Med. Chem. Lett. 21:5188-5190. [PubMed]
  37. Schnare, M.N. and Gray, M.W., (2011) Complete modification maps for the small and large subunit rRNAs of Euglena gracilis: functional and evolutionary implications of contrasting patterns between the two rRNA components J. Mol. Biol. 413:66-83 [PubMed]
  38. Robinson, J.L., Hall, J.R., Charman, M., Ewart, K.V., Driedzic, W.R., (2011) Molecular analysis, tissue profiles, and seasonal patterns of cytosolic and mitochondrial GPDH in freeze-resistant rainbow smelt (Osmerus mordax). Physiol. Biochem. Zool. 84:363-376 [PubMed]
  39. Appleby-Tagoe, J.H., Thiel, I.V., Wang, Y., Wang, Y., Mootz, H.D. and Liu, X.-Q., (2011) Highly efficient and more general cis- and trans-splicing inteins through sequential directed evolution. J. Biol. Chem. 286(39):34440-34447 [PubMed]
  40. Volkmann G, Liu X.-Q., (2011) Intein lacking conserved C-terminal motif G retains controllable N-cleavage activity. FEBS J. 278(18):3431-3446 [PubMed]
  41. Qi X, Meng Q, Liu X.-Q., (2011) Spontaneous C-cleavage of a mini-intein without its conserved N-terminal motif A. FEBS Lett. 585(15):2513-2518 [PubMed]
  42. Qi X, Wang J, Meng Q, Liu XQ, (2011) Alternative Nucleophilic Residues in Intein Catalysis of Protein Splicing. Protein Pept. Lett. 18:1226-1232 [PubMed]
  43. MacLellan, D. L., Mataija, D., Doucette, A., Huang, W., Langlois, C., Trottier, G., Burton, W. I., Walter, J. A. and Karakach, T. K., (2011) Alterations in urinary metabolites due to unilateral ureteral obstruction in a rodent model Mol. BioSyst 7:2181-2188 [PubMed]
  44. Zhaxybayeva, O. and Doolittle, W.F. , (2011) Lateral gene transfer (Primer). Curr. Biol. 21:R242-R246
  45. Koenig, J.E., Bourne, D.G., Curtis, B., Dlutek, M., Stokes, H.W., Doolittle, W.F. and Boucher, Y. , (2011) Coral-mucus-associated Vibrio integrons in the Great Barrier Reef: genomic hotspots for environmental adaptation. ISME J. 5(6):962-972 [PubMed]
  46. Doolittle, W.F., Lukes, J., Archibald, J.M., Keeling, P.J. and Gray, M.W. , (2011) Comment on “Does constructive neutral evolution play an important role in the origin of cellular complexity?” Bioessays 33(6):427-429 [PubMed]
  47. Lukes, J., Archibald, J.M., Keeling, P.J., Doolittle, W.F. and Gray, M.W., (2011) How a neutral evolutionary ratchet can build cellular complexity. IUBMB Life 63:528-537
  48. Gray, M.W., (2011) The incredible shrinking organelle. EMBO Rep. 12:873 [PubMed]
  49. Tsaousis, A.D., Gaston, D., Stechmann, A., Walker, P.B., Lithgow, T. and Roger, A.J. , (2011) A functional Tom70 in the human parasite Blastocystis sp.: Implications for the evolution of the mitochondrial import apparatus. Mol. Biol. Evol. 28:781-791
  50. Kamikawa, R., Inagaki, Y., Tokoro, M., Roger, A.J. and Hashimoto, T. , (2011) Split introns in the genome of a divergent eukaryote Giardia intestinalis are excised by spliceosome-mediated trans-splicing. Curr. Biol. 21:311-315
  51. Wang, H.-C., Susko, E. and Roger, A.J. , (2011) Fast statistical tests for detecting heterotachy in protein evolution. Mol. Biol. Evol. [Epub ahead of print]:
  52. Zou, L., Susko E., Field, C. and Roger, A.J., (2011) The Parameters of the Barry and Hartigan General Markov Model are Statistically Nonidentifiable. Syst. Biol. [Epub ahead of print]:
  53. Stairs, C.W., Roger, A.J. and Hampl, V. , (2011) Eukaryotic pyruvate formate lyase and its activating enzyme were acquired laterally from a firmicute. Mol. Biol. Evol. 28:2087-2099
  54. Gile, G. and Slamovits, C.H., (2011) Phylogenetic position of Lophomonas striata Bütschli (Parabasalia) from the hindgut of the cockroach Periplaneta americana Protist In press: [PubMed]
  55. Bogachev, O., Pan, X., Majdalawieh, A., Zhang, L. and Ro, H.-S., (2011) Adipocyte enhancer-binding protein 1 (AEBP1) (a novel macrophage proinflammatory mediator) overexpression promotes and ablation attenuates atherosclerosis in ApoE-/- and LDLR-/- mice. Mol. Med. 17:1056-1064 [PubMed]
  56. MALIK S.-B., Brochu C.D., Bilic I., Yuan J., Hess M., Logsdon J.M. Jr., and Carlton J.M., (2011) Phylogeny of parasitic Parabasalia and free-living relatives inferred from conventional markers vs. Rpb1, a single-copy gene. PLoS One 6(6):e20774 [PubMed]
  57. Joseph, S.V., Jacques, H., Plourde, M., Mitchell, P.L., McLeod, R.S., Aukema, H.M., Jones, P.J.H., (2011) Conjugated linoleic acid supplementation for 8 weeks fails to impact body composition, lipid profile, or safety parameters in overweight, hyperlipidemic men. J. Nutrition 141:1286-1291 [PubMed]
  58. Fisher, E.A., Khanna, N., and McLeod, R.S. , (2011) Ubiquitination regulates the assembly of VLDL in HepG2 cells and is the committing step of the apoB100 ERAD pathway. J. Lipid Res. 52:1170-1180 [PubMed]
  59. Yadav Y., MacLean E., Bhattacharyya A., Parmar V.S., Balzarini J., Barden C., Too C.K.L. and Jha A., (2011) Design, synthesis and bioevaluation of novel candidate selective estrogen receptor modulators. Eur. J. Med. Chem. 46:3858-3866. [PubMed]
  60. Theodoro, R.C., Volkmann, G., Liu, X.-Q., and Bagagli, E., (2011) PRP8 intein in Ajellomycetaceae family pathogens: sequence analysis, splicing evaluation and homing endonuclease activity. Fungal Genetics and Biology 48:80-91 [PubMed]
  61. Steeves, C.H., Potrykus, J., Barnett, D.A., and Bearne, S.L.*, (2011) Oxidative stress response in the opportunistic oral pathogen Fusobacterium nucleatum Proteomics 11:2027-2037. [PubMed]
  62. Benjamin, J.R.R., Poon, P.P., Drysdale, J.D., Wang, X., Singer, R.A. and Johnston, G.C., (2011) Dysregulated Arl1, a regulator of post-Golgi vesicle tethering, can inhibit endosomal transport and cell proliferation in yeast. Mol. Biol. Cell 22:2337-2347 [PubMed]
  63. Kepkay, R., Attwood, K.M., Ziv, Y., Shiloh, Y., Dellaire G., (2011) KAP1 depletion increases PML nuclear body number in concert with ultrastructural changes in chromatin. Cell Cycle 10(2):308-222 [PubMed]
  64. Flegontov, P., Gray, M.W., Burger, G. and Lukeš, J., (2011) Gene fragmentation: a key to mitochondrial genome evolution in Euglenozoa? Curr. Genet. 57:225-232 [PubMed]
  65. Lukeš, J., Archibald, J.M., Keeling, P.J., Doolittle, W.F. and Gray, M.W. , (2011) How a neutral evolutionary ratchet can build cellular complexity. IUBMB Life 63:528-537 [PubMed]
  66. Gehrig, K. and Rdigway, N.D. , (2011) CTP:phosphocholine cytidylyltransferase α (CCTα) and lamins alter nuclear membrane structure without affecting phosphatidylcholine synthesis Biochim. Biophys. Acta 1811:377-385 [PubMed]
  67. Hampl, V., Stairs, C.W., and Roger, A.J., (2011) The tangled past of eukaryotic enzymes involved in anaerobic metabolism Mobile Gen. Elements 1(1):71-74 [PubMed]
  68. Stairs, C.W., Roger, A.J. and Hampl, V., (2011) Eukaryotic Pyruvate Formate Lyase and Its Activating Enzyme Were Acquired Laterally from a Firmicute Molec. Biol. Evo. 28(7):2087-2099 [PubMed]
  69. Doolittle, W.F., Lukeš, J., Archibald, J.M.. Keeling, P.J. and Gray, M.W., (2011) Comment on “Does constructive neutral evolution play an important role in the origin of cellular complexity?” Bioessays 33:427-429 [PubMed]
  70. Corcoran, J., Clancy, E.K., and Duncan, R., (2011) Homomultimerization of the reovirus p14 FAST protein during transit through the ER-Golgi secretory pathway. J. Gen. Virol. 92:162-166 [PubMed]
  71. Slamovits, C.H., Okamoto, N., Burri, L., James, E. and Keeling, P.J. , (2011) A bacterial proteorhodopsin proton pump in marine eukaryotes. Nature Communications 2:183:
  72. Abdelmagid, S.A., Rickard, J.A., McDonald, W.J., Thomas, L.N and Too, C.K.L., (2011) CAT-1-mediated arginine uptake and regulation of nitric oxide synthases for the survival of human breast cancer cell lines. J. Cell. Biochem. 112:1084-1092. [PubMed] [Article]
  73. Richards, T. A. & Archibald J. M., (2011) Cell evolution: gene transfer agents and the origin of mitochondria Curr. Biol. 21:112-114 [PubMed]
  74. Gong, H., Abbott, K., Driedzic, W.R. and Ewart, K.V., (2011) Chemical chaperoning action of glycerol on the antifreeze protein of rainbow smelt. J. Therm. Biol. 36:78-83
  75. Corradi, N. and Slamovits, C.H., (2011) The intriguing nature of microsporidian genomes Briefings in Functional Genomics In press: [PubMed]
  76. Abad, M.G., Long, Y., Willcox, A., Gott, J.M., Gray, M.W. and Jackman, J.E., (2011) A role for tRNAHis guanylyltransferase (Thg1)-like proteins from Dictyostelium discoideum in mitochondrial 5′-tRNA editing. RNA 17:613-623 [PubMed]
  77. Hudson, D.M., Mattatall, N.R., Uribe, E., Richards, R.C. Gong, H. and Ewart, K.V. , (2011) Cystine-mediated oligomerization of the Atlantic salmon serum C-type lectin. Biochim. Biophys. Acta 1814:283-289 [PubMed]
  78. Kim, E., Harrison, J., Sudek, S., Jones, M. D. M., Wilcox, H. M., Richards, T. A., Worden, A. Z., & Archibald, J. M., (2011) Newly identified and diverse plastid-bearing branch on the eukaryotic tree of life. Proc. Natl. Acad. Sci. U.S.A. 108:1496-1500 [PubMed]
  79. Benjamin, J.J.R., Poon, P.P., Lewis, S.M., Auger, A., Wong, T.A., Singer, R.A. and Johnston, G.C., (2011) The yeast Arf GTPase-activating protein Age1 is regulated by phospholipase D for post-Golgi vesicular transport. J. Biol. Chem. 286:5187-5196 [PubMed]
  80. Spencer, D.F. and Gray, M.W., (2011) Ribosomal RNA genes in Euglena gracilis mitochondrial DNA: fragmented genes in a seemingly fragmented genome. Mol. Genet. Genomics 285:19-31 [PubMed]
  81. Tsaousis, A.D., Gaston, D. Stechmann, A., Walker, P.B., Lithgow, T. and Roger, A.J., (2011) A Functional Tom70 in the Human Parasite Blastocystis sp.: Implications for the Evolution of the Mitochondrial Import Apparatus Mol Bio Evo 28(1):781-791 [PubMed]
  82. Tanifuji, G., Onodera, N. T.,Wheeler, T. J., Dlutek, M., Donaher, N. & Archibald, J. M., (2011) Complete nucleomorph genome sequence of the non-photosynthetic alga Cryptomonas paramecium reveals a core nucleomorph gene set. Genome Biol. Evol. 3:44-54 [PubMed]
  83. Langelaan, D.N.*, Ngweniform, P.*, Rainey, J.K. (*contributed equally), (2011) Biophysical characterization of G-protein coupled receptor-peptide ligand binding. Biochem Cell Biol 89:98-105 [PubMed]
  84. Gray, M.W. and Beyer, A.L, (2011) Ribonucleic acid (RNA). McGraw Hill Encyclopedia of Science & Technology, 11th edition : in press
  85. Hoef-Emden, K. & Archibald, J. M., (2011) Phylum Cryptophyta (Cryptomonads) In Handbook of Protoctista, Second Edition, L. Margulis (ed.) Jones and Bartlett:In Press

Publications in 2010

  1. Joseph H Banoub, Anas El Aneed, Alejandro Martin Cohen, Nicolas Joly, (2010) Structural investigation of bacterial lipopolysaccharides by mass spectrometry and tandem mass spectrometry Mass spectrometry reviews 29(4):606-650
  2. Jin L, Pan C., Qi Z, Zhou ZH, Jiang S. , (2010) Fab crystallization and preliminary X-ray analysis of NC-1, an anti-HIV-1 antibody that recognizes the six-helix bundle core of gp41. Acta Crystallogr Sect F Struct Biol Cryst Commun. 66(Pt 7):854-857
  3. Pan C., Cheung B, Tan S, Li C, Li L, Liu S, Jiang S., (2010) Genomic signature and mutation trend analysis of pandemic (H1N1) 2009 influenza A virus. PLoS One 5(3):e9549.
  4. Pan, C., Liu, S., and Jiang, S. , (2010) HIV-1 gp41 fusion intermediate: a target for HIV therapeutics (invited review). J. Formos. Med. Assoc. 109 (2):94-105
  5. Qi Z, Pan C, Lu H, Shui Y, Li L, Li X, Xu X, Liu S, Jiang S. , (2010) A recombinant mimetics of the HIV-1 gp41 prehairpin fusion intermediate fused with human IgG Fc fragment elicits neutralizing antibody response in the vaccinated mice. Biochem Biophys Res Commun. 398:506-512.
  6. Tsai JY, Kienesberger PC, Pulinilkunnil T, Sailors MH, Durgan DJ, Villegas-Montoya C, Jahoor A, Gonzalez R, Garvey ME, Boland B, Blasier Z, McElfresh TA, Nannegari V, Chow CW, Heird WC, Chandler MP, Dyck JR, Bray MS, Young ME., (2010) Direct regulation of myocardial triglyceride metabolism by the cardiomyocyte circadian clock. J Biol Chem. 29;285(5):2918-29. [PubMed]
  7. Schoiswohl G, Schweiger M, Schreiber R, Gorkiewicz G, Preiss-Landl K, Taschler U, Zierler KA, Radner FP, Eichmann TO, Kienesberger PC, Eder S, Lass A, Haemmerle G, Alsted TJ, Kiens B, Hoefler G, Zechner R, Zimmermann R., (2010) Adipose triglyceride lipase plays a key role in the supply of the working muscle with fatty acids. J Lipid Res. 51(3):490-9. [PubMed]
  8. Brindley DN, Kok BP, Kienesberger PC, Lehner R, Dyck JR., (2010) Shedding light on the enigma of myocardial lipotoxicity: the involvement of known and putative regulators of fatty acid storage and mobilization. Am J Physiol Endocrinol Metab. 298(5):E897-908. [PubMed]
  9. Guernsey, D.L., Matsuoka, M., Jiang, H., Evans, S., Macgillivray, C., Nightingale, M., Perry, S., Ferguson, M., LeBlanc, M.A., Paquette, J., Patry, L., Rideout, A.L., Thomas, A., Orr, A., McMaster, C.R., Michaud, J.L., Deal, C., Langlois, S., Superneau, D, (2010) Mutations in Origin Recognition Complex Gene ORC4L Cause Meier-Gorlin Syndrome Nature Genetics 43:360-366
  10. LeBlanc, M.A., and McMaster, C.R. , (2010) Lipid Binding Requirements for Oxysterol Binding Protein Kes1 Inhibition of Autophagy and Endosome-trans-Golgi Trafficking Pathways J. Biol. Chem. 285:33875-33884
  11. Marignani PA and Sanchez-Cespedes M, (2010) The tumour suppressor role of LKB1 in human cancer. Emerging Signaling Pathways in Tumor Biology. :71-94
  12. Pulinilkunnil T, Puthanveetil P, Kim MS, Wang F, Schmitt V, Rodrigues B., (2010) Ischemia-reperfusion alters cardiac lipoprotein lipase. Biochim Biophys Acta. 1801(2):171-175 [PubMed]
  13. Tsai JY, Kienesberger PC, Pulinilkunnil T, Sailors MH, Durgan DJ, Villegas-Montoya C, Jahoor A, Gonzalez R, Garvey ME, Boland B, Blasier Z, McElfresh TA, Nannegari V, Chow CW, Heird WC, Chandler MP, Dyck JR, Bray MS, Young ME., (2010) Direct regulation of myocardial triglyceride metabolism by the cardiomyocyte circadian clock. J Biol Chem 285(5):2918-2929 [PubMed]
  14. Durgan DJ, Pulinilkunnil T, Villegas-Montoya C, Garvey ME, Frangogiannis NG, Michael LH, Chow CW, Dyck JR, Young ME., (2010) Ischemia/reperfusion tolerance is time-of-day-dependent: mediation by the cardiomyocyte circadian clock. Circ Res. 106(3):546-550 [PubMed]
  15. Olson DP, Pulinilkunnil T, Cline GW, Shulman GI, Lowell BB., (2010) Gene knockout of Acc2 has little effect on body weight, fat mass, or food intake. Proc Natl Acad Sci U S A 107(16):7598-603 [PubMed]
  16. Hamming KS, Soliman D, Webster NJ, Searle GJ, Matemisz LC, Liknes DA, Dai XQ, Pulinilkunnil T, Riedel MJ, Dyck JR, Macdonald PE, Light PE., (2010) Inhibition of beta-cell sodium-calcium exchange enhances glucose-dependent elevations in cytoplasmic calcium and insulin secretion. Diabetes 59(7):1686-1693 [PubMed]
  17. Wisner, A. L., Desin, T. S., Koch, B., Lam, P-K., Berberov, E. M., Mickael, C. S., Potter, A. A., Köster, W., (2010) Salmonella enterica subspecies enterica serovar Enteritidis Salmonella pathogenicity island 2 type III secretion system: role in intestinal colonization of chickens and systemic spread Microbiology. 156(Pt 9):2770-2781 [PubMed]
  18. Zhang Y, Schulte W, Pink D, Phipps K, Zijlstra A, Lewis JD, Waisman DM, (2010) Sensitivity of cancer cells to truncated diphtheria toxin PLoS One 5(5):e10498 [PubMed]
  19. O'Connell, P. A., Surette, A. P., Liwski, R. S., Svenningsson, P., and Waisman, D. M., (2010) S100A10 regulates plasminogen-dependent macrophage invasion Blood 116(7):1136-1146 [PubMed]
  20. Nesbo, C.L., Kumaraswamy, R., Dlutek, M., Doolittle, W.F. and Foght, J. , (2010) Searching for mesophilic Thermotogales bacteria: “mesotogas” in the wild. App. Env. Microbiol. 76:4896-4900
  21. Gray, M.W., Lukes, J., Archibald, J.M., Keeling, P.J. and Doolittle, W.F. , (2010) Irremediable complexity? Science 330:920-921
  22. Kolisko M., Silberman, J.D., Cepicka, I., Yubuki, N., Takishita, K., Yabuki, A., Leander, B.S., Inouye, I., Inagaki, Y., Roger, A.J. and Simpson, A.G.B. , (2010) A wide diversity of previously undetected free-living relatives of diplomonads isolated from marine/saline habitats. Env. Microbiol. 12:2700-2710
  23. Baurain, D., Brinkmann, H., Petersen, J., Rodríguez-Ezpeleta, N., Stechmann, A., Demoulin, V., Roger, A.J., Burger, G., Lang, B.F. and Philippe, H., (2010) Phylogenomic evidence for separate acquisition of plastids in cryptophytes, haptophytes and stramenopiles. Mol. Biol. Evol. 27:1698-1709
  24. Sebé-Pedros, A., Roger, A.J., Lang, F.B., King, N. and Ruiz-Trillo, I., (2010) From the cover: Ancient origin of the integrin-mediated adhesion and signaling machinery. Proc. Natl. Acad. Sci. USA 107:10142-10147
  25. Barberà, M.J., Ruiz-Trillo, I., Tufts, J.Y.A., Bery, A., Silberman, J.D. and Roger, A.J., (2010) Sawyeria marylandensis (Heterolobosea) has a hydrogenosome with novel metabolic properties. Euk. Cell 9:1913-1924
  26. Richards, R.C., Short, C.E., Driedzic, W.R. and Ewart, K.V., (2010) Seasonal changes in hepatic gene expression reveal modulation of multiple processes in rainbow smelt (Osmerus mordax) Mar. Biotechnol. 12:650-63 [PubMed]
  27. Archibald, J. M. & Richards, T. A., (2010) Gene transfer: anything goes in plant mitochondria BMC Biology 8:147 [PubMed]
  28. Gray, M. W., Lukes, J., Archibald, J. M., Keeling, P. J., & Doolittle, W. F. , (2010) Cell biology. Irremediable complexity? Science 330:920-921 [PubMed]
  29. Slamovits, C.H. and Keeling, P.J., (2010) Contributions of Oxyrrhis marina to molecular biology, genomics and organelle evolution of dinoflagellates Journal of Plankton Research doi: 10.1093/plankt/fbq153:
  30. Gray, M.W., Lukeš, J., Archibald, J.M., Keeling, P.J. and Doolittle, W.F., (2010) Irremediable complexity? Science 330:920-921 [PubMed]
  31. Tobias K. Karakach, Robert M. Flight, Susan E. Douglas, and Peter D. Wentzell, (2010) An Introduction to Spotted DNA Microarrays for Gene Expression Analysis; Chemometr Intell Lab 104: 28-52
  32. Silver, T.D., Moore, C.E., and Archibald, J.M. , (2010) Nucleomorph ribosomal DNA and telomere dynamics in chlorarachniophyte algae. J. Euk. Micro. 57:453-459
  33. Chan, D.I., Chu, B.C., Lau, C.K., Hunter, H.N., Byers, D.M., and Vogel H.J., (2010) NMR solution structure and biophysical characterization of Vibrio harveyi acyl carrier protein A75H: effects of divalent metal ions J. Biol. Chem. 285:30558-30566 [PubMed]
  34. Banerji, S., Ngo, M., Lane, C.F., Robinson, C., Minogue, S., and Ridgway, N.D. , (2010) OSBP-dependent activation of sphingomyelin synthesis in the Golgi apparatus requires PtdIns 4-kianse II alpha Mol. Biol. Cell 21:4141-4150 [PubMed]
  35. Lowe, C.D., Keeling, P.J., Martin, L.E., Slamovits, C.H., Watts, P.C. and Montagnes, D.J.S., (2010) Who is Oxyrrhis marina? Morphological and phylogenetic studies on an unusual dinoflagellate. Journal of Plankton Research doi: 10.1093/plankt/fbq110:
  36. Saffo, M.B., McCoy, A.M., Rieken, C. and Slamovits, C.H., (2010) Nephromyces, a beneficial apicomplexan symbiont in marine animals Proc. Natl. Acad. Sci. USA 107 (37):16190-16195 [PubMed]
  37. Langelaan, D.N., Wieczorek, M., Blouin, C. and Rainey, J.K., (2010) Improved helix and kink characterization in membrane proteins allows evaluation of kink sequence predictors. J. Chem. Inf. Model. 50:2213-2220 [PubMed]
  38. Key, T., McCarthy, A., Campbell, D.A., Six, C., Roy, S., Finkel, Z. , (2010) Cell size trade-offs govern light exploitation strategies in marine phytoplankton Env. Micro. 12:95-104 [PubMed]
  39. Clancy, E.K., Barry, C., Ciechonska, M., and Duncan, R., (2010) Different activities of the reovirus FAST proteins and influenza hemagglutinin in cell-cell fusion assays and in response to membrane curvature agents Virology 397:119-129 [PubMed]
  40. Barry, C., Key, T., Haddad, R., and Duncan, R., (2010) Features of a spatially constrained cystine loop in the p10 FAST protein ectodomain define a new class of viral fusion peptides J. Biol. Chem. 285:16424-16433 [PubMed]
  41. Racine, R. and Duncan, R., (2010) Facilitated leaky scanning and atypical ribosome shunting direct downstream translation initiation on the tricistronic S1 mRNA of avian reovirus Nucleic Acids Res 38:7260-7272 [PubMed]
  42. Curtis, B. A. & Archibald, J. M., (2010) A spliceosomal intron of mitochondrial DNA origin. Curr. Biol. 20:R919-920 [PubMed]
  43. Carlton J.M., MALIK S.-B., Sullivan S.A., Tang P., and R.P. Hirt., (2010) Chapter 3: The genome of Trichomonas vaginalis. Anaerobic parasitic protozoa: Genomics and molecular biology. C.G. Clark, P.J. Johnson, R.D. Adam (eds.). Caister Academic Press, UK (ISBN 978-1-904455-61-5):http://www.horizonpress.com/protozoa
  44. Gray, M.W., (2010) Re-thinking plastid evolution. EMBO Rep 11:562-563 [PubMed]
  45. Gawryluk, R.M.R. and Gray, M.W., (2010) Evidence for an early evolutionary emergence of γ-type carbonic anhydrases as components of mitochondrial respiratory complex I. BMC Evol. Biol. 10:176 [PubMed]
  46. Kim, E. and Archibald, J. M., (2010) Plastid evolution: gene transfer and the maintenance of 'stolen' organelles BMC Biology 8:73 [PubMed]
  47. Ngo, M., Colbourne, T.R. and Ridgway, N.D. , (2010) The Functional Implications of Sterol Transport by the Oxysterol Binding Protein Gene Family Biochem. J. 429:13-24 [PubMed]
  48. Nhek S, Ngo M, Yang X, Ng MM, Field SJ, Asara JM, Ridgway ND, Toker A., (2010) Regulation of OSBP Golgi Localization through Protein Kinase D-mediated Phosphorylation. Mol Biol Cell 21:2327-2337 [PubMed]
  49. Hilchie AL, Furlong SJ, Sutton K, Richardson A, Robichaud MR, Giacomantonio CA, Ridgway ND, Hoskin DW., (2010) Curcumin-induced apoptosis in PC3 prostate carcinoma cells is caspase-independent and involves cellular ceramide accumulation and damage to mitochondria. Nutr Cancer 62:379-389 [PubMed]
  50. Ridgway, N. D., (2010) Oxysterol binding proteins Subcell Biochem 51:159-182 [PubMed]
  51. Hawes, CM., Wiemer, H., Krueger, SR., Karten, B., (2010) Presynaptic defects of NPC1-deficient hippocampal neurons are not directly related to plasma membrane cholesterol J. Neurochem. in press: [PubMed]
  52. Majdalawieh, A. and Ro, H.-S., (2010) PPARgamma1 and LXRalpha face a new regulator of macrophage cholesterol homeostasis and inflammatory responsiveness, AEBP1. Nucl. Recept. Signal. 8:e004 [PubMed]
  53. Majdalawieh, A. and Ro, H.-S., (2010) Regulation of IkappaBalpha function and NF-kappaB signaling: AEBP1 is a novel proinflammatory mediator in macrophages. Mediators Inflamm. 2010:823821 [PubMed]
  54. McDonald, M.J., Sangster, S.M., Moffat, L.D., Henderson, M.J. and Too, C.K.L., (2010) Alpha4 phosphoprotein interacts with EDD E3 ubiquitin ligase and poly(A)-binding protein. J. Cell. Biochem. 110:1123-1129. [PubMed] [Article]
  55. Thirumalairajan, S., Mahaney, B., and Bearne, S.L.*, (2010) Interrogation of the active site of OMP decarboxylase from Escherichia coli with a substrate analogue bearing an anionic group at C6 Chem. Comm. 46:3158-3160. [PubMed]
  56. Volkmann, G., Murphy, P.W., Rowland, E.E., Cronan, J.E., Jr., Liu, X.Q., Blouin, C., and Byers, D.M., (2010) Intein-mediated cyclization of bacterial acyl carrier protein stabilizes its folded conformation but does not abolish function. J. Biol. Chem. 285:8605-8614 [PubMed]
  57. Bullerwell, C.E., Burger, G., Gott, J.M., Kourennaia, O., Schnare, M.N. and Gray, M.W., (2010) Abundant 5S rRNA-like transcripts encoded by the mitochondrial genome in Amoebozoa. Eukaryot. Cell 9:762-773 [PubMed]
  58. Volkmann G, Murphy P.W., Rowland E.E., Cronan J.E. Jr, Liu X.Q., Blouin C, Byers D.M., (2010) Intein-mediated cyclization of bacterial acyl carrier protein stabilizes its folded conformation but does not abolish function. J Biol Chem. 285:8605-8614 [PubMed]
  59. Tanifuji, G. & Archibald, J. M., (2010) Actin gene family dynamics in cryptomonads and red algae J. Mol. Evol. 71:169-179 [PubMed]
  60. Roy, A.C., Lunn, F.A., and Bearne, S.L., (2010) Inhibition of CTP synthase from Escherichia coli by xanthines and uric acids Bioorg. Med. Chem. Lett. 20:141-144. [PubMed]
  61. Hug, L.A., Stechmann, A. and Roger, A.J., (2010) Phylogenetic distributions and histories of proteins involved in anaerobic pyruvate metabolism in eukaryotes. Mol. Biol. Evol. 27:311-324
  62. Doolittle, W.F. and Zhaxybayeva, O. , (2010) Metagenomics and the units of biological organization. Bioscience 60:102-112
  63. Lin, L.-J., Minard, L.V., Johnston, G.C., Singer, R.A. and Schultz, M.C., (2010) Asf1 can promote trimethylation of H3 K36 by Set2. Mol. Cell. Biol. 30: 1116-1129 [PubMed]
  64. Kim, E., Park, J. S., Simpson, A. G. B., Matsunaga, S. Watanabe, M., Murakami, A., Sommerfeld, K., Onodera, N. T. and Archibald, J. M., (2010) Complex array of endobionts in Petalomonas sphagnophila, a large heterotrophic euglenid protist from Sphagnum-dominated peatlands. ISME Journal 4:1108-1120 [PubMed]
  65. Tremblay, M-L., Banks, A.W. and Rainey, J.K., (2010) The predictive accuracy of secondary chemical shifts is more affected by protein secondary structure than solvent environment. J Biomol NMR 46:257-270 [PubMed]
  66. Silver, T. D., Moore, C. E. and Archibald, J. M., (2010) Nucleomorph ribosomal DNA and telomere dynamics in chlorarachniophyte algae J. Euk. Microbiol. 57:453-459 [PubMed]
  67. Gott, J.M., Somerlot, B.H. and Gray, M.W., (2010) Two forms of RNA editing are required for tRNA maturation in Physarum mitochondria. RNA 16:482-488 [PubMed]
  68. Charman, M., Kennedy, B.E., Osborne, N. and Karten, B., (2010) MLN64 mediates egress of cholesterol from endosomes to mitochondria in the absence of functional Niemann-Pick Type C1 protein J. Lipid Res. 51:1023-1034 [PubMed]
  69. Ouazia, D., and Bearne, S.L.*, (2010) A continuous assay for alpha-methylacyl-coenzyme A racemase using circular dichroism. Anal. Biochem. 398:45-51. [PubMed]
  70. Tsaousis, A. D., Stechmann A., Pérez-Brocal V., Hamblin K. A., van der Giezen M., and Clark C. G., (2010) The Blastocystis mitochondrion-like organelles Anaerobic Parasitic Protozoa: Genomics and Molecular Biology. Clark, C.G., Adam R.D., and Johnson P.J. (eds) Horizon Scientific Press:
  71. Hjort K., Goldberg, A. V., Tsaousis A. D., Hirt R. P., and Embley T. M., (2010) Diversity and reductive evolution of mitochondria among microbial eukaryotes Philos Trans R Soc Lond B Biol Sci 365(1541):713-727 [PubMed]
  72. Yoo B.H., Wu X., Li Y., Haniff M., Sasazuki T., Shirasawa S., Eskelinen E.-L. and Rosen K.V., (2010) Oncogenic ras-induced downregulation of autophagy mediator Beclin-1 is required for malignant transformation of intestinal epithelial cells. J. Biol. Chem. 285:5438-49 [PubMed]
  73. Gawryluk, R.M.R. and Gray, M.W., (2010) An ancient fission of mitochondrial cox1. Mol. Biol. Evol. 27:7-10 [PubMed]
  74. Narmandakh, A., and Bearne, S.L.*, (2010) Purification of recombinant mandelate racemase: Improved catalytic activity. Protein Expr. Purif. 69:39-46. [PubMed]
  75. Reddy, T. and Rainey, J.K., (2010) Interpretation of biomolecular NMR spin relaxation parameters. Biochem Cell Biol 88:131-142 [PubMed]
  76. Langelaan, D.N. and Rainey, J.K., (2010) Membrane catalysis of peptide-receptor binding. Biochem Cell Biol 88:203-210 [PubMed]
  77. Reddy, T., Li, X., Fliegel, L., Sykes, B.D. and Rainey, J.K., (2010) Correlating structure, dynamics, and function in transmembrane segment VII of the Na+/H+ exchanger isoform 1. Biochim Biophys Acta Biomembranes 1798:94-104 [PubMed]
  78. Hopkins, J. & Archibald, J. M., (2010) Plastid evolution and the nuclear genomic 'footprint' of red and green algal endosymbionts In: Red algae in the genomics age, Seckbach, J. & Chapman, D. J. (eds.) Springer-Verlag:191-204
  79. Curtis, B. A. and Archibald, J. M., (2010) Problems and progress in understanding the origins of mitochondria and plastids. Symbioses and stress, J. Seckbach and M. Grube (eds.) Springer-Verlag, Germany:41-62

Publications in 2009

  1. Anas El-Aneed, Alejandro Martin Cohen, Joseph Banoub, (2009) Mass spectrometry, review of the basics: electrospray, MALDI, and commonly used mass analyzers Applied Spectroscopy Reviews 44(3):210-230
  2. Alejandro Martin Cohen, Farid Jahouh, Salim Sioud, Rick M Rideout, M Joanne Morgan, Joseph H Banoub, (2009) Quantification of Greenland halibut serum vitellogenin: a trip from the deep sea to the mass spectrometer Rapid Communications in Mass Spectrometry 23(7):1049-1060
  3. Fernández-Murray, JP, Gaspard, GJ, Jesch, SA, McMaster ,CR., (2009) NTE1-encoded phosphatidylcholine phospholipase b regulates transcription of phospholipid biosynthetic genes. J.Biol.Chem 284(52):36034-46 [PubMed] [Article]
  4. McMullen NM, Zhang F, Pasumarthi KB., (2009) Assessment of embryonic myocardial cell differentiation using a dual fluorescent reporter system. J. Cell. Mol. Med. 13(9A):2834-2842 [PubMed]
  5. McMullen NM, Zhang F, Hotchkiss A, Bretzner F, Wilson JM, Ma H, Wafa K, Brownstone RM, Pasumarthi KB., (2009) Functional characterization of cardiac progenitor cells and their derivatives in the embryonic heart post-chamber formation. Dev. Dyn. 238(11):2787-2799 [PubMed]
  6. Pan, C., Jiang, S. , (2009) E14-F55 combination in M2 protein: a putative molecular determinant responsible for swine-origin influenza A virus transmission in humans. PLoS Currents: Influenza. 29:RRN1044
  7. Pan, C., Wang, G., Liao, M., Zhang, G.H., Jiang, S. , (2009) High genetic and antigenic similarity between a swine H3N2 influenza A virus and a prior human influenza vaccine virus: a possible immune pressure-driven cross-species transmission. Biochem. Biophys. Res. Commun. 385:402-407
  8. Pan, C., Lu, H., Qi, Z., Jiang, S. , (2009) Synergistic efficacy of combination of enfuvirtide and sifuvirtide, the first- and next-generation HIV-fusion inhibitors. AIDS 23:639-641
  9. Pan, C., Cai, L., Lu, H., Qi, Z., Jiang, S., (2009) Combinations of first and next generation HIV fusion inhibitors exhibits highly potent synergism against Enfuvirtide-sensitive and resistant HIV-1 strains. J. Virol. 83:7862-7872.
  10. Winther, M. D., L. C. Knickle, M. Haardt, S. J. Allen, A. Ponton, R. J. De Antueno, D. K. Jenkins, S. O. Nwaka, (2009) Methods for Screening Compounds That Modulate Lipid Metabolism. PATENT. Assignee: Xenon Genetics Inc.:
  11. Richardson, A., de Antueno, R., Duncan, R., Hoskin, D.W., (2009) Intracellular delivery of bovine lactoferricin s antimicrobial core (RRWQWR) kills T-leukemia cells Biochem. Biophys. Res. Commun. 388:736-741
  12. Zechner R, Kienesberger PC, Haemmerle G, Zimmermann R, Lass A., (2009) Adipose triglyceride lipase and the lipolytic catabolism of cellular fat stores. J Lipid Res. 50(1):3-21. [PubMed]
  13. Kienesberger PC, Oberer M, Lass A, Zechner R., (2009) Mammalian patatin domain containing proteins: a family with diverse lipolytic activities involved in multiple biological functions. J Lipid Res. 50 Suppl:S63-8. [PubMed]
  14. Kienesberger PC, Lee D, Pulinilkunnil T, Brenner DS, Cai L, Magnes C, Koefeler HC, Streith IE, Rechberger GN, Haemmerle G, Flier JS, Zechner R, Kim YB, Kershaw EE., (2009) Adipose triglyceride lipase deficiency causes tissue-specific changes in insulin signaling. J Biol Chem. 284(44):30218-29. [PubMed]
  15. Xue B*, Pulinilkunnil T*, Murano I, Bence KK, He H, Minokoshi Y, Asakura K, Lee A, Haj F, Furukawa N, Catalano KJ, Delibegovic M, Balschi JA, Cinti S, Neel BG, Kahn BB. (*-Co First Authors), (2009) Neuronal protein tyrosine phosphatase 1B deficiency results in inhibition of hypothalamic AMPK and isoform-specific activation of AMPK in peripheral tissues. Mol Cell Biol. 29(16):4563-73. [PubMed]
  16. Kienesberger PC, Lee D, Pulinilkunnil T, Brenner DS, Cai L, Magnes C, Koefeler HC, Streith IE, Rechberger GN, Haemmerle G, Flier JS, Zechner R, Kim YB, Kershaw EE., (2009) Adipose triglyceride lipase deficiency causes tissue-specific changes in insulin signaling. J Biol Chem. 284(44):30218-29. [PubMed]
  17. Folmes KD, Chan AY, Koonen DP, Pulinilkunnil TC, Baczkó I, Hunter BE, Thorn S, Allard MF, Roberts R, Gollob MH, Light PE, Dyck JR., (2009) Distinct early signaling events resulting from the expression of the PRKAG2 R302Q mutant of AMPK contribute to increased myocardial glycogen. Circ Cardiovasc Genet 2(5):457-466 [PubMed]
  18. Desin, T. S., Lam, P-K., Koch, B., Mickael, C., Berberov E., Wisner, A. L., Townsend, H. G., Potter, A. A., Köster, W., (2009) Salmonella enterica serovar Enteritidis pathogenicity island 1 is not essential for but facilitates rapid systemic spread in chickens Infect. Immun. 77(7):2866-2875 [PubMed]
  19. Weber TJ, Opresko LK, Waisman DM, Newton GJ, Quesenberry RD, Bollinger N, Moore RJ, Smith RD, (2009) Regulation of the low-dose radiation paracrine-specific anchorage-independent growth response by annexin A2 Radiat Res 172(1):96-105 [PubMed]
  20. Joseph, S., Miller, J.R., McLeod, R.S., and Jacques, H., (2009) Effect of trans-8, cis-10 + cis-9, trans-11 conjugated linoleic acid mixture on lipid metabolism in 3T3-L1 cells. Lipids 44:613-620 [PubMed]
  21. Hleap, J.S., Cárdenas, H. & García-Vallejo, F., (2009) Preservación no criogénica de tejido y extracción de ADN: Una aplicación para peces cartilaginosos PANAMJAS 4(4):545-555
  22. Rincón-Barón, E.J., Gélvez, L.V., Forero, H.G. & Hleap, J.S., (2009) Ontogenia del esporangio y esporogenesis del licopodio Huperzia brevifolia (Lycopodeacea) de las altas montañas de Colombia Revista de Biología Tropical 57 (4):1141-1152 [PubMed]
  23. Mark R. Viant, Dan Bearden, Jake G. Bundy, Ian Burton, Tim Collette, Drew Ekman, Tobias K. Karakach, Chin Yu Lin, Simone Rachfort, Jeff de Ropp, Quincy Teng, Ron Tjeerdema, John Walter and Huifeng Wu, (2009) International NMR-based metabolomics intercomparison exercise; Env. Sci. Tech. 43:219-225
  24. Tobias K. Karakach, Elizabeth C. Huenupi, Evelyn C. Soo, Luis O. B. Afonso and John A. Walter, (2009) 1H-NMR and mass spectrometric characterization of the metabolic response of juvenile Atlantic salmon (Salmo salar) to long term handling stress; Metabolomics 5:123 - 137
  25. Tobias K. Karakach, Peter D. Wentzell and John A. Walter, (2009) Characterization of the measurement error structure in 1D 1H NMR data for metabolomics studies Anal. Chim. Acta 636:163-174 [PubMed]
  26. Miroslava Cuperlovic-Culf, Nabil Belacel, Adrian S. Culf, Ian C. Chute, Rodney J. Ouellette, Ian W. Burton, Tobias K. Karakach, John A. Walter, (2009) NMR metabolic analysis of human breast cell lines using fuzzy clustering Mag Res Chem 47:S96-S104
  27. Tobias K. Karakach, Richard Knight, Eva M. Lenz, Mark R. Viant and John A. Walter, (2009) Analysis of time course 1H NMR metabolomics data by multivariate curve resolution; Mag Res Chem 47:S105-S117 [PubMed]
  28. Parks, D.H., Porter, M., Churcher, S., Wang, S., Blouin, C., Whalley, J., Brooks, S., Beiko, R. , (2009) GenGIS: A geospatial information system for genomic data. Genome Biology 19(10):1896-904 [PubMed]
  29. Liu, H., Blouin, C., Keslej, V. , (2009) Identifying Interaction Sentences from Biological Literature Using Automatically Extracted Patterns. Data & Knowledge Engineering 69(1):137-152
  30. Blouin, C., Perry, S., Lavell, A., Susko, E., Roger, A.J., (2009) Reproducing the manual annotation of multiple sequence alignments using a SVM classifier. Bioinformatics 23(25):3093-8 [PubMed]
  31. Richardson, A., de Antueno, R., Duncan, R., and Hoskin, D.W., (2009) Intracellular delivery of the antimicrobial core (RRWQWR) of bovine lactoferricin triggers cathepsin B- and caspase-dependent cytotoxicity in Jurkat T-leukemia cells Biochem. Biophys. Res. Comm. 388:736-741 [PubMed]
  32. Barry, C. and Duncan, R., (2009) Multifaceted sequence-dependent and -independent roles for the reovirus FAST protein cytoplasmic tails in fusion pore formation and syncytiogenesis J. Virol. 83:12185-12195 [PubMed]
  33. Brown, C.W., Stephenson, K.B., Hanson, S., Kucharczyk, M., Duncan, R., Bell, J.C., and Lichty, B.D. , (2009) The p14 FAST protein of reptilian reovirus increases vesicular stomatitis virus neuropathogenesis. J. Virol. 83:552-561 [PubMed]
  34. Racine, T. Hurst, T., Shou, J., and Duncan, R., (2009) Aquareovirus effects syncytiogenesis using a novel member of the FAST protein family translated from a non-canonical translation start site. J. Virol. 83:5951-5955 [PubMed]
  35. Clancy, E. K. and Duncan, R., (2009) Reovirus FAST protein transmembrane domains function in a modular, primary sequence-independent manner to mediate cell-cell membrane fusion. J. Virol. 83:2941-2950 [PubMed]
  36. Top, D., Barry, C., Racine, T., Ellis, C., and Duncan, R., (2009) Enhanced fusion pore expansion mediated by the trans-acting endodomain of the reovirus FAST proteins. PLoS Pathogens 5:e1000331 [PubMed]
  37. Chappell, D.S., Patel, N.A., Jiang, K., Watson, J.E., Li, P., Byers, D.M., and Cooper, D.R., (2009) Functional involvement of protein kinase C-betaII and its substrate, MARCKS, in insulin-stimulated glucose transport in L6 rat skeletal muscle cells. Diabetologia 52:901-911 [PubMed]
  38. Volkmann, G. and Liu, P. X.-Q., (2009) Protein C-terminal labeling and biotinylation using synthetic peptide and split-intein. PLoS ONE 4(12):e8381 [PubMed]
  39. Dellaire, G., Kepkay, R., Bazett-Jones, D.P., (2009) High resolution imaging of changes in the structure and spatial organization of chromatin, gamma-H2A.X and the MRN complex within etoposide-induced DNA repair foci. Cell Cycle 8(22):3750-3769 [PubMed]
  40. Hampl, V., Hug, L.A., Leigh, J.W., Dacks, J.B., Lang, B.F., Simpson, A.G.B. and Roger, A.J. , (2009) Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic "supergroups". Proc. Natl. Acad. Sci. USA 106:3859-3864
  41. Kamikawa, R., Sanchez-Pérez, G.F., Sako, Y., Roger, A.J. and Inagaki, Y. , (2009) Expanded phylogenies of canonical and non-canonical types of methionine adenosyltransferase reveal a complex history of these gene families in eukaryotes. Mol. Phylogenet. Evol. 53:565-570
  42. Wang, H.-C., Susko, E. and Roger, A.J., (2009) PROCOV: maximum likelihood estimation of protein phylogeny under covarion models and site-specfic covarion pattern analysis. BMC Evol. Biol. 9:225-237
  43. Nesbo CL, Bapteste E, Curtis B, Dahle H, Lopez P, Macleod D, Dlutek M, Bowman S, Zhaxybayeva O, Birkeland NK, and Doolittle WF , (2009) The genome of Thermosipho africanus TCF52B: lateral genetic connections to the Firmicutes and Archaea. J Bacteriol. 191:1974-78.
  44. DiPPo, J.L., Nesbo, C.L., Dahle, H., Doolittle, W.F., Birkland, N.-K. and Noll, K.M. , (2009) Kosmotoga olearia gen. nov., sp. nov., a thermophilic, anaerobic heterotroph isolated from an oil production fluid. Int J Syst Evol Microbiol. 59:2991-3000.
  45. Doolittle, W. F., (2009) The practice of classification and the theory of evolution, and what the demise of Charles Darwin's tree of life hypothesis means for both of them. Phil. Trans. Roy. Soc. Lond., Series B 364:2221-2228
  46. Jezbera, J., Sharma, A.K., Brandt, U., Doolittle, W.F. and Hahn, M.W. , (2009) Candidatus Planktophila limnetica', an Actinobacterium representing one of the most numerically important taxa in freshwater bacterioplankton. IJSEM 59:2864-2869.
  47. Doolittle, W.F. and Zhaxybayeva, O. , (2009) On the origin of prokaryotic species. Genome Res. 19:744-756.
  48. Zhaxybayeva, O., Swithers, K., Lapierre, P., Fournier, G., Bickhard, D., DeBoy, R.T., Nelson, K.E., Nesbo, C.L., Doolittle, W.F., Gogarten, J.P. and Noll, K.M. , (2009) On the Chimeric Nature, Thermophilic Origin and Phylogenetic Placement of the Thermotogales. PNAS 106:5865-70
  49. Sharma, A.K., Sommerfeld, K., Bullerjahn, G.S., Matteson, A.R., Wilhelm, S.W., Jezbera, J., Brandt, U., Doolittle, W.F. and Hahn, M.W. , (2009) Actinorhodopsin genes discovered in diverse freshwater habitats and among cultivated freshwater Actinobacteria. ISME J. 3:726-37
  50. Doolittle, W.F., (2009) Eradicating typological thinking in prokaryotic systematics and evolution. Cold Spring Harbor Symposia, Quantitative Biology 74:197-204
  51. Joss MJ, Koenig JE, Labbate M, Polz MF, Gillings MR, Stokes HW, Doolittle WF, Boucher Y., (2009) ACID: annotation of cassette and integron data. BMC Bioinformatics 21:118
  52. Koenig, J.E., Sharp, C., Dlutek, M., Curtis, B., Joss, M., Boucher, Y. and Doolittle, W.F. , (2009) Integron Gene Cassettes and Degradation of Compounds Associated with Industrial Waste: The Case of the Sydney Tar Ponds. PLoS One 4:e5276
  53. Zhaxybayeva, O., Doolittle, W.F., Papke, R.T. and Gogarten, J.P., (2009) Intertwined evolutionary histories of marine Synechococcus and Prochlorococcus marinus. Genome Biol. Evol. 2009:325-339
  54. Doolittle, W. F., (2009) The attempt on the life of the Tree of Life: science, philosophy and politics. Philosophy and Biology 25:455-473
  55. O'Donnell, A.F., Stevens, J.R., Kepkay, R., Barnes, C.A., Johnston, G.C. and Singer, R.A., (2009) New mutant versions of yeast FACT subunit Spt16 affect cell integrity. Mol. Genet. Genomics 282:487-502 [PubMed]
  56. Schindler, C., Rodriguez, F., Poon, P.P., Singer, R.A., Johnston, G.C. and Spang, A., (2009) The GAP domain and the SNARE, coatomer and cargo interaction region of the ArfGAP2/3 Glo3 are sufficient for Glo3 function. Traffic 10:1362-1375 [PubMed]
  57. Elias, M. and Archibald, J. M., (2009) Sizing up the genomic footprint of endosymbiosis BioEssays 31:1273-1279 [PubMed]
  58. LeBlanc, M.A., and McMaster, C.R. , (2009) Surprising Roles for Phospholipid Binding Proteins Revealed by High Throughput Genetics Biochem. Cell Biol. In press:
  59. Fernández-Murray, J.P., Gaspard, G.J., Jesch, S.A., and McMaster, C.R. , (2009) Phosphatidylcholine Phospholipase B Neuropathy Target Esterase 1 (Nte1) Regulates Transcription of Phospholipid Biosynthetic Genes J. Biol. Chem. In press:
  60. Volkmann, G., Sun, W., and Liu, P. X.-Q., (2009) Controllable protein cleavages through intein fragment complementation. Protein Sci. 18:2393-2402 [PubMed]
  61. Charette, J.M. and Gray, M.W. , (2009) U3 snoRNA genes are multi-copy and frequently linked to U5 snRNA genes in Euglena gracilis. BMC Genomics 10:528 [PubMed]
  62. Potrykus, J., Flemming, J., and Bearne, S.L.*, (2009) Kinetic Characterization and Quaternary Structure of Glutamate Racemase from the Periodontal Anaerobe Fusobacterium nucleatum Arch. Biochem. Biophys. 491:16-24. [PubMed]
  63. Yoo B.H., Wu X., Derouet M., Haniff M., Eskelinen E.-L. and Rosen K.V., (2009) Hypoxia-induced downregulation of autophagy mediator Beclin-1 reduces the susceptibility of malignant intestinal epithelial cells to hypoxia-dependent apoptosis. Autophagy 5:1166-79 [PubMed]
  64. Gray, M.W., (2009) The path to RNA editing in plant mitochondria: the Halifax chapter. IUBMB Life 61:1114-1117 [PubMed]
  65. Gray, M.W., (2009) RNA editing in plant mitochondria: 20 years later. IUBMB Life 61:1101-1104 [PubMed]
  66. Donaher, N., Tanifuji, G., Onodera, N. T., Malfatti, S. A., Chain, P. S. G., Hara, Y., & Archibald, J. M., (2009) The complete plastid genome sequence of the secondarily non-photosynthetic alga Cryptomonas paramecium: reduction, compaction, and accellerated evolutionary rate. Genome Biol. Evol. 2009, 439-448: [PubMed]
  67. Burki, F., Inagaki, Y., Brate, J., Archibald, J. M., Keeling, P. J., Cavalier-Smith, T., Sakaguchi, M., Hashimoto, T., Horak, A., Kumar, S., Klaveness, D., Jakobsen, K. S., Pawkowski, J., & Shalchian-Tabrizi, K., (2009) Large-scale phylogenomic analyses reveal that two enigmatic protist lineages, Telonemia and Centroheliozoa, are related to photosynthetic chromalveolates. Genome Biol. Evol. 2009, 231-238 doi:10.1093/gbe/evp022:
  68. Appleby, J.H., Zhou, K., Volkmann, G., and Liu, X.-Q., (2009) Novel split intein for trans-splicing synthetic peptide onto C-terminus of protein. J. Biol. Chem. 284:6194-6199 [PubMed]
  69. Gaston, D., Tsaousis, A.D. and Roger A.J., (2009) Predicting proteomes of mitochondria and related organelles from genomic and expressed sequence tag data. Methods Enzymol. 457:21-41 [PubMed]
  70. Soundararajan, R., Robertson, G., and Marignani, P. A., (2009) Triptolide: an inhibitor of a disintegrin and metalloproteinase 10 (ADAM10) in cancer cells. Cancer Biology and Therapy 8:2052-2060 [PubMed]
  71. Langelaan, D.N. and Rainey, J.K., (2009) Headgroup-dependent membrane catalysis of apelin-receptor interactions is likely. J Phys Chem B 113:10465-10471 [PubMed]
  72. Elias, M. & Archibald, J. M., (2009) The RJL family of small GTPases is an ancient eukaryotic invention probably functionally associated with the flagellar apparatus. Gene. 442:63-72 [PubMed]
  73. Moore, C. & Archibald, J. M., (2009) Nucleomorph genomes. Annu. Rev. Genet. 43:251-264
  74. Nath-Sain, S and Marignani, P. A., (2009) LKB1 catalytic activity contributes to estrogen receptor alpha signaling. Molecular Biology of the Cell 20:2785-2795 [PubMed]
  75. Archibald, J. M., (2009) Genomics: Green evolution, green revolution. Science 324:191-192 [PubMed]
  76. Wang, L., Martin, D. D. O., Genter, E., Wang, J., McLeod, R. S., and Small, D. M., (2009) Surface study of apoB1694-1880, a sequence which can anchor apoB to lipoproteins and makes it nonexchangeable. J. Lipid Res. 50:1340-1352 [PubMed]
  77. MacKinnon, M.A., Curwin, A.J., Gaspard, G.J., Suraci, A.B., Fernández-Murray, J.P., McMaster, C.R. , (2009) The Kap60/Kap95 Karyopherin Complex Directly Regulates Phosphatidylcholine Synthesis J. Biol. Chem. 284:7376-7384
  78. Curwin, A.J., Fairn, G.D., and McMaster, C.R, (2009) The Phospholipid Transfer Protein Sec14 is Required for Trafficking from Endosomes and Regulates Distinct trans-Golgi Export Pathways J. Biol. Chem. 284:7364-7375
  79. Ota, S., Silver, T. D., Archibald, J. M. & Ishida, K.-I., (2009) Lotharella oceanica sp. nov.-a new planktonic chlorarachniophyte studied by light and electron microscopy. Phycologia 48:317-325.
  80. Majdalawieh, A. and Ro, H.-S., (2009) LPS-induced suppression of macrophage cholesterol efflux is mediated by adipocyte enhancer-binding protein 1. Int. J. Biochem. Cell Biol. 41:1518-1525 [PubMed]
  81. Nesbo CL, Bapteste E, Curtis B, Dahle H, Lopez P, Macleod D, Dlutek M, Bowman S, Zhaxybayeva O, Birkeland NK, Doolittle WF., (2009) The genome of Thermosipho africanus TCF52B: lateral genetic connections to the Firmicutes and Archaea. J. Bact E-pub, Jan 5: [PubMed]
  82. Gawryluk, R.M.R. and Gray, M.W., (2009) A split and rearranged nuclear gene encoding the iron-sulfur subunit of mitochondrial succinate dehydrogenase in Euglenozoa. BMC Res. Notes 2:16 [PubMed]
  83. Lane, C. E. & Archibald, J. M., (2009) Reply to Bodyl, Stiller and Mackiewicz: "Chromalveolate plastids: direct descent or multiple endosymbioses?" Trends Ecol. Evol. 24:121-122 [PubMed]
  84. Thomas, L.N., Douglas, R.C., Rittmaster, R.S. and Too, C.K.L., (2009) Overexpression of 5α-reductase Type 1 causes increased sensitivity to low concentrations of testosterone in LnGK9 prostate cancer cells. The Prostate 69:595-602. [PubMed] [Article]
  85. Archibald, J. M., (2009) The puzzle of plastid evolution. Curr. Biol. 19:R81-R88. [PubMed]
  86. Li H., Ray G., Yoo B.H., Erdogan M. and Rosen K.V. , (2009) Downregulation of DAP kinase-2 is required for beta-catenin-induced anoikis resistance of malignant epithelial cells. J. Biol. Chem. 284:2012-2022 [PubMed]
  87. Langelaan, D.N., Bebbington, E.M., Reddy, T. and Rainey, J.K., (2009) Structural insight into G-protein coupled receptor binding by apelin Biochemistry 48:537-548 [PubMed]
  88. Archibald, J. M., (2009) Secondary endosymbiosis. Encyclopedia of Microbiology, Third Edition, Schaechter, M. (ed.) Oxford: Elsevier:438-446
  89. Archibald, J. M., (2009) The origin and spread of eukaryotic photosynthesis-evolving views in light of genomics. Bot. Marina 52:95-103
  90. Susko, E. and Roger, A.J. , (2009) Statistical analysis of expressed sequence tags. Expressed Sequence Tags (ESTs): Generation and Analysis, Vol. 533, Humana Press Inc.:277-287
  91. Archibald, J. M., and Lane, C. E., (2009) Going, going, not quite gone: nucleomorphs as a case study in nuclear genome reduction. J. Heredity 100:582-590 [PubMed]

Publications in 2008

  1. Gaspard, GJ and Pasumarthi, KB, (2008) Quantification of cardiac fibrosis by colour-subtractive computer-assisted image analysis. Clin. Exp. Pharmacol. Physiol. 35:679-686 [PubMed] [Article]
  2. Winther, M. D., L. C. Knickle, M. Haardt, S. J. Allen, A. Ponton, R. J. De Antueno, D. K. Jenkins, S. Nwaka, Y. P. Goldberg, (2008) Human Elongase Genes, Uses Thereof, and Compounds for Modulating Same. PATENT. :
  3. Kienesberger PC, Lass A, Preiss-Landl K, Wolinski H, Kohlwein SD, Zimmermann R, Zechner R., (2008) Identification of an insulin-regulated lysophospholipase with homology to neuropathy target esterase. J Biol Chem. 283(9):5908-17. [PubMed]
  4. Puthanveetil P, Wang F, Kewalramani G, Kim MS, Hosseini-Beheshti E, Ng N, Lau W, Pulinilkunnil T, Allard M, Abrahani A, Rodrigues B., (2008) Cardiac glycogen accumulation after dexamethasone is regulated by AMPK. Am J Physiol Heart Circ Physiol. 295(4):H1753-62. [PubMed]
  5. Hill R, Leidal AM, Madureira PA, Gillis LD, Waisman DM, Chiu A, Lee PW, (2008) Chromium-mediated apoptosis: involvement of DNA-dependent protein kinase (DNA-PK) and differential induction of p53 target genes DNA Repair (Amst) 7(9):1484-99 [PubMed]
  6. Hill R, Leidal AM, Madureira PA, Gillis LD, Cochrane HK, Waisman DM, Chiu A, Lee PW, (2008) Hypersensitivity to chromium-induced DNA damage correlates with constitutive deregulation of upstream p53 kinases in p21-/- HCT116 colon cancer cells DNA Repair (Amst) 7(2):239-52 [PubMed]
  7. Hickey, G., Dehne, F., Rau-Chaplin, A., Blouin, C., (2008) SPR distance computations for unrooted trees. Evolutionary Bioinformatics 8:17-27 [PubMed]
  8. Salsman, J., Top, D., Barry, C. and Duncan, R., (2008) A virus-encoded cell-cell fusion machine dependent on surrogate adhesins. PloS Pathogens 4:e1000016 [PubMed]
  9. MALIK S.-B., Pightling A.W., Stefaniak L.M., Schurko A.M., Logsdon J.M. Jr., (2008) An expanded inventory of conserved meiotic genes provides evidence for sex in Trichomonas vaginalis. PLOS One. 3(8):e2879 [PubMed]
  10. Rabionet M, van der Spoel AC, Chuang CC, von Tümpling-Radosta B, Litjens M, Bouwmeester D, Hellbusch CC, Körner C, Wiegandt H, Gorgas K, Platt FM, Gröne HJ, and Sandhoff R., (2008) Male germ cells require polyenoic sphingolipids with complex glycosylation for completion of meiosis: A link to ceramide synthase-3. J Biol Chem 283:13357-13369 [PubMed]
  11. Sanchez-Pérez, G., Hampl, V., Simpson, A.G.B. and Roger, A.J. , (2008) A new divergent type of eukaryotic methionine adenosyltransferase that has spread by gene transfer between secondary algae. J. Euk. Microbiol. 55:374-381
  12. Wang, H.-C., Li, K.M., Susko, E. and Roger A.J., (2008) A class frequency mixture model that adjusts for site-specific amino acid frequencies and improves inference of protein phylogeny. BMC Evol. Biol. 8:331
  13. Koenig, J.E., Boucher, Y., Charlebois, R.L., Nesbo, C., Zhaxybayeva, O., Bapteste, E., Spencer, M., Joss, M.J., Stokes, H.W. and Doolittle, W.F. , (2008) Integron-associated gene cassettes in Halifax Harbour: assessment of a mobile gene pool in marine sediments. Environmental Microbiology 10:1024-1038.
  14. Doolittle, W. F., (2008) Microbial evolution: stalking the wild bacterial species. Current Biology 18:R565-567
  15. Beiko, R.G., Doolittle, W.F. and Charlebois, R.L. , (2008) The impact of reticulate evolution on genome phylogeny. Systematic Biol. 57:844-56.
  16. van der Spoel, A. C., Mott, R., & Platt, F. M., (2008) Differential sensitivity of mouse strains to an N-alkylated imino sugar: glycosphingolipid metabolism and acrosome formation. Pharmacogenomics 9(6)717-31. Review.:717-731. Review. [PubMed]
  17. Elliot-Smith, E., Speak, A. O., Lloyd-Evans, E., Smith, D. A., van der Spoel, A. C., Jeyakumar, M., Butters, T. D., Dweka, R. A., d'Azzob, A., & Platt, F. M., (2008) Beneficial effects of substrate reduction therapy in a mouse model of GM1 gangliosidosis. Molecular Genetics and Metabolism 94(2):204-211 [PubMed]
  18. Hamblin, K., Standley, D.M., Rogers, M.B., Stechmann, A., Roger, A.J., Maytum, R., van der Giezen, M., (2008) Localization and nucleotide specificity of Blastocystis succinyl-CoA synthetase. Mol. Microbiol. 68(6):1395-1405 [PubMed]
  19. Cavalier-Smith, T., Chao, E.E., Stechmann, A., Oates, B., Nikolaev, S. , (2008) Planomonadida ord. nov. (Apusozoa): Ultrastructural Affinity with Micronuclearia podoventralis and Deep Divergences within Planomonas gen. nov. Protist 159(4):535-562 [PubMed]
  20. Lutz Hamel, Neha Nahar, Maria S. Poptsova, Olga Zhaxybayeva and J. Peter Gogarten, (2008) Unsupervised Learning in Detection of Gene Transfer Journal of Biomedicine and Biotechnology 2008:472719
  21. J Peter Gogarten, Gregory Fournier and Olga Zhaxybayeva, (2008) Gene transfer and the reconstruction of life's early history from the molecular record Space Science Reviews 135:115-131
  22. Goldberg, A.V., Molik, S., Tsaousis, A.D., Kuhnke, G., Delbac, F., Vivares, C., Hirt, R.P., Lill, R. & Embley T.M. , (2008) Localisation and functionality of microsporidian iron-sulphur cluster assembly proteins Nature 452:624-628 [PubMed]
  23. Tsaousis, A.D., Kunji E.R.S., Goldberg, A.V., Lucocq J.M., Hirt, R.P. and Embley T.M. , (2008) A novel route for ATP acquisition by the remnant mitochondria of Encephalitozoon cuniculi Nature 453:553-556 [PubMed]
  24. Salma A. Abdelmagid and Catherine K. L. Too , (2008) Prolactin and Estrogen Up-Regulate Carboxypeptidase-D to Promote Nitric Oxide Production and Survival of MCF-7 Breast Cancer Cells Endocrinology 149:10 4821-4828
  25. Taylor, S.D.*, Lunn, F.A., and Bearne, S.L.*, (2008) Ground State, Intermediate, and Multivalent Nucleotide Analogue Inhibitors of Cytidine 5'-Triphosphate Synthase ChemMedChem 3:1853-1857. [PubMed]
  26. Archibald, J. M., (2008) The eocyte hypothesis and the origin of eukaryotic cells. Proc. Natl. Acad. Sci. USA 51:20049-20050 [PubMed]
  27. Gong, H., Murphy, P.W., Langille, G.M., Minielly, S., Murphy, A., McMaster, C.R., and Byers, D. M., (2008) Tryptophan fluorescence reveals induced folding of Vibrio harveyi acyl carrier protein upon interaction with partner enzymes. BBA Proteins and Proteomics 1784:1835-1843 [PubMed]
  28. Curwin, A.J., and McMaster, C.R., (2008) Structure and Function of the Enigmatic Sec14 Domain Containing Proteins and the Etiology of Human Disease Future Lipidol. 3:399-410
  29. Fairn, G.D., and McMaster, C.R. , (2008) Emerging Roles of the Oxysterol Binding Protein Family in Metabolism, Transport, and Signaling Cell Mol. Life Sci 65:228-236
  30. Archibald, J. M., (2008) Plastid evolution: remant algal genes in ciliates. Curr. Biol. 18:663-665
  31. Li, J., Sun, W., Wang, B., Xiao, X. and Liu, X.-Q., (2008) Protein trans-splicing as a means for viral vector-mediated in vivo gene therapy. Human Gene Therapy 19:958-964 [PubMed]
  32. Fisher, E.A., Lapierre, L.R., Junkins, R.D., & McLeod, R.S., (2008) The AAA-ATPase p97 is involved in the retrotranslocation of apolipoprotein B for proteasomal degradation. J.Lipid Res. 49:2149-2160 [PubMed]
  33. Arora, P.D, Marignani, P.A, and McCulloch, C.A. , (2008) Collagen phagocytosis is regulated by the guanine nucleotide exchange factor Vav2. Am J Physiol Cell Physiol. 295(1):C130-7 [PubMed]
  34. Arora P.D., Marignani, P. A.and McCulloch C. A., (2008) Collagen phagocytosis is regulated by the guanine nucleotide exchange factor Vav2. Am J Physiol Cell Physiol. in press April 23, 2008:
  35. Abdelmagid, S. A. Too, C. K. L., (2008) Prolactin and Estrogen Upregulate Carboxypeptidase-D to Promote Nitric Oxide Production and Survival of MCF-7 Breast Cancer Cells. Endocrinology 149:4821-4828. [PubMed] [Article]
  36. Mitchell, P. L. and McLeod, R. S., (2008) Conjugated linoleic acid and atherosclerosis - Studies in animal models. (Review) Biochem. Cell Biol. 86:293-301 [PubMed]
  37. Reddy, T., Ding, J., Li, X., Sykes, B.D., Rainey, J.K. and Fliegel, L., (2008) Structural and functional characterization of transmembrane segment IX of the NHE1 isoform of the Na+/H+ exchanger. J. Biol. Chem. 283:22018-22030 [PubMed]
  38. Potrykus, J., White, R.L.*, and Bearne, S. L.*, (2008) Proteomic Investigation of Amino Acid Catabolism in the Indigenous Gut Anaerobe Fusobacterium varium. Proteomics 8:2691-2703. [PubMed]
  39. Keeling, P. J. and Archibald, J. M., (2008) Organelle evolution: what's in a name? Curr. Biol. 18:345-347 [PubMed]
  40. Lunn, F.A., MacLeod, T.J., Bearne, S.L.*, (2008) Mutational analysis of conserved glycine residues 142, 143 and 146 reveals Gly-142 is critical for tetramerization of CTP synthase from Escherichia coli. Biochem. J. 412:113-121. [PubMed]
  41. Koenig, J.E., Boucher, Y., Charlebois, R.L., Nesbo, C., Zhaxybayeva, O., Bapteste, E., Spencer, M., Joss, M.J., Stokes, H.W. and Doolittle, W.F. , (2008) Integron-associated gene cassettes in Halifax Harbour: assessment of a mobile gene pool in marine sediments. Env. Microbiol. 10:1024-1038
  42. Sharma, A.K., Zhaxybayeva, O., Papke, R.T. and Doolittle, W.F. , (2008) Actinorhodopsins: Proteorhodopsin-like gene sequences found predominantly in non-marine environments. Env. Microbiol. 10:1039-1056
  43. Bapteste, E., Susko, E., Leigh, J., Ruiz-Trillo, I., Bucknam, J. & Doolittle, W.F. , (2008) Alternative methods for concatenation of core genes indicate a lack of resolution in deep nodes of the prokaryotic phylogeny. Mol. Biol. Evol. 25:83-91
  44. Stechmann, A., Hamblin, K., Pérez-Brocal, V., Gaston, D., Richmond, G.S., van der Giezen, M., Clark, C.G. and Roger, A.J., (2008) Organelles in Blastocystis that blur the distinction between mitochondria and Hydrogenosomes. Curr. Biol. 18:580-585
  45. Kolisko, M., Cepicka, I., Hampl, V., Leigh, J., Roger, A.J., Kulda, J., Simpson, A.G.B. and Flegr, J., (2008) Molecular phylogeny of diplomonads and enteromonads based on SSU rRNA, (alpha)-tubulin and HSP90 genes: implications for the evolutionary history of the double karyomastigont of diplomonads. BMC Evol.Biol. 8:205
  46. Kim, E. and Archibald, J. M., (2008) Diversity and evolution of plastids and their genomes The chloroplast-interactions with the environment, Aronsson, H. &, Sandelius, A. S. (eds.) Springer-Verlag, Berlin:1-40
  47. Cuvelier, M. L., Ortiz, A., Kim, Eunsoo, Moehlig, H., Richardson, D. E., Heidelberg, J. F., Archibald, John M. & Worden, A. Z., (2008) Widespread distribution of a unique protistan lineage Env. Microbiol. doi: 10.1111/j.1462-2920.2008.01580.x: [PubMed]
  48. Hampl, V., Silberman, J.D., Stechmann, A., Diaz-Triviño, S., Johnson, P.J. and Roger, A.J. , (2008) Genetic evidence for a mitochondriate ancestry in the amitochondriate flagellate Trimastix pyriformis. PLoS ONE 3:e1383 [PubMed]
  49. Ruiz-Trillo, I., Roger, A.J., Burger, G., Gray, M.W. and Lang, B.F. , (2008) A phylogenomic investigation into the origin of Metazoa. Mol.Biol.Evol. 25:664-672
  50. Wang, H.-C., Susko, E., Spencer, M. and Roger, A.J. , (2008) Topological estimation biases with covarion evolution. J.Mol.Evol. 66:50-60
  51. Leigh, J., Susko, E., Baumgartner, M. and Roger, A.J. , (2008) Testing congruence in phylogenomic analysis. Syst. Biol. 57:104-115
  52. Wu, J. Susko, E. and Roger, A.J. , (2008) An independent heterotachy model and its implications for phylogeny and divergence time estimation. Mol. Phylogenet. Evol. 46:801-806
  53. Taylor, S.D.*, Mirzaei, F., and Bearne, S.L., (2008) Bismethylene Triphosphate Nucleotides of Uridine 4-Phosphate Analogues: A New Class of Anionic Pyrimidine Nucleotide Analogues J. Org. Chem. 73:1403-1412. [PubMed]
  54. Lunn, F.A., MacDonnell, J.E., and Bearne, S.L.*, (2008) Structural requirements for the activation of Escherichia coli CTP synthase by the allosteric effector GTP are stringent, but requirements for inhibition are lax. J. Biol. Chem. 283:2010-2020. [PubMed]
  55. Bourque, J.R., and Bearne, S.L.*, (2008) Mutational Analysis of the Active Site Flap (20s Loop) of Mandelate Racemase. Biochemistry 47:566-578. [PubMed]
  56. Ruiz-Trillo, I., Roger, A.J., Burger, G., Gray, M.W. and Lang, B.F., (2008) A phylogenomic investigation into the origin of Metazoa. Mol. Biol. Evol. 25:664-672 [PubMed]
  57. Cooper, M.H., Miller, J.R., Mitchell, P.L., Currie, D. L. and McLeod, R.S., (2008) Conjugated linoleic acid isomers have no effect on atherosclerosis and adverse effects on lipoprotein and liver lipid metabolism in apoE-/- mice fed a high cholesterol diet. Atherosclerosis 200:294-302 [PubMed]
  58. Watkins, R.F. and Gray, M.W., (2008) Sampling gene diversity across the supergroup Amoebozoa: large EST data sets from Acanthamoeba castellanii, Hartmannella vermiformis, Physarum polycephalum, Hyperamoeba dachnaya and Hyperamoeba sp. Protist 159:269-281 [PubMed]
  59. Fong, A., & Archibald, J. M., (2008) Evolutionary dynamics of light-independent protochlorophyllide oxidoreductase (LIPOR) genes in the secondary plastids of cryptophyte algae. Euk. Cell. 7:550-553 [PubMed]
  60. Khan, H., & Archibald, J. M., (2008) Lateral transfer of introns in the cryptophyte plastid genome. Nucleic Acids Res. doi:10.1093/nar/gkn095: [PubMed]
  61. Lane, C. E., & Archibald, J. M., (2008) The eukaryotic Tree of Life: endosymbiosis takes its TOL Trends Ecol. Evol. 23:268-275 [PubMed]
  62. Kim, E., Lane, C. E., Curtis, B. A., Kozera, C., Bowman, S., & Archibald, J. M., (2008) Complete sequence and analysis of the mitochondrial genome of Hemiselmis andersenii CCMP644 (Cryptophyceae). BMC Genomics 9:215 [PubMed]
  63. Miller, J.R., Siripurkpong, P., Hawes, J., Majdalawieh, A., Ro, H.-S. and McLeod, R.S., (2008) The trans-10, cis-12 isomer of conjugated linoleic acid decreases adiponectin assembly by PPARγ-dependent and PPARγ-independent mechanisms J. Lipid Res. 49:550-562 [PubMed]
  64. Thomas, L.N., Douglas, R.C., Lazier, C.B., Too, C.K.L., Rittmaster, R.S. and Tindall, D.J., (2008) Type 1 and Type 2 5&alpha-reductase expression in the development and progression of prostate cancer. European Urology 53:244-252 (Review) [PubMed] [Article]
  65. Thomas, L.N., Douglas, R.C., Lazier, C.B., Gupta, R., Norman, R.W., Murphy, P.R., Rittmaster, R.S. and Too, C.K.L. , (2008) Levels of 5α-reductase type 1 and type 2 are increased in malignant but not adjacent benign tissues from high grade as compared to low grade prostate cancer J. Urology 179:147-151. [PubMed] [Article]
  66. Phipps, K., Donaher, N., Lane, C. E., & Archibald, J. M., (2008) Nucleomorph karyotype diversity in the freshwater cryptophyte genus Cryptomonas J. Phycol. 44:11-14
  67. Lin, S., Zhang, H. and Gray, M.W., (2008) RNA editing in dinoflagellates and its implications for the evolutionary history of the editing machinery. In RNA and DNA Editing: Molecular Mechanisms and Their Integration into Biological Systems (Smith, H.C., ed.) Wiley Press:280-309
  68. Lane, C. E. & Archibald, J. M., (2008) New members of the genus Hemiselmis (Cryptomonadales, Cryptophyceae) J. Phycol. 44:339-350
  69. Doolittle, W. F., Nesbo, C.L., Bapteste, E. and Zhaxybayeva, O., (2008) Lateral gene transfer. Evolutionary Genomics and Proteonomics, M. Pagel and A. Pomiankowski (eds.) Sinauer:45-79

Publications in 2007

  1. Nicolas Joly, Celine Vaillant, Alejandro Martin Cohen, Patrick Martin, Mokhtar El Essassi, Mohamed Massoui, Joseph Banoub, (2007) Structural determination of the novel fragmentation routes of zwitteronic morphine opiate antagonists naloxonazine and naloxone hydrochlorides using electrospray ionization tandem mass spectrometry Rapid communications in mass spectrometry 21(6):1062-1074
  2. McMullen NM, Pasumarthi KB., (2007) Donor cell transplantation for myocardial disease: does it complement current pharmacological therapies? Can. J. Physiol. Pharmacol. 85(1):1-15 [PubMed]
  3. Mader, J.S., Richardson, A., Salsman, J., Top, D., de Antueno, R., Duncan, R., Hoskin, D.W., (2007) Bovine lactoferricin causes apoptosis in Jurkat T-leukemia cells by sequential permeabilization of the cell membrane and targeting of mitochondria. Exp. Cell. Res. 313:2634-2650
  4. Kewalramani G, An D, Kim MS, Ghosh S, Qi D, Abrahani A, Pulinilkunnil T, Sharma V, Wambolt RB, Allard MF, Innis SM, Rodrigues B., (2007) AMPK control of myocardial fatty acid metabolism fluctuates with the intensity of insulin-deficient diabetes. J Mol Cell Cardiol. 42(2):333-342 [PubMed]
  5. Tobias K. Karakach, Robert M. Flight and Peter D. Wentzell , (2007) Bootstrap method for estimation of measurement uncertainty in spotted dual-color DNA microarrays; Anal Bioanal Chem 389:2125 - 2141
  6. Tobias K. Karakach and Peter D. Wentzell, (2007) Methods for estimating and mitigating errors in spotted, dual-color DNA microarrays; Omics: A journal of Integrative Biology 11:186-199
  7. Pepke, S.L., Butt, D., Nadeau, I., Roger, A.J. and Blouin C., (2007) Inferring Phylogenies by confidence set optimization. J Mol Evol 64(1):87-9 [PubMed]
  8. Jiang, H., Blouin, C., (2007) Ab Initio Construction of All-atom Loop Conformations. J Mol Modeling 21(2):221-8 [PubMed]
  9. Samuels, M.E., Higgins, B., Provost, S., Marcadier, J., Blouin, C., Bowman, S., Dube, M-P. , (2007) New Technologies in human genetic analysis. American Biotechnology Laboratory 25:22-28
  10. Jiang, H., Blouin, C., (2007) Insertions and the emergence of novel protein structure: a structure-based phylogenetic study of insertions. BMC Bioinformatics 15(8):444 [PubMed]
  11. Mader, J. S., Richardson, A., Salsman, J., Top, D., de Antueno, R., Duncan, R. and Hoskin, D. W. , (2007) Bovine lactoferricin causes apoptosis in Jurkat T-leukemia cells by sequential permeabilization of the cell membrane and targeting of mitochondria Exp. Cell Res. 313:2634-2650 [PubMed]
  12. Racine, T., Barry, C., Roy, K., Dawe, S. J., Shmulevitz, M., and Duncan, R., (2007) Leaky scanning and scanning-independent ribosome migration on the tricistronic S1 mRNA of avian reovirus. J. Biol. Chem. 282:25613-25622 [PubMed]
  13. Carlton J.M., Hirt R.P., Silva J.C., Delcher A.L., Schatz M., Zhao Q., Wortman J.R., Bidwell S.L., Alsmark U.C.M., Besteiro S., Sicheritz-Ponten T., Noel C.J., Dacks J.B., Foster P.G., Simillion C., van der Peer Y., Miranda-Saavedra D., Barton G.J., Westrop G.D., Muller S., Dessi D., Fiori P.L., Ren Q., Paulsen I., Zhang H.,Bastida-Corcuera F.D., Simoes-Barbosa A., Brown M.T., Hayes R.D., Mukherjee M., Okumura C.Y., Schneider R., Smith A.J., Vanacova S., Villalvazo M., Haas B.J., Pertea M., Feldblyum T., Utterback T.R., Shu C.-L., Osoegawa K., de Jong P.J., Hrdl I., Horvathova L., Zubacova Z., Dolezal P., Malik S.-B., Logsdon J.M.Jr., Henze K., Gupta A., Wang C.C., Dunne R.L., Upcroft J.A., Upcroft P., White O., Salzberg S.L., Tang P., Chiu C.-H., Lee Y.-S., Embley T.M., Coombs G.H., Mottram J.C., Tachezy J., Fraser-Liggett C.M., Johnson P.J., (2007) Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis. Science 315(5809):207-212. [PubMed]
  14. MALIK S.-B., Ramesh M.A., Hulstrand A.M. and J.M. Logsdon Jr., (2007) Protist homologs of meiotic Spo11 genes and topoisomerase VI reveal an evolutionary history of gene duplication and lineage-specific loss. Molecular Biology and Evolution. 24(12):2827-2841 [PubMed]
  15. D'Angelo G, Polishchuk E, Di Tullio G, Santoro M, Di Campli A, Godi A, West G, Bielawski J, Chuang CC, van der Spoel AC, Platt FM, Hannun YA, Polishchuk R, Mattjus P, De Matteis MA., (2007) Non-vesicular transport of glucosylceramide via FAPP2 is required for glycosphingolipid synthesis and membrane transport to the plasma membrane. Nature 449:62-67 [PubMed]
  16. Walden CM, Sandhoff R, Chuang CC, Yildiz Y, Butters TD, Dwek RA, Platt FM, van der Spoel AC, (2007) Accumulation of Glucosylceramide in Murine Testis, Caused by Inhibition of beta-Glucosidase 2: IMPLICATIONS FOR SPERMATOGENESIS. J Biol Chem 282:32655-32664 [PubMed]
  17. Lutz Hamel, Neha Nahar, Maria S. Poptsova, J. Peter Gogarten and Olga Zhaxybayeva , (2007) Unsupervised Learning in Spectral Genome Analysis Proceeding of the IEEE Conference Frontiers in the Convergence of Bioscience and Information Technologies :317 - 321
  18. Sara Cuadros-Orellana, Ana-Belen Martin-Cuadrado, Boris Legault, Giuseppe D'Auria, Olga Zhaxybayeva, R. Thane Papke, Francisco Rodriguez-Valera, (2007) Genomic Plasticity in Prokaryotes: the Case of the Square Haloarchaeon ISME Journal 1:235-245
  19. Boucher, Y., Labbate, M., Koenig, J.E. & Stokes, H.W. , (2007) Integrons: mobilizable platforms that promote genetic diversity in bacteria. Trends Microbiol. 15:301-309
  20. Sharma, A.K., Walsh, D.A., Bapteste, E., Rodriguez-Valera, F., Doolittle W.F., and Papke, R.T. , (2007) Evolution of rhodopsin ion pumps in haloarchaea. BMC Evol. Biol. 7:79
  21. Cullen, J.J., Doolittle, W.F., Levin, S.A. and Li, W.K.W. , (2007) Patterns and prediction in microbial oceanography. Oceanography 20:34-46
  22. Papke, R.T., Zhaxybayeva, O., Feil, E.J., Sommerfeld, K., Muise, D. and Doolittle, W.F. , (2007) Searching for species in haloarchaea. PNAS 104:14092-14097
  23. Zhaxybayeva,O., Gogarten, J.P. and Doolittle, W.F., (2007) A hyperconserved protein in Prochlorococcus and marine Synechococcus. FEMS Microbiol. Lett. 274:30-34
  24. Barberà, M. J., Ruiz-Trillo, I., Leigh, J. Hug, L.A. and Roger, A.J. , (2007) The diversity of mitochondrion-related organelles amongst eukaryotic microbes. Origins of Mitochondria and Hydrogenosomes, W.Martin and M. Müller (Eds.) Springer-Verlag:239-268
  25. Ruiz-Trillo, I., Burger, G., Holland, P., King, N., Lang, B.F., Roger, A.J. and Gray, M.W. , (2007) The origins of multicellularity: a multi-taxon genome initiative. Trends Genet. 23:113-118
  26. Gill, E.E., Diaz-Triviño, S., Barberà, M.J., Silberman, J.D., Stechmann, A., Gaston, D., Tamas, I. and Roger, A.J. , (2007) Novel mitochondrion-related organelles with a unique array of functions in the anaerobic amoeba Mastigamoeba balamuthi. Mol. Microbiol. 66:1306-1320 [PubMed]
  27. Rodríguez-Ezpeleta, N., Brinkmann, H., Burger, G., Roger, A.J., Gray M.W., Philippe H. and Lang, B.F. , (2007) Toward resolving the eukaryotic tree: the phylogenetic position of jakobids and cercozoans. Curr. Biol. 17:1420-1425
  28. Susko, E. and Roger, A.J. , (2007) On reduced amino acid alphabets for phylogenetic inference. Mol. Biol. Evol. 24:2139-2150
  29. Hug, L.A. and Roger, A.J. , (2007) The impact of fossils and taxon sampling on ancient molecular dating analyses. Mol. Biol. Evol. 24:1889-1897
  30. Andersson, J.O., Sjogren, Å., Horner D.S., Murphy, C.A., Dyal, P., Svärd S., Logsdon J.M., Ragan, M.A., Hirt, R.P., and Roger, A.J. , (2007) A genomic survey of the fish parasite Spironucleus salmonidia indicates genomic plasticity among diplomonads and significant lateral gene transfer in eukaryote genome evolution. BMC Genomics 8:51
  31. Pepke, S., Butt, D., Nadeau, I., Roger, A.J. and Blouin C. , (2007) Using confidence set heuristics during topology search improves the robustness of phylogenetic inference. J.Mol.Evol. 64:80-89
  32. Chen, L., Zhu, F., et al., (2007) The enhancing effects of the light chain on heavy chain secretion in split delivery of factor VIII gene. Mol. Therapy 15:1856-1862 [PubMed]
  33. Meng, Q., Zhang Y., and Liu, X.-Q., (2007) Rare group I intron with insertion sequence element in a bacterial ribonucleotide reductase gene. J. Bacteriol. 189:2150-2154 [PubMed]
  34. Schweitzer-Stenner,R. Huang,Q., Hagasman,A.,Laberge,M. and Wallace, C. J. A. , (2007) Static normal coordinate deformations of the heme group in mutants of ferrocytochrome c from Saccharomyces cerevisiae probed by resonance Raman spectroscopy. J.Phys.Chem.B III:6527-6533. [PubMed]
  35. Lane, C. E., van den Heuvel, K., Kozera, C., Curtis, B. A., Parsons, B., Bowman, S., & Archibald, J. M., (2007) Nucleomorph genome of Hemiselmis andersenii reveals complete intron loss and compaction as a driver of protein structure and function. Proc. Natl. Acad. Sci. U.S.A. 104:19908-19913 [PubMed]
  36. Marignani, P. A., Scott, K.D., Bagnulo, R., Stella, A., Guanti, G., Simone, C., Resta, N., (2007) Novel splice isoforms of STRADa differentially affect LKB1 activity, complex assembly and sub-cellular localization. Cancer Biology and Therapy 6(9):1627-1631 [PubMed]
  37. Doolittle, W. F. and Zhaxybayeva, O., (2007) Evolution: reducible complexity -- the case for bacterial flagella. Current Biology 17:R510-512
  38. Zhaxybayeva, O., Nesbo, C.L. and Doolittle, W. F., (2007) Systematic overestimation of gene gain through false diagnosis of gene absence. Genome Biology 8:402
  39. Doolittle, W. F. and Bapteste, E., (2007) Pattern pluralism and the Tree of Life hypothesis. PNAS 104:2043-2049
  40. Case, R.J., Boucher, Y., Dahllof, I., Holmstrom, C., Doolittle, W. F. and Kjelleberg, S., (2007) Use of 16S rRNA and rpoB genes as molecular markers for microbial ecology studies. Applied and Environmental Microbiology 73:278-288
  41. Smith, D. G. S., Gawryluk, R. M. R., Spencer, D. F., Pearlman, R. E., Siu, K. W. M. and Gray, M. W., (2007) Exploring the mitochondrial proteome of the ciliate protozoon, Tetrahymena thermophila: direct analysis by tandem mass spectrometry. J. Mol. Biol. 374: 837-863 [PubMed]
  42. Archibald, J. M., (2007) Review of Genomics and Evolution of Microbial Eukaryotes Q. Rev. Biol. 82:275-276
  43. Fairn, G.D., and McMaster, C. R., (2007) Emerging Roles of the Oxysterol Binding Protein Family in Metabolism, Transport, and Signaling (Review) Cell Mol. Life Sci. in press:
  44. Jackson, C. J., Norman, J. E., Schnare, M. N., Gray, M. W., Keeling, P. J. and Waller, R. F., (2007) Broad genomic and transcriptional analysis reveals a highly derived genome in dinoflagellate mitochondria. BMC Biol. 5: 41 [PubMed]
  45. Bhattacharya, D., Archibald, J. M., Weber, A. P. M. & Reyes-Prieto, A., (2007) How do endosymbionts become organelles? Understanding early events in plastid evolution. BioEssays 29:1239-1246 [PubMed]
  46. Adl, S. M., Leander, B. S., Simpson, A. G. B., Archibald, J. M., Anderson, O. R., Bass, D., Bowser, S. S., Brugerolle, G., Farmer, M. A., Karpov, S., Kolisko, M., Lane, C. E., Lodge, D. J., Mann, D. G., Meisterfeld, R., Mendoza, L., Moestrup, O., Mozley-Standridge, S. E., Smirnov, A. V., & Spiegel, F. , (2007) Diversity, nomenclature, and taxonomy of protists. Syst. Biol. 56:684-689 [PubMed]
  47. Fairn, G.D., Curwin, A.J., Stefan, C., and McMaster, C. R., (2007) Regulation of Golgi Phosphatidylinositol 4-phosphate Function by the Oxysterol Binding Protein Kes1p Proc. Natl. Acad. Sci. U.S.A. 104:15352-15357
  48. Howe, A.L., Fairn, G.D., MacDonald, K., Bankaitis, V.A., and McMaster, C. R., (2007) Regulation of Phosphoinositide Levels by the Phospholipid Transfer Protein Sec14p Controls Cdc42p/PAK Mediated Cell Cycle Progression at Cytokinesis Euk. Cell 6:1814-1823
  49. Rodríguez-Ezpeleta, N., Brinkmann, H., Burger, G., Roger, A. J., Gray, M.W., Philippe, H. and Lang, B.F., (2007) Towards resolving the eukaryotic tree: the phylogenetic positions of jakobiods and cercozoans. Curr. Biol. 17:1420-1425 [PubMed]
  50. Dellaire, G. and D.P. Bazett-Jones, (2007) Beyond Repair Foci: Subnuclear Domains and the Cellular Response to DNA Damage Cell Cycle. 6(15):1864-1872 [PubMed]
  51. Burnett, J.R., Zhong, S., Jiang, Z.G., Hooper, A., Fisher, E.A., McLeod, R.S., Zhao, Y., Barrett, P.H.R., Hegele, R.A., van Bockxmeer, F.M., Zhang, H., Vance, D.E., McKnight, C.J., and Yao, Z. , (2007) Missense mutations in APOB within the βα1 domain of human apoB-100 result in impaired secretion of apoB and apoB-containing lipoproteins in familial hypobetalipoproteinemia. J. Biol. Chem. 282:24270-24283 [PubMed]
  52. Scott KD, Nath-Sain S, Agnew MD and Marignani PA. , (2007) LKB1 catalytic-deficient mutants enhance cyclin D1 expression. Cancer Research 67(12):5622-5627. [PubMed]
  53. Derry MC, Sutherland MR, Restall CM, Waisman DM, Pryzdial EL., (2007) Annexin 2-mediated enhancement of cytomegalovirus infection opposes inhibition by annexin 1 or annexin 5 J Gen Virol. 88:19-27 [PubMed]
  54. Rogers, M.B., Watkins, R.F., Harper, J.T., Durnford, D.G., Gray, M.W. and Keeling, P.J., (2007) A complex and punctate distribution of three eukaryotic genes derived by lateral gene transfer. BMC Evol. Biol. 7: 89 [PubMed]
  55. Murphy, P.W., Rowland, E.E., and Byers, D.M., (2007) Electrospray ionization mass spectra of acyl carrier protein are insensitive to its solution phase conformation. J. Amer. Soc. Mass Spectrom. 18(8):1525-1532 [PubMed]
  56. Al-Hertani, W., Yan, S.R., Byers, D.M. and Bortolussi, R., (2007) Human newborn polymorphonuclear neutrophils exhibit decreased levels of MyD88 and attenuated p38 phosphorylation in response to lipopolysaccharide. Clin. Invest. Med. 30:E44-E53
  57. Silver, T. D., Koike, S., Yabuki, A., Kofuji, R., Archibald, J. M., & Ishida, K.-I., (2007) Phylogeny and nucleomorph karyotype diversity of chlorarachniophyte algae. J. Ekaryot. Microbiol. 54:403-410 [PubMed]
  58. Potrykus, J., Mahaney, B., White, R.L.*, and Bearne, S.L.*, (2007) Proteomic investigation of glucose metabolism in the butyrate-producing gut anaerobe Fusobacterium varium. Proteomics 7:1839-1853. [PubMed]
  59. Khan, H., Parks, N. Kozera, C., Curtis, B. A., Parsons, B., Bowman, S., & Archibald, J. M., (2007) Plastid genome sequence of the cryptophyte alga Rhodomonas salina CCMP1319: lateral transfer of putative DNA replication machinery and a test of chromist plastid phylogeny. Mol. Biol. Evol. 24:1832-1842 [PubMed]
  60. Derouet M., Wu X., May L., Yoo BH, Sasazuki T., Shirasawa S., Rak J. and Rosen KV, (2007) Acquisition of anoikis resistance promotes the emergence of oncogenic K-ras mutations in colorectal cancer cells and stimulates their tumorigenicity in vivo. Neoplasia 9(7):536-545 [PubMed]
  61. Lapierre, L. R. and McLeod, R.S. , (2007) Regulation of hepatic production of lipoproteins containing apolipoprotein B by ER-associated degradation. Future Lipidology 2:173-184
  62. Hyo-Sung Ro, H.-S., Zhang, L., Majdalawieh, A., Kim, S-W, Wu, X., Lyons, P.J., Webber, C., Ma, H., Reidy, S.P., Boudreau, A., Miller, J.R., Mitchell, P.L., McLeod, R.S. , (2007) AEBP1 modulates adiposity through effects on preadipocyte survival and differentiation. Obesity 15:288-302 [PubMed]
  63. Archibald, J. M., (2007) Nucleomorph genomes: structure, function, origin and evolution. BioEssays. 4:392-402 [PubMed]
  64. Zheng, Q., Song, J., Doncaster, K., Rowland, E., and Byers, D., (2007) Qualitative and quantitative evaluation of protein extraction protocols for apple and strawberry fruit suitable for two-dimensional electrophoresis and mass spectrometry analysis. J. Agric. Food Chem, 55:1663-1673 [PubMed]
  65. Gong, H., Murphy, A., McMaster, C.R. and Byers, D.M. , (2007) Neutralization of acidic residues in helix II stabilizes the folded conformation of acyl carrier protein and variably alters its function with different enzymes. J. Biol. Chem. 282:4494-4503 [PubMed]
  66. Majdalawieh, A., Zhang, L. and Ro, H.-S., (2007) Adipocyte enhancer-binding protein-1 promotes macrophage inflammatory responsiveness by up-regulating NF- &kappa B via I &kappa B &alpha negative regulation Mol. Biol. Cell 18:930-942 [PubMed]
  67. Fairn, G.D., MacDonald, K., and McMaster, C. R., (2007) A Chemogenomic Screen in Saccharomyces cerevisiae Uncovers a Primary Role for the Mitochondria in Farnesol Toxicity and its Regulation by the Pkc1 Pathway J. Biol. Chem. 282:4868-4874
  68. Lohan, A.J. and Gray, M.W., (2007) Analysis of 5'- or 3'-terminal tRNA editing: mitochondrial 5' editing in Acanthamoeba castellanii as the exemplar. Methods Enzymol. 424: 221-242 [PubMed]
  69. Ruiz-Trillo, I., Burger, G., Holland, P.W.H., King, N., Lang, B.F., Roger, A.J. and Gray, M.W., (2007) The origins of multicellularity: a multi-taxon genome initiative. Trends Genet. 23:113-118 [PubMed]
  70. Khan, H., Kozera, C., Curtis, B. A., Tarrant Bussey, J., Theophilou, S., Bowman, S., & Archibald, J. M. , (2007) Retrotransposons and tandem repeat sequences in the nuclear genomes of cryptomonad algae. J. Mol. Evol. 64:223-236 [PubMed]
  71. Bourque, J.R., Burley, R.K.M., and Bearne, S.L.*, (2007) Intermediate analogue inhibitors of mandelate racemase: N-Hydroxyformanilide and cupferron. Bioorg. Med. Chem. Lett. 17:105-108. [PubMed]
  72. O'Brien, E.A., Koski, L.B., Zhang, Y., Yang, L., Wang, E., Gray, M.W., Burger, G. and Lang, B.F., (2007) TBestDB: a taxonomically broad database of expressed sequence tags (ESTs). Nucleic Acids Res. 35:D445-D451 [PubMed]
  73. Ro, H.-S., Zhang, L., Majdalawieh, A., Kim, S.-W., Wu, X., Lyons, P., Webber, C., Ma, H., Reidy, S., Boudreau, A., Miller, J., Mitchell, P. and McLeod, R., (2007) Adipocyte enhancer-binding protein 1 modulates adiposity and energy homeostasis. Obesity 15(2):288-302 [PubMed]
  74. Nien, W. L., Dauphinee, S. M., Moffat, L. D. and Too, C. K. L., (2007) Overexpression of mTOR alpha4 phosphoprotein activates PP2A and increases Stat1a binding to PIAS1 Mol. Cell. Endocrinol. 263:10-17. [PubMed] [Article]
  75. Fernández-Murray, J.P., and McMaster, C.R., (2007) Phosphatidylcholine Synthesis and its Catabolism by Yeast Neuropathy Target Esterase 1 (Review) Biochim. Biophys. Acta 1771:331-336
  76. Kalanxhi, E. and Wallace, C.J.A., (2007) Cytochrome c impaled: investigation of the extended lipid anchorage of cytochrome c to mitochondrial membranes models Biochem. J. 407:179-187 [PubMed]
  77. Dragomir, I., Hagarman, A., Wallace, C. and Schweitzer-Stenner, R. , (2007) Optical band splitting and electronic perturbations of the heme chromophore in cytochrome c at room temperature probed by visible electronic circular dichroism spectroscopy. Biophysical Journal 92:989-998 [PubMed]
  78. Black, K.M. and Wallace, C.J.A. , (2007) Probing the role of the conserved β-II turn, Pro76/Gly77 of mitochondrial cytochrome c. Biochem. Cell Biol 85:366-374 [PubMed]
  79. Walsh, D.A., Boudreau, M.E., Bapteste, E. and Doolittle, W.F., (2007) The root of the tree: lateral gene transfer and the nature of the domains. Archaea: Evolution, Physiology and Molecular Biology. Blackwell Publishing:29-37

Publications in 2006

  1. Alejandro Martin Cohen, Atef AH Mansour, Joseph H Banoub, (2006) Absolute quantification of Atlantic salmon and rainbow trout vitellogenin by the ‘signature peptide’approach using electrospray ionization QqToF tandem mass spectrometry Journal of mass spectrometry 41(5):646-658
  2. Corcoran JA, Salsman J, de Antueno R, Touhami A, Jericho MH, Clancy EK, Duncan R., (2006) The p14 fusion-associated small transmembrane (FAST) protein effects membrane fusion from a subset of membrane microdomains. J Biol. Chem. 281:31778-31789
  3. Lass A, Zimmermann R, Haemmerle G, Riederer M, Schoiswohl G, Schweiger M, Kienesberger P, Strauss JG, Gorkiewicz G, Zechner R., (2006) Adipose triglyceride lipase-mediated lipolysis of cellular fat stores is activated by CGI-58 and defective in Chanarin-Dorfman Syndrome. Cell Metab. 3(5):309-19. [PubMed]
  4. An D, Kewalramani G, Chan JK, Qi D, Ghosh S, Pulinilkunnil T, Abrahani A, Innis SM, Rodrigues B., (2006) Metformin influences cardiomyocyte cell death by pathways that are dependent and independent of caspase-3. Diabetologia. 49(9):2174-2189 [PubMed]
  5. Pulinilkunnil T, Rodrigues B., (2006) Cardiac lipoprotein lipase: metabolic basis for diabetic heart disease. Cardiovasc Res. 69(2):329-340 [PubMed]
  6. Qi D, Kuo KH, Abrahani A, An D, Qi Y, Heung J, Kewalramani G, Pulinilkunnil T, Ghosh S, Innis SM, Rodrigues B., (2006) Acute intralipid infusion reduces cardiac luminal lipoprotein lipase but recruits additional enzyme from cardiomyocytes. Cardiovasc Res. 72(1):124-133 [PubMed]
  7. Ghosh S, Kewalramani G, Yuen G, Pulinilkunnil T, An D, Innis SM, Allard MF, Wambolt RB, Qi D, Abrahani A, Rodrigues B., (2006) Induction of mitochondrial nitrative damage and cardiac dysfunction by chronic provision of dietary omega-6 polyunsaturated fatty acids. Free Radic Biol Med. 41(9):1413-1424 [PubMed]
  8. Peter D. Wentzell, Tobias K. Karakach, Sushmita Roy, M. Juanita Martinez, Christopher, P. Allen and Margaret Werner-Washburne, (2006) Multivariate Curve Resolution of Time Course Microarray Data; BMC Bioinformatics 7:343 [PubMed]
  9. Murphy, P.W., Rowland, E.E., and Byers, D.M., (2006) pH-Dependent conformation of acyl carrier protein: difference between solution and gas phases 89th Annual Canadian Society of Chemistry Conference (Halifax, N.S., Canada; May 27 - 31, 2006) :
  10. Reddy, T., Rot-Nikcevic, I., Downing, K.J., Belliveau, A.C., Hallgrímsson, B., Hall, B.K., and Kablar, B., (2006) Myf5-/-: MyoD-/- amyogenic fetuses reveal the importance of early contraction and static loading by striated muscle in mouse skeletogenesis. Development genes and evolution. 216:1-9 [PubMed]
  11. Baguma-Nibasheka, M., Reddy, T., Abbas-Butt, A., and Kablar, B. , (2006) Fetal ocular movements and retinal cell differentiation: analysis employing DNA microarrays. Histology and histopathology 21:1331-1337 [PubMed]
  12. L.J. Mix, J.C. Armstrong, A.M. Mandell, A.C. Mosier, J. Raymond, S.N. Raymond, F.J. Stewart, K. von Braun, and O. Zhaxybayeva, L. Billings, V. Cameron, M. Claire, G.J. Dick, S.D. Domagal-Goldman, E.J. Javaux, O.J. Johnson, C. Laws, M.S. Race, J. Rask, J.D. Rummel, R.T. Schelble, and S. Vance, (2006) The Astrobiology Primer: An Outline of General Knowledge. Version 1, 2006 Astrobiology 6:735-813
  13. Olga Zhaxybayeva, Pascal Lapierre and J. Peter Gogarten, (2006) Ancient Gene Duplications and the Root(s) of the Tree of Life Protoplasma 227:53-64
  14. Nesbo,C.L., Dlutek, M. and Doolittle, W.F., (2006) Recombination in Thermotoga: implications for species concepts and biogeography. Genetics 172:759-769
  15. Roger, A. J., (2006) Telling evolutionary tales (book review). Nat.Rev.Genet. 38:1357
  16. Goddard, M., Leigh, J., Roger, A.J. and Pemberton, A.J. , (2006) Invasion and persistence of a selfish gene in the Cnidaria. PLoS ONE 1:e3
  17. Stechmann, A., Baumgartner, M., Silberman, J.D. and Roger, A.J. , (2006) The glycolytic pathway of Trimastix pyriformis is an evolutionary mosaic. BMC Evol. Biol 6:101
  18. Wang, H.C., Spencer, M., Susko, E. and Roger, A.J., (2006) Testing for covarion-like evolution in protein sequences. Mol.Biol.Evol. 24:294-305
  19. Ruiz-Trillo, I., Lane C., Archibald, J.M. and Roger, A.J. , (2006) Insights into the evolutionary origin and genome architecture of the unicellular opisthokonts Capsaspora owczarzaki and Sphaeroforma arctica. J. Euk. Microbiol. 53:379-384
  20. Kruhlak, M.J., A. Celeste, G. Dellaire, O. Fernández-Capetillo,W.G. Müller, J.G. McNally, D.P. Bazett-Jones, and A. Nussenzweig, (2006) Changes in chromatin structure and mobility in living cells at sites of DNA double-strand breaks J. Cell Biol. 172(6):823-834 [PubMed]
  21. Dellaire, G., C. Eskiw, H. Dehghani, R. Ching, and D.P. Bazett-Jones, (2006) Mitotic Accumulations of PML protein (MAPPs) contribute to the post-mitotic re-establishment of PML nuclear bodies. J. Cell Sci. 119(6):1034-1042 [PubMed]
  22. Dellaire, G., R. Ching, H. Dehghani, Y. Ren and D.P. Bazett-Jones, (2006) PML nuclear bodies increase in number in early S-phase by a fission mechanism J. Cell Sci. 119(6):1026-1033 [PubMed]
  23. Dellaire, G., R. Ching, K. Ahmed, K. Tse, F. Jalali, R.G. Bristow, and D.P. Bazett-Jones, (2006) PML nuclear bodies are DNA damage sensors whose response to DNA double-strand breaks is regulated by NBS1, Chk2 and ATR J. Cell Biol. 175(1):55-66 [PubMed]
  24. Shao C, Zhang F, Kemp MM, Linhardt RJ, Waisman DM, Head JF, Seaton BA., (2006) Crystallographic analysis of calcium-dependent heparin binding to annexin A2 J Biol Chem. 20:31689-31695 [PubMed]
  25. Bhattacharya, D. & Archibald, J. M., (2006) Response to: "The difference between endosybmionts and organelles". Curr. Biol. 16:R1017-1018
  26. Archibald, J. M., (2006) Algal genomics: exploring the imprint of endosymbiosis. Curr. Biol. 16:R1033-1035 [PubMed]
  27. Taylor, S.D.*, Mirzaei, F., Sharifi, S., and Bearne, S.L., (2006) Synthesis of Methylene- and Difluoromethylenephosphonate Analogs of Uridine-4-Phosphate and 3-Deazauridine-4-Phosphate. J. Org. Chem. 71:9420-9430. [PubMed]
  28. Gophna, U., Sommerfeld, K., Gophna, S., Doolittle, W. F. and van Zanten, S.J.O.V., (2006) Differences between Crohn's disease and ulcerative colitis patients in tissue-associated intestinal microflora. J. Clin. Microbiol. 44:4136-4141
  29. Sharma, A.K., Spudich, J.L. and Doolittle, W. F., (2006) Microbial rhodopsins: functional versatility and genetic mobility. Trends Microbiol. 14:463-469
  30. Doolittle, W.F., (2006) Species. Microbiology Today 33:148-151
  31. Doolittle, W.F. and Papke, R.T., (2006) Genomics and the bacterial species problem. Genome Biology 7:116.1-116.7
  32. Durnford, D.G. and Gray, M.W., (2006) Analysis of Euglena gracilis plastid-targeted proteins reveals different classes of transit sequences. Eukaryot. Cell 5:2079-2091 [PubMed]
  33. Taylor, S.D.*, Mirzaei, F., and Bearne, S.L., (2006) An unsymmetrical approach to the synthesis of bismethylene triphosphate analogues. Org. Lett. 8:4243-4246. [PubMed]
  34. Richard, K.C., Bertolesi, G.E., Dunfield, L.D., McMaster, C.R., and Nachtigal, M. W. , (2006) TSAd interacts with Smad2 and Smad3 Biochem. Biophys. Res. Comm. 347:266-272
  35. Howe, A.G., and McMaster, C.R., (2006) Regulation of Phosphatidylcholine Homeostasis by Sec14 (Review) Can. J. Physiol. Pharmacol 84:29-38
  36. Fernández-Murray, J.P., and McMaster, C.R., (2006) Identification of Novel Phospholipid Binding Proteins in Saccharomyces cerevisiae Febs Lett. 580:82-86
  37. Schweitzer-Stenner, R., Levantino, M., Cupane, A., Wallace, C., Leberge, M. and Huang, Q., (2006) Functionally relevant electric field-induced perturbations of the prosthetic group of yeast ferro-cytochrome c mutants obtained from a vibronic analysis of low-temperature absorption spectra. J. Phys. Chem. B. 110:12155-12161. [PubMed]
  38. Gleave, M. et al. (on behalf of the ARI40010 study team), (2006) The effects of the dual 5alpha-reductase inhibitor dutastaride on localized prostate cancer : results from a 4-month pre-radical prostatectomy study. The Prostate 66:1674-1685. [PubMed] [Article]
  39. Russell, A.G., Charette, J.M., Spencer, D.F. and Gray, M.W. , (2006) An early evolutionary origin for the minor spliceosome. Nature 443:863-866 [PubMed]
  40. Gophna, U., Charlebois, R.L. and Doolittle, W. F., (2006) Lateral gene transfer in the evolution of Bdellovibrio bacteriovorus. Trends in Microbiology 14:64-69
  41. Boucher, Y., Nesbo, C.L., Joss, M.J., Robinson, A., Mabbutt, B.C., Gilllings, M.R., Doolittle, W. F. and Stokes, H.W., (2006) Recovery and evolutionary analysis of complete integron gene cassette arrays from Vibrio. BMC Evol. Biol. 6:3
  42. Legault, B.A., Lopez-Lopez, A., Alba-Casado, J.C., Doolittle, W.F., Bolhuis, H., Rodriguez-Valera, F. and Papke, T.R., (2006) Environmental genomics of Haloquadratum walsbyi in a saltern crystallizer indicates a large pool of accessory genes in an outside coherent species. BMC Genomics 7:171
  43. Susko, E., Leigh, J., Doolittle, W.F. and Bapteste, E., (2006) Visualizing and assessing phylogenetic congruence of core gene sets: a case study of the (gamma)-proteobacteria. Mol. Biol. Evol. 23:1019-1030
  44. Nesbo, C.L., Doolittle, W.F., Mongodin, E.F. and Nelson, K.E., (2006) Outside forces helped shape the Thermotoga metagenome. Microbe 1:235-241
  45. Nesbo, C.L., Dlutek, M., Zhaxybayeva, O. and Doolittle, W.F., (2006) Evidence for existence of "Mesotogas", members of the order Thermotogales adapted to low-temperature environments. Applied and Env. Microbiol. 72:5061-5068
  46. Zhaxybayeva, O., Gogarten, J.P., Charlebois, R.L., Doolittle, W.F. and Papke, R.T., (2006) Phylogenetic analyses of cyanobacterial genomes: quantification of horizontal gene transfer events. Genome Research 16:1099-1108
  47. Inagaki, Y., Susko, E. and Roger, A.J., (2006) Recombination between elongation factor 1(alpha) genes from distantly-related archaeal linages. Proc. Natl. Acad. Sci. USA 103:4528-4533
  48. Simpson, A.G.B., Inagaki, Y. and Roger, A.J., (2006) Comprehensive multigene phylogenies of excavate protists reveal the evolutionary positions of 'primitive' eukaryotes. Mol. Biol. Evol. 23:615-625
  49. Wang, H.C., Susko, E. and Roger, A.J., (2006) On the correlation between genomic G+C content and optimal growth temperature in prokaryotes: data quality and confounding factors. Biochem. Biophys. Res. Commun. 342:681-684
  50. Andersson, J.O., Hirt, R.P., Foster, P.G. and Roger, A.J., (2006) Evolution of four gene families with patchy phylogenetic distributions: influx of genes into protist genomes. BMC Evol. Biol. 6:27
  51. Inagaki, Y. and Roger, A.J., (2006) Phylogenetic estimation under codon models can be biased by codon usage heterogeneity. Mol. Phylogenet. Evol. 40:428-434
  52. Spencer, M., Susko, E. and Roger, A.J., (2006) Modeling prokaryote gene content. Evol. Bioinf. Online 2:165-186
  53. Roger, A.J. and Hug, L.A., (2006) The origin and diversification of eukaryotes: problems with molecular phylogenetics and molecular clock estimation. Phil. Trans. R. Soc. B 361:1039-1054
  54. Lane, C. E. & Archibald, J. M., (2006) Novel nucleomorph genome architecture in the cryptomonad genus Hemiselmis. J. Euk. Microbiol. 53:515-521 [PubMed]
  55. Archibald, J. M., (2006) Genome complexity in a lean, mean photosynthetic machine. Proc. Natl. Acad. Sci. USA 103:11433-11434 [PubMed]
  56. Archibald, J. M., (2006) Endosymbiosis: double-take on plastid origins. Curr. Biol. 16:R690-R692 [PubMed]
  57. Ruiz-Trillo, I., Lane, C. E., Archibald, J. M. and Roger, A. J., (2006) Insights into the evolutionary origin and genome architecture of the unicellular opisthokonts Capsaspora owczarzaki and Sphaeroforma arctica. J. Euk. Microbiol. 53:379-384. [PubMed]
  58. Vance, JE., Karten, B. and Hayashi, H., (2006) Lipid dynamics in neurons Biochem. Soc. Trans. 34:399-403 [PubMed]
  59. Tran, K., Sun, F., Cui, Z., Thorne-Tjomsland, G., Lapierre, L.R., McLeod, R.S., Jamieson, J.C. and Yao, Z., (2006) Attenuated secretion of very low density lipoproteins from McA-RH7777 cells treated with eicosapentaenoic acid is associated with impaired utilization of triacylglycerol synthesized via phospholipid remodeling. Biochim. et Biophys. Acta 1761:463-473 [PubMed]
  60. Bishop, J.D., Nien, W.L., Dauphinee, S.M. and Too, C.K.L., (2006) Prolactin activates mTOR through phosphatidylinositol 3-kinase and stimulates phosphorylation of p70S6K and 4E-BP1 in lymphoma cells. J. Endocrinology 190:307-312. [PubMed] [Article]
  61. Liu, Z., Li, H., Wu, X., Yoo, B., Yan, S., Stadnyk, A., Sasazuki, T., Shirasawa, S., LaCasse, E., Korneluk, RG. and Rosen KV, (2006) Detachment-induced upregulation of XIAP and cIAP2 delays anoikis of intestinal epithelial cells. Oncogene 25:7680-90 [PubMed]
  62. Watkins, R.F. and Gray, M.W., (2006) The frequency of eubacterium-to-eukaryote lateral gene transfers shows significant cross-taxa variation in the phylum Amoebozoa. J. Mol. Evol. 63:801-814 [PubMed]
  63. Lyons, P.J., Mattatall, N.R. and Ro, H.-S., (2006) Modeling and functional analysis of AEBP1, a transcriptional repressor. Proteins 63:1069-1083 [PubMed]
  64. Shutt, T.E. and Gray, M.W., (2006) Homologs of mitochondrial transcription factor B, sparsely distributed within the eukaryotic radiation, are likely derived from the dimethyladenosine methyltransferase of the mitochondrial endosymbiont. Mol. Biol. Evol. 23:1169-1179 [PubMed]
  65. Majdalawieh, A.F., Zhang, L., Fuki, I.V., Rader, D.J. and Ro, H.-S. , (2006) Adipocyte Enhancer-Binding Protein-1 is a potential novel atherogenic factor involved in macrophage cholesterol homeostasis and inflammation. Proc. Natl. Acad. Sci. USA 103 (7):2346-2351 [PubMed]
  66. Robinson, M., Poon, P.P., Schindler, C., Murray, L.E., Kama, R., Gabriely, G., Singer, R.A., Spang, A., Johnston, G.C. and Gerst, J.E., (2006) The Gcs1 Arf-GAP mediates Snc1,2 v-SNARE retrieval to the Golgi in yeast. Mol. Biol. Cell 17:1845-1858 [PubMed]
  67. Liu, Z., Li, H., Derouet, M., Berezkin, A., Sasazuki, T., Shirasawa, S., and Rosen, K. , (2006) Oncogenic Ras inhibits anoikis of intestinal epithelial cells by preventing the release of a mitochondrial pro-apoptotic protein Omi/HtrA2 into the cytoplasm. J. Biol. Chem. 281:14738-47 [PubMed]
  68. Russell, A.G., Schnare, M.N. and Gray, M.W., (2006) A large collection of compact box C/D snoRNAs and their isoforms in Euglena gracilis: structural, functional and evolutionary insights. J. Mol. Biol. 357: 1548-1565 [PubMed]
  69. Karten, B., Campenot R. B., Vance, D. E., and Vance, J. E. , (2006) The Niemann-Pick Type C1 protein in recycling endosomes of pre-synaptic nerve terminals. J. Lipid Res. 47:504-514 [PubMed]
  70. Karten, B., Campenot R. B., Vance, D. E., and Vance, J. E. , (2006) Expression of ABCG1, but not ABCA1, correlates with cholesterol release from cerebellar astroglia J. Biol. Chem. 281:4049-4057 [PubMed]
  71. MacLeod, T.J., Lunn, F.A., and Bearne, S.L.*, (2006) The role of lysine residues 297 and 306 in nucleoside triphosphate regulation of E. coli CTP synthase. Inactivation by 2',3'-dialdehyde ATP and mutational analyses. Biochim. Biophys. Acta 1764:199-210. [PubMed]
  72. Lane, C.E., Khan, H., MacKinnon, M., Fong, A., Theophilou, S., and Archibald, J.M., (2006) Insight into the diversity and evolution of the cryptomonad nucleomorph genome Mol. Biol. Evol. 23:856-865 [PubMed]
  73. Shutt, T.E. and Gray, M.W., (2006) Twinkle, the mitochondrial replicative DNA helicase, is widespread in the eukaryotic radiation and may also be the mitochondrial DNA primase in most eukaryotes. J. Mol. Evol. 62:588-599 [PubMed]
  74. Shutt, T.E. and Gray, M.W. , (2006) Bacteriophage origins of mitochondrial replication and transcription proteins. Trends Genet. 22:90-95 [PubMed]
  75. Gophna, U., Thompson, J.R., Boucher, Y. and Doolittle, W.F., (2006) Complex historiesof genes encoding 3-hydroxy-3-methylglutaryl-CoenymeA reductase. Mol. Biol. Evol. 23:168-178

Publications in 2005

  1. Joseph Banoub, Paul Boullanger, Dominique Lafont, Alejandro Martin Cohen, Anas El Aneed, Elizabeth Rowlands, (2005) In situ formation of C-glycosides during electrospray ionization tandem mass spectrometry of a series of synthetic amphiphilic cholesteryl polyethoxy neoglycolipids containing N-acetyl-D-glucosamine Journal of the American Society for Mass Spectrometry 16(4):565-570
  2. Alejandro Martin Cohen, Atef AH Mansour, Joseph H Banoub, (2005) ‘De novo’sequencing of Atlantic cod vitellogenin tryptic peptides by matrix‐assisted laser desorption/ionization quadrupole time‐of‐flight tandem mass spectrometry: similarities with haddock vitellogenin Rapid communications in mass spectrometry 19(17):2454-2460
  3. McMullen, NM, Gaspard, GJ, Pasumarthi, KB, (2005) Reactivation of cardiomyocyte cell cycle: A potential approach for myocardial regeneration Signal Transduction 5:126-141 [Article]
  4. McMullen NM Gaspard GJ and Pasumarthi KB, (2005) Reactivation of cardiomyocyte cell cycle: A potential approach for myocardial regeneration. Signal Transduction 5:126-141
  5. Top D, de Antueno R, Salsman J, Corcoran J, Mader J, Hoskin D, Touhami A, Jericho MH, Duncan R., (2005) Liposome reconstitution of a minimal protein-mediated membrane fusion machine. EMBO J. 24:2980-2988
  6. An D, Pulinilkunnil T, Qi D, Ghosh S, Abrahani A, Rodrigues B., (2005) The metabolic "switch" AMPK regulates cardiac heparin-releasable lipoprotein lipase. Am J Physiol Endocrinol Metab. 288(1):E246-53 [PubMed]
  7. Ghosh S, Pulinilkunnil T, Yuen G, Kewalramani G, An D, Qi D, Abrahani A, Rodrigues B., (2005) Cardiomyocyte apoptosis induced by short-term diabetes requires mitochondrial GSH depletion. Am J Physiol Heart Circ Physiol. 289(2):H768-76 [PubMed]
  8. Pulinilkunnil T, An D, Ghosh S, Qi D, Kewalramani G, Yuen G, Virk N, Abrahani A, Rodrigues B., (2005) Lysophosphatidic acid-mediated augmentation of cardiomyocyte lipoprotein lipase involves actin cytoskeleton reorganization. Am J Physiol Heart Circ Physiol. 288(6):H2802-10 [PubMed]
  9. K. V. Ewart, J. C. Belanger, J. Williams, T. Karakach, S. Penny, S. C.M. Tsoi, R. C. Richards and S. E. Douglas, (2005) Identification of genes differentially expressed in Atlantic salmon (Salmo salar) in response to infection by Aeromonas salmonicida using cDNA microarray technology; Dev Comp Immunol 29:333-347
  10. Peter D. Wentzell and Tobias K. Karakach , (2005) DNA microarrays: Is there a role for analytical chemists? The Analyst 130:1331-1336
  11. Ramesh M.A.*, MALIK S.-B.*, Logsdon J.M. Jr. (*equal contributions), (2005) A phylogenomic inventory of meiotic genes: Evidence for sex in Giardia and an early eukaryotic origin of meiosis. Current Biology 15:185-191 [PubMed]
  12. Nicholson A.C.*, MALIK S.-B.*, Logsdon J.M. Jr., van Meir E. (*equal contributions), (2005) Functional evolution of ADAMTS genes: Evidence from phylogeny and gene organization. BioMednet Central Evolutionary Biology 5:11:13 pages [PubMed]
  13. Alessia Morandi, Olga Zhaxybayeva, J. Peter Gogarten and Joerg Graf, (2005) Evolutionary and Diagnostic Implications of Intragenomic Heterogeneity in the 16S rRNA Gene in Aeromonas Strains J. Bact. 187:6561-6564
  14. Lutz Hamel, Olga Zhaxybayeva and J. Peter Gogarten: , (2005) PentaPlot: A software tool for the illustration of genome mosaicism BMC Bioinformatics 6:13
  15. Olga Zhaxybayeva and J. Peter Gogarten, (2005) Review of "Cladistics: a practical primer on CD-ROM" by Peter Skelton and Andrew Smith. Origin of Life and Evolution of Biospheres 35:69-71
  16. Brianna L. Sollod, David Wilson, Olga Zhaxybayeva, J. Peter Gogarten, Roger Drinkwater, and Glenn F. King, (2005) Were arachnids the first to use combinatorial peptide libraries? Peptides 26:131-139
  17. Tsaousis, A.D., Martin, D.P., Ladoukakis, E.D., Posada, D. & Zouros, E. , (2005) Widespread Recombination in Published Animal mtDNA Sequences Mol Biol Evol 22:925-933 [PubMed]
  18. Padraic G. P. O'Malley, Shirley M. Sangster, Salma A. Abdelmagid, Stephen L. Bearne, and Catherine K. L. Too, (2005) Characterization of a novel, cytokine-inducible carboxypeptidase D isoform in haematopoietic tumour cells Biochem J 390(Pt 3):665-673
  19. Hopkins, J., (2005) Molecular Beacons as probes of RNA unfolding under native conditions. Nucleic Acids Research 33:5763-5770
  20. Fernández-Murray, J.P., and McMaster, C. R., (2005) Glycerophosphocholine Catabolism as a New Route for Choline Formation by the Kennedy Pathway J. Biol. Chem. 280:38290-38296
  21. Zaremberg, V., Gajate, G., Cacharro, L.M., Mollinedo, F., and McMaster, C.R. , (2005) Cytotoxicity of the Anti-cancer Lipid Edelfosine is Through Selective Modification of Lipid Raft Composition J. Biol. Chem. 280:38047-38058
  22. Bailey, K., Cook, H.W., and McMaster, C.R., (2005) The Phospholipid Scramblase PLSCR1 Increases UV Induced Apoptosis in Chinese Hamster Ovary Cells by Primarily Augmenting the Intrinsic Apoptotic Pathway Biochim. Biophys. Acta 1733:199-209
  23. Fernández-Murray, J.P., and McMaster, C.R, (2005) Glycerophosphocholine Catabolism as a New Route for Choline Formation for Phosphatidylcholine Synthesis by the Kennedy Pathway J. Biol. Chem. 280:38290-38296
  24. Doolittle, W.F. (+17 authors), (2005) The genome of Salinibacter ruber: convergence and gene exchange among hyperhalophilic bacteria and archaea. Proc. Natl. Acad. Sci. USA 102:18147-18152
  25. Doolittle, W. F., (2005) The origin and early evolution of life. Evolutionary Science and Society: Educating a New Generation, J. Cracraft and R.W. Bybee (eds.) American Institute of Biological Sciences, Washington:35-42
  26. Spencer, M., Susko, E. and Roger, A.J., (2005) Likelihood, parsimony and heterogeneous evolution. Mol. Biol. Evol. 22:1161-1164
  27. Butt, D., Roger, A.J. and Blouin, C., (2005) A C++ bioinformatic library to manipulate protein structures, sequence alignments and phylogeny. BMC Bioinformatics 6:138
  28. Susko, E., Spencer, M. and Roger, A.J., (2005) Biases in phylogenetic estimation can be caused by random sequence segments. J. Mol. Evol. 61:351-359
  29. Andersson, J.O., Sarchfield, S. and Roger, A.J. , (2005) Gene transfers from Nanoarchaeota to an ancestor of diplomonads and parabasalids. Mol. Biol. Evol. 22:85-90
  30. Keeling, P.J., Burger, G., Durford, D.G., Lang, B.F., Lee, R.W., Pearlman, R.E., Roger, A.J. and Gray, M.W. , (2005) The tree of eukaryotes. Trends Ecol. Evol. 20:670-676
  31. Zhang, L., Reidy, S.P., Nicholson, T.E., Lee, H.-J., Majdalawieh, A., Webber, C., Stewart, B.R., Dolphin, P. and Ro, H.-S., (2005) The role of AEBP1 in sex-specific diet-induced obesity. Mol. Med. 11:39-47 [PubMed]
  32. Kwon, M. C. S. Yoon W. Jeong S. G. Rhee & D. M. Waisman., (2005) Annexin A2-S100A10 heterotetramer, a novel substrate of thioredoxin. J.Biol.Chem. 280:23584-23592 [PubMed]
  33. Kwon, M. T. J. MacLeod Y. Zhang & D. M. Waisman., (2005) S100A10, annexin A2, and annexin a2 heterotetramer as candidate plasminogen receptors. Front Biosci. 10:300-325 [PubMed]
  34. MacLeod, T. J. N. R. Filipenko & D. M. Waisman., (2005) Characterization of the RNA-Binding Properties of Annexin A2 Heterotetramer. Annexins 1:191-199
  35. Waisman, D. M., (2005) Characterization of the RNA-Binding Properties of Annexin A2 Heterotetramer. Annexins 1:191-199
  36. Waisman, D. M., (2005) Annexin A2 may not play a role as a plasminogen receptor. Br.J.Haematol. 131:553-554 [PubMed]
  37. Vance J.E., Hayashi H., and Karten B., (2005) Cholesterol Homeostasis in Neurons and Glial Cells. Semin. Cell Dev. Biol. 16:193-212 [PubMed]
  38. Karten B., Hayashi H., Francis G.A., Campenot R.B., Vance D.E., and Vance J.E. , (2005) Generation and Function of Astroglial Lipoproteins from Niemann-Pick Type C1-deficient Mice. Biochem. J. 387:779-788 [PubMed]
  39. Paul C.A., Reid P.C., Boegle A.K., Karten B., Zhang M., Jiang Z.G, Franz D., Lin L., Chang T.Y., Vance J.E., Blanchette-Mackie J., and Maue R.A. , (2005) Adenovirus expressing an NPC1-GFP fusion gene corrects neuronal and nonneuronal defects associated with Niemann pick type C disease. J Neurosci Res. 86:706-719 [PubMed]
  40. Karten B., Hayashi H., Campenot R.B., Vance D.E., and Vance J.E. , (2005) Neuronal Models for Studying Lipid Metabolism and Transport. Methods 36:117-128 [PubMed]
  41. Gophna, U., Bapteste, E., Doolittle, W.F., Biran, D. and Ron, E.Z., (2005) Evolutionary plasticity of methionine biosynthesis. Gene 355:48-57
  42. Bapteste, E., Susko, E., Leigh, J., MacLeod, D., Charlebois, R.L. and Doolittle, W.F., (2005) Do orthologous gene phylogenies really support tree-thining? BMC Evol. Biol. 5:33
  43. MacLeod, D., Charlebois, R.L., Doolittle, W.F. and Bapteste, E., (2005) Deduction of probable events of lateral gene transfer through comparison of phylogenetic trees by recursive consolidation and rearrangement. BMC Evol. Biol. 5:27
  44. Wong, T., Fairn, G.D., Poon, P.P., Shmulevitz, M., McMaster, C.R., Singer, R.A. and Johnston, G.C., (2005) Membrane metabolism mediated by Sec14 family members influences Arf GTPase activating protein activity for transport from the trans-Golgi. Proc. Natl. Acad. Sci. USA 102:12777-12782 [PubMed]
  45. Nesbo, C.L., Boucher, Y., Dlutek, M. and Doolittle, W.F., (2005) Lateral gene transfer and phylogenetic assignment of environmental fosmid clones. Environmental Microbiology 7:2011-2026
  46. Gophna, U., Doolittle, W.F. and Charlebois, R.L., (2005) Weighted genome trees: refinements and applications. Journal of Bacteriology 187:1305-1316
  47. Walsh, D.A. and Doolittle, W.F., (2005) The real domains of life. Current Biology 15:R237-R240
  48. Walsh, D.A., Papke, R.T. and Doolittle, W.F., (2005) Archaeal diversity along a soil salinity gradient prone to disturbance. Environmental Microbiology 7:1655-1666
  49. Doolittle, W.F., (2005) Some thoughts on the Tree of Life. The Harvey Lectures 2003-2004:99:111-128
  50. Meng, Q. Wang, Y. Liu, P. X.-Q., (2005) An intron-encoded protein assists RNA splicing of multiple similar introns of different genes. J Biol Chem. 280:35085-35088 [PubMed]
  51. Taylor, M.M., MacDonald, K., Morris, A.J., and McMaster, C.R., (2005) Enhanced Apoptosis Through Farnesol Inhibition of Phospholipase D Signal Transduction FEBS J. 272:5056-5063
  52. Morash, S.M., Douglas, D., Cook, H.W., McMaster, C.R., and Byers, D.M., (2005) Expression of MARCKS Effector Domain Mutants Alters Phospholipase D Activity and Cytoskeletal Morphology of SK-N-MC Neuroblastoma Cells Neurochem. Res. 11:1353-1364 [PubMed]
  53. Wong, T., Fairn, G.D., Poon, P.P., McMaster, C.R., Singer, R.A., and Johnston, G.C. , (2005) Membrane Metabolism Mediated by Sec14p Family Members Influences ArfGAP Activity for Transport from the trans-Golgi Proc. Natl. Acad. Sci. U.S.A 102:12777-12802
  54. Fairn, G.D., and McMaster, C.R. , (2005) The Roles of the Human Lipid Binding Proteins ORP9S and ORP10S in Vesicular Transport Biochem. Cell Biol. 83:631-636
  55. Mohan, K., Cordeiro, E., Vaci, M., McMaster, C.R., and Issekutz, T.B., (2005) CXCR3 is Required for Migration to Dermal Inflammation by Normal and In Vivo Activated T Cells: Differential Requirements by CD4 and CD8 Memory Subsets Eur. J. of Immunol. 35:1702-1711
  56. Dobson, M.J., Pickett, A.J., Velmurugan, S., Pinder, J.B., Barrett, L.A., Jayaram, M., and Chew, J.S.K. , (2005) The 2µm plasmid causes cell death in yeast with a mutation in Ulp1 protease. Mol. Cell Biol. 25:4299-4310 [PubMed]
  57. Blouin, C., Butt, D., Roger, A.J., (2005) libcov: A C++ bioinformatic library to manipulate protein structures, sequence alignments and phylogeny. BMC Bioinformatics 22(3):784-791 [PubMed]
  58. Jiang, H., Blouin, C., (2005) Ab Initio Construction of All-atom Loop Conformations. J. Mol. Modeling. J. Mol. Modeling in press:
  59. Archibald, J. M., (2005) Jumping genes and shrinking genomes-probing the evolution of eukaryotic photosynthesis using genomics IUBMB Life 57:539-547 [PubMed]
  60. Liu Z, Li H, Derouet M, Filmus J, LaCasse EC, Korneluk RG, Kerbel RS, and Rosen KV , (2005) ras oncogene triggers upregulation of cIAP2 and XIAP in intestinal epithelial cells: EGF receptor-dependent and -independent mechanisms of ras-induced transformation. J. Biol. Chem. 280:37383-37392 [PubMed]
  61. Yan SR, Joseph RR, Rosen K, Reginato MJ, Jackson A, Allaire N, Brugge JS, Jobin C, Stadnyk AW, (2005) Activation of NF-kappaB following detachment delays apoptosis in intestinal epithelial cells. Oncogene 24:6482-91 [PubMed]
  62. Russell, A.G., Shutt, T.E., Watkins, R.F. and Gray, M.W., (2005) An ancient spliceosomal intron in the ribosomal protein L7a gene (Rpl7a) of Giardia lamblia. BMC Evol. Biol. 5:45 [PubMed]
  63. Keeling, P.J., Burger, G., Durnford, D.G., Lang, B.F., Lee, R.W., Pearlman, R.E., Roger, A. J. and Gray, M.W. , (2005) The tree of eukaryotes. Trends Ecol. Evol. 20: 670-676 [PubMed]
  64. Burley, R.K.M., and Bearne, S.L.*, (2005) Inhibition of mandelate racemase by the substrate-intermediate-product analogue 1,1-diphenyl-1-hydroxymethylphosphonate. Bioorg. Med. Chem. Lett. 15:4342-4344. [PubMed]
  65. Brosseau, C.L., St. Maurice, M., Bearne, S.L., and Roscoe, S.G.*, (2005) Electrochemical quartz crystal nanobalance (EQCN) studies of the adsorption behaviour of an enzyme, mandelate racemase, and its substrate, mandelic acid, on Pt. Electrochim. Acta 50:1289-1297.
  66. Siddiqi, F., Bourque, J.R., Jiang, H., Gardner, M., St. Maurice, M., Blouin, C., and Bearne, S.L.*, (2005) Perturbing the Hydrophobic Pocket of Mandelate Racemase To Probe Phenyl Motion during Catalysis. Biochemistry 44:9013-9021. [PubMed]
  67. Bearne, S.L.*, and Spiteri, R.J., (2005) Reduction of intrinsic kinetic and thermodynamic barriers for enzyme-catalysed proton transfers from carbon acid substrates. J. Theor. Biol. 233:563-571. [PubMed]
  68. Koski, L.B., Gray, M.W., Lang, B.F. and Burger, G., (2005) AutoFACT: an Automatic Functional Annotation and Classification Tool. BMC Bioinfomatics 6:151 [PubMed]
  69. O'Malley, P.G.P., Sangster, S.M., Abdelmagid, S.A., Bearne, S.L. and Too, C.K.L.*, (2005) Characterizaion of a novel, cytokine-inducible carboxypeptidase-D isoform in hematopoietic tumor cells. Biochem J. 390:665-673. [PubMed] [Article]
  70. Mitchell, P. L., Langille, M., Currie, D.L., and McLeod, R.S., (2005) Effect of conjugated linoleic acid isomers on lipoproteins and atherosclerosis in the Syrian golden hamster. Biochimica et Biophysica Acta 1734:269-276 [PubMed]
  71. Russell, A.G., Watanabe, Y-i., Charette, J.M. and Gray, M.W., (2005) Unusual features of fibrillarin cDNA and gene structure in Euglena gracilis: evolutionary conservation of core proteins in methylation-guide box C/D snoRNPs throughout the domain Eucarya. Nucleic Acids Res. 33:2781-2791 [PubMed]
  72. Anderson, I.J., Watkins, R.F., Samuelson, J., Spencer, D.F., Majoros, W.H., Gray, M.W. and Loftus, B.J., (2005) Gene discovery in the Acanthamoeba castellanii genome. Protist 156:203-214 [PubMed]
  73. Dauphinee S.M., Ma M. and Too C.K.L. , (2005) Role of O-linked beta-N-acetylglucosamine modification in the subcellular distribution of alpha4 phosphoprotein and Sp1 in rat lymphoma cells. J. Cell. Biochem. 96:579-588. [PubMed] [Article]
  74. Blouin, C., Butt, D., Roger, A.J., (2005) The impact of taxon sampling on the estimatio nof rate of evolution at sites. Mol. Biol. Evol. 22(3):784-791 [PubMed]
  75. Gray, M. W., (2005) The hydrogenosome's murky past. Nature 434:29-31 [PubMed]
  76. Gray, M.W., (2005) Contemporary issues in mitochondrial origins and evolution. Microbial Phylogeny and Evolution (J. Sapp, ed.) Oxford University Press, New York:224-237
  77. Andriole G.L., Humphrey P., Ray P., Gleave M.E., Trachtenberg J., Thomas L.N., Lazier C.B., Rittmaster R.S., (2005) RE: EFFECT OF THE DUAL 5alpha-REDUCTASE INHIBITOR DUTASTERIDE ON MARKERS OF TUMOR REGRESSION IN PROSTATE CANCER. J. Urol. 173(4):1433-1434 [PubMed]
  78. Thomas L.N., Lazier C.B., Gupta R., Norman R.W., Troyer D.A., O'Brien S.P., Rittmaster R.S., (2005) Differential alterations in 5alpha-reductase type 1 and type 2 levels during development and progression of prostate cancer. Prostate 63(3):231-239 [PubMed]
  79. Archibald, J. M. & Keeling, P. J., (2005) On the origin and evolution of plastids. Microbial phylogeny and evolution, J. Saap (ed.) Oxford University Press, New York:238-260
  80. Kim, J. C., Ou, Y. Y., Badano, J., Esmail, M. A., Leitch, C. C., Fiedrich, E., Beales, P. L., Archibald, J. M., Katsanis, N., Rattner, J. B., Leroux, M. R. , (2005) MKKS/BBS6, a divergent chaperonin-like protein linked to the obesity disorder Bardet-Biedl syndrome, is a novel centrosomal component required for cytokinesis. J. Cell Sci. 118:1007-1020 [PubMed]
  81. Patron, N. J., Waller, R. F., Archibald, J. M. & Keeling, P. J., (2005) Complex protein targeting to dinoflagellate plastids. J. Mol. Biol. 348:1015-1024 [PubMed]
  82. Marignani, P. A., (2005) LKB1, the multi-tasking tumour suppressor kinase. Journal of Clinical Pathology 58:15-19 [PubMed]
  83. Bullerwell, C.E. and Gray, M.W., (2005) In vitro characterization of a tRNA editing activity in the mitochondria of Spizellomyces punctatus, a chytridiomycete fungus. J. Biol. Chem. 280:2463-2470 [PubMed]
  84. Fairn, G.D. and McMaster, C.R. , (2005) Studying Phospholipid Metabolism Using Yeast Systematic and Chemical Genetics Methods 36:102-108
  85. Fairn, G.D. and McMaster, C.R., (2005) Identification and Assessment of the Role of a Nominal Phospholipid Binding Region of Oxysterol Binding Protein Related Protein ORP1S in the Regulation of Vesicular Transport Biochem. J. 387:889-896
  86. Fernández-Murray, J.P. and McMaster, C.R., (2005) Nte1p Mediated Deacylation of Phosphatidylcholine Functionally Interacts with Sec14p J. Biol. Chem. 280:8544-8552
  87. Lyons, P.J., Muise, A.M. and Ro, H.-S., (2005) MAPK modulates the DNA binding of adipocyte enhancer-binding protein 1. Biochemistry 44:926-931 [PubMed]
  88. Baguma-Nibasheka, M., Li, A.W., Osman, M.S., Geldenhuys, L., Casson, A.G., Too C.K.L. and Murphy, P.R. , (2005) Co-expression and regulation of the FGF-2 and FGF antisense genes in leukemic cells. Leukemia Res. 29:423-433. [PubMed]
  89. Matte, G., Sangster, S.M., Acker, M., Hudgins, M. and Too, C.K.L., (2005) Characterization of 123I-iodo-alpha-methyltyrosine transport in rat lymphoma cells. Nuclear Medicine and Biology 32:67-73. [PubMed] [Article]

Publications in 2004

  1. Joseph Banoub, Alejandro Martin Cohen, Atef Mansour, Pierre Thibault, (2004) Characterization and de novo sequencing of Atlantic salmon vitellogenin protein by electrospray tandem and matrix-assisted laser desorption/ionization mass spectrometry European Journal of Mass Spectrometry 10(1):121
  2. Joseph Banoub, Alejandro Martin Cohen, Anas El Aneed, Vincent LeQuart, Patrick Martin, (2004) Structural reinvestigation of the coreoligosaccharide of a mutant form of Aeromonas salmonicida lipopolysaccharide containing an O-4 phosphorylated and O-5 substituted Kdoreducing end group using European Journal of Mass Spectrometry 10(4):541-554
  3. Joseph Banoub, Anas El Aneed, Alejandro Martin Cohen, Patrick Martin, (2004) Characterization of the O-4 phosphorylated and O-5 substituted Kdo reducing end group and sequencing of the core oligosaccharide of Aeromonas salmonicida ssp salmonicida lipopolysaccharide using tandem mass spectrometry European Journal of Mass Spectrometry 10(5):715-730
  4. Winther, M.D., , L. C. Knickle, M. H., S. J. Allen, A. Ponton, R. J. De Antueno, D. K. Jenkins, S.O. Nwaka, Y. P. Goldberg, (2004) Fat regulated genes, uses thereof and compounds for modulating same PATENT. :
  5. Ghosh S, An D, Pulinilkunnil T, Qi D, Lau HC, Abrahani A, Innis SM, Rodrigues B., (2004) Role of dietary fatty acids and acute hyperglycemia in modulating cardiac cell death. Nutrition 20(10):916-923 [PubMed]
  6. Qi D, Pulinilkunnil T, An D, Ghosh S, Abrahani A, Pospisilik JA, Brownsey R, Wambolt R, Allard M, Rodrigues B., (2004) Single-dose dexamethasone induces whole-body insulin resistance and alters both cardiac fatty acid and carbohydrate metabolism. Diabetes 53(7):1790-7. [PubMed]
  7. Ghosh S, Qi D, An D, Pulinilkunnil T, Abrahani A, Kuo KH, Wambolt RB, Allard M, Innis SM, Rodrigues B., (2004) Brief episode of STZ-induced hyperglycemia produces cardiac abnormalities in rats fed a diet rich in n-6 PUFA. Am J Physiol Heart Circ Physiol. 287(6):H2518-27 [PubMed]
  8. Pulinilkunnil T, An D, Yip P, Chan N, Qi D, Ghosh S, Abrahani A, Rodrigues B., (2004) Palmitoyl lysophosphatidylcholine mediated mobilization of LPL to the coronary luminal surface requires PKC activation. J Mol Cell Cardiol. 37(5):931-938 [PubMed]
  9. Stechmann, A. and Cavalier-Smith, T., (2004) Evolutionary origins of Hsp90 chaperones and a deep paralogy in their bacterial ancestors. The Journal of Eukaryotic Microbiology 51(3):364-373 [PubMed]
  10. Stechmann, A., (2004) Genome Biology: the dynamics of static genomes. Curr. Biol. 14(12):R473-R474 [PubMed]
  11. Reddy, T. and Kablar, B., (2004) Evidence for the involvement of neurotrophins in muscle transdifferentiation and acetylcholine receptor transformation in the esophagus of Myf5-/-:MyoD-/- and NT-3-/- embryos. Developmental Dynamics. 231:683-692 [PubMed]
  12. Zhaxybayeva, O., Lapierre, P. and Gogarten J.P., (2004) Genome Mosaicism and Organismal Lineages Trends in Genetics 20(5):254-260
  13. O. Zhaxybayeva and J. Peter Gogarten, (2004) Cladogenesis, Coalescence and the Evolution of the Three Domains of Life Trends in Genetics 20(4):182-187
  14. Olga Zhaxybayeva, Lutz Hamel, Jason Raymond, and J. Peter Gogarten , (2004) Visualization of Phylogenetic content of Five Genomes with Dekapentagonal Maps. Genome Biology 5:R20
  15. Simpson, A.G.B. and Roger, A.J., (2004) Excavata and the origin of amitochondriate eukaryotes. Organelles, Genomes and Eukaryote Phylogeny: An Evolutionary Synthesis in the Age of Genomics, R.P. Hirt and D.S. Horner (eds.) CRC Press, Boca Raton, Florida:27-53
  16. Simpson, A.G.B., Gill, E.E., Callahan, H.A., Litaker, R.W. and Roger, A.J., (2004) Early evolutin within kinetoplastids (euglenozoa), and the late emergence of trypanosomatids. Protist 155:407-422
  17. Ruiz-Trillo, I., Inagaki, Y., Davis, L.A., Sperstad, S., Landfald, B. and Roger, A.J. , (2004) Capsaspora owczarzaki is an independent opisthokont lineage. Curr. Biol. 14:R946-R947
  18. Susko, E., Inagaki, Y. and Roger, A.J. , (2004) On inconsistency of the neighbor-joining method, least squares and minimum evolution estimation when distances are incorrectly specified. Mol. Biol. Evol. 21:1629-1642
  19. Inagaki, Y., Susko, E. Fast, N.M. and Roger, A.J. , (2004) Covarion shifts cause a long-branch attraction artifact that unites Microsporidia and Archaebacteria in EF-1alpha phylogenies. Mol. Biol. Evol. 21:1340-1349
  20. Susko, E. and Roger, A. J., (2004) Estimating and comparing the rates of gene discovery and expressed sequence tag (EST) frequencies from EST surveys. Bioinformatics 20:2279-2287
  21. Silberman, J.D., Collins, A.G., Gershwin, L.-A., Johnson, P.J. and Roger, A.J. , (2004) Ellobiopsidae of the genus Thallasomyces are alveolates. J. Euk. Microbiol. 51:246-252
  22. Inagaki, Y., Simpson, A.G.B., Dacks, J. and Roger, A.J., (2004) Phylogenetic artifacts can be caused by leucine, serine and arginine codon usage heterogeneity: dinoflagellate plastid origins as a case study. Syst. Biol. 53:582-593
  23. Simpson, A.G.B. and Roger, A. J., (2004) The real 'kingdoms' of eukaryotes. Curr. Biol. 14:R693-R696
  24. Barabas, A. Z. C. D. Cole A. D. Barabas J. M. Cowan C. S. Yoon D. M. Waisman & R. Lafreniere., (2004) Presence of immunoglobulin M antibodies around the glomerular capillaries and in the mesangium of normal and passive Heymann nephritis rats. Int.J.Exp.Pathol. 85:201-212 [PubMed]
  25. Caplan, J. F. N. R. Filipenko S. L. Fitzpatrick & D. M. Waisman., (2004) Regulation of annexin A2 by reversible glutathionylation. J.Biol.Chem. 279:7740-7750 [PubMed]
  26. Filipenko, N. R. T. J. MacLeod C. S. Yoon & D. M. Waisman., (2004) Annexin A2 is a novel RNA-binding protein. J. Biol. Chem. 279:8723-8731 [PubMed]
  27. Zhang, L. D. K. Fogg & D. M. Waisman., (2004) RNA interference-mediated silencing of the S100A10 gene attenuates plasmin generation and invasiveness of Colo 222 colorectal cancer cells. J.Biol.Chem. 279:2053-2062 [PubMed]
  28. Zhao, W. Q. D. M. Waisman & M. Grimaldi., (2004) Specific localization of the annexin II heterotetramer in brain lipid raft fractions and its changes in spatial learning. J. Neurochem. 90:609-620 [PubMed]
  29. Hayashi H., Karten B., Vance D.E., Campenot R.B., Maue R.A., Vance J.E. , (2004) Methods for the study of lipid metabolism in neurons. Anal. Biochem. 331:1-16 [PubMed]
  30. Doolittle, W.F., (2004) If the Tree of Life fell, would we recognize the sound? In J. Sapp (Ed.), Microbial Evolution: Concepts and controversies Oxford University Press, USA:119-133
  31. Doolittle, W.F., (2004) Bacteria and archaea. In Assembling the Tree of Life J. Cracraft & M.J. Donoghue, eds. (from Tree of Life Symposium, American Museum of Natural History, June 2002) Oxford University Press, New York:
  32. Dacks, J.B. and Doolittle, W.F., (2004) Molecular and phylogenetic characterization of syntaxin genes from parasitic protozoa. Molecular & Biochemical Parasitology 136:123-136
  33. Charlebois, R.L. and Doolittle, W.F., (2004) Computing prokaryotic gene ubiquity: Rescuing the core from extinction. Genome Research 14:2469-2477
  34. Ro, H.-S., (2004) Adipocyte-enhancer binding unit 1 Handbook of Proteolytic Enzymes 2nd Edn, A.J. Barrett, N.D. Rawlings and J.F. Woessner (eds.) Academic Press Limited:846-848
  35. Walsh, D.A., Bapteste, E., Kamekura, M. and Doolittle, W.F., (2004) Evolution of RNA polymerase B' subunit gene (rpoB') in Halobacteriales: a complementary molecular marker to the SSU rRNA gene. Mol. Biol. Evol. 21:2340-2351
  36. Papke, R.T., Koenig, J.E., Rodriguez-Valera, F. and Doolittle, W.F., (2004) Frequent recombination in a saltern populationof Halorubrum. Science 306:1928-1929
  37. Boucher, Y., Douady, C.J., Sharma, A.K., Kamekura, M. and Doolittle, W.F., (2004) Intragenomic heterogeneity and intergenomic recombination among haloarchaeal rRNA genes. J. Bacteriol. 186:3980-3990
  38. Gophna, U., Charlebois, R.L. and Doolittle, W.F., (2004) Have archaeal genes contributed to bacterial virulence? Trends in Microbiology 12:213-219
  39. Boucher, Y., Kamekura, M. and Doolittle, W.F., (2004) Origins and evolution of isoprenoid lipid biosynthesis in archaea. Molecular Microbiology 52:515-527
  40. Doolittle, W.F., (2004) Q & A Current Biology 14(5):R176-177
  41. Bapteste, E., Boucher, Y., Leigh, J. and Doolittle, W.F., (2004) Phylogenetic reconstruction and lateral gene transfer. Trends in Microbiology 12:406-411
  42. Hunt, A.N., Fenn, H.C., Clark, G.T., Wright, M.M., Postle, A.D., and McMaster, C.R., (2004) Lipidomic Analysis of the Molecular Specificity of a Cholinephosphotransferase In Situ. Biochem. Soc. Trans 32:1060-1062
  43. Rogers, M.B., Archibald, J.M., Field, M.A., Li, C., Striepen, B. and Keeling, P. J., (2004) Plastid-targeting peptides from the chlorarachniophyte Bigelowiella natans. J. Eukaryot. Microbiol. 51:529-535 [PubMed]
  44. Andriole G.L., Humphrey P., Ray P., Gleave M.E., Trachtenberg J., Thomas L.N., Lazier C.B., Rittmaster R.S. , (2004) Effect of the dual 5alpha-reductase inhibitor dutasteride on markers of tumor regression in prostate cancer. J. Urol. 172(3):915-919 [PubMed]
  45. Lazier C.B., Thomas L.N., Douglas R.C., Vessey J.P., Rittmaster R.S., (2004) Dutasteride, the dual 5alpha-reductase inhibitor, inhibits androgen action and promotes cell death in the LNCaP prostate cancer cell line. Prostate 58(2):130-144 [PubMed]
  46. Liu, X.-Q. and Yang, J., (2004) Bacterial thymidylate synthase with intein, group II intron, and distinctive ThyX motifs. J. Bacteriol. 186:6316-6319 [PubMed]
  47. Archibald, J. M. & Keeling, P. J., (2004) The evolutionary history of plastids: a molecular phylogenetic perspective. Organelles, genomes and eukaryote phylogeny: an evolutionary synthesis in the age of genomics, R. P. Hirt and D. S. Horner (eds.) Taylor and Francis Books, London:55-74
  48. Keeling, P. J., Archibald, J. M., Fast, N. M., Palmer, J. D. , (2004) Comment on "The evolution of modern eukaryotic phytoplankton". Science 306:2191b [PubMed]
  49. Liu, X.-Q. and Yang, J., (2004) Prp8 intein in fungal pathogens: target for potential antifungal drugs. FEBS Lett. 572:46-50 [PubMed]
  50. Sun, W. Yang, J. Liu, X.-Q., (2004) Synthetic two-piece and three-piece split inteins for protein trans-splicing. J. Biol. Chem. 279:35281-35286 [PubMed]
  51. Yan, S. R., Byers, D. M., and Bortolussi, R., (2004) Role of protein tyrosine kinase p53/p56lyn in diminished lipopolysaccharide priming of fMLP-induced superoxide production in human newborn neutrophils Infect. Immun. 72:6455-6462 [PubMed]
  52. Lagace, D.C., McLeod, R.S., and Nachtigal, M.W., (2004) Valproic acid inhibits leptin secretion and reduces leptin mRNA levels in adipocytes. Endocrinology 145:5493-5503 [PubMed]
  53. Lewis, S.L., Poon, P.P., Singer, R.A., Johnston, G.C. and Spang, A., (2004) The ArfGAP Glo3 is required for the generation of COPI vesicles. Mol. Biol. Cell 15:4064-4072 [PubMed]
  54. Gray, J.V., Petsko, G.A., Johnston, G.C., Ringe, D., Singer, R.A. and Werner-Washburne, M., (2004) 'Sleeping beauty' quiescence in Saccharomyces cerevisiae. Microbiol. Mol. Biol. Rev. 68:187-206 [PubMed]
  55. O'Donnell, A.F., Brewster, N.K., Kurniawan, J., Minard, L.V., Johnston, G.C. and Singer, R.A., (2004) Domain organization of the yeast histone chaperone FACT: the conserved N-terminal domain of FACT subunit Spt16 mediates recovery from replication stress. Nucl. Acids Res. 32:5894-5906 [PubMed]
  56. Singer, R.A. and Johnston, G.C., (2004) The FACT of chromatin modulator: genetic and structure/function relationships. Biochem. Cell Biol. 82:419-427 [PubMed]
  57. McLeod, R. S., LeBlanc, A. M., Langille, M. A., Mitchell, P. L. and Currie, D. L., (2004) Conjugated linoleic acids, atherosclerosis and hepatic very low density lipoprotein metabolism. Amer. J. Clin. Nutr. 79:1169S-1174S [PubMed]
  58. Lapierre, L.R., Currie, D.L., Yao, Z., Wang, J. and McLeod, R.S., (2004) Amino acid sequences within the β-1 domain of human apolipoprotein B can mediate rapid intracellular degradation. J. Lipid Res. 45:366-377 [PubMed]
  59. Yang, J., Meng, Q., and Liu, X.-Q., (2004) Intein harboring large tandem repeats in replicative DNA helicase of Trichodesmium erythraeum. Mol. Microbiol. 51:1185-1192 [PubMed]
  60. Sundaram, M., Cook, H.W., and Byers, D.M., (2004) The MARCKS family of phospholipid binding proteins: regulation of phospholipase D and other cellular components. Biochem. Cell Biol. 82:191-200 [PubMed]
  61. Yan, S.R., Qing, G., Byers, D.M., Stadnyk, A.W., Al-Hertani, W., and Bortolussi, R., (2004) Role of MyD88 in diminished TNF-a production by newborn mononuclear cells in response to lipopolysaccharide. Infect. Immun. 72:1223-1229 [PubMed]
  62. Blouin, C. Butt, D. and Roger, A.J., (2004) Rapid evolution in conformational space: a study of loop regions in a ubiquitous GTP binding domain. Prot. Sci. 13(3):608-616 [PubMed]
  63. St. Maurice, M., and Bearne, S.L.*, (2004) Hydrophobic Nature of the Active Site of Mandelate Racemase. Biochemistry 43:2524-2532. [PubMed]
  64. MacDonnell, J.E., Lunn, F.A., and Bearne, S.L.*, (2004) Inhibition of E. coli CTP synthase by the positive allosteric effector GTP. Biochim. Biophys. Acta 1699:213-220. [PubMed]
  65. Lunn, F.A., and Bearne, S.L.*, (2004) Alternative Substrates for Wild-type and L109A E. coli CTP Synthases. Kinetic Evidence for a Constricted Ammonia Tunnel. Eur. J. Biochem. 271:4204-4212. [PubMed]
  66. Archibald, J. M. and Keeling, P. J., (2004) Ubiquitin and actin protein sequences support a cercozoan/foraminiferan ancestry for the plasmodiophorid plant pathogens. J. Euk. Microbiol. 51:1-6 [PubMed]

Publications in 2003

  1. Leandro CA Cerchietti, Alfredo H Navigante, Miguel W Körte, Alejandro Martin Cohen, Patricia N Quiroga, Edda C Villaamil, Marcelo R Bonomi, Berta M Roth, (2003) Potential utility of the peripheral analgesic properties of morphine in stomatitis-related pain: a pilot study Pain 105(1):265-273
  2. Pulinilkunnil T, Abrahani A, Varghese J, Chan N, Tang I, Ghosh S, Kulpa J, Allard M, Brownsey R, Rodrigues B., (2003) Evidence for rapid "metabolic switching" through lipoprotein lipase occupation of endothelial-binding sites. J Mol Cell Cardiol. 35(9):1093-1103 [PubMed]
  3. Pulinilkunnil T, Qi D, Ghosh S, Cheung C, Yip P, Varghese J, Abrahani A, Brownsey R, Rodrigues B, (2003) Circulating triglyceride lipolysis facilitates lipoprotein lipase translocation from cardiomyocyte to myocardial endothelial lining. Cardiovasc Res. 59(3):788-97. [PubMed]
  4. Jeyakumar, M., R. Thomas, E. Elliot-Smith, D.A. Smith, A.C. Van Der Spoel, A. D'Azzo, V. Hugh Perry, T.D. Butters, R.A. Dwek and F.M. Platt., (2003) Central nervous system inflammation is a hallmark of pathogenesis in mouse models of GM1 and GM2 gangliosidosis. Brain 126:974-987 [PubMed]
  5. Stechmann, A. , Cavalier-Smith, T., (2003) Eukaryote phylogeny using heat-shock protein Hsp90. J. Mol. Evol. 57(4):408-419 [PubMed]
  6. Stechmann, A. , Cavalier-Smith, T., (2003) The root of the eukaryote tree pinpointed. Curr. Biol. 13(17):R665-R666 [PubMed]
  7. Olga Zhaxybayeva and J. Peter Gogarten, (2003) Spliceosomal Introns: New Insights into Their Evolution. Current Biology 13:R764-766
  8. Olga Zhaxybayeva and J. Peter Gogarten, (2003) An Improved Probability Mapping Approach to Assess Genome Mosaicism BMC Genomics 4:37
  9. Jason Raymond, Olga Zhaxybayeva, J. Peter Gogarten and Robert E. Blankenship, (2003) Evolution of photosynthetic prokaryotes: a maximum-likelihood mapping approach. Phil. Trans. R. Soc. Lond. B 358:223-230
  10. Doolittle, W.F., Boucher, Y., Nesbo, C.L., Douady, C.J., Andersson, J.O. and Roger, A.J., (2003) How big is the iceberg of which organellar genes in nuclear genomes are but the tip? Proc. Roy. Soc. Lond. Series B 358:39-58
  11. Shan, Y., Milios, E., Roger, A., Blouin, C. and Susko, E., (2003) Automatic recognition of regions of intrinsically poor multiple alignment. Proceedings of the 2003 IEEE Bioinformatics Conference (CSB2003):483-483
  12. Dacks, J.B., Davis, L.A.M., Sjogren, A.M., Andersson, J.O., Roger, A.J. and Doolittle, W.F., (2003) Evidence for Golgi bodies in proposed 'Golgi-lacking' lineages. Proc. R. Soc. Lond. B. Suppl. 2:S168-S171
  13. Choi, K. S. D. K. Fogg C. S. Yoon & D. M. Waisman., (2003) P11 regulates extracellular plasmin production and invasiveness of HT1080 fibrosarcoma cells. FASEB J 17:235-246
  14. Choi, K.S., D.K. Fogg, S.L. Fitzpatrick & D.M. Waisman, (2003) Role of annexin II tetramer in the regulation of plasmin activity. Annexins: Biological importance and annexin-related pathologies. Eds. Joanna Bandorowicz-Pikula Ed Landes Bioscience:218-233
  15. Filipenko, N.R. & D.M. Waisman, (2003) Annexin II- Analysis of a pleiotropic protein. In Annexins: Biological importance and annexin-related pathologies. Bioscience:127-156
  16. Waisman, D. M., (2003) Plasminogen Receptors Plasminogen:Structure, Activation and Regulation/. Eds. Waisman, D. M. luwer Academic/Plenum publishers 5:81-101
  17. Kwon, M. & D.M. Waisman, (2003) Mechanism of angiostatin formation from plasminogen. Plasminogen: Structure, Activation, and Regulation Eds. Waisman, D. M. Kluwer academic/plenum publishers New York 8,:135-156
  18. Le, D. M. A. Besson D. K. Fogg K. S. Choi D. M. Waisman C. G. Goodyer B. Rewcastle & V. W. Yong., (2003) Exploitation of astrocytes by glioma cells to facilitate invasiveness: a mechanism involving matrix metalloproteinase-2 and the urokinase-type plasminogen activator-plasmin cascade. J. Neurosci. 23:4034-4043 [PubMed]
  19. Waisman, D. M., (2003) Phospholipid-associated annexin A2-S100A10 heterotetramer and its subunits: characterization of the interaction with tissue plasminogen activator, plasminogen, and plasmin. J.Biol.Chem. 278:25577-25584 [PubMed]
  20. Karten B., Vance D.E., Campenot R.B., and Vance J.E., (2003) Trafficking of cholesterol from cell bodies to distal axons in Niemann Pick C1-deficient neurons. J. Biol. Chem. 278:4168-4175 [PubMed]
  21. Choi H.Y., Karten B., Chan T., Vance J.E., Greer W.L., Heidenreich R.A., Garver W.S., Francis G.A. , (2003) Impaired ABCA1-dependent lipid efflux and hypoalphalipoproteinemia in human Niemann-Pick type C disease. J. Biol. Chem. 278:32569-32577 [PubMed]
  22. Longet, D., Archibald, J.M., Keeling, P.J., and Pawlowski, J., (2003) Foraminifera and Cercozoa share a common origin according to RNA polymerase II phylogenies. Int. J. Syst. Evol. Microbiol. 53:1735-1739 [PubMed]
  23. Archibald, J.M. and Keeling, P.J., (2003) Plant genomes: cyanobacterial genes revealed. Heredity 90:2-3 [PubMed]
  24. St. Maurice, M., Bearne, S.L.*, Lu, W., and Taylor, S.D., (2003) Inhibition of mandelate racemase by alpha-fluorobenzylphosphonates. Bioorg. Med. Chem. Lett. 13:2041-2044. [PubMed]
  25. Simard. D., Hewitt, K.A., Lunn, F., Iyengar, A., and Bearne, S.L.*, (2003) Limited proteolysis of Escherichia coli cytidine 5'-triphosphate synthase. Identification of residues required for CTP formation and GTP-dependent activation of glutamine hydrolysis. Eur. J. Biochem. 270:2195-2206. [PubMed]
  26. Thomas L.N., Douglas R.C., Vessey J.P., Gupta R., Fontaine D., Norman R.W., Thompson I.M., Troyer D.A., Rittmaster R.S., Lazier C.B., (2003) 5alpha-reductase type 1 immunostaining is enhanced in some prostate cancers compared with benign prostatic hyperplasia epithelium. J. Urol. 170(5):2019-2025 [PubMed]
  27. Liu, X.-Q. and Yang, J., (2003) Split dnaE genes encoding multiple novel inteins in Trichodesmium erythraeum. J. Biol. Chem. 278:26315-26318 [PubMed]
  28. Johnston, G.C. and Singer, R.A., (2003) Resumption of cell proliferation from stationary phase. Dormancy and Low-Growth States in Microbial Disease, A.R.M. Coates (ed.) Adv. Mol. Cell. Microbiol., vol. 3, Cambridge Univ. Press:223-233
  29. Andersson, J.O., Sjogren M., Davis, L.A.M., Embley, T.M. and Roger, A.J., (2003) Phylogenetic analyses of diplomonad genes reveal frequent lateral gene transfers affecting eukaryotes. Curr. Biol. 13:94-104
  30. Andersson, J.O. and Roger, A.J., (2003) Evolution of glutamate dehydrogenase genes: lateral gene transfer within and between prokaryotes and eukaryotes. BMC Evolutionary Biology 3:14
  31. Susko, E., Field, C., Blouin, C. and Roger, A.J., (2003) Estimation of rates-across-sites distributions in phylogenetic substitution models. Syst. Biol. 52(5):594-603 [PubMed]
  32. Simpson, A.G.B. and Roger, A.J., (2003) Protein phylogenies robustly resolve the deep-level evolutionary relationships amongst Euglenozoa. Mol. Phylogenet. Evol. 30:201-212
  33. Vickaryous, N., Teh, E., Stewart, B., Dolphin, P.J., Too, C.K.L., and McLeod, R.S., (2003) Deletion of N-terminal amino acids from human lecithin:cholesterol acyltransferase differentially affects enzyme activity toward alpha- and beta-substrate lipoproteins. Biochim et Biophys Acta 1646:164-172. [PubMed] [Article]
  34. Liu, X.-Q., Yang, J., and Meng, Q., (2003) Four inteins and three group II introns encoded in a bacterial ribonucleotide reductase gene. J. Biol. Chem. 278:46826-46831 [PubMed]
  35. Gong, H. and Byers, D.M., (2003) Glutamate-41 of Vibrio harveyi acyl carrier protein is essential for fatty acid synthase but not acyl-ACP synthetase activity. Biochem. Biophys. Res. Commun. 302:35-40 [PubMed]
  36. Inagaki, Y., Blouin, C., Susko, E., and Roger, A.J., (2003) Assessing functional divergence in EF-1alpha and its paralogues in eukaryotes and archaebacteria. Nucleic Acids Res. 31:4227-4237 [PubMed]
  37. Blouin, C., Boucher, Y., and Roger, A.J., (2003) Inferring functional constraints and divergence in protein families using 3D mapping of phylogenetic information. Nucleic Acids Res. 31:790-797 [PubMed]
  38. Iyengar, A., and Bearne, S.L.*, (2003) Aspartate-107 and leucine-109 facilitate efficient coupling of glutamine hydrolysis to CTP synthesis by Escherichia coli CTP synthase. Biochem. J. 369:497-507. [PubMed]
  39. Archibald, J. M., Longet, D., Pawlowski, J. and Keeling, P. J., (2003) A novel polyubiquitin structure in Cercozoa and Foraminifera: evidence for a new eukaryotic supergroup. Mol. Biol. Evol. 20:62-66 [PubMed]
  40. Archibald, J. M., Teh, E. M. and Keeling, P. J., (2003) Novel ubiquitin fusion proteins: ribosomal protein P1 and actin. J. Mol. Biol. 328:771-778 [PubMed]
  41. Archibald, J. M., Rogers, M., Toop, M. Ishida, K., and Keeling, P. J., (2003) Lateral gene transfer and the evolution of plastid-targeted proteins in the secondary plastid-containing alga Bigelowiella natans. Proc. Natl. Acad. Sci. U.S.A. 100:7678-7683 [PubMed]

Publications in 2002

  1. Striepen B., White M.W., Li C., Guerini M.N., MALIK S.-B., Logsdon J.M. Jr. , Liu C. and M.S. Abrahamsen, (2002) Genetic complementation in Apicomplexan parasites. Proceedings of the National Academy of Sciences U.S.A. 99:6304 - 6309 [PubMed]
  2. van der Spoel AC, Jeyakumar M, Butters TD, Charlton HM, Moore HD, Dwek RA, Platt FM., (2002) Reversible infertility in male mice following oral administration of alkylated imino sugars: a non-hormonal approach to male contraception. Proc Natl Acad Sci U S A 99:17173-17178 [PubMed]
  3. Stechmann A. , Cavalier-Smith T., (2002) Rooting the eukaryote tree by using a derived gene fusion. Science 297(5578):89-91 [PubMed]
  4. Raymond, J., Zhaxybayeva, O., Gogarten, J.P., Gerdes, S. and Blankenship, R.E., (2002) Whole Genome Analysis of Photosynthetic Prokaryotes. Science 298:1616-1620
  5. J. Peter Gogarten, Alireza G. Senejani, Olga Zhaxybayeva, Lorraine Olendzenski, and Elena Hilario, (2002) Inteins: Structure, Function, and Evolution. Annu. Rev. Microbiol. 56:263-287
  6. Olga Zhaxybayeva and J Peter Gogarten, (2002) Bootstrap, Bayesian probability and maximum likelihood mapping: exploring new tools for comparative genome analyses. BMC Genomics 3:4
  7. O'Malley, M.A., Roger, A.J. and Doolittle, W.F., (2002) Can commercial protection be good for research? Nature 419:111
  8. Tuominen,E.K.J., Wallace, C.J.A. and Kinnunen,P.K.J., (2002) Phospholipid-Cytochrome c interaction:Evidence for the extended lipid anchorage. J. Biol. Chem. 277:8822-8826 [PubMed]
  9. Andersson, J.A. and Roger, A.J., (2002) A cyanobacterial gene in non-photosynthetic protists - an early chloroplast acquisition in eukaryotes? Curr. Biol. 12:115-119
  10. Inagaki, Y., Blouin, C., Doolittle, W.F. and Roger, A.J., (2002) Convergence and constraint in eukaryotic release factor 1 (eRF1) domain 1: the evolution of stop codon specificity. Nucleic Acids Res. 30:532-544
  11. Inagaki, Y., Doolittle, W.F., Baldauf, S.L. and Roger, A.J., (2002) Lateral transfer of an EF-1(alpha) gene: origin and evolution of the large subunit of ATP sulfurylase in eubacteria. Curr. Biol. 12:1-20
  12. Simpson, A.G.B., Lukes, J. and Roger, A.J., (2002) The evolutionary history of kinetoplastids and their kinetoplasts. Mol. Biol. Evol. 19:2071-2083
  13. Brooks, N. D. J. E. Grundy N. Lavigne M. C. Derry C. M. Restall C. R. MacKenzie D. M. Waisman & E. L. Pryzdial., (2002) Ca2+-dependent, phospholipid-independent binding of annexin 2 to annexin 5. Biochem.J. 367:895-900 [PubMed]
  14. Fogg, D. K. D. E. Bridges K. T. Cheung G. Kassam N. R. Filipenko K. S. Choi S. L. Fitzpatrick M. Nesheim & D. M. Waisman., (2002) The p11 subunit of annexin II heterotetramer is regulated by basic carboxypeptidase. Biochemistry 41:4953-4961
  15. Kang, H. M. N. R. Filipenko G. Kassam & D. M. Waisman., (2002) Recombinant annexin II tetramer. Methods Mol.Biol 172:225-234 [PubMed]
  16. Kwon, M. J. F. Caplan N. R. Filipenko K. S. Choi S. L. Fitzpatrick L. Zhang & D. M. Waisman., (2002) Identification of Annexin II Heterotetramer as a Plasmin Reductase. J.Biol.Chem. 277:10903-10911 [PubMed]
  17. Karten B., Vance D.E., Campenot R.B., and Vance J.E. , (2002) Cholesterol accumulates in cell bodies, but is decreased in distal axons, of Niemann-Pick C1-deficient neurons. J. Neurochem. 83:1154-1163 [PubMed]
  18. Henneberry, A.L., Wright, M.M., and McMaster, C.R., (2002) The Major Sites of Cellular Phospholipid Synthesis and Molecular Determinants of Fatty Acid and Lipid Head Group Specificity. Mol. Biol. Cell 13:3148-3161
  19. Wright, M.M., and McMaster, C.R., (2002) Phospholipid Synthesis, Diacylglycerol Compartmentation, and Apoptosis. (Review) Biol. Res. 35, 223-229 Biol. Res. 35:223-229
  20. Wright, M.M., and McMaster, C.R., (2002) Phosphatidylcholine and Phosphatidylethanolamine Synthesis: Mixed Micellar Analysis of the Cholinephosphotransferase and Ethanolaminephosphotransferase Activities of Human CEPT1. Lipids 37:663-672
  21. Iyengar, A., and Bearne, S.L.*, (2002) An assay for cytidine 5'-triphosphate synthetase glutaminase activity using high performance liquid chromatography. Anal. Biochem. 308:396-400. [PubMed]
  22. Byers D. M. and Shen, Z., (2002) Biochemical evidence against protein-mediated uptake of myristic acid in the bioluminescent marine bacterium Vibrio harveyi. Can. J. Microbiol. 48:933-939 [PubMed]
  23. Vukmirica, J., Nishimaki-Mogami, T., Tran, K., Shan, J., McLeod, R.S., Yuan, J., and Yao, Z., (2002) The N-linked oligosaccharides at the amino terminus of human apolipoprotein B are important for the assembly and secretion of the apolipoprotein B-containing very low density lipoproteins. J. Lipid Res. 43:1496-1507 [PubMed]
  24. Blouin C, Guillemette JG, Wallace CJ., (2002) Probing electrostatic interactions in cytochrome c using site-directed chemical modification. Biochem. Cell. Biol. 80(2):197-203 [PubMed]
  25. Boudreau, R.T.M., Sangster, S.M., Johnson, L.M., Dauphinee, S., Li, A.W. and Too, C.K.L., (2002) Implication of alpha4 phosphoprotein and rapamycin-sensitive mTOR pathway in prolactin receptor signalling. J. Endocrinology 173:493-506. [PubMed] [Article]
  26. Yanagisawa, L.L., Marchena, J., Xie, Z., Li, X., Poon, P.P., Singer, R.A., Johnston, G.C., Randazzo, P.A. and Bankaitis, V.A., (2002) Activity of specific lipid-regulated ADP ribosylation factor-GTPase activating proteins is required for Sec14p-dependent Golgi secretory function in yeast. Mol. Biol. Cell 13:2193-2206 [PubMed]
  27. Archibald, J. M. and Roger, A. J., (2002) Gene duplication and gene conversion shape the evolution of archaeal chaperonins. J. Mol. Biol. 316:1041-1050 [PubMed]
  28. Andersson, J. and Roger, A.J., (2002) Evolutionary analysis of the small subunit of glutamate synthase: Gene order conservation, gene fusions and prokaryote-to-eukaryote lateral gene transfers. Euk. Cell. 1:304-310
  29. Silberman, J.D., Simpson, A.G.B., Kulda, J., Cepicka, I., Hampl, V., Johnson, P.J. and Roger, A.J., (2002) Retortamonad flagellates are closely related to diplomonads and endash, implications for the history of mitochondrial function in eukaryote evolution. Mol. Biol. Evol. 19:777-786
  30. Simpson, A.G.B., Roger, A.J., Silberman, J.D., Leipe, D., Edgcomb, V.E., Jermiin, L.S. Patterson, D.J. and Sogin, M.L., (2002) Molecular phylogenies reveal a novel close relative for diplomonads, the excavate taxon Carpediemonas. Mol. Biol. Evol. 19:1782-1791
  31. Susko, E., Inagaki, Y., Field, C., Holder, M.E. and Roger, A.J., (2002) Testing for differences in rates across sites distributions in phylogenetic subtrees. Mol. Biol. Evol. 19:1514-1523
  32. Roger, A.J., and Silberman, J.D., (2002) Mitochondria in hiding. Nature 418:828-829
  33. Simpson, A.G.B., MacQuarrie, E. and Roger, A.J., (2002) Early origin of canonical introns. Nature 419:270
  34. Simpson, A.G.B. and Roger, A.J., (2002) Eukaryote evolution: Getting to the root of the problem. Curr. Biol. 12:R691-R693
  35. Howe, A.G., Zaremberg, V., and McMaster, C.R., (2002) Cessation of Growth to Prevent Cell Death Due to Inhibition of Phosphatidylcholine Synthesis is Impaired at 37C in Saccharomyces cerevisiae. J. Biol. Chem. 277:44100-44107
  36. Zaremberg, V., and McMaster, C.R., (2002) Differential Partitioning of Lipids Metabolized by Separate Yeast Glycerol-3-phosphate Acyltransferases Reveals that Phospholipase D Generation of Phosphatidic Acid Mediates Sensitivity to Choline-containing Lysolipids and Drugs. J. Biol. Chem. 277:39035-39044
  37. Scheid, M., Marignani PA., Woodgett J., (2002) Multiple Phosphoinositide-3-kinase dependent steps in the activation of protein kinase B. Molecular and Cellular Biology 22:6247-6260 [PubMed]
  38. Mehta, S., Yang, X.M., Chan, C.S., Dobson, M.J., Jayaram, M., and Velmurugan, S., (2002) The 2micron plasmid purloins the yeast cohesion complex: a mechanism for coupling plasmid partitioning and chromosome segregation? J. Cell Biol. 158:625-637 [PubMed]
  39. Keating, M.M., Gong, H., and Byers, D.M., (2002) Identification of a key residue in the conformational stability of acyl carrier protein. Biochim. Biophys. Acta 1601:208-214 [PubMed]
  40. Yan, S.R., Al-Hertani, W., Byers, D., and Bortolussi, R., (2002) Lipopolysaccharide-binding protein- and CD14-dependent activation of mitogen-activated protein kinase p38 by lipopolysaccharide in human neutrophils is associated with priming of respiratory burst. Infection and Immunity 70:4068-4074 [PubMed]
  41. St. Maurice, M., and Bearne, S.L.*, (2002) Kinetics and Thermodynamics of Mandelate Racemase Catalysis. Biochemistry 41:4048-4058. [PubMed]
  42. Archibald, J. M. and Roger, A. J., (2002) Gene conversion and the evolution of euryarchaeal chaperonins: a maximum likelihood-based method for detecting conflicting phylogenetic signal. J. Mol. Evol. 55:232-245 [PubMed]
  43. Archibald, J. M. and Keeling, P. J., (2002) Recycled plastids: a green movement in eukaryotic evolution. Trends Genet. 18:577-584 [PubMed]

Publications in 2001

  1. de Antueno, R. J., S. J. Allen, A. Ponton, M. D. Winther. , (2001) Activity and mRNA abundance of delta 5 and delta 6 fatty acid desaturases in two human cell lines. FEBS Lett. 491:247-251
  2. de Antueno, R.J., L. C. Knickle, H. Smith, M. Elliot, S. J. Allen, S. Nwaka and, M. D. Winther. , (2001) Multiple n-3 and n-6 polyunsaturated fatty acids are substrates for single human delta-5 and delta-6 desaturases. FEBS Lett. 509:77-80
  3. Poon, P.P., Cassel, D., Huber, I., Singer, R.A. and Johnston, G.C., (2001) Expression, analysis, and properties of yeast ADP-ribosylation factor (ARF) GTPase activating proteins (GAPs) Gcs1 and Glo3. Methods Enzymol. 329:317-324 [PubMed]
  4. Stechmann, A., (2001) Phylogenetic relationships of brachiopods within the Metazoa based on mitochondrial amino acid sequences. The Systematics Association Special Volume Series 63, Brachipods Past and Present, eds Brunton, C. H. C., Cocks, L. R. M. & Long, S. L. (eds.) Taylor and Francis, London:138-141
  5. Bernhard, D., Stechmann, A. , Foissner, W., Ammermann, D., Hehn, M. & Schlegel, M., (2001) Phylogenetic relationships within the class Spirotrichea (Ciliophora) inferred from small subunit rRNA gene sequences. Mol. Phyl. Evol. 21(1):86-92 [PubMed]
  6. Edgcomb, V.E., Roger, A.J., Simpson, A.G.B., Kysela, D.T. and Sogin, M.L., (2001) Evolutionary relationships among "jakobid" flagellates as indicated by alpha- and beta-tubulin phylogenies. Mol.Biol.Evol. 18:514-522
  7. Morrison, H.G., Roger, A.J., Nystul, T.G., Gillin, F.D. and Sogin, M.L., (2001) Giardia lamblia expresses a proteobacterial-like3 DnaK homologue. Mol.Biol.Evol. 18:530-541
  8. Klein, M., Friedrich, M., Roger, A.J., Hugenholtz, P., Fishbain, S., Abicht, H., Blackall, L.L., Stahl, D.A. and Wagner, M., (2001) Multiple lateral transfer events of dissimilatory sulfite reductase genes between major lineages of sulfate-reducing prokaryotes. J. Bact. 183:6028-6035
  9. Parrish JC, Guillemette JG, Wallace CJ., (2001) Contribution of leucine 85 to the structure and function of Saccharomyces cerevisiae iso-1 cytochrome c. Biochem Cell Biol. 79(4):517-24 [PubMed]
  10. Choi, K. S. S. L. Fitzpatrick N. R. Filipenko D. K. Fogg G. Kassam A. M. Magliocco & D. M. Waisman., (2001) Regulation of plasmin-dependent fibrin clot lysis by annexin II heterotetramer. J.Biol.Chem. 276:25212-25221 [PubMed]
  11. Filipenko, N. R. H. M. Kang & D. M. Waisman., (2001) Characterization of the Ca2+-binding sites of annexin II tetramer. J.Biol.Chem. 276:3718-PM [PubMed]
  12. Filipenko, N. R. and D. M. Waisman., (2001) The C-terminus of annexin II mediates binding to f-actin. J.Biol.Chem. 276:5310-5315 [PubMed]
  13. Kassam, G. M. Kwon C. S. Yoon K. S. Graham M. K. Young S. Gluck & D. M. Waisman., (2001) Purification and characterization of A_61 ,.an angiostatin-like plasminogen fragment produced by plasmin autodigestion in the absence of sulfhydryl donors J.Chem.Biol. 276:8924-8933 [PubMed]
  14. Kwon, M. C. S. Yoon S. Fitzpatrick G. Kassam K. S. Graham M. K. Young & D. M. Waisman., (2001) p22 is a novel plasminogen fragment with antiangiogenic activity. Biochemistry 40:13246-13253 [PubMed]
  15. Bearne, S.L.*, Hekmat, O., and MacDonnell, J.E., (2001) Inhibition of Escherichia coli CTP synthase by glutamate gamma-semialdehyde and the role of the allosteric effector GTP in glutamine hydrolysis. Biochem. J. 356:223-232. [PubMed]
  16. Bearne, S.L.*, White, R.L.*, MacDonnell, J.E., Bahrami, S., and Gronlund, J., (2001) Purification and characterization of beta-methylaspartase from Fusobacterium varium. Mol. Cell. Biochem. 221:117-126. [PubMed]
  17. Becker, L., McLeod, R.S., Marcovina, S.M., Yao, Z., and Koschinsky, M.L. , (2001) Identification of a critical lysine residue in apoB100 which is required for lipoprotein (a) assembly. J. Biol. Chem. 276:36155-36162 [PubMed]
  18. Ko, K.W.S., Avramoglu, R.K., McLeod, R.S., Vukmirica, J., and Yao, Z. , (2001) The insulin-stimulated cell surface presentation of low density lipoprotein receptor-related protein in 3T3-L1 adipocytes is sensitive to phosphatidylinositide 3-kinase inhibition. Biochemistry 40:752-759 [PubMed]
  19. Blouin, C., Guillemette, J.G., Wallace, C., (2001) Resolving the individual components of a pH-induced conformational change. Biophys J. 81(4):2331-2338. [PubMed]
  20. Tuominen, E.K.J., Zhu, K., Wallace, C.J.A., Clark-Lewis, I., Craig, D.B., Rytomaa, M. and Kinnunen, P.K.J., (2001) ATP induces a conformational change in lipid-bound cytochrome c. J. Biol. Chem. 276:19356-19362 [PubMed]
  21. Blouin, C. and Wallace, C.J.A., (2001) Protein matrix and dielectric effect in cytochrome c. J. Biol. Chem. 276:28814-28818 [PubMed]
  22. Parrish, J.C., Guillemette, J.G. and Wallace, C.J.A., (2001) A tale of two charges: distinct roles for an acidic and a basic amino acid in the structure and function of cytochrome c. Biochem. Cell. Biol. 79:83-91 [PubMed]
  23. Black, K.M., Clark-Lewis, I. and Wallace, C.J.A., (2001) The conserved tryptophan in cytochrome c: importance of the unique side chain features of the indole moiety. Biochem. J. 359:715-720 [PubMed]
  24. Johnson, L.M. and Too, C.K.L., (2001) Prolactin, interleukin-2 and FGF-2 stimulate expression, nuclear distribution and DNA-binding of rat homolog of pombe Cdc5 in Nb2 T lymphoma cells. Mol. Cell. Endocrinol. 184:151-161. [PubMed] [Article]
  25. Too, C.K.L., Vickaryous, N., Boudreau, R.T.M. and Sangster, S.M., (2001) Identification and nuclear localization of a novel prolactin and cytokine-responsive carboxypeptidase D. Endocrinology 142:1357-1367. [PubMed] [Article]
  26. Murphy, P.R., Limoges, M., Dodd, F., Boudreau, R.T.M., Too, C.K.L., (2001) FGF-2 stimulates endothelial nitric oxide synthase expression and inhibits apoptosis by a nitric oxide-dependent pathway in Nb2 lymphoma cells. Endocrinology 142:81-88. [PubMed] [Article]
  27. Poon, P.P., Nothwehr, S.F., Singer, R.A. and Johnston, G.C., (2001) The Gcs1 and Age2 ArfGAP proteins provide essential overlapping function for transport from the yeast trans-Golgi network. J. Cell Biol. 155:1239-1250 [PubMed]
  28. Brewster, N.K., Johnston, G.C. and Singer, R.A., (2001) A bipartite yeast SSRP1 analog comprised of Pob3 and Nhp6 proteins modulates transcription. Mol. Cell. Biol. 21:3491-3502 [PubMed]
  29. Kim, S., Muise, A.M., Lyons, P.J., Ro, H.-S., (2001) Regulation of adipogenesis by a transcriptional repressor that modulates MAPK. J. Biol. Chem. 276:10199-10206 [PubMed]
  30. Ro, H.-S., Kim, S.-W., Wu, D., Webber, C., and Nicholson, T.E., (2001) Gene structure and expression of the mouse adipocyte enhancer-binding protein. Gene 280:123-133 [PubMed]
  31. Henneberry, A.L., Lagace, T.A., Ridgway, N.D., and McMaster, C.R., (2001) Phosphatidylcholine Synthesis Influences the Diacylglycerol Homeostasis Required for Sec14p Dependent Golgi Function and Cell Growth. Mol. Biol. Cell 12:511-520
  32. Ohashi M., Kanai F., Tateishi K.,Taniguchi H., Marignani PA., Yoshida Y., Shiratori Y., Hamada H., Omata H., (2001) Target gene therapy for alpha-fetoprotein producing hepatocellularcarcinoma by E1B55k-attenuated adenovirus. BBRC 282:529-535 [PubMed]
  33. Marignani PA and Carpenter CL, (2001) Vav2 is required for cell spreading. Journal of Cell Biology 154:177-186 [PubMed]
  34. Marignani PA., Kanai F and Carpenter CL, (2001) LKB1 associates with Brg1 and is necessary for Brg1 induced growth arrest. Journal of Biological Chemistry 276:32415-32418 [PubMed]
  35. Archibald, J. M., Blouin , C. and Doolittle, W. F., (2001) Gene duplication and the evolution of group II chaperonins: implications for structure and function. Journal of Structural Biology 135:157-169
  36. Sengupta, A., Blomqvist, K., Pickett, A., Zhang, Y., Chew, J.S.K. and Dobson, M.J., (2001) Functional domains of yeast plasmid-encoded Rep proteins. J.Bacteriol. 183:2306-2315 [PubMed]
  37. Flaman, A.S., Chen, J.M., Van Iderstine, S.C., and Byers, D.M., (2001) Site-directed mutagenesis of acyl carrier protein reveals amino acid residues important for ACP structure and acyl-ACP synthetase activity. J. Biol. Chem. 276:35934-35939 [PubMed]
  38. Bonner, S., Yan, S.R., Byers, D.M., and Bortolussi, R., (2001) Activation of ERK 1 and 2 of the MAP kinase family by lipopolysaccharide requires plasma in neutrophils from adult and newborns. Infection and Immunity 69:3143-3149 [PubMed]
  39. Archibald, J. M., Cavalier-Smith, T., Maier, U-G. and Douglas, S., (2001) Molecular chaperones encoded by a reduced eukaryotic nucleus: the cryptomonad nucleomorph. J. Mol. Evol. 52:490-501 [PubMed]

Publications in 2000

  1. Clyburne, JAC and McMullen N, (2000) Unusual structures of main group organometallic compounds containing m-terphenyl ligands. Coordination Chemistry Reviews 210:73-99
  2. Kanai, F., Ohashi, M., Marignani, P. A., Shiratori, Y., Hamada, H., and Omata, M., (2000) Adenovirus-mediatd drug-sensitivity gene therapy for hepatocellular carcinoma. Methods Mol Med. 45:257-269 [PubMed] Methods Mol. Med. 45:257-269 [PubMed]
  3. Olendzenski, L., Liu, L., Zhaxybayeva, O., Murphey, R., Shin, D.G., and Gogarten, J.P. , (2000) Horizontal Transfer of Archaeal Genes into the Deinococcaceae: Detection by molecular and computer based approaches. Journal of Molecular Evolution 51:587-599 [PubMed]
  4. Baldauf, S.L., Roger, A.J., Wenk-Siefert, I. and Doolittle, W.F., (2000) A kingdom-level phylogeny of eukaryotes based on combined protein data. Science 290:972-977
  5. Fitzpatrick, S. L. G. Kassam A. Manro C. E. Braat P. Louie & D. M. Waisman., (2000) Fucoidan-Dependent Conformational Changes in Annexin II Tetramer. Biochemistry 39:2140-2148
  6. Fitzpatrick, S. L. G. Kassam K. S. Choi H.-M. Kang Fogg.D.K. & D. M. Waisman., (2000) Regulation of plasmin activity by annexin II tetramer. Biochemistry 39:1021-1028
  7. Mai, J. R. L. Finley, Jr. D. M. Waisman & B. F. Sloane., (2000) Human Procathepsin B Interacts with the Annexin II Tetramer on the Surface of Tumor Cells. J.Biol.Chem. 275:12806-12812 [PubMed]
  8. Mai, J. D. M. Waisman & B. F. Sloane., (2000) Cell surface complex of cathepsin B/annexin II tetramer in malignant progression. Biochim.Biophys.Acta 1477:215-230 [PubMed]
  9. Archibald, J.M., Logsdon, J.M. Jr., and Doolittle, W.F., (2000) Origin and evolution of eukaryotic chaperonins: phylogenetic evidence for ancient duplications in CCT genes Mol. Biol. Evol. 17:1456-1466 [PubMed]
  10. Bearne, S.L.*, and Blouin, C., (2000) Inhibition of Escherichia coli glucosamine-6-phosphate synthase by reactive intermediate analogues. The role of the 2-amino function in catalysis. J. Biol. Chem. 275:135-140. [PubMed]
  11. St. Maurice, M., and Bearne, S.L.*, (2000) Reaction intermediate analogues for mandelate racemase: interaction between Asn 197 and the alpha-hydroxyl of the substrate promotes catalysis. Biochemistry 39:13324-13335. [PubMed]
  12. Evans, Jr., T.C., Martin, D., Lolly, R., Panne, D., Sun, L., Ghosh, I., Chen, L., Benner, J., Liu, X.-Q., Xu, M.-Q., (2000) Protein trans-splicing and cyclization by naturally split intein from the dnaE gene of Synechocystis species PCC6803. J. Biol. Chem. 275:9091-9094 [PubMed]
  13. Wallace, C.J.A. and Clark-Lewis, I., (2000) Site-specific independent double-labelling of proteins with reporter atoms. Biochem. Cell. Biol. 78:79-86 [PubMed]
  14. Wallace, C.J.A., (2000) Protein Engineering by Semisynthesis. CRC Press Boca Raton. FL:
  15. Dodd, F., Limoges, M., Boudreau, R.T.M., Rowden, G., Murphy, P.R. and Too, C.K.L., (2000) L-arginine inhibits apoptosis via an NO-dependent mechanism in Nb2 lymphoma cells. J. Cell. Biochemistry 77:624-634. [PubMed] [Article]
  16. Kanai F., Marignani PA., Sarbassova D., Yagi R., Hall RA., Donowitz M., Hisaminato A., Fujiwara T., Ito Y., Cantley LC. and Yaffe MB., (2000) TAZ: a novel transcriptional co-activator regulated by interactions with 14-3-3 and PDZ domain proteins. Embo. J. 19:6778-6791 [PubMed]
  17. Liu, X.-Q., (2000) Protein-splicing intein: genetic mobility, origin, and evolution. Ann. Rev. Genet. 34:61-76 [PubMed]
  18. Thomas, L.N., Wright, A.S., Lazier, C.B., Cohen, P. and Rittmaster, R.S., (2000) Prostate Involution in Men Taking Finasteride Is Associated With Elevated Levels of Insulin-like Growth Factor Binding Proteins (IGFBPs)-2-4 and -5. The Prostate 42:203-210 [PubMed]
  19. Velmurugan, S., Yang, X., Chan, C, Dobson, M.J., and Jayaram, M., (2000) Partitioning of the 2µm circle plasmid of Saccharomyces cerevisiae: functional coordination with chromosome segregation and plasmid-encoded Rep protein distribution. J. Cell Biol. 149:553-566 [PubMed]

Publications in 1999

  1. de Antueno, R., M. Bai and M. Elliot., (1999) Tissue distribution and metabolism of gamma-linolenoyl-3-eicosapentaenoyl propane diol enterally or intravenously administered to mice bearing human pancreatic carcinomas. Anticancer Res. 19:2041-2048
  2. Stechmann, A. and Schlegel, M., (1999) Analysis of the complete mitochondrial DNA sequence of the brachiopod Terebratulina retusa places Brachiopoda within the protostomes. Proc. R. Soc. Lond. B 266(1433):2043-2052 [PubMed]
  3. He, G.-P., Kim, S. and Ro, H.-S., (1999) Cloning and characterization of a novel zinc finger transcriptional repressor. A direct role of the zinc finger motif in repression. J. Biol. Chem. 274:14678-14684 [PubMed]
  4. Archibald, J.M., Logsdon, J.M. Jr., and Doolittle, W.F., (1999) Recurrent paralogy in the evolution of archaeal chaperonins Curr. Biol. 9:1053-1056 [PubMed]
  5. Nicodeme, E., Benoist, F., McLeod, R.S., Yao, Z., Scott, J., Shoulders, C., and Grand-Perret, T. , (1999) Identification of domains in apolipoprotein B100 that confer a high requirement for the microsomal triglyceride transfer protein. J. Biol. Chem. 274:1986-1993 [PubMed]
  6. Bearne, S.L.*, St. Maurice, M., and Vaughan, M.D., (1999) An assay for mandelate racemase using high-performance liquid chromatography. Anal. Biochem. 269:332-336. [PubMed]
  7. Poon, P.P., Cassel, D., Spang, A., Rotman, M., Pick, E., Singer, R.A. and Johnston, G.C., (1999) Retrograde transport from the yeast Golgi is mediated by two ARF GAP proteins with overlapping function. EMBO J. 18:555-564 [PubMed]
  8. Park, J.-G., Muise, A.M., He, G.-P., Kim, S., Ro, H.-S., (1999) Transcriptional regulation by the gamma5 subunit of a heterotrimeric G protein during adipogenesis. EMBO J. 18:4004-4012 [PubMed]
  9. Muise, A.M., Ro, H.-S., (1999) Enzymatic characterization of a novel member of the regulatory B-like carboxypeptidase with transcriptional repression function: Stimulation of the enzymatic activity by its target DNA. Biochem. J. 343:341-345 [PubMed]
  10. Wright, A.S., Douglas, R.C., Thomas, L.N., Lazier, C.B. and Rittmaster, R.S., (1999) Androgen-induced regrowth in the castrated-rat ventral prostate: role of 5alpha-reductase. Endocrinology 140:4509-15 [PubMed]
  11. Rittmaster, R.S., Thomas, L.N., Wright, A.S., Murray, S.K., Carlson, K., Douglas, R.C., Yung, J., Messieh, M., Bell, D. and Lazier, C.B., (1999) The Utility of Tissue Transglutaminase as a Marker of Apoptosis During Treatment and Progression of Prostate Cancer. J. Urology 162:2165-2169 [PubMed]

Publications in 1998

  1. de Antueno,R., M. Elliot, M. Bai, J. Morton, P. Quiroga, M. Smith,T. Dowell, P. Redden and D. Horrobin., (1998) Diol lipids as novel compounds for n-6 and n-3 fatty acid delivery to cancer cells. In Essential Fatty Acids and Eicosanoids. Invited Papers from the 4th International Congress. R. Riemersma.R. Armstrong, R. Kelly and R. Wilson eds. AOCS press.Champaign, Illinois, USA : 32-38.
  2. Murray, L.E., Rowley, N., Dawes, I.W., Johnston, G.C. and Singer, R.A., (1998) A yeast glutamine tRNA signals nitrogen status for regulation of dimorphic growth and sporulation. Proc. Natl. Acad. Sci. U.S.A. 95:8619-8624 [PubMed]
  3. Edgell D.R., MALIK S.-B. and W.F. Doolittle., (1998) Evidence of independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases. Molecular Biology and Evolution. 15:1207 - 1217 [PubMed]
  4. Van der Spoel, A., Bonten, E. and d'Azzo, A., (1998) Transport of human lysosomal neuraminidase to mature lysosomes requires protective protein/cathepsin A. Embo J 17:1588-1597 [PubMed]
  5. Stechmann, A. , Schlegel, M. & Lynn, D. H. , (1998) Phylogenetic Relationships between Prostome and Colpodean Ciliates tested by Small Subunit rRNA Sequences. Mol. Phyl. Evol. 9(1):48-54 [PubMed]
  6. Brewster, N.K., Johnston, G.C. and Singer, R.A., (1998) Characterization of the CP complex, an abundant dimer of Cdc68 and Pob3 proteins that regulates yeast transcriptional activation and chromatin repression. J. Biol. Chem. 273:21972-21979 [PubMed]
  7. Evans, D.R.H., Brewster, N.K., Xu, Q., Rowley, A., Altheim, B.A., Johnston, G.C. and Singer, R.A., (1998) The yeast protein complex containing Cdc68 and Pob3 mediates core-promoter repression through the Cdc68 N-terminal domain. Genetics 150:1393-1405 [PubMed]
  8. Cavallo, D., McLeod, R.S., Rudy, D., Aiton, A., Yao, Z., and Adeli, K., (1998) Translocational efficiency and intracellular stability of apoB are inversely proportional to the length of the nascent polypeptide. J. Biol. Chem. 273:33397-33405 [PubMed]
  9. Nishikawa K., Toker A., Wong K., Marignani PA., Johannes F-J and Cantley LC., (1998) Association of protein kinase C with Type II phosphatidylinositol 4-kinase and Type I phosphatidyl-4-phosphate 5-kinase. Journal of Biological Chemistry 273:23126-23133 [PubMed]
  10. Wu, H., Hu, Z., and Liu, X.-Q., (1998) Protein trans-splicing by a split intein encoded in a split DnaE gene of Synechocystis sp. PCC6803. Proc. Natl. Acad. Sci. USA 95:9226-9231 [PubMed]
  11. Thomas, L.N., Cohen, P., Douglas, R.C., Lazier, C.B. and Rittmaster, R.S., (1998) Insulin like Growth Factor Binding Protein 5 is Associated with Involution of the Ventral Prostate in Castrated and Finasteride-Treated Rats. Prostate 35:273-278 [PubMed]

Publications in 1997

  1. de Antueno, R., M Elliot, G Ells, P Quiroga, K Jenkins and D Horrobin. , (1997) In vivo and in vitro biotransformation of the lithium salt of gamma-linolenic acid (LiGLA) by three human carcinomas. Br. J. Cancer. 75: 1812-1818
  2. Marignani PA, (1997) Effects of Omega-3 Polyunsaturated Fatty Acids on the Formation of sn-1,2-Diradylglycerol, Cytokine Secretion and Regulation of Protein Kinase C Activity. Doctoral Thesis, McMaster University, Canada :
  3. Sebaldt RJ and Marignani P., (1997) Diradylglycerol formation is altered by n-3 highly unsaturated fatty acids, with differences between eicosapentaenoic (EPA) and docosahexaenoic (DHA) acids. Adv Exp Med Biol. 400 :937-45 [PubMed]
  4. Wang, Y., McLeod, R. S., and Yao, Z., (1997) Normal activity of microsomal triglyceride transfer protein is required for the oleate-induced secretion of very low density lipoproteins containing apolipoprotein B from McA-RH7777 cells. J. Biol. Chem. 272:12272-12278 [PubMed]
  5. Morash, B.A., Lee, C.L.Y., Riddell, D.C. and Guernsey, D.L., (1997) Establishment and characterization of a renal cell carcinoma line from a patient with von Hippel-Lindau Syndrome. Cancer Genetics and Cell Genetics 96:50-57
  6. Yao, Z., Tran, K., and McLeod, R. S., (1997) Intracellular degradation of newly synthesized apolipoprotein B. J. Lipid Res. 38:1937-1953 [PubMed]

Publications in 1996

  1. Marignani PA and Sebaldt RJ, (1996) Formation of sn-1, 2-diradylglycerol following eicosapentaenoic and docosahexaenoic ethyl ester supplementation in vivo. FASEB Journal 10(3):4171
  2. Marignani PA and Sebaldt RJ, (1996) Molecular species fractionation of diradylglycerol. Journal of Nutrition 126 (11):2943
  3. Schlegel, M., Lom, J., Stechmann, A. , Bernhard, D., Leipe, D., Dykova, I. & Sogin, M. L. , (1996) Phylogenetic Analysis of Complete Small Subunit Ribosomal RNA Coding Region of Myxidium lieberkuehni : Evidence that Myxozoa are Metazoa and Related to the Bilateria. Arch. Protistenkd. 147:1-9
  4. Wang, S., McLeod, R. S., Gordon, D. A., and Yao, Z., (1996) The microsomal triglyceride transfer protein facilitates assembly and secretion of apolipoprotein B-containing lipoproteins and decreases intracellular proteolytic cleavage of newly synthesized apolipoprotein B in transfected COS cells. J. Biol. Chem. 271:14124-14133 [PubMed]
  5. Poon, P.P., Wang, X., Rotman, M., Huber, I., Cukierman, E., Cassel, D., Singer, R.A. and Johnston, G.C., (1996) Saccharomyces cerevisiae Gcs1 is an ADP-ribosylation factor GTPase-activating protein. Proc. Natl. Acad. Sci. USA 93:10074-10077 [PubMed]
  6. Wang, X., Hoekstra, M.F., DeMaggio, A.J., Dhillon, N., Vancura, A., Kuret, J., Johnston, G.C. and Singer,R.A., (1996) Prenylated isoforms of yeast casein kinase I, including the novel Yck3p, suppress the gcs1 blockage of cell proliferation from stationary phase. Mol. Cell. Biol. 16:5375-5385 [PubMed]
  7. McLeod, R. S., Wang, Y., Wang, S., Rusiol, A., Links, P., and Yao, Z., (1996) Apolipoprotein B sequence requirements for hepatic very low density lipoprotein assembly. Evidence that discrete hydrophobic sequences within apolipoprotein B48 mediate lipid recruitment. J. Biol. Chem. 271:18445-18455 [PubMed]
  8. Marignani PA and Sebaldt RJ., (1996) n-3 polyunsaturated fatty acid-induced changes in diradylglycerol molecular species in murine peritoneal macrophages remain stable during incubation ex vivo. Lipids 31:771-776 [PubMed]
  9. Marignani PA and Sebaldt RJ., (1996) The formation of diradylglycerol molecular species in murine peritoneal macrophages varies dose-dependently with purified eicosapentaenoic and docosahexaenoic ethyl esters. Journal of Nutrition 126:2738-2745 [PubMed]
  10. Marignani PA, Epand RM and Sebaldt RJ., (1996) Acyl chain dependence of diacylglycerol activation of protein kinase C activity in vitro. Biochemical and Biophysical Research Communication 225:469-473 [PubMed]
  11. MacKay, M.E., Raelson, J. and Lazier, C.B., (1996) Upregulation of Estrogen Receptor mRNA and Estrogen Receptor Activity by Estradiol in Liver of Rainbow Trout and Other Teleost Fish. Comp. Biochem. Physiol. C. 115(3):201-209 [PubMed]
  12. Wright, A.S., Thomas, L.N., Douglas, R.C., Lazier, C.B. and Rittmaster, R.L., (1996) Relative Potency of Testosterone and Dihydrotestosterone in Preventing Atrophy and Apoptosis in the Prostate of the Castrated Rat. J. Clin. Invest. 98:2558-2563 [PubMed]
  13. Lazier, C.B., Langley, S., Ramsey, B.N. and Wright, J.M., (1996) Androgen Inhibition of Vitellogenin Gene Expression in Tilapia (Oreochromis niloticus). Gen. Comp. Endocrinol. 104:321-329 [PubMed]

Publications in 1995

  1. Barnes, C.A., MacKenzie, M.M., Johnston, G.C. and Singer, R.A., (1995) Efficient translation of an SSA1-derived heat-shock mRNA in yeast cells limited for cap-binding protein and eIF-4F. Mol. Gen. Genet. 246:619-627 [PubMed]
  2. Prendergast, J.A., Singer, R.A., Rowley, N., Rowley, A., Johnston, G.C., Danos, M., Kennedy, B. and Gaber, R.F., (1995) Mutations sensitizing yeast cells to the Start inhibitor nalidixic acid. Yeast 11:537-547 [PubMed]
  3. Marignani PA. and Sebaldt RJ., (1995) Formation of second messenger diradylglycerol in murine peritoneal macrophages is altered after in vivo (n-3) polyunsaturated fatty acid supplementation. J Nutr. 125(12):3030-40. [PubMed]
  4. Xu, Q., Singer, R.A. and Johnston, G.C., (1995) Sug1 modulates yeast transcription activation by Cdc68. Mol. Cell. Biol. 15:6025-6035 [PubMed]
  5. He, G.-P., Muise, A.M., Wu-Li, A., Ro, H.-S., (1995) A eukaryotic transcriptional repressor with carboxypeptidase activity. Nature 378:92-96 [PubMed]
  6. Rittmaster, R.S., Manning, A.P., Whitefield, S., Norman, R.W., Lazier, C.B. and Rowden, G.R., (1995) Evidence for Atrophy and Apoptosis in the Ventral Prostate of Rats given the 5alpha-Reductase Inhibitor Finasteride. Endocrinology 136:741-748 [PubMed]

Publications in 1994

  1. Mills, M.E., , R. de Antueno and J. Scholey., (1994) Interactions of dietary fatty acids and cyclosporine A in the borderline hypertensive rat: Tissue fatty acids. Lipids 29:27-32
  2. de Antueno,R.J., M. Elliot and D. Horrobin. , (1994) Liver delta-5 and delta-6 desaturase activity differs among laboratory rat strains. Lipids 29:327-331
  3. de Antueno, R.J., R.C. Cantrill, Y-S Huang, G.W. Ells, M. Elliot and D. Horrobin., (1994) Metabolism of n-6 fatty acids by NIH-3T3 cells transfected with the ras oncogene. Mol. Cell. Biochem. 139 :71-81
  4. Evans, D.R.H., Singer, R.A., Johnston, G.C. and Wheals, A.E., (1994) Cell-cycle mutations among the collection of Saccharomyces cerevisiae dna mutants. FEMS Microbiol. Lett. 116:147-154 [PubMed]
  5. McLeod, R., Robbins, C., Burns, A., Yao, Z. and Pritchard P.H., (1994) Deletion of the propeptide of apolipoprotein A-I impairs exit of nascent apolipoprotein A-I from the endoplasmic reticulum. Biochem. J. 302:641-648 [PubMed]
  6. McLeod, R. S., Zhao, Y., Selby, S.L., Westerlund, J. and Yao, Z., (1994) Carboxyl terminal truncation impairs lipid recruitment by apolipoprotein B100 but does not affect secretion of the truncated apolipoprotein B-containing lipoproteins. J. Biol. Chem. 269:2852-2862 [PubMed]
  7. Yao, Z., and McLeod, R. S. , (1994) Synthesis and secretion of hepatic apolipoprotein B-containing lipoproteins. Biochim. et Biophys. Acta 1212:152-166 [PubMed]
  8. Ireland, L.S., Johnston, G.C., Drebot, M.A., Dhillon, N., DeMaggio, A.J., Hoekstra, M.F. and Singer, R.A., (1994) A member of a novel family of yeast 'Zn-finger' proteins mediates the transition from stationary phase to cell proliferation. EMBO J. 13:3812-3821 [PubMed]
  9. Corsten, P.G., Blight, C.E., Riddell, D.C. Hamilton, D.C. and Cole, D.E.C., (1994) Molecular Diagnosis of Cystic Fibrosis in Maritime Canada. Clin. Invest. Med. 17:1
  10. De Becker, I., Riddell, D.C., Dooley, J.M. and Tremblay, F., (1994) Correlation between electroretinogram findings and molecular analysis in the Duchenne muscular dystrophy phenotype. Brit. J. Ophth. 78:719-722
  11. Cole, D.E.C., Clarke, L.A., Riddell, D.C., Samson, K.A., Seltzer, W.K. and Salisbury, S., (1994) Congenital adrenal hypoplasia, Duchenne Muscular Dystrophy, and glycerol kinase deficiency: the importance of laboratory investigations in delineating a contiguous gene deletion syndrome. Clin. Chem. 40:2099-2103

Publications in 1993

  1. Poisson, J-P., Huang, Y-S., Mills, D.E., De Antueno R. J., Redden, P.R., Lin, X., Narce, M., and Horrobin D.F., (1993) Effect of salt-loading and spontaneous hypertension on in vitro metabolism of [1-14C]linoleic and [2-C14]dihomogammalinolenic acids Biochem. Med. Met. Biol. 49:57-66
  2. de Antueno. R.J., R.C. Cantrill, G.W. Ells, M. Elliot, Y-S Huang and D. Horrobin. , (1993) Metabolism of radiolabelled 18:2n-6 and 18:3n-6 by NIH-3T3 cells and DT subclone. Anticancer Res. 13: 973-978
  3. de Antueno, R.J., R.C. Cantrill, Y-S Huang, M. Elliot and D. Horrobin. , (1993) Relationship between mouse liver delta-9 desaturase activity and plasma lipids. . Lipids 28:285-290
  4. Rowley, A., Johnston, G.C., Butler, B., Werner-Washburne, M. and Singer, R.A., (1993) Heat shock-mediated cell cycle blockage and G1 cyclin expression in the yeast Saccharomyces cerevisiae. Mol. Cell. Biol. 13:1034-1041 [PubMed]
  5. Barnes, C.A., Singer, R.A. and Johnston, G.C., (1993) Yeast prt1 mutations alter heat-shock gene expression through transcript fragmentation. EMBO J. 12:3323-3332 [PubMed]
  6. Singer, R.A. and Johnston, G.C., (1993) MYO2/dilute myosin. Guidebook to the Cytoskeletal and Motor Proteins. T. Kreis and R. Vale (eds.) Oxford University Press, New York:204-206
  7. Drebot, M.A., Johnston, G.C., Friesen, J.D. and Singer, R.A., (1993) An impaired RNA polymerase II activity in Saccharomyces cerevisiae causes cell-cycle inhibition at START. Mol. Gen. Genet. 241:327-334 [PubMed]
  8. Briggs, P. and Helleiner, C. W., (1993) Correcting titration curves of weak acids and bases Biochemical Education 21(3):154-155
  9. Werner-Washburne, M., Braun, E., Johnston, G.C. and Singer, R.A., (1993) Stationary phase in the yeast Saccharomyces cerevisiae. Microbiol. Rev. 57:383-401 [PubMed]
  10. Xu, Q., Johnston, G.C. and Singer, R.A., (1993) The Saccharomyces cerevisiae Cdc68 transcription activator is antagonized by San1, a protein implicated in transcriptional silencing. Mol. Cell. Biol. 13:7553-7565 [PubMed]

Publications in 1992

  1. Cantrill, R.C., Ells, G., de Antueno. R.J.,Elliot, M., Raha, S.K., and Horrobin, D. , (1992) The effect of n-6 fatty acids on normal and v-Ki ras transformed NIH-3T3 cells Anticancer Res. 12:2197-2202
  2. de Antueno. R.J., Cantrill, R.C., Huang,Y-S, Raha, S.K., Elliot, M., and Horrobin, D. , (1992) Effect of n-3 and n-6 fatty acids on hepatic microsomal lipid metabolism: a time course study Mol. Cell. Biochem. 118:153-161
  3. Rowley, A., Johnston, G.C. and Singer, R.A., (1992) G1 cyclins regulate proliferation of the budding yeast Saccharomyces cerevisiae. Biochem. Cell Biol. 70:946-953 [PubMed]
  4. Filipak, M., Drebot, M.A., Ireland, L.S., Singer, R.A. and Johnston, G.C., (1992) Mitochondrial DNA loss by yeast reentry-mutant cells conditionally unable to proliferate from stationary phase. Curr. Genet. 22:471-477 [PubMed]

Publications in 1991

  1. M. G. de Bravo, R. J. de Antueno, J. Toledo, M. E. De Tomás, O. F. Mercuri, and C. Quintans, (1991) Effects of an eicosapentaenoic and docosahexaenoic acid concentrate on a human lung carcinoma grown in nude mice Lipids 26:866-870
  2. Johnston, G.C., Prendergast, J.A. and Singer, R.A., (1991) The Saccharomyces cerevisiae MYO2 gene encodes an essential myosin for vectorial transport of vesicles. J. Cell Biol. 113:539-551 [PubMed]
  3. Rowley, A., Singer, R.A. and Johnston, G.C., (1991) CDC68, a yeast gene that affects regulation of cell proliferation and transcription, encodes a protein with a highly acidic carboxyl terminus. Mol. Cell. Biol. 11:5718-5726 [PubMed]
  4. Rittmaster, R.S., Magor, K.E., Manning, A.P., Norman, R.W. and Lazier, C.B., (1991) Differential Effect of 5alpha-Reductase Inhibition and Castration on Androgen-Regulated Gene Expression in Rat Prostrate. Mol. Endocrinol. 5:1023-1029 [PubMed]

Publications in 1989

  1. R.J. de Antueno, M.G. de Bravo, J. Toledo, O. Mercuri, and M. E. De Tomas, (1989) In vitro effect of eicosapentaenoic and docosahexaenoic acids on prostaglandins E2 synthesis in a human lung carcinoma. Biochem. Int. 19:489-496
  2. M.I. Morano, R.J. de Antueno, G. Niedfeld and F.E. Estivariz. , (1989) Neuroendocrine alterations in nude mice with a human lung carcinoma producing pro-opiomelanocortin, corticotrophin-releasing hormone and arginine vasopressin. Clin. Endocrinol. 31:290-298

Publications in 1988

  1. R.J. de Antueno, G. Niedfeld, M. E. De Tomas, O. Mercuri, and L. Montoro. , (1988) Microsomal fatty acid desaturation and elongation in a human lung carcinoma grown in nude mice. Biochem. Int. 16:413-420