A sample of recent student first-author publications.
Analysis of the
low level HIV-1 viremia that persists in patients on highly
active antiretroviral has shown that in some patients most
of the plasma virus consists of a single dominant clone. The
figure shows a phylogenetic tree of sequences from one such
patient. The colored triangles in the large box represent independent
isolates with identical sequence obtained at different time
points. The cellular source of this predominant plasma clone
is an as yet unidentified cell type capable of proliferative
expansion following infection. Based on work done by BCMB student
Tim Brennan in Robert Siliciano’s lab, art work by Catherine
Delphia. |
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Reichl, E.M. and D.N. Robinson. (2007) Putting the brakes on cytokinesis with alpha-actinin. Dev. Cell. 13(4):460-462.
Sbodio, J.I. and Machamer, C.E. (2007). Identification of a redox-sensitive cysteine in GCP60 that regulates its interaction with golgin-160. J Bio Chem. 282 (41):29874-29881.
Hughes, A.L., Lee, C.Y., Bien, C.M. and Espenshade, P.J. (2007). 4-Methyl sterols regulate fission yeast SREBP-Scap under low oxygen and cell stress. J. Biol. Chem. 282 (33):24388-96.
Yarrington, R.M., Chen ,J., Bolton, E.C. and Boeke, J.D.(2007). Mn2+ suppressor mutations and biochemical communication between Ty1 reverse transcriptase and RNase H domains. J Virol. 81(17):9004-12. Epub 2007 May 30.
Carroll, K.L., Ghirlando, R., Ames, J.M. and Corden, J.L. (2007). Interaction of yeast RNA-binding proteins Nrd1 and Nab3 with RNA polymerase II terminator elements. RNA. 13: 1-13.
Rodgers, J.T. and Puigserver, P. (2007). Receptor feasts on sugar and cholesterol. Nature Med. 13, 128-129.
Gerhart-Hines, Z., Rodgers, J.T., Bare, O., Lerin, C., Kim, S.H., Mostoslavsky, R., Alt, F.W., Wu, Z., and Puigserver, P. (2007). Metabolic control of muscle mitochondrial function and fatty acid oxidation through SIRT1/PGC-1alpha. EMBO J. 26(7):1913-23. Epub 2007 Mar 8.
Law, J.A., O’Hearn, S.F. and Sollner-Webb, B. (2007). In Trypanosoma brucei RNA editing, TbMP18 (band-VII) is critical for editosome integrity and for both U-insertional and U-deletional cleavages. Mol Cell Biol. 27(2):777-87. Epub 2006 Nov 13.
Nicholson, M.G., Barber, S.A. and Clements, J.E. (2007). The SIVmac239 Pr55(Gag) isoform, SIV p43, suppresses proteolytic cleavage of Pr55(Gag). Virology. 360(1):84-91. Epub 2006 Nov 7.
Hughes, A.L., Powell, D.W., Bard, M., Eckstein, J., Barbuch, R., Link, A.J. and Espenshade, P.J. (2007). Dap1/PGRMC1 binds and regulates cytochrome P450 enzymes. Cell Metab. 5(2):143-9.
Han, Y., Wind-Rotolo, M., Yang, H-C., Siliciano, J.D. and Siliciano, R.F. (2007). Experimental approaches to the study of HIV-1 latency. Nat Rev Microbiol. 5(2):95-106. Review.
Algire, M.A. and Lorsch, J.R. (2006). “Where to begin? The mechanism of translation initiation codon selection in eukaryotes. Curr Opin Chem Biol. 10(5):480-6. Epub 2006 Aug 28. Review
Rodgers, J.T. and Puigserver, P. (2006). Certainly can't live without this: SIRT6. Cell Met. 3, 77-78.
Maag, D., Algire, M. A. and Lorsch, J.R. (2006). Communication between Eukaryotic Translation Initiation Factors 5 and 1A within the Ribosomal Pre-initiation Complex Plays a Role in Start Site Selection. J Mol Biol. 356(3):724-37. Epub 2005 Dec 15.
Pendleton, A.R. and Machamer, C.E. (2006). Differential localization and turnover of infectious bronchitis virus 3b protein in mammalian versus avian cells. Virology 345:337-345.
Coblitz, B., Wu, M., Shikano, S. and Li, M. (2006). C-terminal binding: an expanded repertoire and function of 14-3-3 proteins. FEBS Lett. 580(6):1531-5. Epub 2006 Feb 17. Review.
Nicholson, M.G., Barber, S.A. and Clements, J.E. (2007). The SIVmac239 Pr55(Gag) isoform, SIV p43, suppresses proteolytic cleavage of Pr55(Gag). Virology. 360(1):84-91. Epub 2006 Nov 7.
Huang, G. N.*, Zeng, W.*, Kim, J. Y., Yuan, J., Han, L., Muallem, S. and Worley, P. F. (2006). STIM1 C-terminus activates native SOCs, Icrac and TRPC1 channels. Nature Cell Biology. 8,1003-1010. * equal contribution.
Acker, M.G., Shin, B.S., Dever, T.E. and Lorsch, J.R. (2006). Interaction between Eukaryotic Initiation Factors 1A and 5B Is Required for Efficient Ribosomal Subunit Joining. J Biol Chem. 281(13):8469-75.
Booth, A.M., Fang, Y., Fallon, J.K., Yang, J.M., Hildreth, J.E. and Gould, S.J. (2006) Exosomes and HIV gag bud from endosome-like domains of the T cell plasma membrane. J Cell Biol. 172(6):923-35.
Sbodio, J.I., Hicks, S.W., Simon, D. and Machamer, C.E. (2006). GCP60 preferentially interacts with a caspase-generated Golgin-160 fragment. J Biol Chem. 281:27924-27931.
Chen, J., Rattner, A. and Nathans, J. (2006). Effects of L1 retrotransposon insertion on transcript processing, localization, and accumulation: lessons from the retinal degeneration 7 mouse and implications for the genomic ecology of L1 elements. Hum. Mol. Genet. 15:2146-2156.
Todd, B.L., Stewart, E.V., Burg, J.S., Hughes, A.L. and Espenshade, P.J. (2006). Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast. Mol Cell Biol. 26(7):2817-31.
McLellan, J.S., Yao, S., Zheng, X., Geisbrecht, B.V., Ghirlando, R., Beachy, P.A. and Leahy, D.J. (2006). Proc Natl Acad Sci U S A. 103(46):17208-13.
Kerman, B.K., Cheshire, A.M. and Andrew, D.J. (2006). From fate to function: the Drosophila trachea and salivary gland as models for tubulogenesis. Differentiation. 74: 326–348.
Tifft, K., Segura-Totten, M., Lee, K.K. and Wilson, K.L (2006). Barrier-to-autointegration factor-like (BAF-L): a proposed regulator of BAF. Exp Cell Res. 312(4):478-87.
Arigo, J.T., Carroll, K.L., Ames, J.M. and Corden, J.L. (2006). Regulation of yeast NRD1 expression by premature transcription termination. Mol Cell. 21(5):641-51.
Zhang, Y., Billington, C.J. Jr. and Pan, D. (2006). Neufeld TP. Drosophila target of rapamycin kinase functions as a multimer. Genetics. 172(1):355-62.
Nicholson, M.G., Rue, S.M., Clements, J.E. and Barber, S.A. (2006). An internal ribosome entry site promotes translation of a novel SIV Pr55(Gag) isoform. Virology. 349: 325-32.
Caples, M., Clements, J.E. and Barber, S.A. (2006). Protein Kinase CK2 phosphorylates the Nef protein of a neurovirulent Simian Immunodeficiency Virus. Virology. 348(1):156-64. Epub 2006 Jan 31.
Kulikowicz, T. and Shapiro, T.A. (2006). Distinct genes encode type II topoisomerases for the nucleus and mitochondrion in the protozoan parasite Trypanosoma brucei. J. Biol. Chem. 281(6):3048-56. Epub 2005 Nov 28.
Maag, D., Fekete, C. A., Gryczynski, Z. and Lorsch, J.R. (2005). A conformational change in the eukaryotic translation pre-initiation complex and release of eIF1 signal recognition of the start codon. Mol Cell. 17, 265-275.
Algire, M.A., Maag, D. and Lorsch, J.R. (2005). Pi release, not GTP hydrolysis, is the step controlled by start-site selection during eukaryotic translation initiation. Mol Cell. 20, 251-262.
Vining, M.S., Bradley, P.L., Comeaux, C. and Andrew,D.J. (2005). Organ positioning in Drosophila requires complex tissue-tissue interactions. Developmental Biology. 287(1):19-34.
Hyland, E.M., Cosgrove, M.S., Molina, H., Wang, D., Pandey, A., Cottee, R.J. and Boeke, J.D. (2005). Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae. Mol Cell Biol. 25(22):10060-70.
Coblitz, B. , Shikano, S., Wu, M., Gabelli, S.B., Cockrell, L.M., Spieker, M., Hanyu, Y., Fu, H., Amzel, L.M. and Li, M. (2005). C-terminal recognition by 14-3-3 proteins for surface expression of membrane receptors. J Biol Chem. 280(43):36263-72. Epub 2005 Aug 24.
Peyser, B.D. ., Irizarry, R.A., Tiffany, C.W., Chen, O., Yuan, D.S., Boeke, J.D. and Spencer, F.A. (2005). Improved statistical analysis of budding yeast TAG microarrays revealed by defined spike-in pools. Nucleic Acids Res. 33(16):e140.
Reichl, E.M. ., Effler, J. and Robinson, D.N. (2005). Stress and strain of cytokinesis. Trends Cell Biol. 15:200-206.
Maag, R.S., Mancini, M., Rosen, A. and Machamer, C.E. (2005). Caspase-resistant golgin-160 disrupts apoptosis induced by secretory pathway stress and ligation of death receptors. Mol Biol Cell. 16:3019-3027.
Abrams, E.W. . and Andrew, D. J. (2005). CrebA regulates secretory activity in the Drosophila salivary gland and epidermis Development .132:2743-2758.
Chung, M.K*., Guler, A.D.* , and Caterina, M.J. (2005). Biphasic currents evoked by chemical or thermal activation of the heat-gated ion channel, TRPV3. J Biol. Chem. 280: 15928-41.* equal contributors
Hicks, S.W. .and Machamer ,C.E. (2005). Isoform-specific interaction of golgin-160 with the Golgi-associated protein PIST. J Biol Chem. 280(32):28944-51. Epub 2005 Jun 10.
Mitochondrial
DNA poly- merase by BCMB student Tina
Saxowsky, and BCMB faculty member
Paul T. Englund |
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Hicks,S. .and Machamer ,C.E. (2005). C. Golgi structure in stress sensing and apoptosis. Biochim Biophys Acta. 1744(3):406-14.
Liu, X., . Noll, D.M., Lieb, J.D. and Clarke, N. D. (2005). DIP-chip: Rapid and accurate determination of DNA binding specificity. Genome Research. 15:421-427.
Brawley, C. and Matunis, E. (2004) Regeneration of male germline stem cells by spermatogonial dedifferentiation in vivo. Science. 304:5675, 1331-1334.
Han, J.S. and Boeke, J.D. (2004) A highly active synthetic mammalian retrotransposon. Nature. 429(6989):314-8.
Han, J.S., Szak, S.T. and Boeke, J.D. (2004) Transcriptional disruption by the L1 retrotransposon and implications for mammalian transcriptomes. Nature. 429(6989):268-74.
Sagar, V., Zheng, W., Thompson, P.R. and Cole, P.A. (2004) Bisubstrate analogue structure-activity relationships for p300 histone acetyltransferase inhibitors. Bioorg Med Chem. 12: 3383-3390.
Carroll,K.L., Pradhan, D.A., Granek, J.A., Clarke, N.D. and Corden, J.L. (2004) Identification of cis elements directing termination of yeast nonpolyadenylated snoRNA transcripts. Mol Cell Biol. 24(14):6241-52. |
