Recommended Readings: Jonathan Wiessman, Ph.D., January 21

Special Lecture Series
Wednesday, January 21, 2015
4:00 p.m., Carson Family Auditorium (CRC)

Jonathan S. Weissman, Ph.D.
Professor of Cellular and Molecular Pharmacology and of Biochemistry and Biophysics,
University of California, San Francisco School of Medicine
Howard Hughes Medical Institute

Monitoring Translation in Space and Time with Ribosome Profiling

Recommended Readings

Ingolia, N. T., Ghaemmaghami, S., Newman, J. R. S., & Weissman, J. S. (2009). Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling. Science, 324(5924), 218–223. doi:10.1126/science.1168978

Jan, C. H., Williams, C. C., & Weissman, J. S. (2014). Principles of ER cotranslational translocation revealed by proximity-specific ribosome profiling. Science, 346(6210), 1257521. doi:10.1126/science.1257521

Williams, C. C., Jan, C. H., & Weissman, J. S. (2014). Targeting and plasticity of mitochondrial proteins revealed by proximity-specific ribosome profiling. Science, 346(6210), 748–751. doi:10.1126/science.1257522

Recommended Readings: Rachel Green, Ph.D. December 10

Special Seminar Series
Wednesday, December 10, 2014
4:00 p.m., Carson Family Auditorium (CRC)

Rachel Green, Ph.D.
Department of Molecular Biology and Genetics,
Johns Hopkins University School of Medicine
Howard Hughes Medical Institute

Intimate Connections Between mRNA Decay and Translation

Recommended Readings

Empirical Articles

Djuranovic, S., Nahvi, A., & Green, R. (2012). miRNA-mediated gene silencing by translational repression followed by mRNA deadenylation and decay. Science, 336(6078), 237–240. doi:10.1126/science.1215691

Koutmou, K. S., McDonald, M. E., Brunelle, J. L., & Green, R. (2014). RF3:GTP promotes rapid dissociation of the class 1 termination factor. RNA, 20(5), 609–620. doi:10.1261/rna.042523.113

Shoemaker, C. J., Eyler, D. E., & Green, R. (2010). Dom34:Hbs1 promotes subunit dissociation and peptidyl-tRNA drop-off to initiate no-go decay. Science, 330(6002), 369–372. doi:10.1126/science.1192430

Shoemaker, C. J., & Green, R. (2011). Kinetic analysis reveals the ordered coupling of translation termination and ribosome recycling in yeast. Proceedings of the National Academy of Sciences, 108(51), E1392–8. doi:10.1073/pnas.1113956108

Review Papers

Dever, T. E., & Green, R. (2012). The elongation, termination, and recycling phases of translation in eukaryotes. Cold Spring Harbor Perspectives in Biology, 4(7), a013706. doi:10.1101/cshperspect.a013706

Shoemaker, C. J., & Green, R. (2012). Translation drives mRNA quality control. Nature Structural & Molecular Biology, 19(6), 594–601. doi:10.1038/nsmb.2301

Recommended Readings: Roland Beckmann, Ph.D. Monday, Nov 25

Monday, November 25, 2013
4:00 p.m., Carson Family Auditorium

Roland Beckmann, Ph.D.
Chair of Cellular Biochemistry
Gene Center Munich
Ludwig Maximilian University of Munich

Cryo-EM of ribosomal particles:
From ribosome biogenesis to protein translocation and quality control

Recommended Readings:

Empirical Articles

Anger, A. M., Armache, J.-P., Berninghausen, O., Habeck, M., Subklewe, M., Wilson, D. N., & Beckmann, R. (2013). Structures of the human and Drosophila 80S ribosome. Nature, 497(7447), 80–85. doi:10.1038/nature12104

Armache, J.-P., Jarasch, A., Anger, A. M., Villa, E., Becker, T., Bhushan, S., … Beckmann, R. (2010). Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution. Proceedings of the National Academy of Sciences of the United States of America, 107(46), 19748–19753. doi:10.1073/pnas.1009999107

Beckmann, R., Spahn, C. M., Eswar, N., Helmers, J., Penczek, P. a, Sali, a, … Blobel, G. (2001). Architecture of the protein-conducting channel associated with the translating 80S ribosome. Cell, 107(3), 361–372.

Ben-Shem, A., Garreau de Loubresse, N., Melnikov, S., Jenner, L., Yusupova, G., & Yusupov, M. (2011). The structure of the eukaryotic ribosome at 3.0 Å resolution. Science, 334(6062), 1524–1529. doi:10.1126/science.1212642

Leidig, C., Bange, G., Kopp, J., Amlacher, S., Aravind, A., Wickles, S., … Sinning, I. (2013). Structural characterization of a eukaryotic chaperone–the ribosome-associated complex. Nature structural & molecular biology, 20(1), 23–28. doi:10.1038/nsmb.2447

Review Papers

Klinge, S., Voigts-Hoffmann, F., Leibundgut, M., & Ban, N. (2012). Atomic structures of the eukaryotic ribosome. Trends in biochemical sciences, 37(5), 189–198. doi:10.1016/j.tibs.2012.02.007

Granneman, S., & Baserga, S. J. (2004). Ribosome biogenesis: of knobs and RNA processing. Experimental cell research, 296(1), 43–50. doi:10.1016/j.yexcr.2004.03.016

Schmeing, T. M., & Ramakrishnan, V. (2009). What recent ribosome structures have revealed about the mechanism of translation. Nature, 461(7268), 1234–1242. doi:10.1038/nature08403