Recommended Readings: Shixin Liu Ph.D. Monday November 14 2016

Monday Lectures

Monday November 14, 2016   3:45 p.m.

Caspary Auditorium

Shixin Liu   Ph.D.

Assistant Professor, The Rockefeller University

Laboratory of Nanoscale Biophysics and Biochemistry

Watching Biological Machines in Action

Recommended Readings:

 Liu, Shixin; Chistol, Gheorghe; Hetherington, Craig L.; et al.  A Viral Packaging Motor Varies Its DNA Rotation and Step Size to Preserve Subunit Coordination as the Capsid Fills.  CELL    157 (3):702-713     APR 24 2014

Chemla, Yann R.  High-Resolution, Hybrid Optical Trapping Methods, and Their Application to Nucleic Acid Processing Proteins.  BIOPOLYMERS   105(10): 704-714    OCT 2016

Ha, Taekjip.  Single-molecule methods leap aheadNATURE METHODS    11(10)1015-1018    OCT 2014

Guo, Peixuan; Grainge, Ian; Zhao, Zhengyi; et al.  Two classes of nucleic acid translocation motors: rotation and revolution without rotation. CELL AND BIOSCIENCE  4:54     SEP 16 2014

Casjens, Sherwood R.  The DNA-packaging nanomotor of tailed bacteriophages.  NATURE REVIEWS MICROBIOLOGY   9(9):647-657   SEP 2011

Chemla, YR; Aathavan, K; Michaelis, J; et al.  Mechanism of force generation of a viral DNA packaging motor. CELL   122(5 ): 683-692   : SEP 9 2005 

Recommended Readings: Elaine Fuchs PhD October 24, 2016

Monday Lecture Series

Monday October 24, 2016   3:45 p.m.

Caspary Auditorium

Elaine Fuchs, Ph.D.

Rebecca Lancefield Professor

Laboratory of Mammalian Cell Biology and Development

Skin Stem Cells in Silence, Action and Cancer

Recommended Readings:

Quist, S. R.; Eckardt, M.; Kriesche, A.; et al.  Expression of epidermal stem cell markers in skin and adnexal malignancies. BRITISH JOURNAL OF DERMATOLOGY   175(3):520-530     SEP 2016

 Holland, Jane D.; Klaus, Alexandra; Garratt, Alistair N.; et al.  Wnt signaling in stem and cancer stem cells.  CURRENT OPINION IN CELL BIOLOGY    25(2):254-264  APR 2013

Arwert, Esther N.; Hoste, Esther; Watt, Fiona M.    Epithelial stem cells, wound healing and cancer.  NATURE REVIEWS CANCER   12(3):170-180   MAR 2012

Blanpain, Cedric; Fuchs, Elaine  STEM CELL PLASTICITY Plasticity of epithelial stem cells in tissue regeneration.  SCIENCE   344(6189):1243-+  ( Article Number: 1242281)  JUN 13 2014

Hsu, Ya-Chieh; Li, Lishi; Fuchs, Elaine  Transit-Amplifying Cells Orchestrate Stem Cell Activity and Tissue Regeneration. CELL   157(4):935-949     MAY 8 2014

Fuchs, Elaine; Chen, Ting  A matter of life and death: self-renewal in stem cells.  EMBO REPORTS   14 (1): 39-48   JAN 2013 

Oshimori, Naoki; Fuchs, Elaine   The Harmonies Played by TGF-beta in Stem Cell Biology.    CELL STEM CELL   11(6):751-764    DEC 7 2012

Recommended Readings: Sean Brady, Ph.D., May 16

Monday Lecture Series
Monday, May 16, 2016
4:00 p.m., Carson Family Auditorium (CRC)

Sean Brady, Ph.D.
Tri-Institutional Associate Professor,
Evnin Associate Professor and Head,
Laboratory of Genetically Encoded Small Molecules,
The Rockefeller University
Early Career Scientist, Howard Hughes Medical Institute

Bioactive Metabolites from the Human Microbiome: Natural Cures or Snake Oil

Recommended Readings:

Cohen, L. J., Kang, H. S., Chu, J., Huang, Y. H., Gordon, E. A., Reddy, B. V. B., … & Brady, S. F. (2015). Functional metagenomic discovery of bacterial effectors in the human microbiome and isolation of commendamide, a GPCR G2A/132 agonist. Proceedings of the National Academy of Sciences, 112(35), E4825-E4834. doi: 10.1073/pnas.1508737112.

Charlop-Powers, Z., Milshteyn, A., & Brady, S. F. (2014). Metagenomic small molecule discovery methods. Current Opinion in Microbiology, 19, 70-75. doi: 10.1016/j.mib.2014.05.021.

Recommended Readings: Carolyn Bertozzi, Ph.D., June 3

Friday Lecture Series
Friday, June 3, 2016
3:45 p.m., Caspary Auditorium

Carolyn Bertozzi, Ph.D.,
Anne T. and Robert M. Bass Professor of Chemistry,
Professor of Chemical & Systems Biology and Radiology (By Courtesy),
Stanford University
Investigator, Howard Hughes Medical Institute

Precision Glycocalyx Editing for Cancer Immune Therapy

Recommended Readings:

Agarwal, P., Beahm, B. J., Shieh, P., & Bertozzi, C. R. (2015). Systemic fluorescence imaging of zebrafish glycans with bioorthogonal chemistry. Angewandte Chemie, 127(39), 11666-11672. doi: 10.1002/anie.201504249.

Agarwal, P., & Bertozzi, C. R. (2015). Site-specific antibody–drug conjugates: The nexus of bioorthogonal chemistry, protein engineering, and drug development. Bioconjugate Chemistry, 26(2), 176-192. doi: 10.1021/bc5004982.

Hudak, J. E., Canham, S. M., & Bertozzi, C. R. (2014). Glycocalyx engineering reveals a Siglec-based mechanism for NK cell immunoevasion. Nature Chemical Biology, 10(1), 69-75. doi: 10.1038/nchembio.1388.

Woods, E. C., Yee, N. A., Shen, J., & Bertozzi, C. R. (2015). Glycocalyx engineering with a recycling glycopolymer that increases cell survival in vivo. Angewandte Chemie, 127(52), 16008-16014. doi: 10.1002/anie.201508783.

Recommended Readings: Angelika Amon, Ph.D., May 27

Friday Lecture Series
Friday, May 27, 2016
3:45 p.m., Caspary Auditorium

Angelika Amon, Ph.D.
Kathleen and Curtis Marble Professor of Cancer Research,
Koch Institute for Integrative Cancer Research,
Massachusetts Institute of Technology
Investigator, Howard Hughes Medical Institute

The Causes and Consequences of Aneuploidy

Recommended Readings:

Sheltzer, J. M., Blank, H. M., Pfau, S. J., Tange, Y., George, B. M., Humpton, T. J., … & Amon, A. (2011). Aneuploidy drives genomic instability in yeast. Science, 333(6045), 1026-1030. doi: 10.1126/science.1206412.

Sheltzer, J. M., Torres, E. M., Dunham, M. J., & Amon, A. (2012). Transcriptional consequences of aneuploidy. Proceedings of the National Academy of Sciences, 109(31), 12644-12649. doi: 10.1073/pnas.1209227109.

Tang, Y. C., & Amon, A. (2013). Gene copy-number alterations: a cost-benefit analysis. Cell, 152(3), 394-405. doi: 10.1016/j.cell.2012.11.043.

Torres, E. M., Sokolsky, T., Tucker, C. M., Chan, L. Y., Boselli, M., Dunham, M. J., & Amon, A. (2007). Effects of aneuploidy on cellular physiology and cell division in haploid yeast. Science, 317(5840), 916-924. doi: 10.1126/science.1142210

Recommended Readings: Joseph Schlessinger, Ph.D., May 13

Friday Lecture Series
Friday, May 13, 2016
3:45 p.m., Caspary Auditorium

Joseph Schlessinger, Ph.D.
William H. Prusoff Professor and Chair,
Department of Pharmacology,
Yale School of Medicine

Cell Signaling by Receptor Tyrosine Kinases: From Basic Principles to Cancer Therapy

Recommended Readings:

Empirical Articles

Bae, J. H., Lew, E. D., Yuzawa, S., Tomé, F., Lax, I., & Schlessinger, J. (2009). The selectivity of receptor tyrosine kinase signaling is controlled by a secondary SH2 domain binding site. Cell, 138(3), 514-524. doi: 10.1016/j.cell.2009.05.028.

Chung, I., Akita, R., Vandlen, R., Toomre, D., Schlessinger, J., & Mellman, I. (2010). Spatial control of EGF receptor activation by reversible dimerization on living cells. Nature, 464(7289), 783-787. doi: 10.1038/nature08827.

Yuzawa, S., Opatowsky, Y., Zhang, Z., Mandiyan, V., Lax, I., & Schlessinger, J. (2007). Structural basis for activation of the receptor tyrosine kinase KIT by stem cell factor. Cell, 130(2), 323-334.

Review Papers

Lemmon, M. A., & Schlessinger, J. (2010). Cell signaling by receptor tyrosine kinases. Cell, 141(7), 1117-1134. doi: 10.1016/j.cell.2010.06.011.

Schlessinger, J. (2014). Receptor tyrosine kinases: legacy of the first two decades. Cold Spring Harbor Perspectives in Biology, 6(3), a008912. doi: 10.1101/cshperspect.a008912.

Recommended Readings: Tom A. Rapoport, Ph.D., May 6

Friday Lecture Series
Friday, May 6, 2016
3:45 p.m., Caspary Auditorium

Tom A. Rapoport, Ph.D.
Professor, Department of Cell Biology,
Harvard Medical School
Investigator, Howard Hughes Medical Institute

How an Organelle Gets into Shape

Recommended Readings:

Hu, J., Shibata, Y., Voss, C., Shemesh, T., Li, Z., Coughlin, M., … & Prinz, W. A. (2008). Membrane proteins of the endoplasmic reticulum induce high-curvature tubules. Science, 319(5867), 1247-1250. doi: 10.1126/science.1153634.

Shemesh, T., Klemm, R. W., Romano, F. B., Wang, S., Vaughan, J., Zhuang, X., … & Rapoport, T. A. (2014). A model for the generation and interconversion of ER morphologies. Proceedings of the National Academy of Sciences, 111(49), E5243-E5251. doi: 10.1073/pnas.1419997111.

Shibata, Y., Hu, J., Kozlov, M. M., & Rapoport, T. A. (2009). Mechanisms shaping the membranes of cellular organelles. Annual Review of Cell and Developmental, 25, 329-354. doi: 10.1146/annurev.cellbio.042308.113324.

Shibata, Y., Shemesh, T., Prinz, W. A., Palazzo, A. F., Kozlov, M. M., & Rapoport, T. A. (2010). Mechanisms determining the morphology of the peripheral ER. Cell, 143(5), 774-788. doi: 10.1016/j.cell.2010.11.007.

Shibata, Y., Voeltz, G. K., & Rapoport, T. A. (2006). Rough sheets and smooth tubules. Cell, 126(3), 435-439.

Recommended Readings: Mary Jeanne Kreek, M.D., May 2

Monday Lecture Series
Monday, May 2, 2016
4:00 p.m., Carson Family Auditorium (CRC)

Mary Jeanne Kreek, M.D.
Senior Attending Physician,
The Rockefeller University Hospital
Patrick E. and Beatrice M. Haggerty Professor and Head,
Laboratory of the Biology of Addictive Diseases,
The Rockefeller University

50th Anniversary of First Research Paper on Methadone Maintenance Treatment: Update on Molecular, Neurobiological, Behavioral, and Genetic Research

Recommended Readings:

Bond, C., LaForge, K. S., Tian, M., Melia, D., Zhang, S., Borg, L., … & Tischfield, J. A. (1998). Single-nucleotide polymorphism in the human mu opioid receptor gene alters β-endorphin binding and activity: possible implications for opiate addiction. Proceedings of the National Academy of Sciences, 95(16), 9608-9613.

Butelman, E. R., Yuferov, V., & Kreek, M. J. (2012). κ-opioid receptor/dynorphin system: genetic and pharmacotherapeutic implications for addiction. Trends in Neurosciences, 35(10), 587-596. doi:10.1016/j.tins.2012.05.005.

Dole, V. P., Nyswander, M. E., & Kreek, M. J. (1966). Narcotic blockade. Archives of Internal Medicine, 118(4), 304-309. doi:10.1001/archinte.1966.00290160004002

Kreek, M. J., Nielsen, D. A., Butelman, E. R., & LaForge, K. S. (2005). Genetic influences on impulsivity, risk taking, stress responsivity and vulnerability to drug abuse and addiction. Nature Neuroscience, 8(11), 1450-1457. doi:10.1038/nn1583

Reed, B., Butelman, E. R., Yuferov, V., Randesi, M., & Kreek, M. J. (2014). Genetics of opiate addiction. Current Psychiatry Reports, 16(11), 1-12. doi:10.1007/s11920-014-0504-6.

Recommended Readings: Tarun Kapoor, Ph.D., April 18

Monday Lecture Series
Monday, April 18, 2016
4:00 p.m., Carson Family Auditorium (CRC)

Tarun Kapoor, Ph.D.
Pels Family Professor and Head,
Selma and Lawrence Ruben Laboratory of Chemistry and Cell Biology,
The Rockefeller University

New Chemical Probes for Ribosome Biogenesis and Cytoskeleton Organization

Recommended Readings

Kasap, C., Elemento, O., & Kapoor, T. M. (2014). DrugTargetSeqR: a genomics-and CRISPR-Cas9–based method to analyze drug targets. Nature Chemical Biology, 10(8), 626-628. doi: 10.1038/nchembio.1551

See, S. K., Hoogendoorn, S., Chung, A. H., Ye, F., Steinman, J. B., Sakata-Kato, T., … & Chen, J. K. (2015). Cytoplasmic dynein antagonists with improved potency and isoform selectivity. ACS Chemical Biology, 11(1), 53-60. doi:10.1021/acschembio.5b00895

Shimamoto, Y., Forth, S., & Kapoor, T. M. (2015). Measuring pushing and braking forces generated by ensembles of kinesin-5 crosslinking two microtubules. Developmental Cell, 34(6), 669-681. doi:10.1016/j.devcel.2015.08.017

Recommended Readings: Rod MacKinnon, M.D., Ph.D., April 11

Monday Lecture Series
Monday, April 11, 2016
4:00 p.m., Carson Family Auditorium (CRC)

Rod MacKinnon, M.D., Ph.D.
John D. Rockefeller Jr. Professor and Head,
Laboratory of Molecular Neurobiology and Biophysics,
The Rockefeller University
Investigator, Howard Hughes Medical Institute

Some Experiments That Excite Me Right Now

Recommended Readings

Brohawn, S. G., Campbell, E. B., & MacKinnon, R. (2014). Physical mechanism for gating and mechanosensitivity of the human TRAAK K+ channel. Nature, 516(7529), 126-130. doi:10.1038/nature14013

Doyle, D. A., Cabral, J. M., Pfuetzner, R. A., Kuo, A., Gulbis, J. M., Cohen, S. L., … & MacKinnon, R. (1998). The structure of the potassium channel: molecular basis of K+ conduction and selectivity. Science, 280(5360), 69-77. doi:10.1126/science.280.5360.69

Hite, R. K., Yuan, P., Li, Z., Hsuing, Y., Walz, T., & MacKinnon, R. (2015). Cryo-electron microscopy structure of the Slo2. 2 Na+-activated K+ channel. Nature, 527(7577), 198-203.  doi:10.1038/nature14958

MacKinnon, R. (2004). Potassium channels and the atomic basis of selective ion conduction (Nobel Lecture). Angewandte Chemie, 43(33), 4265-4277.