Recommended Readings: Gabriel D. Victora, Ph.D., Monday April 23, 2018

Monday Lectures

Monday, April 23, 2018  4:00 p.m.

Carson Family Auditorium

Gabriel D. Victora, Ph.D.

Laurie and Peter Grauer Assistant Professor and Head

Laboratory of Lymphocyte Dynamics

The Rockefeller University

Clonal and Cellular Dynamics of Antibody Evolution

Recommended Readings:

Science News

New tool for tracking ‘kiss-and-run’ communication between cells. January 30, 2018. ScienceDaily

Empirical Articles

Pasqual G, Chudnovskiy A, Tas JMJ, Agudelo M, Schweitzer LD, Cui A, Hacohen N, Victora GD. (2018). Monitoring T cell-dendritic cell interactions in vivo by intercellular enzymatic labelling. NATURE. 553 (7689): 496-500

Degn, Soren E.; van der Poel, Cees E.; Firl, Daniel J.; et al. (2017). Clonal Evolution of Autoreactive Germinal Centers. CELL. 170 (5): 913-+

Ersching, Jonatan; Efeyan, Alejo; Mesin, Luka; et al. (2017). Germinal Center Selection and Affinity Maturation Require Dynamic Regulation of mTORC1 Kinase. IMMUNITY. 46 (6): 1045-+

Amitai, Assaf; Mesin, Luka; Victora, Gabriel D.; et al. (2017). A Population Dynamics Model for Clonal Diversity in a Germinal Center. FRONTIERS IN MICROBIOLOGY. 8  

Tas, Jeroen M. J.; Mesin, Luka; Pasqual, Giulia; et al. (2016). Visualizing antibody affinity maturation in germinal centers. SCIENCE. 351 (6277): 1048-1054

Shulman, Ziv; Gitlin, Alexander D.; Targ, Sasha; et al. (2013). T Follicular Helper Cell Dynamics in Germinal Centers. SCIENCE. 341 (6146): 673-677

Victora, Gabriel D.; Dominguez-Sola, David; Holmes, Antony B.; et al. (2012). Identification of human germinal center light and dark zone cells and their relationship to human B-cell lymphomas. BLOOD. 120 (11): 2240-2248

Victora, Gabriel D.; Schwickert, Tanja A.; Fooksman, David R.; et al. (2010). Germinal Center Dynamics Revealed by Multiphoton Microscopy with a Photoactivatable Fluorescent Reporter. CELL. 143 (4): 592-605

Review Papers

Mesin, Luka; Ersching, Jonatan; Victora, Gabriel D. (2016). Germinal Center B Cell Dynamics. IMMUNITY. 45 (3): 471-482

Victora, Gabriel D.; Wilson, Patrick C. (2015). Germinal Center Selection and the Antibody Response to Influenza. CELL. 163 (3): 545-548

Victora, Gabriel D.; Mesin, Luka. (2014). Clonal and cellular dynamics in germinal centers. CURRENT OPINION IN IMMUNOLOGY. 28: 90-96 

Book Chapter

Victora, Gabriel D.; Nussenzweig, Michel C. (2012). Germinal Centers. ANNUAL REVIEW OF IMMUNOLOGY. 30: 429-457    

Recommended Readings: Michael P. Rout, Ph.D. Monday April 2, 2018

Monday Lectures

Monday, April 2, 2018  4:00 p.m.

Carson Family Auditorium

Michael P. Rout, Ph.D.


Laboratory of Cellular and Structural Biology

The Rockefeller University

A Hole New View: Structure-Function Mapping of the Nuclear Pore Complex

Recommended Readings:

Science News

March 15, 2018. Scientists map the portal to the cell’s nucleus. Science Daily.

Empirical Articles

Upla, Paula; Kim, Seung Joong; Sampathkumar, Parthasarathy; et al. (2017). Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex. STRUCTURE. 25 (3): 434-445

Hayama, Ryo; Rout, Michael P.; Fernandez-Martinez, Javier. (2017). The nuclear pore complex core scaffold and permeability barrier: variations of a common theme. CURRENT OPINION IN CELL BIOLOGY. 46: 110-118

Fernandez-Martinez, Javier; Kim, Seung Joong; Shi, Yi; et al. (2016). Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform. CELL. 167 (5): 1215-+

Raveh, Barak; Karp, Jerome M.; Sparks, Samuel; et al. (2016). Slide-and-exchange mechanism for rapid and selective transport through the nuclear pore complex. PNAS. 113 (18): E2489-E2497

Kim, Seung Joong; Fernandez-Martinez, Javier; Sampathkumar, Parthasarathy; et al. (2014). Integrative Structure-Function Mapping of the Nucleoporin Nup133 Suggests a Conserved Mechanism for Membrane Anchoring of the Nuclear Pore Complex. MOLECULAR & CELLULAR PROTEOMICS. 13 (11): 2911-2926

Wente, Susan R.; Rout, Michael P. (2010). The Nuclear Pore Complex and Nuclear Transport. COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY. 2 (10)

Review Papers

Field, Mark C.; Koreny, Ludek; Rout, Michael P. (2014). Enriching the Pore: Splendid Complexity from Humble Origins. TRAFFIC. 15 (2): 141-156

Strambio-De-Castillia, Caterina; Niepel, Mario; Rout, Michael P. (2010). The nuclear pore complex: bridging nuclear transport and gene regulation. NATURE REVIEWS MOLECULAR CELL BIOLOGY. 11 (7): 490-501

Book Chapter

Jovanovic-Talisman, Tijana; Chait, Brian T.; Rout, Michael P. (2014). NPC Mimics: Probing the Mechanism of Nucleocytoplasmic Transport. METHODS IN CELL BIOLOGY. 122: 379-393  

Recommended Readings: Sanford M. Simon, Ph.D. Monday March 19, 2018

Monday Lectures

Monday, March 19, 2018  4:00 p.m.

Carson Family Auditorium

Sanford M. Simon, Ph.D.

Professor and Head

Laboratory of Cellular Biophysics

The Rockefeller University

ESCRTing Viruses out of the Cell: Lessons from HIV-1

Recommended Readings:

Empirical Articles

Itano, Michelle S.; Arnion, Helene; Wolin, Sandra L.; et al. (2018). Recruitment of 7SL RNA to assembling HIV-1 virus-like particles. TRAFFIC. 19 (1): 36-43

Itano, Michelle S.; Bleck, Marina; Johnson, Daniel S.; et al. (2016). Readily Accessible Multiplane Microscopy: 3D Tracking the HIV-1 Genome in Living Cells. TRAFFIC. 17 (2): 179-186

Bleck, Marina; Itano, Michelle S.; Johnson, Daniel S.; et al. (2014). Temporal and spatial organization of ESCRT protein recruitment during HIV-1 budding. PNAS. 111 (33): 12211-12216

Jouvenet, Nolwenn; Zhadina, Maria; Bieniasz, Paul D.; et al. (2011). Dynamics of ESCRT protein recruitment during retroviral assembly. NATURE CELL BIOLOGY. 13 (4): 394-U124

Jouvenet, Nolwenn; Simon, Sanford M.; Bieniasz, Paul D. (2009). Imaging the interaction of HIV-1 genomes and Gag during assembly of individual viral particles. PNAS. 106 (45): 19114-19119

Jouvenet, Nolwenn; Bieniasz, Paul D.; Simon, Sanford M. (2008). Imaging the biogenesis of individual HIV-1 virions in live cells. NATURE. 454 (7201): 236-240

Review Papers

Jouvenet, Nolwenn; Simon, Sanford M.; Bieniasz, Paul D. (2011). Visualizing HIV-1 Assembly.  JOURNAL OF MOLECULAR BIOLOGY. 410 (4): 501-511

Book Chapter

Woolf, Steven H.; Purnell, Jason Q.; Simon, Sarah M.; et al. (2015). Translating Evidence into Population Health Improvement: Strategies and Barriers. ANNUAL REVIEW OF PUBLIC HEALTH. 36: 463-482


Recommended Readings: Luciano Marraffini, Ph.D., Friday October 20th, 2017

Friday Lectures

Friday, October 20, 2017  3:45 p.m.

Caspary Auditorium

Luciano Marraffini, Ph.D.

Associate Professor and Head

Laboratory of Bacteriology

The Rockefeller University

CRISPR-Cas, Acquired Immunity in Prokaryotes


Recommended Readings:

Niewoehner, Ole; Garcia-Doval, Carmela; Rostol, Jakob T.; et al. (2017). Type III CRISPR-Cas systems produce cyclic oligoadenylate second messengers.  NATURE. 548 (7669): 543-+

Modell, Joshua W.; Jiang, Wenyan; Marraffini, Luciano A. (2017). CRISPR-Cas systems exploit viral DNA injection to establish and maintain adaptive immunity. NATURE. 544 (7648): 101-+  

Marraffini, Luciano A. (2017). Sensing danger. PNAS. 114 (1): 15-16

Heler, Robert; Wright, Addison V.; Vucelja, Marija; et al. (2017). Mutations in Cas9 Enhance the Rate of Acquisition of Viral Spacer Sequences during the CRISPR-Cas Immune Response. MOLECULAR CELL. 65 (1): 168-175

Marraffini, Luciano A. (2015). CRISPR-Cas immunity in prokaryotes. NATURE. 526 (7571): 55-61

McGinn, Jon; Marraffini, Luciano A. (2016). CRISPR-Cas Systems Optimize Their Immune Response by Specifying the Site of Spacer Integration. MOLECULAR CELL. 64 (3): 616-623

Barrangou, Rodolphe; Marraffini, Luciano A. (2014). CRISPR-Cas Systems: Prokaryotes Upgrade to Adaptive Immunity. MOLECULAR CELL. 54 (2): 234-244

Cong, Le; Ran, F. Ann; Cox, David; et al. (2013). Multiplex Genome Engineering Using CRISPR/Cas Systems.  SCIENCE. 339 (6121): 819-823



Recommended Readings: Vincent A. Fischetti, Ph.D. April 24, 2017

Monday Lectures

Monday, April 17, 2017  3:45 p.m.

Carson Family Auditorium

Vincent A. Fischetti, Ph.D.

Professor and Head,

Laboratory of Bacterial Pathogenesis and Immunology

The Rockefeller University

Exploiting phage evolution for the development of novel therapeutics

Recommended Readings:

David Bautz. March 20th 2017. CFRX: Phase 2 Trial of CF-301 to Initiate in mid-2017.

Czaplewski, Lloyd; Bax, Richard; Clokie, Martha; et al. (2016). Alternatives to antibiotics-a pipeline portfolio review. LANCET INFECTIOUS DISEASES. 16(2): 239-251

Diez-Martinez, Roberto; De Paz, Hector D.; Garcia-Fernandez, Esther; et al. (2015). A novel chimeric phage lysin with high in vitro and in vivo bactericidal activity against Streptococcus pneumoniae. JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY. 70(6): 1763-1773

Bikard, David; Euler, Chad W.; Jiang, Wenyan; et al. (2014). Exploiting CRISPR-Cas nucleases to produce sequence-specific antimicrobials. NATURE BIOTECHNOLOGY. 32(11): 1146-1150

Schuch, Raymond; Lee, Han M.; Schneider, Brent C.; et al. (2014). Combination Therapy With Lysin CF-301 and Antibiotic Is Superior to Antibiotic Alone for Treating Methicillin-Resistant Staphylococcus aureus-Induced Murine Bacteremia. JOURNAL OF INFECTIOUS DISEASES. 209(9): 1469-1478

Pastagia, Mina; Schuch, Raymond; Fischetti, Vincent A.; et al. (2013). Lysins: the arrival of pathogen-directed anti-infectives. JOURNAL OF MEDICAL MICROBIOLOGY. 62:1506-1516

Gilmer, Daniel B.; Schmitz, Jonathan E.; Euler, Chad W.; et al. (2013). Novel Bacteriophage Lysin with Broad Lytic Activity Protects against Mixed Infection by Streptococcus pyogenes and Methicillin-Resistant Staphylococcus aureus. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY. 57(6): 2743-2750


Recommended Readings: Ian A. Wilson D. Phil., D. Sci., Friday February 10, 2017

Friday Lectures

Friday, February 10, 2017   3:45 p.m.

Caspary Auditorium

Ian A. Wilson  D. Phil., D.Sci.

Hansen Professor of Structural Biology, and

Chair, Dept. of Integrative Structural and Computational Biology

The Scripps Research Institute

Broad Neutralization of Influenza Viruses and

Implications for a Universal Vaccine and Therapy

Recommended Readings:

Dreyfus, Cyrille; Laursen, Nick S.; Kwaks, Ted; et al.  (2012). Highly Conserved Protective Epitopes on Influenza B Viruses.  SCIENCE, 337(6100): 1343-1348 

Walker, Laura M.; Huber, Michael; Doores, Katie J.; et al. (2011).  Broad neutralization coverage of HIV by multiple highly potent antibodiesNATURE , 477(7365): 466-U117

Ekiert, Damian C.; Friesen, Robert H. E.; Bhabha, Gira; et al. (2011).  A Highly Conserved Neutralizing Epitope on Group 2 Influenza A VirusesSCIENCE,  333(6044): 843-850 

Gottlieb, Tanya; Ben-Yedidia, Tamar.  (2014)  Epitope-based approaches to a universal influenza vaccine.  JOURNAL OF AUTOIMMUNITY.  54 (Special Issue: SI ):15-20 

He, Fang; Prabakaran, Mookkan; Kumar, Subaschandrabose Rajesh; et al. (2011), Monovalent H5 vaccine based on epitope-chimeric HA provides broad cross-clade protection against variant H5N1 viruses in miceANTIVIRAL RESEARCH,  105: 143-151 

Li, Zhuo; Gabbard, Jon D.; Mooney, Alaina; et al. (2013). Single-Dose Vaccination of a Recombinant Parainfluenza Virus 5 Expressing NP from H5N1 Virus Provides Broad Immunity against Influenza A Viruses.  JOURNAL OF VIROLOGY,  87(10): 5985-5993

Huber, Victor C.; Thomas, Paul G.; McCullers, Jonathan A. (2009).  A multi-valent vaccine approach that elicits broad immunity within an influenza subtypeVACCINE,  27(8): 1192-1200

Recommended Readings: Paul Bieniasz, Ph.D., December 14th

Monday Lecture Series
Monday, December 14, 2015
4:00 p.m., Carson Family Auditorium (CRC)

Paul Bieniasz, Ph.D.
Professor and Head,
Laboratory of Retrovirology,
The Rockefeller University and Aaron Diamond AIDS Research Center
Investigator, Howard Hughes Medical Institute

Retroviruses vs. Cells in Ancient and Modern Times

Recommended Reading

Empirical Articles

Busnadiego, I., Kane, M., Rihn, S. J., Preugschas, H. F., Hughes, J., Blanco-Melo, D., … & Wilson, S. J. (2014). Host and viral determinants of Mx2 antiretroviral activity. Journal of Virology, 88(14), 7738-7752. doi:10.1128/JVI.00214-14.

Hatziioannou, T., Del Prete, G. Q., Keele, B. F., Estes, J. D., McNatt, M. W., Bitzegeio, J., … & Bieniasz, P. D. (2014). HIV-1–induced AIDS in monkeys. Science, 344(6190), 1401-1405. doi:10.1126/science.1250761.

Kane, M., Yadav, S. S., Bitzegeio, J., Kutluay, S. B., Zang, T., Wilson, S. J., … & Bieniasz, P. D. (2013). MX2 is an interferon-induced inhibitor of HIV-1 infection. Nature, 502(7472), 563-566. doi:10.1038/nature12653.

Kutluay, S. B., Zang, T., Blanco-Melo, D., Powell, C., Jannain, D., Errando, M., & Bieniasz, P. D. (2014). Global changes in the RNA binding specificity of HIV-1 gag regulate virion genesis. Cell, 159(5), 1096-1109. doi:10.1016/j.cell.2014.09.057.

Rihn, S. J., Hughes, J., Wilson, S. J., & Bieniasz, P. D. (2015). Uneven genetic robustness of HIV-1 integrase. Journal of Virology, 89(1), 552-567. doi: 10.1128/JVI.02451-14.

Review Papers

Malim, M. H., & Bieniasz, P. D. (2012). HIV restriction factors and mechanisms of evasion. Cold Spring Harbor Perspectives in Medicine, 2(5), a006940.  doi:10.1101/cshperspect.a006940.

Recommended Readings: W. Ian Lipkin, M.D., May 29th

Friday Lecture Series
Friday, May 29, 2015
3:45 p.m., Caspary Auditorium

W. Ian Lipkin, M.D.
John Snow Professor of Epidemiology,
Mailman School of Public Health
Professor of Neurology and Pathology,
College of Physicians and Surgeons
Director, Center for Infection and Immunity, C
Columbia University

Small Game Hunting

Recommended Readings

Empirical Articles

Cox-Foster, D. L., Conlan, S., Holmes, E. C., Palacios, G., Evans, J. D., Moran, N. A., … & Lipkin, W. I. (2007). A metagenomic survey of microbes in honey bee colony collapse disorder. Science, 318(5848), 283-287.

Memish, Z. A., Mishra, N., Olival, K. J., Fagbo, S. F., Kapoor, V., Epstein, J. H., … & Lipkin, W. I. (2013). Middle East respiratory syndrome coronavirus in bats, Saudi Arabia. Emerging Infectious Diseases, 19(11), 1819-1823. doi:10.3201/eid1911.131172

Negredo, A., Palacios, G., Vázquez-Morón, S., González, F., Dopazo, H., Molero, F., … & Tenorio, A. (2011). Discovery of an ebolavirus-like filovirus in europe. PLoS Pathogens, 7(10), e1002304. doi:10.1371/journal.ppat.1002304

Palacios, G., Druce, J., Du, L., Tran, T., Birch, C., Briese, T., … & Lipkin, W. I. (2008). A new arenavirus in a cluster of fatal transplant-associated diseases. New England Journal of Medicine, 358(10), 991-998. doi:10.1056/NEJMoa073785

Review Papers

Lipkin, W. I. (2013). The changing face of pathogen discovery and surveillance. Nature Reviews Microbiology, 11(2), 133-141. doi:10.1038/nrmicro2949

Lipkin, W. I. (2010). Microbe hunting. Microbiology and Molecular Biology Reviews, 74(3), 363-377. doi:10.1128/MMBR.00007-10

Lipkin, W. I., & Anthony, S. J. (2015). Virus hunting. Virology. doi:10.1016/j.virol.2015.02.006

Recommended Readings: Carl H. June, M.D., May 22nd

Friday Lecture Series
Friday, May 22, 2015
3:45 p.m., Caspary Auditorium

Carl H. June, M.D.
Director, Translational Research Program,
Abramson Family Cancer Research Institute
Richard W. Vague Professor in Immunotherapy,
Perelman School of Medicine,
University of Pennsylvania

Adoptive Cell Therapy with Engineered T Cells

Recommended Readings

Empirical Articles

Grupp, S. A., Kalos, M., Barrett, D., Aplenc, R., Porter, D. L., Rheingold, S. R., … & June, C. H. (2013). Chimeric antigen receptor–modified T cells for acute lymphoid leukemia. New England Journal of Medicine, 368(16), 1509-1518.  doi:10.1056/NEJMoa1215134

Kalos, M., Levine, B. L., Porter, D. L., Katz, S., Grupp, S. A., Bagg, A., & June, C. H. (2011). T cells with chimeric antigen receptors have potent antitumor effects and can establish memory in patients with advanced leukemia. Science Translational Medicine, 3(95), 95ra73-95ra73. doi:10.1126/scitranslmed.3002842

Porter, D. L., Levine, B. L., Kalos, M., Bagg, A., & June, C. H. (2011). Chimeric antigen receptor–modified T cells in chronic lymphoid leukemia. New England Journal of Medicine, 365(8), 725-733. doi:10.1056/NEJMoa1103849

Review Papers

June, C. H., Maus, M. V., Plesa, G., Johnson, L. A., Zhao, Y., Levine, B. L., … & Porter, D. L. (2014). Engineered T cells for cancer therapy. Cancer Immunology, Immunotherapy, 63(9), 969-975. doi:10.1007/s00262-014-1568-1

Maus, M. V., Fraietta, J. A., Levine, B. L., Kalos, M., Zhao, Y., & June, C. H. (2014). Adoptive immunotherapy for cancer or viruses. Annual Review of Immunology, 32, 189-225. doi:10.1146/annurev-immunol-032713-120136

Recommended Readings: Stephen C. Harrison, Ph.D. November 21

Friday Lecture Series
Friday, November 21, 2014,
3:45 p.m., Caspary Auditorium

Stephen C. Harrison, Ph.D.
Giovanni Armenise-Harvard Professor of Basic Medical Sciences,
Professor of Biological Chemistry and Molecular Pharmacology,
Professor of Pediatrics,
Director of the Center for Molecular and Cellular Dynamics,
Harvard Medical School
Head of the Laboratory of Molecular Medicine,
Children’s Hospital, Boston
Howard Hughes Medical Institute

Molecular Mechanisms of Membrane Penetration When Viruses Enter Cells

Recommended Readings

Empirical Articles

Abdelhakim, A. H., Salgado, E. N., Fu, X., Pasham, M., Nicastro, D., Kirchhausen, T., & Harrison, S. C. (2014). Structural correlates of rotavirus cell entry. PLoS Pathogens, 10(9), e1004355. doi:10.1371/journal.ppat.1004355

Ivanovic, T., Choi, J. L., Whelan, S. P., van Oijen, A. M., & Harrison, S. C. (2013). Influenza-virus membrane fusion by cooperative fold-back of stochastically induced hemagglutinin intermediates. eLife, 2(1), e00333. doi:10.7554/eLife.00333

Schmidt, A. G., Xu, H., Khan, A. R., O’Donnell, T., Khurana, S., King, L. R., … Harrison, S. C. (2013). Preconfiguration of the antigen-binding site during affinity maturation of a broadly neutralizing influenza virus antibody. Proceedings of the National Academy of Sciences, 110(1), 264–269. doi:10.1073/pnas.1218256109

Review Article

Harrison, S. C. (2008). Viral membrane fusion. Nature Structural & Molecular Biology, 15(7), 690–698. doi:10.1038/nsmb.1456