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: Stuart H. Orkin M.D. January 6 2017

Friday Lectures

Friday, January 6,  3:45 p.m.

Caspary Auditorium

Stuart H. Orkin   M.D.

David G. Nathan Distinguished Professor of Pediatrics, Dana Farber Institute

The Human Fetal Globin Switch:

A Paradigm for Disease-related Common Genetic Variation in Regulatory Elements

Recommended Readings:

Bauer, Daniel E.; Kamran, Sophia C.; Lessard, Samuel; et al.  An Erythroid Enhancer of BCL11A Subject to Genetic Variation Determines Fetal Hemoglobin Level.  SCIENCE  342(6155): 253-257    OCT 11 2013  

Galarneau, Genevieve; Palmer, Cameron D.; Sankaran, Vijay G.; et al.  Fine-mapping at three loci known to affect fetal hemoglobin levels explains additional genetic variation.  NATURE GENETICS   42(12): 1049-1051   DEC 2010

Menzel, Stephan; Thein, Swee Lay.   Genetic architecture of hemoglobin F control. CURRENT OPINION IN HEMATOLOGY   16(3): 179-186   MAY 2009  PLEASE REQUEST FROM MARKUS LIBRARY

He, Yunyan; Lin, Weixiong; Luo, Jianming.  Influences of Genetic Variation on Fetal Hemoglobin. PEDIATRIC HEMATOLOGY AND ONCOLOGY   Volume: 28   Issue: 8   Pages: 708-717   Published:  NOV 2011   PLEASE REQUEST FROM MARKUS LIBRARY.

Orkin, Stuart H.  Recent advances in globin research using genome-wide association studies and gene editing. Annals of the New York Academy of Sciences   1368 : 5-10    2016

Recommended Readings: Frederick Cross Ph.D. Monday December 5, 2016

Monday Lectures

 December 5, 2016

4:00 p.m.  Carson Family Auditorium  CRC

Frederick Cross  Ph.D.

Professor,  Laboratory of Cell Cycle Genetics

The Rockefeller University

Evolution of Cell Cycle Control:

Branches and a Green Microbe

Recommended Readings:

Tulin, Frej; Cross, Frederick R.  Patching Holes in the Chlamydomonas Genome.  G3-GENES GENOMES GENETICS   6(7): 1899-1910   JUL 1 2016

Onishi, Masayuki; Pringle, John R.; Cross, Frederick R.   Evidence That an Unconventional Actin Can Provide Essential F-Actin Function and That a Surveillance System Monitors F-Actin Integrity in Chlamydomonas.  GENETICS    202(30): 977-+  MAR 2016

Tulin, Frej; Cross, Frederick R.   A Microbial Avenue to Cell Cycle Control in the Plant Superkingdom.   PLANT CELL   26(10): 4019-4038     OCT 2014

Cross, Frederick R.; Umen, James G.  The Chlamydomonas cell cycle   PLANT JOURNAL   82(3): 370-392   MAY 2015

Recommended Readings: Michael O’Donnell Ph.D. Monday December 12, 2016

Monday Lectures

 December 12, 2016

4:00 p.m.  Carson Family Auditorium  CRC

Michael O’Donnell  Ph.D.

HHMI Investigator, and Anthony and Judith Evnin Professor
Laboratory of DNA Replication

The Rockefeller University

The Eukaryotic Replisome

Recommended Readings:

O’Donnell, Mike; Li, Huilin   The Eukaryotic Replisome Goes Under the Microscope.  CURRENT BIOLOGY  26(6): R247-R256      MAR 21 2016

Yuan, Zuanning; Bai, Lin; Sun, Jingchuan; et al.   Structure of the eukaryotic replicative CMG helicase suggests a pumpjack motion for translocation.  NATURE STRUCTURAL & MOLECULAR BIOLOGY   23(3): 217-224     MAR 2016

Sun, Jingchuan; Shi, Yi; Georgescu, Roxana E.; et al.   The architecture of a eukaryotic replisome.   NATURE STRUCTURAL & MOLECULAR BIOLOGY    22(12): 976-982 DEC 2015

Georgescu, Roxana E.; Schauer, Grant D.; Yao, Nina Y.; et al.  Reconstitution of a eukaryotic replisome reveals suppression mechanisms that define leading/lagging strand operation.      ELIFE    4: e04988     APR 14 2015

O’Donnell, Michael; Langston, Lance; Stillman, Bruce  Principles and Concepts of DNA Replication in Bacteria, Archaea, and Eukarya .   COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY    5(7): a010108

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: Marcello Magnasco Ph.D. Monday October 31, 2016

Monday Lectures

Monday October 31, 2016   3:45 p.m.

Caspary Auditorium

Marcello Magnasco, Ph.D.

Professor, Mathematical Physics

The Rockefeller University

Recommended Readings:

Janik VM, and Slater PJB.  Vocal Learning in Mammals.  Advances in the Study of Behavior,   26:59-99     1997    Request through Markus Library at

Reiss D, and McCowan B.  Spontaneous Vocal Mimicry and Production by Bottle-nosed Dolphins (Tursiops truncatus) – evidence for vocal learning.   Journal of Comparative Psychology   107(3):301-312    Sept  1997

McCowan B, Hanser SF, and Doyle LR.  Quantitative Tools for Comparing Animal Communication Systems: information theory applied to bottlenose dolphin whistle repertoires.  Animal Behavior.  57:409-419    Feb 1999

Janik VM.  Cetacean Vocal Learning and Communication.  Current Opinion in Neurobiology.  28:60-65    Oct 2014

Luis AR, Couchinho MN, and dos Santos ME.   Quantitative Analysis of Pulsed Signals Emitted by Wild Bottlenose Dolphins.  PLoS One   11(7):e0157781      July 2016

Gruden P, White PR, Oswald JN, Barkley Y, Cerchio S, Lammers M,and  Baumann-Pickering S.   Differences in Oscillatory Whistles Produced by Spinner (Stenella longirostris) and Pantropical Spotted (Stenella attenuata) Dolphins.   Marine Mammal Science  32:520-534    April 2016

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: Joel E. Cohen Ph.D. Monday November 7 2016

Monday Lectures

Monday October 31, 2016   3:45 p.m.

Caspary Auditorium

Joel E. Cohen   Ph.D.

Abby Rockefeller Mauzé Professor of Populations

The Rockefeller University


Departments of International and Public Affairs;
Earth and Environmental Sciences; Ecology, Evolution and Environmental Biology; and Statistics of Columbia University

The Variation is the Theme:

Taylor’s law from Chagas Disease Vector Control to Tornado Outbreaks

Recommended Readings:

Taylor, L. R. Aggregation, variance and the mean.  Nature.  178:732-735    1961

Anderson, Sean C.; Cooper, Andrew B.; Dulvy, Nicholas K.   Ecological prophets: quantifying metapopulation portfolio effects. METHODS IN ECOLOGY AND EVOLUTION  4(10): 971-981      OCT 2013

Meng, Xu. Taylor’s power law: Before and after 50 years of scientific scrutiny.  ArXiv.      2011

Taylor, L. R. and I. P. Woiwod  Temporal Stability as a Density-Dependent Species Characteristic.  Journal of Animal Ecology.   49(1): 209-224   February 1980

Kalyuzhny, Michael; Schreiber, Yishai; Chocron, Rachel; et al.  Temporal fluctuation scaling in populations and communities. ECOLOGY.   95(6):1701-1709   JUN 2014

Recommended Readings: Jesse Ausubel M.A. October 10, 2016

Monday Lecture Series

Monday October 10, 2016   4 p.m.

Carson Family Auditorium

Jesse Ausubel, M.A.

Director and Senior Research Associate

Program for the Human Environment, The Rockefeller University

Nature Rebounds

Recommended Readings:

Donlan, J; Berger, J; Bock, CE; et al.  Re-wilding North America. NATURE   436 (7053):913-914    AUG 18 2005

Ausubel, Jesse H. and Paul E. Waggoner.  Dematerialization: Variety, caution, and persistence.  PNAS.   105(35):12774-12779.   June 2008.

Pearce, F and J. Ausubel.  Be green, think big. NEW SCIENTIST   189( 2536): 44-46 JAN 28 2006

Ausubel, Jesse H. and Paul E. Waggoner.  Assessing environmental changes in grasslandsSCIENCE  299(5614): 1844-1844      MAR 21 2003

Kauppi, Pekka E.; Ausubel, Jesse H.; Fang, Jingyun; et al.  Returning forests analyzed with the forest identity.  PNAS.  103(46): 17574-17579     NOV 14 2006

Recommended Readings: Mary Hynes, Ph.D., May 23

Monday Lecture Series
Monday, May 23, 2016
4:00 p.m., Carson Family Auditorium (CRC)

Mary Hynes, Ph.D.
Research Associate Professor,
Laboratory of Neural Specification and Development,
The Rockefeller University

Widespread Differential Expression of 3’ UTR and Cognate Coding Region Sequences in Neurons and Other Tissues

Recommended Readings:

Heiman, M., Kulicke, R., Fenster, R. J., Greengard, P., & Heintz, N. (2014). Cell type–specific mRNA purification by translating ribosome affinity purification (TRAP). Nature Protocols, 9(6), 1282-1291. doi: 10.1038/nprot.2014.085.

Kocabas, A., Duarte, T., Kumar, S., & Hynes, M. A. (2015). Widespread differential expression of coding region and 3′ UTR sequences in neurons and other tissues. Neuron, 88(6), 1149-1156. doi: 10.1016/j.neuron.2015.10.048.