Recommended Readings: Skip W. Virgin, M.D., Ph.D.

Friday Lecture Series

Pathogenic and Symbiotic Interactions between the Virome and the Genome:

New Paradigms and New Players

Skip W. Virgin, M.D., Ph.D.,

Edward Mallinckrodt Professor and chairman, department of pathology and immunology, professor of molecular microbiology and medicine, and director and principal investigator, Midwest Regional Center of Excellence for Biodefense and Emerging Infectious Diseases Research, Washington University School of Medicine

January 29, 2010

3:45 p.m.-5:00 p.m. (Refreshments, 3:15 p.m., Abby Lounge)

Caspary Auditorium

Recommended Articles:

Coil, A. L., Newman, J. A., Croton, D., Cooper, M. C., Davis, M., Faber, S. M., et al. (2008). The DEEP2 galaxy redshift Cadwell, K., Liu, J. Y., Brown, S. L., Miyoshi, H., Loh, J., Lennerz, J. K., et al. (2008). A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal paneth cells. Nature, 456(7219), 259-263

Barton, E. S., White, D. W., Cathelyn, J. S., Brett-McClellan, K. A., Engle, M., Diamond, M. S., et al. (2007). Herpesvirus latency confers symbiotic protection from bacterial infection. Nature, 447(7142), 326-329

Lenschow, D. J., Lai, C., Frias-Staheli, N., Giannakopoulos, N. V., Lutz, A., Wolff, T., et al. (2007). IFN-stimulated gene 15 functions as a critical antiviral molecule against influenza, herpes, and sindbis viruses. Proceedings of the National Academy of Sciences of the United States of America, 104(4), 1371-1376

Wang, F., Ma, Y., Barrett, J. W., Gao, X., Loh, J., Barton, E., et al. (2004). Disruption of erk-dependent type I interferon induction breaks the myxoma virus species barrier. Nature Immunology, 5(12), 1266-1274

Karst, S. M., Wobus, C. E., Lay, M., Davidson, J., & Virgin IV, H. W. (2003). STAT1-dependent innate immunity to a norwalk-like virus. Science, 299(5612), 1575-1578

Recommended Readings: Nicole Clay, Ph.D. Feb 8, 2010

Monday Lecture Series

MAMP-Activated Innate Immunity in Arabidopsis:

The Pathogen Recognition and Chemical Defense Systems

Nicole Clay, Ph.D.,

Post Doctoral Fellow, Department of Genetics, Harvard Medical School

Department of Molecular Biology, Massachusetts General Hospital

February 8, 2010

Welch Hall,  Level Two

4:00 p.m.-5:00 p.m

Recommended Review:

Chisholm ST; Coaker G; Day B; Staskawicz BJ.   2006.  Host-microbe interactions: Shaping the evolution of the plant immune response. CELL 124(4): 803-814

Recommended Articles:

Tsuda K;  Sato M; Stoddard T; Glazebrook J; Katagiri F.   2009.   Network Properties of Robust Immunity in Plants. PLOS GENETICS 5(12):article Number: e1000772

Saijo Y ;Tintor N; Lu XL; Rauf P; Pajerowska-Mukhtar K; Haweker H; Dong XN ; Robatzek S; Schulze-Lefert P.   2009.  Receptor quality control in the endoplasmic reticulum for plant innate immunity. EMBO JOURNAL 28(21):3439- 3449

Boller T, Felix G .  2009.  A Renaissance of Elicitors: Perception of Microbe-Associated Molecular Patterns and Danger Signals by Pattern-Recognition Receptors. ANNUAL REVIEW OF PLANT BIOLOGY 60: 379-406

Aslam SN, Erbs G, Morrissey KL, et al.  2009.  Microbe-associated molecular pattern (MAMP) signatures, synergy, size and charge: influences on perception or mobility and host defence responsesMOLECULAR PLANT PATHOLOGY 10(3):375-387

Miyashita M, Miyagawa H.  2008.  Plant pathogen recognition as a natural, original and simple model for chemogenomics: A brief overview of cell-based assays to screen for peptides acting as plant defense activators.   COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING 11(8): 647-652    Request from Markus Library

Chinchilla D; Bauer Z; Regenass M; Boller T; Felix G.  2006.   The Arabidopsis receptor kinase FLS2 binds flg22 and determines the specificity of flagellin perception. PLANT CELL 18(2): 465-476

Asai T.; Tena G; Plotnikova J; Wilmann MR; Chiu WL; Gomez-Gomez L: Boller T; Ausubel FM; Sheen j.  2002.  MAP kinase signaling cascade in Arabidopsis innate immunity. NATURE 415(6875):977-983

Recommended Readings: Claire Wyart Ph.D. Feb 1, 2010

Monday Lecture Series

Dynamic Control of Sensory Inputs Modulating Locomotion

in Awake Behaving Animals

Claire Wyart, Ph.D.,

Post Doctoral Fellow, Department of Molecular and Cell Biology

Helen Wills Neuroscience Center

University of California, Berkeley

February 1, 2010

Welch Hall,  Level Two

4:00 p.m.-5:00 p.m

Recommended readings:

Wyart C, Del Bene F, Warp E, et al.  2009.  Optogenetic dissection of a behavioural module in the vertebrate spinal cord. NATURE   461(7262):407-410

Miesenbock G.  2009.  The Optogenetic Catechism. SCIENCE   326(5951): 395-399

Arrenberg AB, Del Bene F, Baier H.  2009.  Optical control of zebrafish behavior with halorhodopsin. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA   106(42):17968-17973

Kramer RH, Fortin DL, Trauner D.  2009. New photochemical tools for controlling neuronal activity.  CURRENT OPINION IN NEUROBIOLOGY   19(5):544-552

Szobota S, Gorostiza P, Del Bene F, et al.  2007. Remote control of neuronal activity with a light-gated glutamate receptor. NEURON  54(4):535-545

Nash, Howard A.; Scott, Robert L.; Lear, Bridget C., et al.  2002.  An unusual cation channel mediates photic control of locomotion in Drosophila. Current Biology   12(24 ):2152-2158

Recommended Readings: Dennis W. Wolan, Ph.D. Jan 25, 2010

Monday Lecture Series

Directed Small Molecule Activation of Apoptotic Procaspases

Dennis W. Wolan, Ph.D.,

Post Doctoral Fellow, Department of Pharmaceutical Chemistry

University of California, San Francisco

January 25, 2010

Welch Hall,  Level Two

4:00p.m.-5:00 p.m

Recommended Articles:

Wolan DW, Zorn JA, Gray DC, et al.  2009.  Small-Molecule Activators of a Proenzyme SCIENCE 326( 5954): 853-858

Eisenstein M.  2010.  Caught in action. NATURE METHODS 7(1): 12-12

Chereau D, Zou H, Spada AP, et al.  2005.  A nucleotide binding site in caspase-9 regulates apoptosome activation.    BIOCHEMISTRY 44(13): 4971-4976

Wu JM, Gorman A, Zhou XH, et al.  2002.  Involvement of caspase-3 in photoreceptor cell apoptosis induced by in vivo blue light exposure. INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE 43(10): 3349-3354

Henzing AJ, Dodson H, Reid JM, et al.   2006.  Synthesis of novel caspase inhibitors for characterization of the active caspase proteome in vitro and in vivo .    JOURNAL OF MEDICINAL CHEMISTRY 49(26):7636-7645

Denault JB;  Drag M.;  Salvesen GS;  Alves J;  Heidt AB; Deveraux Q ; Harris JL .  2007.  Small molecules not direct activators of caspases. NATURE CHEMICAL BIOLOGY 3(9): 519-519

BOATRIGHT KM; Salveson GS.  2003.  Mechanisms of caspase activation. CURRENT OPINION IN CELL BIOLOGY 15: 725

BLANC C.  2000.  Caspase-3 is essential for procaspase-9 processing and cisplatin-induced apoptosis of MCF-7 breast cancer cells. CANCER RESEARCH 60 : 4386-4390

Recommended Readings: Sandra Faber, Ph.D.

Friday Lecture Series

A Room with a View: Perspectives from Earth on the Cosmos

Sandra Faber, Ph.D.,

Astronomer, University of California Observatories/Lick Observatory;

Professor of astronomy,

Department of astronomy and astrophysics, University of California, Santa Cruz

January 22, 2010

3:45 p.m.-5:00 p.m. (Refreshments, 3:15 p.m., Abby Lounge)

Caspary Auditorium

Recommended Articles:

Coil, A. L., Newman, J. A., Croton, D., Cooper, M. C., Davis, M., Faber, S. M., et al. (2008). The DEEP2 galaxy redshift survey: Color and luminosity dependence of galaxy clustering at z ∼ 1. Astrophysical Journal, 672(1), 153-176

Cooper, M. C., Newman, J. A., Weiner, B. J., Yan, R., Willmer, C. N. A., Bundy, K., et al. (2008). The DEEP2 galaxy redshift survey: The role of galaxy environment in the cosmic star formation history. Monthly Notices of the Royal Astronomical Society, 383(3), 1058-1078

Lotz, J. M., Davis, M., Faber, S. M., Guhathakurta, P., Gwyn, S., Huang, J., et al. (2008). The evolution of galaxy mergers and morphology at z < 1.2 in the extended groth strip. Astrophysical Journal, 672(1), 177-197

Graves, G. J., Faber, S. M., Schiavon, R. P., & Yan, R. (2007). Ages and abundances of red sequence galaxies as a function of liner emission-line strength. Astrophysical Journal, 671(1), 243-271

Faber, S. M., Willmer, C. N. A., Wolf, C., Koo, D. C., Weiner, B. J., Newman, J. A., et al. (2007). Galaxy luminosity functions to z∼ 1 from DEEP2 and COMBO-17: Implications for red galaxy formation. Astrophysical Journal, 665 (1 PART 1), 265-294

Noeske, K. G., Weiner, B. J., Faber, S. M., Papovich, C., Koo, D. C., Somerville, R. S., et al. (2007). Star formation in AEGIS field galaxies since z = 1.1: The dominance of gradually declining star formation, and the main sequence of star-forming galaxies. Astrophysical Journal, 660(1 II), L43-L46

Recommended Readings: Gaby Maimon, Ph.D. Feb 17 2010

Monday Lecture Series

Active Vision and Higher Brain Function in Drosophila melanogaster

Gaby Maimon, Ph.D.,

Post Doctoral Fellow, Division of Biology

California Institute of Technology

February 17, 2010

4:00p.m.-5:00 p.m.

Welch Hall, Level Two

Recommended Articles:

Maimon G, Straw AD, Dickinson MH.  2008.  A simple vision-based algorithm for decision making in flying Drosophila. CURRENT BIOLOGY 18(6): 464-470

Duistermars BJ, Chow DM, Frye MA.  2009.  Flies Require Bilateral Sensory Input to Track Odor Gradients in Flight. CURRENT BIOLOGY 19(15):1301-1307

Nordstrom K, O’Carroll DC.   2009.  Feature detection and the hypercomplex property in insects. TRENDS IN NEUROSCIENCES 32(7): 383-391

Yin Y, Chen NN, Zhang SX, et al.   2009.  Choice strategies in Drosophila are based on competition between olfactory memories. EUROPEAN JOURNAL OF NEUROSCIENCE 30(2): 279-288

Olsen SR, Wilson RI.   2008.  Cracking neural circuits in a tiny brain: new approaches for understanding the neural circuitry of Drosophila. TRENDS IN NEUROSCIENCES 31(10):512-520

Chow DM, Frye MA.  2008.  Context-dependent olfactory enhancement of optomotor flight control in Drosophila. JOURNAL OF EXPERIMENTAL BIOLOGY 211(15): 2478-2485

Cellular Mechanism for Dealing with Foreign DNA: APOBEC3 proteins

ScienceDaily (Jan. 14, 2010) — Researchers at the University of Minnesota have discovered a molecular security system in human cells that deactivates and degrades foreign DNA. This discovery could open the door to major improvements in genetic engineering and gene therapy technologies.  This research was published online by Nature Structural and Molecular Biology on Jan. 10.

Recommended Readings: Michael Rust, Ph.D., January 20, 2010

Monday Lecture Series

Lessons from the Cyanobacterial Circadian Clock

Michael Rust, Ph.D.,

Post Doctoral Fellow, FAS Center for Systems Biology

Harvard University

January 20, 2010

4:00p.m.-5:00 p.m.

Welch Hall, Level Two

Recommended Readings:

Rust MJ, Markson JS, Lane WS, et al.  2007.  Ordered phosphorylation governs oscillation of a three-protein circadian clock. SCIENCE 318(5851):809-812

Kreimer G.  2009.  The green algal eyespot apparatus: a primordial visual system and more? CURRENT GENETICS 55(1): 19-43

Hafner M, Koeppl H, Hasler M, et al.  2009.  ‘Glocal’ Robustness Analysis and Model Discrimination for Circadian Oscillators . PLOS COMPUTATIONAL BIOLOGY 5(10): Article Number: e1000534

Miyoshi F, Nakayama Y, Kaizu K, et al.  2007. A mathematical model for the Kai-protein-based chemical oscillator and clock gene expression rhythms in cyanobacteria.    JOURNAL OF BIOLOGICAL RHYTHMS 22(1): 69-80    Request article from Markus Library

Takigawa-Imamura H, Mochizuki A.  2006. Transcriptional autoregulation by phosphorylated and non-phosphorylated KaiC in cyanobacterial circadian rhythms.   JOURNAL OF THEORETICAL BIOLOGY 241(2):178-192    Request article from Markus Library.

Recommended Readings: Adam Martin, PhD Jan 13, 2010

Wednesday Lecture Series

Taking Steps to Develop: the Dynamic Forces that Drive Epithelial Invagination

Adam Martin, Ph.D.,

Post Doctoral Fellow, Department of  Molecular Biology

Princeton University

January 13, 2010

4:00p.m.-5:00 p.m.

Welch Hall, Level Two


Recommended articles:

Chesarone MA, DuPage AG, Goode BL.  2010.  Unleashing formins to remodel the actin and microtubule cytoskeletons .   NATURE REVIEWS MOLECULAR CELL BIOLOGY   11(1): 62-74  

Delon I, Brown NH.  2009.  The integrin adhesion complex changes its composition and function during morphogenesis of an epithelium.   JOURNAL OF CELL SCIENCE   122(23):4363-4374  

Fernandez-Gonzalez R, Simoes SD, Roper JC, et al.  2009.   Myosin II Dynamics Are Regulated by Tension in Intercalating Cells.  DEVELOPMENTAL CELL   17(5):736-743

Paluch E, Heisenberg CP.  2009.  Biology and Physics of Cell Shape Changes in Development.  CURRENT BIOLOGY  19(17 Sp. Iss. SI): R790-R799   

T Sawyer JK, Harris NJ, Slep KC, et al.  2009. The Drosophila afadin homologue Canoe regulates linkage of the actin cytoskeleton to adherens junctions during apical constrictionJOURNAL OF CELL BIOLOGY    186(1):57-73

Rauzi M, Lecuit T.  2009.  Closing in on Mechanisms of Tissue Morphogenesis    CELL  137(7):1183-1185   

Blanchard GB, Kabla AJ, Schultz NL, et al.  2009.  Tissue tectonics: morphogenetic strain rates, cell shape change and intercalation.  NATURE METHODS    6(6):458-U86

Mammoto A, Connor KM, Mammoto T, et al.  2009.  A mechanosensitive transcriptional mechanism that controls angiogenesis.   NATURE   457(7233):1103-U57

Mammoto A, Connor KM, Mammoto T, et al.   2008.  Mechanical control of tissue morphogenesis.  CIRCULATION RESEARCH    103(3):234-243   

Quintin S, Gally C, Labouesse M.  2008.  Epithelial morphogenesis in embryos: asymmetries, motors and brakes.  TRENDS IN GENETICS   24(5):221-230