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
Investigator,
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

Recommended Readings: Timothy Ryan, Ph.D. December 8

Monday Lecture Series
Monday, December 8, 2014,
4:00 p.m., Carson Family Auditorium (CRC)

Timothy Ryan, Ph.D.
Tri-Institutional Professor,
Department of Biochemistry,
Weill Cornell Medical College

How Synapses Regulate Their Diet: the Balance of Fuel Production and Expenditure and Single Synapses

Recommended Readings

Empirical Articles

Cottrell, J. R., Levenson, J. M., Kim, S. H., Gibson, H. E., Richardson, K. a, Sivula, M., … Gerber, D. J. (2013). Working memory impairment in calcineurin knock-out mice is associated with alterations in synaptic vesicle cycling and disruption of high-frequency synaptic and network activity in prefrontal cortex. The Journal of Neuroscience, 33(27), 10938–10949. doi:10.1523/JNEUROSCI.5362-12.2013

Fernandez-Alfonso, T., & Ryan, T. A. (2008). A heterogeneous “resting” pool of synaptic vesicles that is dynamically interchanged across boutons in mammalian CNS synapses. Brain Cell Biology, 36(1-4), 87–100. doi:10.1007/s11068-008-9030-y

Kim, S. H., & Ryan, T. A. (2010). CDK5 serves as a major control point in neurotransmitter release. Neuron, 67(5), 797–809. doi:10.1016/j.neuron.2010.08.003

Rangaraju, V., Calloway, N., & Ryan, T. A. (2014). Activity-driven local ATP synthesis is required for synaptic function. Cell, 156(4), 825–835. doi:10.1016/j.cell.2013.12.042

Review Paper

Dittman, J., & Ryan, T. a. (2009). Molecular circuitry of endocytosis at nerve terminals. Annual Review of Cell and Developmental Biology, 25, 133–160. doi:10.1146/annurev.cellbio.042308.113302

Recommended Readings: Howard Hang, Ph.D. November 17

Monday Lecture Series
Monday, November 17, 2014,
4:00 p.m., Carson Family Auditorium (CRC)

Howard Hang, Ph.D.
Professor and Head,
Laboratory of Chemical Biology and Microbial Pathogenesis,
The Rockefeller University

A C. elegans Model for Commensal Bacteria Function Reveals a Secreted Peptidoglycan Hydrolase Activator of Host Immunity

Recommended Readings

Empirical Articles

Charron, G., Zhang, M. M., Yount, J. S., Wilson, J., Raghavan, A. S., Shamir, E., & Hang, H. C. (2009). Robust fluorescent detection of protein fatty-acylation with chemical reporters. Journal of the American Chemical Society, 131(13), 4967–4975. doi:10.1021/ja810122f

Hang, H. C., Geutjes, E.-J., Grotenbreg, G., Pollington, A. M., Bijlmakers, M. J., & Ploegh, H. L. (2007). Chemical probes for the rapid detection of Fatty-acylated proteins in Mammalian cells. Journal of the American Chemical Society, 129(10), 2744–2745. doi:10.1021/ja0685001

Yount, J. S., Moltedo, B., Yang, Y.-Y., Charron, G., Moran, T. M., López, C. B., & Hang, H. C. (2010). Palmitoylome profiling reveals S-palmitoylation-dependent antiviral activity of IFITM3. Nature Chemical Biology, 6(8), 610–614. doi:10.1038/nchembio.405

Review Paper

Grammel, M., & Hang, H. C. (2013). Chemical reporters for biological discovery. Nature Chemical Biology, 9(8), 475–484. doi:10.1038/nchembio.1296

Recommended Readings: Jean-Laurent Casanova, Ph.D. December 1

Monday Lecture Series
Monday, December 1, 2014,
4:00 p.m., Carson Family Auditorium (CRC)

Jean-Laurent Casanova, Ph.D.,
Professor and Head,
St. Giles Laboratory of Human Genetics of Infectious Diseases,
The Rockefeller University
Investigator,
Howard Hughes Medical Institute

Toward a Genetic Theory of Childhood Infectious Diseases

Recommended Readings

Empirical Articles

Puel, A., Cypowyj, S., Bustamante, J., Wright, J. F., Liu, L., Lim, H. K., … Casanova, J.-L. (2011). Chronic mucocutaneous candidiasis in humans with inborn errors of interleukin-17 immunity. Science, 332(6025), 65–68. doi:10.1126/science.1200439

Sabri, A., Grant, A. V, Cosker, K., El Azbaoui, S., Abid, A., Abderrahmani Rhorfi, I., … El Baghdadi, J. (2014). Association study of genes controlling IL-12-dependent IFN-γ immunity: STAT4 alleles increase risk of pulmonary tuberculosis in Morocco. The Journal of Infectious Diseases, 210(4), 611–618. doi:10.1093/infdis/jiu140

Review Papers

Alcaïs, A., Quintana-Murci, L., Thaler, D. S., Schurr, E., Abel, L., & Casanova, J.-L. (2010). Life-threatening infectious diseases of childhood: single-gene inborn errors of immunity? Annals of the New York Academy of Sciences, 1214, 18–33. doi:10.1111/j.1749-6632.2010.05834.x

Casanova, J.-L., & Abel, L. (2005). Inborn errors of immunity to infection: the rule rather than the exception. The Journal of Experimental Medicine, 202(2), 197–201. doi:10.1084/jem.20050854

The Much Maligned Tick: Key to a New Class of Antibiotics?

Yale researchers have discovered a glycoprotein in ticks (Ixodidae) that kicks in during winter to protect them from the cold also fights infection.  This protein may be the key to a new class of an antibiotics to help  in the battle against dangers pathogens such as MRSA.
Read more at: http://phys.org/news/2014-10-protein-infection.html#jCp

Recommended Readings: Shai Shaham, Ph.D. November 10

Monday Lecture Series
Monday, November 10, 2014,
4:00 p.m., Carson Family Auditorium (CRC)

Shai Shaham, Ph.D.
Professor and Head,
Laboratory of Developmental Genetics,
The Rockefeller University

Glial Control of Neuronal Receptive Ending Form and Function

Recommended Readings

Empirical Papers

Bacaj, T., Tevlin, M., Lu, Y., & Shaham, S. (2008). Glia are essential for sensory organ function in C. elegans. Science, 322(5902), 744–747. doi:10.1126/science.1163074

Heiman, M. G., & Shaham, S. (2009). DEX-1 and DYF-7 establish sensory dendrite length by anchoring dendritic tips during cell migration. Cell, 137(2), 344–355. doi:10.1016/j.cell.2009.01.057

Procko, C., Lu, Y., & Shaham, S. (2011). Glia delimit shape changes of sensory neuron receptive endings in C. elegans. Development, 138(7), 1371–1381. doi:10.1242/dev.058305

Yoshimura, S., Murray, J. I., Lu, Y., Waterston, R. H., & Shaham, S. (2008). mls-2 and vab-3 Control glia development, hlh-17/Olig expression and glia-dependent neurite extension in C. elegans. Development, 135(13), 2263–2275. doi:10.1242/dev.019547

Review Papers

Oikonomou, G., & Shaham, S. (2011). The glia of Caenorhabditis elegans. Glia, 59(9), 1253–1263. doi:10.1002/glia.21084

Procko, C., & Shaham, S. (2010). Assisted morphogenesis: glial control of dendrite shapes. Current Opinion in Cell Biology, 22(5), 560–565. doi:10.1016/j.ceb.2010.07.005

Recommended Readings: Stephen Quake, Ph.D. November 12

Special Seminar Series
Wednesday, November 12, 2014,
4:00 p.m., Carson Family Auditorium (CRC)

Stephen Quake, Ph.D.
Lee Otterson Professor,
Bioengineering and Applied Physics,
Stanford University
Investigator,
Howard Hughes Medical Institute

Single Cell Genomics

Recommended Readings

Empirical Papers

Ashley, E. a, Butte, A. J., Wheeler, M. T., Chen, R., Klein, T. E., Dewey, F. E., … Altman, R. B. (2010). Clinical assessment incorporating a personal genome. Lancet, 375(9725), 1525–1535. doi:10.1016/S0140-6736(10)60452-7

Fan, H. C., Gu, W., Wang, J., Blumenfeld, Y. J., El-Sayed, Y. Y., & Quake, S. R. (2012). Non-invasive prenatal measurement of the fetal genome. Nature, 487(7407), 320–324. doi:10.1038/nature11251

Pushkarev, D., Neff, N. F., & Quake, S. R. (2009). Single-molecule sequencing of an individual human genome. Nature Biotechnology, 27(9), 847–850. doi:10.1038/nbt.1561

Wang, J., Fan, H. C., Behr, B., & Quake, S. R. (2012). Genome-wide single-cell analysis of recombination activity and de novo mutation rates in human sperm. Cell, 150(2), 402–412. doi:10.1016/j.cell.2012.06.030

Review Papers

Kalisky, T., Blainey, P., & Quake, S. R. (2011). Genomic analysis at the single-cell level. Annual Review of Genetics, 45, 431–445. doi:10.1146/annurev-genet-102209-163607

Melin, J., & Quake, S. R. (2007). Microfluidic large-scale integration: the evolution of design rules for biological automation. Annual Review of Biophysics and Biomolecular Structure, 36, 213–231. doi:10.1146/annurev.biophys.36.040306.132646

NIH: without budget cuts, we’d have Ebola vaccine

By Fiona Barry, 22-Oct-2014

The head of the US National Institutes of Health has said the organisation would have developed a finished Ebola vaccine by now if its funding had not been slashed over the last decade.

Recommended Readings: Neil H. Shubin, Ph.D. November 5

Special Seminar Series
Wednesday, November 5, 2014,
4:00 p.m., Carson Family Auditorium (CRC)

Neil H. Shubin, Ph.D.
Robert R. Bensley Distinguished Service Professor,
Senior Advisor to the President,
Department of Organismal Biology and Anatomy,
The University of Chicago

Organogenesis in Deep Time

Recommended Readings

Empirical Papers

Amemiya, C. T., Alföldi, J., Lee, A. P., Fan, S., Philippe, H., Maccallum, I., … Lindblad-Toh, K. (2013). The African coelacanth genome provides insights into tetrapod evolution. Nature, 496(7445), 311–316. doi:10.1038/nature12027

Dahn, R. D., Davis, M. C., Pappano, W. N., & Shubin, N. H. (2007). Sonic hedgehog function in chondrichthyan fins and the evolution of appendage patterning. Nature, 445(7125), 311–314. doi:10.1038/nature05436

Davis, M. C., Dahn, R. D., & Shubin, N. H. (2007). An autopodial-like pattern of Hox expression in the fins of a basal actinopterygian fish. Nature, 447(7143), 473–476. doi:10.1038/nature05838

Shubin, N. H., Daeschler, E. B., & Jenkins, F. a. (2006). The pectoral fin of Tiktaalik roseae and the origin of the tetrapod limb. Nature, 440(7085), 764–771. doi:10.1038/nature04637

Review Articles

Schneider, I., & Shubin, N. H. (2013). The origin of the tetrapod limb: from expeditions to enhancers. Trends in Genetics, 29(7), 419–426. doi:10.1016/j.tig.2013.01.012

Shubin, N., Tabin, C., & Carroll, S. (2009). Deep homology and the origins of evolutionary novelty. Nature, 457(7231), 818–823. doi:10.1038/nature07891

Recommended Readings: Adrienne Fairhall, Ph.D. October 22

Special Seminar Series
Wednesday, October 22, 2014
4 p.m., Carson Family Auditorium

Adrienne Fairhall, Ph.D.
Associate Professor,
Department of Physiology and Biophysics,
University of Washington

Variability and Learning in Birdsong

Recommended Readings

Empirical Articles

Mease, R. A, Famulare, M., Gjorgjieva, J., Moody, W. J., & Fairhall, A. L. (2013). Emergence of adaptive computation by single neurons in the developing cortex. The Journal of Neuroscience, 33(30), 12154–12170. doi:10.1523/JNEUROSCI.3263-12.2013

Schnell, B., Weir, P. T., Roth, E., Fairhall, A. L., & Dickinson, M. H. (2014). Cellular mechanisms for integral feedback in visually guided behavior. Proceedings of the National Academy of Sciences, 111(15), 5700–5. doi:10.1073/pnas.1400698111

Review Papers

Fairhall, A. (2014). The receptive field is dead. Long live the receptive field? Current Opinion in Neurobiology, 25, ix–xii. doi:10.1016/j.conb.2014.02.001

Fairhall, A., Shea-Brown, E., & Barreiro, A. (2012). Information theoretic approaches to understanding circuit function. Current Opinion in Neurobiology, 22(4), 653–9. doi:10.1016/j.conb.2012.06.005