Recommended Readings: Bonnie Bassler, Ph.D.; April 3, 2009

Friday Lecture Series

“Eavesdropping on Bacterial Conversations”

Wiley Prize in Biomedical Sciences

Bonnie Bassler, Ph.D.

Squibb Professor, Department of Molecular Biology, Princeton University and Investigator, Howard Hughes Medical Institute

April 3, 2009

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

Caspary Auditorium

Recommended Articles:

Hammer, B. K., and B. L. Bassler. 2009. Distinct sensory pathways in Vibrio cholerae El Tor and classical biotypes modulate cyclic dimeric GMP levels to control biofilm formation. Journal of Bacteriology. 91(1): 169-177.

 

Hammer, B.K., Bassler, B.L. 2007. Regulatory small RNAs circumvent the conventional quorum sensing pathway in pandemic Vibrio cholerae. Proceedings of the National Academy of Sciences of the United States of America. 104(27): 11145-11149.

 

Higgins, D. A., M. E. Pomianek, C. M. Kraml, R. K. Taylor, M. F. Semmelhack, and B. L. Bassler. 2007. The major Vibrio cholerae autoinducer and its role in virulence factor production. Nature. 450 (7171): 883-886.

 

Neiditch, M. B., M. J. Federle, A. J. Pompeani, R. C. Kelly, D. L. Swem, P. D. Jeffrey, B. L. Bassler, and F. M. Hughson. 2006. Ligand-induced asymmetry in histidine sensor kinase complex regulates quorum sensing. Cell. 126 (6): 1095-1108.

 

Svenningsen, S. L., K. C. Tu, and B. L. Bassler. 2009. Gene dosage compensation calibrates four regulatory RNAs to control Vibrio cholerae quorum sensing. EMBO Journal. 28 (4): 429-439.

 

Waters, C. M., and B. L. Bassler. 2006. The Vibrio harveyi quorum-sensing system uses shared regulatory components to discriminate between multiple autoinducers. Genes and Development. 20(19): 2754-2767.

 

Waters, C. M., W. Lu, J. D. Rabinowitz, and B. L. Bassler. 2008. Quorum sensing controls biofilm formation in Vibrio cholerae through modulation of cyclic di-GMP levels and repression of vpsT. Journal of Bacteriology. 190(7): 2527-2536.

Sean Brady Receives 2009 HHMI Early Career Scientist Award

Sean Brady is among fifty of the nation’s best early career science faculty who will have more time and resources to focus on their boldestand potentially transformativeresearch ideas with support from a new initiative from the Howard Hughes Medical Institute.Each selected awardee will receive a six-year appointment to the Institute and the freedom to explore his or her best ideas without worrying about where to find the money to fund those experiments. The Institute’s investment of approximately $200 million will allow these researchers to concentrate on making discoveries in the laboratory and training the next generation of scientists.

Read the complete news release including brief research summaries for each of the 50 newly selected Early Career Scientists.

 

Master Regulator of Skin Formation

Researchers at Oregon State University have found one gene in the human body that appears to be a master regulator for skin development.   Inadequate or loss of expression of this gene, called CTIP2, may play a role in some skin disorders, scientists believe, and understanding the mechanisms of gene action could provide a solution to them. Read a report of this research in Journal of Investigative Dermatology.

Recommended Readings: Mitchell Guttman; March 25, 2009

Special Seminar Series

Large Intergenic ncRNAs in the Mammalian Genome:

From Discovery to Mechanism

Mitchell Guttman

Graduate fellow, Department of Biology

Broad Institute of MIT and Harvard/Massachusetts Institute of Technology

Wednesday, March 25, 2009

4:00 p.m.-5:00 p.m. (Refreshments, 3:45 p.m.)

Second Floor, Welch Hall

Recommended Articles:

Guttman, M., I. Amit, M. Garber, C. French, M. F. Lin, D. Feldser, M. Huarte, et al. 2009. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature, in press.

Guttman, M., C. Mies, K. Dudycz-Sulicz, S. J. Diskin, D. A. Baldwin, C. J. Stoeckert Jr., and G. R. Grant. 2007. Assessing the significance of conserved genomic aberrations using high resolution genomic microarrays. PLoS Genetics. 3(8)e143.

Clamp, M., B. Fry, M. Kamal, X. Xie, J. Cuff, M. F. Lin, M. Kellis, K. Lindblad-Toh, and E. S. Lander. 2007. Distinguishing protein-coding and noncoding genes in the human genome. Proceedings of the National Academy of Sciences of the United States of America. 104(49):19428-19433.

Willingham, A. T., A. P. Orth, S. Batalov, E. C. Peters, B. G. Wen, P. Aza-Blanc, J. B. Hogenesch, and P. G. Schultz. 2005. Molecular biology: A strategy for probing the function of noncoding RNAs finds a repressor of NFAT. Science. 309(5740):1570-1573.

Rinn, J. L., M. Kertesz, J. K. Wang, S. L. Squazzo, X. Xu, S. A. Brugmann, L. H. Goodnough, et al. 2007. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell. 129(7):1311-1323.

Ponjavic, J., C. P. Ponting, and G. Lunter. 2007. Functionality or transcriptional noise? evidence for selection within long noncoding RNAs. Genome Research. 17(5):556-565.

Recommended Readings: Junying Yuan, Ph.D.

 

Special Seminar Series

A Quest to Understand the Mechanisms of Neurodegeneration

Junying Yuan, Ph.D.

Professor, Department of Cell Biology

Harvard Medical School

Wednesday, March 18, 2009

4:00 p.m.-5:00 p.m. (Refreshments, 3:45 p.m.)

Second Floor, Welch Hall

Recommended Articles:

Panaretakis T, Kepp O, Brockmeier U, Tesniere A, Bjorklund A-, Chapman DC, Durchschlag M, Joza N, Pierron G, van Endert P, Yuan J, Zitvogel L, Madeo F, Williams DB, Kroemer G. Mechanisms of pre-apoptotic calreticulin exposure in immunogenic cell death. EMBO Journal. 2009.

Yi CH, Yuan J. The jekyll and hyde functions of caspases. Developmental Cell. 2009;16(1):21-34.

Yuan J. Neuroprotective strategies targeting apoptotic and necrotic cell death for stroke. Apoptosis. 2009:1-9.
Article in press.

Hitomi J, Christofferson DE, Ng A, Yao J, Degterev A, Xavier RJ, Yuan J. Identification of a molecular signaling network that regulates a cellular necrotic cell death pathway. Cell. 2008;135(7):1311-23.

Zheng W, Degterev A, Hsu E, Yuan J, Yuan C. Structure-activity relationship study of a novel necroptosis inhibitor, necrostatin-7. Bioorganic and Medicinal Chemistry Letters. 2008;18(18):4932-5.

You Z, Savitz SI, Yang J, Degterev A, Yuan J, Cuny GD, Moskowitz MA, Whalen MJ. Necrostatin-1 reduces histopathology and improves functional outcome after controlled cortical impact in mice. Journal of Cerebral Blood Flow and Metabolism 2008;28(9):1564-73.
Contact the Markus Library for a reprint of this article.

Degterev A, Hitomi J, Germscheid M, Ch’en IL, Korkina O, Teng X, Abbott D, Cuny GD, Yuan C, Wagner G, Hedrick SM, Gerber SA, Lugovskoy A, Yuan J. Identification of RIP1 kinase as a specific cellular target of necrostatins. Nature Chemical Biology. 2008;4(5):313-21.

Cuny GD, Degterev A, Yuan J. Necroptosis – A novel cell death mechanism. Drugs of the Future 2008;33(3):225-33.
Contact the Markus Library for a reprint of this article.

Degterev A, Boyce M, Yuan J. A decade of caspases. Oncogene. 2003;22(53 REV. ISS. 7):8543-67.

February Symposium on Biodiversity Now Available as Webcasts

Watch video from NAS’s symposium on biodiversity policy held on Feb. 11 and 12. The symposium, in honor of the 200th anniversary of the birth of Charles Darwin, focused on biodiversity and ecosystems and their relevance to key policy issues such as climate change and energy; trade; pests and pathogens; and food security. 

Twenty-first Century Ecosystems: Systemic Risk and the Public Good
A National Academies Symposium
on the Science and Policy for Managing the Living World Two Centuries after Darwin,

hosted and co-sponsored by the American Association for the Advancement of Science

Organizing Committee Members
Professor Peter Crane, Chair
Professor Ann Kinzig
Dr. Thomas Lovejoy
Professor Harold Mooney
Professor Charles Perrings

The HMS Beagle Project : Rebuilding the Beagle

Reawakening the origins of research

  by Emily Slutsky


Source: The Beagle Project

Pembrokeshire, UK, Mar. 4—Building a boat to celebrate a scientist’s career may not seem particularly commemorative. But when his pop-culture status is as pronounced as Benjamin Franklin’s or Albert Einstein’s, and his sea voyage is perhaps only rivaled by Christopher Columbus’ trifecta, a new boat for Charles Darwin is a fitting tribute.

2009 marks the bicentennial anniversary of Darwin’s birth, as well as the 150th anniversary of his landmark publication, On the Origin of Species. To celebrate his 1831 voyage aboard the famed ship, the aptly-named HMS Beagle Project—an ongoing initiative to revolutionize Darwin’s historical impact—is setting modern-day science to the backdrop of a sailing replica of the HMS Beagle.
The project is a £5-million effort (in 1820, the HMS Beagle was purchased for less than £8000) to construct a functional replica of the larch and oak HMS Beagle, equipped with modern-day improvisations such as diesel auxiliary engines, GPS navigation, satellite communications, and a 21st–century laboratory.

Recommended Readings: Shai Shaham, Ph.D.

Friday Lecture Series

“Adventures at the Sensory Synapse”

 Shai Shaham, Ph.D.

Associate Professor and Head, Laboratory of Developmental Genetics

The Rockefeller University

March 13, 2009

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

Caspary Auditorium

Recommended Articles:

Bacaj, T., M. Tevlin, Y. Lu, and S. Shaham. 2008. Glia are essential for sensory organ function in C. elegans. Science. 322(5902):744-747.

 

Heiman, M. G., and S. Shaham. 2007. Ancestral roles of glia suggested by the nervous system of Caenorhabditis elegans. Neuron Glia Biology. 3(1):55-61. (Request copy of article from the Markus Library)

 

Shaham, S. 2006. Glia-neuron interactions in the nervous system of Caenorhabditis elegans. Current Opinion in Neurobiology. 16(5): 522-528.

 

Shaham, S. 2005. Glia-neuron interactions in nervous system function and development. Current Topics in Developmental Biology. 69:39-66.

 

Wang, Y., A. Apicella Jr., S. -K Lee, M. Ezcurra, R. D. Slone, M. Goldmit, W. R. Schafer, S. Shaham, M. Driscoll, and L. Bianchi. 2008. A glial DEG/ENaC channel functions with neuronal channel DEG-1 to mediate specific sensory functions in C. elegans. EMBO Journal. 27(18):2388-2399.

 

Wang, Y., A. Apicella Jr., S. -K Lee, M. Ezcurra, R. D. Slone, M. Goldmit, W. R. Schafer, S. Shaham, M. Driscoll, and L. Bianchi. 2008. A glial DEG/ENaC channel functions with neuronal channel DEG-1 to mediate specific sensory functions in C. elegans (EMBO journal (2008) 27, (2388-2399) DOI: 10.1038/emboj.2008.161). EMBO Journal. 27(19):2638.

 

Yoshimura, S., J. I. Murray, Y. Lu, R. H. Waterston, and S. Shaham. 2008. Mls-2 and vab-3 control glia development, h/h-17/Olig expression and glia-dependent neurite extension in C. elegans. Development. 135(13):2263-2275.

Recommended Readings: Tom W. Muir, Ph.D.

Friday Lecture Series

A Synthetic “Kiss of Death”

 Tom W. Muir, Ph.D.

Richard E. Salomon Professor and head, Selma and Lawrence Ruben Laboratory of Synthetic Protein Chemistry

The Rockefeller University

March 6, 2009

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

Caspary Auditorium

Recommended Articles:

Alexeev, D., P. N. Barlow, S. M. Bury, J. -D Charrier, A. Cooper, D. Hadfield, C. Jamieson, et al. 2003. Synthesis, structural and biological studies of ubiquitin mutants containing (2S, 4S)-5-fluoroleucine residues strategically placed in the hydrophobic core. ChemBioChem. 4(9):894-896.

 

Alexeev, D., S. M. Bury, M. A. Turner, O. M. Ogunjobi, T. W. Muir, R. Ramage, and L. Sawyer. 1994. Synthetic, structural and biological studies of the ubiquitin system: Chemically synthesized and native ubiquitin fold into identical three-dimensional structures. Biochemical Journal. 299(1):159-163.

 

Chatterjee, C., R. K. McGinty, J. -P Pellois, and T. W. Muir. 2007. Auxiliary-mediated site-specific peptide ubiquitylation. Angewandte Chemie – International Edition. 46(16):2814-2818.

 

Chiang, K. P., and T. W. Muir. 2008. Systems- and molecular-level elucidation of signaling processes through chemistry. Science signaling. 1(42):pp. pe45.

 

Layfield, R., K. Franklin, M. Landon, G. Walker, P. Wang, R. Ramage, A. Brown, et al. 1999. Chemically synthesized ubiquitin extension proteins detect distinct catalytic capacities of deubiquitinating enzymes. Analytical Biochemistry. 274(1):40-49.

 

Love, S. G., T. W. Muir, R. Ramage, K. T. Shaw, D. Alexeev, L. Sawyer, S. M. Kelly, et al. 1997. Synthetic, structural and biological studies of the ubiquitin system: Synthesis and crystal structure of an analogue containing unnatural amino acids. Biochemical Journal. 323(3):727-734.

 

McGinty, R. K., J. Kim, C. Chatterjee, R. G. Roeder, and T. W. Muir. 2008. Chemically ubiquitylated histone H2B stimulates hDot1L-mediated intranucleosomal methylation. Nature. 453(7196):812-816.

 

Ramage, R., J. Green, T. W. Muir, O. M. Ogunjobi, S. Love, and K. Shaw. 1994. Synthetic, structural and biological studies of the ubiquitin system: The total chemical synthesis of ubiquitin. Biochemical Journal. 299(1):151-158.