Recommended Readings: David Julius, Ph.D. Friday February 8, 2019

Friday Lectures

Friday, February 8, 2019  3:45 p.m

Caspary Auditorium

David Julius Ph.D.

Morris Herzstein Chair in Molecular Biology and Medicine

Professor and Chair of Physiology

University of California

Natural Products as Probes of the Pain Pathway: From Physiology to Atomic Structure

Recommended Readings:

Empirical Articles

Gao, Yuan; Cao, Erhu; Julius, David; et al. (2016). TRPV1 structures in nanodiscs reveal mechanisms of ligand and lipid action. NATURE. 534 (7607): 347-+

Paulsen, Candice E.; Armache, Jean-Paul; Gao, Yuan; et al. (2015). Structure of the TRPA1 ion channel suggests regulatory mechanisms. NATURE. 520 (7548): 511-+

Liao, Maofu; Cao, Erhu; Julius, David; et al. (2013). Structure of the TRPV1 ion channel determined by electron cryo-microscopy. NATURE. 504 (7478): 107-+

Cavanaugh, Daniel J.; Chesler, Alexander T.; Jackson, Alexander C.; et al. (2011). Trpv1 Reporter Mice Reveal Highly Restricted Brain Distribution and Functional Expression in Arteriolar Smooth Muscle Cells. JOURNAL OF NEUROSCIENCE. 31 (13): 5067-5077

Cordero-Morales, Julio F.; Gracheva, Elena O.; Julius, David. (2011). Cytoplasmic ankyrin repeats of transient receptor potential A1 (TRPA1) dictate sensitivity to thermal and chemical stimuli. PNAS. 108 (46): E1184-E1191

Cavanaugh, Daniel J.; Chesler, Alexander T.; Braz, Joao M.; et al. (2011). Restriction of Transient Receptor Potential Vanilloid-1 to the Peptidergic Subset of Primary Afferent Neurons Follows Its Developmental Downregulation in Nonpeptidergic Neurons. JOURNAL OF NEUROSCIENCE. 31 (28): 10119-10127

Review Papers

Bohlen, Christopher J.; Julius, David (2012). Receptor-targeting mechanisms of pain-causing toxins: How ow? TOXICON. 60 (3): 254-264

Basbaum, Allan I.; Bautista, Diana M.; Scherrer, Gregory; et al. (2009). Cellular and Molecular Mechanisms of Pain. CELL. 139 (2): 267-284

Book Chapter

Julius, David. (2013). TRP Channels and Pain. ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY. 29: 355-384


Recommended Readings: Tom Muir, Ph.D. Friday January 25, 2019

Friday Lectures

Friday, January 25, 2019  3:45 p.m

Caspary Auditorium

Tom Muir Ph.D.

Professor of Chemistry and Chair

Department of Chemistry

Princeton University

Painting Chromatin with Synthetic Protein Chemistry


Recommended Readings:

Empirical Articles

Nacev, B.A., Feng, L., Bagert, J.D. Lemiesz, A., et al. (2019). The expanding landscape of ‘oncohistone’ mutations in human cancers. NATURE, in press

Wojcik, Felix; Dann, Geoffrey P.; Beh, Leslie Y.; et al. (2018). Functional crosstalk between histone H2B ubiquitylation and H2A modifications and variants. NATURE COMMUNICATIONS. 9

Lu, Chao; Jain, Siddhant U.; Hoelper, Dominik; et al. (2016). Histone H3K36 mutations promote sarcomagenesis through altered histone methylation landscape. SCIENCE. 352 (6287): 844-849

Nguyen, Uyen T. T.; Bittoval, Lenka; Mueller, Manuel M.; et al. (2014). Accelerated chromatin biochemistry using DNA-barcoded nucteosome libraries. NATURE METHODS. 11 (8): 834-840

Fierz, Beat; Kilic, Sinan; Hieb, Aaron R.; et al. (2012). Stability of Nucleosomes Containing Homogenously Ubiquitylated H2A and H2B Prepared Using Semisynthesis. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 134 (48): 19548-19551

Review Paper

David, Yael; Muir, Tom W. (2017). Emerging Chemistry Strategies for Engineering Native Chromatin. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 139 (27): 9090-9096

Mueller, Manuel M.; Muir, Tom W. (2015). Histones: At the Crossroads of Peptide and Protein Chemistry. CHEMICAL REVIEWS. 115 (6): 2296-2349

Chatterjee, Champak; Muir, Tom W. (2010). Chemical Approaches for Studying Histone Modifications. JOURNAL OF BIOLOGICAL CHEMISTRY. 285 (15): 11045-11050

Book Chapter

Holt, Matthew; Muir, Tom (2015). Application of the Protein Semisynthesis Strategy to the Generation of Modified Chromatin. ANNUAL REVIEW OF BIOCHEMISTRY. 84: 265-290

McGinty, Robert K.; Chatterjee, Champak; Muir, Tom W. (2009). Semisynthesis of Ubiquitylated Proteins. METHODS IN ENZYMOLOGY: NON-NATURAL AMINO ACIDS. 462: 225-243

Recommended Readings: Edward H. Egelman, Ph.D. Friday January 19th, 2018

Friday Lectures

Friday, January 19, 2018  3:45 p.m.

Caspary Auditorium

Edward Egelman, Ph.D.

Harrison Distinguished Professor

Biochemistry and Molecular Genetics

University of Virginia Medical School

Cryo-EM of Protein and Nucleoprotein Polymers at Near-Atomic Resolution

Recommended Readings:

Science News

Kenny Walter. Virus Holds Key to Durable Material. (2017, Jul 20). Virus Holds Key to Durable Material. R&D Magazine

Empirical Articles

Egelman, Edward H. (2017). Cryo-EM of bacterial pili and archaeal flagellar filaments. CURRENT OPINION IN STRUCTURAL BIOLOGY. 46: 31-37

Wang, Fengbin; Burrage, Andrew M.; Postel, Sandra; et al. (2017). A structural model of flagellar filament switching across multiple bacterial species. NATURE COMMUNICATIONS. 8: 960

Wang, Fengbin; Coureuil, Mathieu; Osinski, Tomasz; et al. (2017). Cryoelectron Microscopy Reconstructions of the Pseudomonas aeruginosa and Neisseria gonorrhoeae Type IV Pili at Sub-nanometer Resolution. STRUCTURE. 25 (9): 1423-+

Kasson, Peter; DiMaio, Frank; Yu, Xiong; et al. (2017). Model for a novel membrane envelope in a filamentous hyperthermophilic virus. ELIFE. 6  

Kolappan, Subramania; Coureuil, Mathieu; Yu, Xiong; et al. (2016). Structure of the Neisseria meningitidis Type IV pilus. NATURE COMMUNICATIONS. 7: 13015

Braun, Tatjana; Vos, Matthijn R.; Kalisman, Nir; et al. (2016). Archaeal flagellin combines a bacterial type IV pilin domain with an Ig-like domain. PNAS. 113 (37): 10352-10357

Egelman, Edward H. (2016). The Current Revolution in Cryo-EM. BIOPHYSICAL JOURNAL. 110 (5): 1008-1012

Wang, Ray Yu-Ruei; Kudryashev, Mikhail; Li, Xueming; et al. (2015). De novo protein structure determination from near-atomic-resolution cryo-EM maps. NATURE METHODS. 12 (4): 335-U84

DiMaio, Frank; Yu, Xiong; Rensen, Elena; et al. (2015). A virus that infects a hyperthermophile encapsidates A-form DNA. SCIENCE. 348 (6237): 914-917

Review Papers

Egelman, Edward H. (2015). Three-dimensional reconstruction of helical polymers. ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS. 581: 54-58

Recommended Readings: Elly Tanaka, Ph.D. March 17, 2017

Friday Lectures

Friday, March 17, 2017   3:45 p.m.

Caspary Auditorium

Elly Tanaka, Ph.D.

Senior Scientist,

Research Institute of Molecular Pathology, Vienna, Austria

The Control of Growth, Signaling, and Patterning during Vertebrate Limb Regeneration

Recommended Readings:

Tanaka, Elly M. (2016). The Molecular and Cellular Choreography of Appendage on Regeneration. CELL. 165(7): 1598-1608

Tornini, Valerie A.; Puliafito, Alberto; Slota, Leslie A.; et al. (2016). Live Monitoring of Blastemal Cell Contributions during Appendage Regeneration. CURRENT BIOLOGY. 26(22): 2981-2991 

Sandoval-Guzman, Tatiana; Wang, Heng; Khattak, Shahryar; et al. (2014). Fundamental Differences in Dedifferentiation and Stem Cell Recruitment during Skeletal Muscle Regeneration in Two Salamander Species. CELL STEM CELL. 14(2): 174-187

Khattak, Shahryar; Schuez, Maritta; Richter, Tobias; et al. (2013). Germline Transgenic Methods for Tracking Cells and Testing Gene Function during Regeneration in the Axolotl. STEM CELL REPORTS. 1(1): 90-103

Simon, Andras; Tanaka, Elly M. (2013). Limb regeneration.  WILEY INTERDISCIPLINARY REVIEWS-DEVELOPMENTAL BIOLOGY. 2(2): 291-300