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Fwd: PNAS Early Edition for 23 Jul 2013



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Date: Wed, Jul 24, 2013 at 7:04 AM
Subject: PNAS Early Edition for 23 Jul 2013
To: pascal.alter@gmail.com


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Proceedings of the National Academy of Sciences
 

QnAs

QnAs with Lynn M. Riddiford
Sujata Gupta
QnAs with Ronald DePinho
Prashant Nair

Commentaries

Neutrophils enlist IL-22 to restore order in the gut
Timothy L. Denning and Charles A. Parkos
Drops on soft surfaces learn the hard way
Todd M. Squires
Oncogenic herpesviruses sending mixed signals
D. Michiel Pegtel

Perspectives

The case for distributed irrigation as a development priority in sub-Saharan Africa
Jennifer A. Burney, Rosamond L. Naylor, and Sandra L. Postel
NMR paves the way for atomic level descriptions of sparsely populated, transiently formed biomolecular conformers
Ashok Sekhar and Lewis E. Kay

Physical Sciences

Applied Mathematics

Increased transmissibility explains the third wave of infection by the 2009 H1N1 pandemic virus in England OPEN ACCESS ARTICLE
Ilaria Dorigatti, Simon Cauchemez, and Neil M. Ferguson

Applied Physical Sciences

Multiparametric approach for the evaluation of lipid nanoparticles for siRNA delivery
Christopher A. Alabi, Kevin T. Love, Gaurav Sahay, Hao Yin, Kathryn M. Luly, Robert Langer, and Daniel G. Anderson
Universal collapse of stress and wrinkle-to-scar transition in spherically confined crystalline sheets
Gregory M. Grason and Benny Davidovitch

Chemistry

Determining complete electron flow in the cofactor photoreduction of oxidized photolyase OPEN ACCESS ARTICLE
Zheyun Liu, Chuang Tan, Xunmin Guo, Jiang Li, Lijuan Wang, Aziz Sancar, and Dongping Zhong
Dynamic determination of the functional state in photolyase and the implication for cryptochrome OPEN ACCESS ARTICLE
Zheyun Liu, Meng Zhang, Xunmin Guo, Chuang Tan, Jiang Li, Lijuan Wang, Aziz Sancar, and Dongping Zhong
Sulfatase-activated fluorophores for rapid discrimination of mycobacterial species and strains
Kimberly E. Beatty, Monique Williams, Brian L. Carlson, Benjamin M. Swarts, Robin M. Warren, Paul D. van Helden, and Carolyn R. Bertozzi
Testing the diffusing boundary model for the helix–coil transition in peptides OPEN ACCESS ARTICLE
Sabine Neumaier, Andreas Reiner, Maren Büttner, Beat Fierz, and Thomas Kiefhaber
Role of methyl-induced polarization in ion binding
Mariana Rossi, Alexandre Tkatchenko, Susan B. Rempe, and Sameer Varma
Integrated biophysical approach to fragment screening and validation for fragment-based lead discovery
Hernani Leonardo Silvestre, Thomas L. Blundell, Chris Abell, and Alessio Ciulli
Reactivity landscape of pyruvate under simulated hydrothermal vent conditions
Yehor Novikov and Shelley D. Copley
Proton transfer through the water gossamer
Ali Hassanali, Federico Giberti, Jérôme Cuny, Thomas D. Kühne, and Michele Parrinello

Earth, Atmospheric, and Planetary Sciences

Large Pt anomaly in the Greenland ice core points to a cataclysm at the onset of Younger Dryas
Michail I. Petaev, Shichun Huang, Stein B. Jacobsen, and Alan Zindler

Engineering

Synthesizing cognition in neuromorphic electronic systems
Emre Neftci, Jonathan Binas, Ueli Rutishauser, Elisabetta Chicca, Giacomo Indiveri, and Rodney J. Douglas

Environmental Sciences

Resilience of river flow regimes OPEN ACCESS ARTICLE
Gianluca Botter, Stefano Basso, Ignacio Rodriguez-Iturbe, and Andrea Rinaldo

Statistics

Statistical significance of combinatorial regulations OPEN ACCESS ARTICLE
Aika Terada, Mariko Okada-Hatakeyama, Koji Tsuda, and Jun Sese
Inverse Gillespie for inferring stochastic reaction mechanisms from intermittent samples
Ishanu Chattopadhyay, Anna Kuchina, Gürol M. Süel, and Hod Lipson

Social Sciences

Economic Sciences

Advertisements impact the physiological efficacy of a branded drug
Emir Kamenica, Robert Naclerio, and Anup Malani

Biological Sciences

Applied Biological Sciences

Multiparametric approach for the evaluation of lipid nanoparticles for siRNA delivery
Christopher A. Alabi, Kevin T. Love, Gaurav Sahay, Hao Yin, Kathryn M. Luly, Robert Langer, and Daniel G. Anderson
Reactive nitrogen species regulate autophagy through ATM-AMPK-TSC2–mediated suppression of mTORC1
Durga N. Tripathi, Rajdeep Chowdhury, Laura J. Trudel, Andrew R. Tee, Rebecca S. Slack, Cheryl Lyn Walker, and Gerald N. Wogan

Biochemistry

Cost of rNTP/dNTP pool imbalance at the replication fork OPEN ACCESS ARTICLE
Nina Y. Yao, Jeremy W. Schroeder, Olga Yurieva, Lyle A. Simmons, and Mike E. O'Donnell
Structural and mechanistic insights into VEGF receptor 3 ligand binding and activation
Veli-Matti Leppänen, Denis Tvorogov, Kaisa Kisko, Andrea E. Prota, Michael Jeltsch, Andrey Anisimov, Sandra Markovic-Mueller, Edward Stuttfeld, Kenneth N. Goldie, Kurt Ballmer-Hofer, and Kari Alitalo
Structural and functional insight into an unexpectedly selective N-methyltransferase involved in plantazolicin biosynthesis
Jaeheon Lee, Yue Hao, Patricia M. Blair, Joel O. Melby, Vinayak Agarwal, Brandon J. Burkhart, Satish K. Nair, and Douglas A. Mitchell

Biophysics and Computational Biology

Statistical significance of combinatorial regulations OPEN ACCESS ARTICLE
Aika Terada, Mariko Okada-Hatakeyama, Koji Tsuda, and Jun Sese
Importance of lipid–pore loop interface for potassium channel structure and function
Elwin A. W. van der Cruijsen, Deepak Nand, Markus Weingarth, Alexander Prokofyev, Sönke Hornig, Abhishek Arun Cukkemane, Alexandre M. J. J. Bonvin, Stefan Becker, Raymond E. Hulse, Eduardo Perozo, Olaf Pongs, and Marc Baldus
Determining complete electron flow in the cofactor photoreduction of oxidized photolyase OPEN ACCESS ARTICLE
Zheyun Liu, Chuang Tan, Xunmin Guo, Jiang Li, Lijuan Wang, Aziz Sancar, and Dongping Zhong
Dynamic determination of the functional state in photolyase and the implication for cryptochrome OPEN ACCESS ARTICLE
Zheyun Liu, Meng Zhang, Xunmin Guo, Chuang Tan, Jiang Li, Lijuan Wang, Aziz Sancar, and Dongping Zhong
Testing the diffusing boundary model for the helix–coil transition in peptides OPEN ACCESS ARTICLE
Sabine Neumaier, Andreas Reiner, Maren Büttner, Beat Fierz, and Thomas Kiefhaber
Inverse Gillespie for inferring stochastic reaction mechanisms from intermittent samples
Ishanu Chattopadhyay, Anna Kuchina, Gürol M. Süel, and Hod Lipson
Role of methyl-induced polarization in ion binding
Mariana Rossi, Alexandre Tkatchenko, Susan B. Rempe, and Sameer Varma
Experimental and computational analysis of the transition state for ribonuclease A-catalyzed RNA 2′-O-transphosphorylation
Hong Gu, Shuming Zhang, Kin-Yiu Wong, Brian K. Radak, Thakshila Dissanayake, Daniel L. Kellerman, Qing Dai, Masaru Miyagi, Vernon E. Anderson, Darrin M. York, Joseph A. Piccirilli, and Michael E. Harris
Integrated biophysical approach to fragment screening and validation for fragment-based lead discovery
Hernani Leonardo Silvestre, Thomas L. Blundell, Chris Abell, and Alessio Ciulli
Structural insights into the proton pumping by unusual proteorhodopsin from nonmarine bacteria
Ivan Gushchin, Pavel Chervakov, Pavel Kuzmichev, Alexander N. Popov, Ekaterina Round, Valentin Borshchevskiy, Andrii Ishchenko, Lada Petrovskaya, Vladimir Chupin, Dmitry A. Dolgikh, Alexander A. Arseniev, Mikhail Kirpichnikov, and Valentin Gordeliy

Cell Biology

Activation-induced cytidine deaminase (AID) is necessary for the epithelial–mesenchymal transition in mammary epithelial cells
Denise P. Muñoz, Elbert L. Lee, Sachiko Takayama, Jean-Philippe Coppé, Seok-Jin Heo, Dario Boffelli, Javier M. Di Noia, and David I. K. Martin
Pds5 promotes and protects cohesin acetylation
Kok-Lung Chan, Thomas Gligoris, William Upcher, Yuki Kato, Katsuhiko Shirahige, Kim Nasmyth, and Frédéric Beckouët
Impaired complex IV activity in response to loss of LRPPRC function can be compensated by mitochondrial hyperfusion
Stéphane G. Rolland, Elisa Motori, Nadin Memar, Jürgen Hench, Stephan Frank, Konstanze F. Winklhofer, and Barbara Conradt
Higd-1a interacts with Opa1 and is required for the morphological and functional integrity of mitochondria
Hyun-Jung An, Geunyoung Cho, Jie-Oh Lee, Sang-Gi Paik, Young Sang Kim, and Hayyoung Lee
Interphase cytofission maintains genomic integrity of human cells after failed cytokinesis
Alka Choudhary, Robert F. Lera, Melissa L. Martowicz, Kim Oxendine, Jennifer J. Laffin, Beth A. Weaver, and Mark E. Burkard

Developmental Biology

Unique insights into maternal mitochondrial inheritance in mice
Shi-Ming Luo, Zhao-Jia Ge, Zhong-Wei Wang, Zong-Zhe Jiang, Zhen-Bo Wang, Ying-Chun Ouyang, Yi Hou, Heide Schatten, and Qing-Yuan Sun
Pattern reorganization occurs independently of cell division during Drosophila wing disc regeneration in situ OPEN ACCESS ARTICLE
Sandra Díaz-García and Antonio Baonza

Ecology

Increased transmissibility explains the third wave of infection by the 2009 H1N1 pandemic virus in England OPEN ACCESS ARTICLE
Ilaria Dorigatti, Simon Cauchemez, and Neil M. Ferguson
Recent burning of boreal forests exceeds fire regime limits of the past 10,000 years
Ryan Kelly, Melissa L. Chipman, Philip E. Higuera, Ivanka Stefanova, Linda B. Brubaker, and Feng Sheng Hu
Context-dependent hierarchies in pigeons
Máté Nagy, Gábor Vásárhelyi, Benjamin Pettit, Isabella Roberts-Mariani, Tamás Vicsek, and Dora Biro
Single pollinator species losses reduce floral fidelity and plant reproductive function
Berry J. Brosi and Heather M. Briggs
Agent-based Bayesian approach to monitoring the progress of invasive species eradication programs OPEN ACCESS ARTICLE
Jonathan M. Keith and Daniel Spring

Evolution

Capturing the mutational landscape of the beta-lactamase TEM-1
Hervé Jacquier, André Birgy, Hervé Le Nagard, Yves Mechulam, Emmanuelle Schmitt, Jérémy Glodt, Beatrice Bercot, Emmanuelle Petit, Julie Poulain, Guilène Barnaud, Pierre-Alexis Gros, and Olivier Tenaillon

Immunology

Paradoxical role of the proto-oncogene Axl and Mer receptor tyrosine kinases in colon cancer
Lidia Bosurgi, Jochem H. Bernink, Victor Delgado Cuevas, Nicola Gagliani, Leonel Joannas, Edward T. Schmid, Carmen J. Booth, Sourav Ghosh, and Carla V. Rothlin
Regulation of adipose tissue T cell subsets by Stat3 is crucial for diet-induced obesity and insulin resistance
Saul J. Priceman, Maciej Kujawski, Shudan Shen, Gregory A. Cherryholmes, Heehyoung Lee, Chunyan Zhang, Laura Kruper, Joanne Mortimer, Richard Jove, Arthur D. Riggs, and Hua Yu
Dietary gluten triggers concomitant activation of CD4+ and CD8+ αβ T cells and γδ T cells in celiac disease OPEN ACCESS ARTICLE
Arnold Han, Evan W. Newell, Jacob Glanville, Nielsen Fernandez-Becker, Chaitan Khosla, Yueh-hsiu Chien, and Mark M. Davis
Inflammatory monocytes are potent antitumor effectors controlled by regulatory CD4+ T cells
Arnaud Pommier, Alexandra Audemard, Aurélie Durand, Renée Lengagne, Arnaud Delpoux, Bruno Martin, Laetitia Douguet, Armelle Le Campion, Masashi Kato, Marie-Françoise Avril, Cédric Auffray, Bruno Lucas, and Armelle Prévost-Blondel
HLA targeting efficiency correlates with human T-cell response magnitude and with mortality from influenza A infection OPEN ACCESS ARTICLE
Tomer Hertz, Christine M. Oshansky, Philippa L. Roddam, John P. DeVincenzo, Miguela A. Caniza, Nebojsa Jojic, Simon Mallal, Elizabeth Phillips, Ian James, M. Elizabeth Halloran, Paul G. Thomas, and Lawrence Corey
Advertisements impact the physiological efficacy of a branded drug
Emir Kamenica, Robert Naclerio, and Anup Malani

Medical Sciences

Macrophage migration inhibitory factor (MIF) is a critical mediator of the innate immune response to Mycobacterium tuberculosis
Rituparna Das, Mi-Sun Koo, Bae Hoon Kim, Shevin T. Jacob, Selvakumar Subbian, Jie Yao, Lin Leng, Rebecca Levy, Charles Murchison, William J. Burman, Christopher C. Moore, W. Michael Scheld, John R. David, Gilla Kaplan, John D. MacMicking, and Richard Bucala
Monovalent antibody design and mechanism of action of onartuzumab, a MET antagonist with anti-tumor activity as a therapeutic agent OPEN ACCESS ARTICLE
Mark Merchant, Xiaolei Ma, Henry R. Maun, Zhong Zheng, Jing Peng, Mally Romero, Arthur Huang, Nai-ying Yang, Merry Nishimura, Joan Greve, Lydia Santell, Yu-Wen Zhang, Yanli Su, Dafna W. Kaufman, Karen L. Billeci, Elaine Mai, Barbara Moffat, Amy Lim, Eileen T. Duenas, Heidi S. Phillips, Hong Xiang, Judy C. Young, George F. Vande Woude, Mark S. Dennis, Dorothea E. Reilly, Ralph H. Schwall, Melissa A. Starovasnik, Robert A. Lazarus, and Daniel G. Yansura
Bispecific antibodies directed to CD4 domain 2 and HIV envelope exhibit exceptional breadth and picomolar potency against HIV-1
Craig S. Pace, Ruijiang Song, Christina Ochsenbauer, Chasity D. Andrews, David Franco, Jian Yu, Deena A. Oren, Michael S. Seaman, and David D. Ho
Exosome-mediated transmission of hepatitis C virus between human hepatoma Huh7.5 cells
Vedashree Ramakrishnaiah, Christine Thumann, Isabel Fofana, Francois Habersetzer, Qiuwei Pan, Petra E. de Ruiter, Rob Willemsen, Jeroen A. A. Demmers, Victor Stalin Raj, Guido Jenster, Jaap Kwekkeboom, Hugo W. Tilanus, Bart L. Haagmans, Thomas F. Baumert, and Luc J. W. van der Laan

Microbiology

Sulfatase-activated fluorophores for rapid discrimination of mycobacterial species and strains
Kimberly E. Beatty, Monique Williams, Brian L. Carlson, Benjamin M. Swarts, Robin M. Warren, Paul D. van Helden, and Carolyn R. Bertozzi
A riboswitch-regulated antisense RNA in Listeria monocytogenes OPEN ACCESS ARTICLE
J. R. Mellin, Teresa Tiensuu, Christophe Bécavin, Edith Gouin, Jörgen Johansson, and Pascale Cossart
Rapid and robust signaling in the CsrA cascade via RNA–protein interactions and feedback regulation
David Nellinger Adamson and Han N. Lim
Homologous 2′,5′-phosphodiesterases from disparate RNA viruses antagonize antiviral innate immunity
Rong Zhang, Babal K. Jha, Kristen M. Ogden, Beihua Dong, Ling Zhao, Ruth Elliott, John T. Patton, Robert H. Silverman, and Susan R. Weiss
Nucleosome maps of the human cytomegalovirus genome reveal a temporal switch in chromatin organization linked to a major IE protein
Einat Zalckvar, Christina Paulus, Desiree Tillo, Alexandra Asbach-Nitzsche, Yaniv Lubling, Carla Winterling, Nicholas Strieder, Katrin Mücke, Felicia Goodrum, Eran Segal, and Michael Nevels

Neuroscience

In vivo synaptic recovery following optogenetic hyperstimulation
Maike Kittelmann, Jana F. Liewald, Jan Hegermann, Christian Schultheis, Martin Brauner, Wagner Steuer Costa, Sebastian Wabnig, Stefan Eimer, and Alexander Gottschalk
Adult pallium transcriptomes surprise in not reflecting predicted homologies across diverse chicken and mouse pallial sectors OPEN ACCESS ARTICLE
T. Grant Belgard, Juan F. Montiel, Wei Zhi Wang, Fernando García-Moreno, Elliott H. Margulies, Chris P. Ponting, and Zoltán Molnár
Oscillatory activity in the monkey hippocampus during visual exploration and memory formation
Michael J. Jutras, Pascal Fries, and Elizabeth A. Buffalo
Neuropathic and inflammatory pain are modulated by tuberoinfundibular peptide of 39 residues
Eugene L. Dimitrov, Jonathan Kuo, Kenji Kohno, and Ted B. Usdin
Stimulus-dependent variability and noise correlations in cortical MT neurons
Adrián Ponce-Alvarez, Alexander Thiele, Thomas D. Albright, Gene R. Stoner, and Gustavo Deco
Synthesizing cognition in neuromorphic electronic systems
Emre Neftci, Jonathan Binas, Ueli Rutishauser, Elisabetta Chicca, Giacomo Indiveri, and Rodney J. Douglas
Targeting H3K4 trimethylation in Huntington disease
Malini Vashishtha, Christopher W. Ng, Ferah Yildirim, Theresa A. Gipson, Ian H. Kratter, Laszlo Bodai, Wan Song, Alice Lau, Adam Labadorf, Annie Vogel-Ciernia, Juan Troncosco, Christopher A. Ross, Gillian P. Bates, Dimitri Krainc, Ghazaleh Sadri-Vakili, Steven Finkbeiner, J. Lawrence Marsh, David E. Housman, Ernest Fraenkel, and Leslie M. Thompson

Physiology

Shear stress activation of nuclear receptor PXR in endothelial detoxification
Xiaohong Wang, Xi Fang, Jing Zhou, Zhen Chen, Beilei Zhao, Lei Xiao, Ao Liu, Yi-Shuan J. Li, John Y.-J. Shyy, Youfei Guan, Shu Chien, and Nanping Wang
Ca2+ release-activated Ca2+ channel blockade as a potential tool in antipancreatitis therapy OPEN ACCESS ARTICLE
Julia V. Gerasimenko, Oleksiy Gryshchenko, Pawel E. Ferdek, Eloise Stapleton, Tania O. G. Hébert, Solomiia Bychkova, Shuang Peng, Malcolm Begg, Oleg V. Gerasimenko, and Ole H. Petersen
Ion channel-kinase TRPM7 is required for maintaining cardiac automaticity
Rajan Sah, Pietro Mesirca, Marjolein Van den Boogert, Jonathan Rosen, John Mably, Matteo E. Mangoni, and David E. Clapham

Plant Biology

Single-particle analysis reveals shutoff control of the Arabidopsis ammonium transporter AMT1;3 by clustering and internalization OPEN ACCESS ARTICLE
Qinli Wang, Yuanyuan Zhao, Wangxi Luo, Ruili Li, Qihua He, Xiaohong Fang, Roberto De Michele, Cindy Ast, Nicolaus von Wirén, and Jinxing Lin
Ultradian metabolic rhythm in the diazotrophic cyanobacterium Cyanothece sp. ATCC 51142
Jan Červený, Maria A. Sinetova, Luis Valledor, Louis A. Sherman, and Ladislav Nedbal
Convergence of auxin and gibberellin signaling on the regulation of the GATA transcription factors GNC and GNL in Arabidopsis thaliana
René Richter, Carina Behringer, Melina Zourelidou, and Claus Schwechheimer
Six-rowed spike4 (Vrs4) controls spikelet determinacy and row-type in barley OPEN ACCESS ARTICLE
Ravi Koppolu, Nadia Anwar, Shun Sakuma, Akemi Tagiri, Udda Lundqvist, Mohammad Pourkheirandish, Twan Rutten, Christiane Seiler, Axel Himmelbach, Ruvini Ariyadasa, Helmy Mohamad Youssef, Nils Stein, Nese Sreenivasulu, Takao Komatsuda, and Thorsten Schnurbusch

Psychological and Cognitive Sciences

Bottlenose dolphins can use learned vocal labels to address each other
Stephanie L. King and Vincent M. Janik

Systems Biology

Intrinsic gray-matter connectivity of the brain in adults with autism spectrum disorder OPEN ACCESS ARTICLE
Christine Ecker, Lisa Ronan, Yue Feng, Eileen Daly, Clodagh Murphy, Cedric E. Ginestet, Michael Brammer, Paul C. Fletcher, Edward T. Bullmore, John Suckling, Simon Baron-Cohen, Steve Williams, Eva Loth, MRC AIMS Consortium, and Declan G. M. Murphy

Corrections

Correction for Chow et al., Rhythmic alternating patterns of brain activity distinguish rapid eye movement sleep from other states of consciousness
Correction for Talantova et al., Aβ induces astrocytic glutamate release, extrasynaptic NMDA receptor activation, and synaptic loss
Correction for Liebrand et al., Receptor-like kinase SOBIR1/EVR interacts with receptor-like proteins in plant immunity against fungal infection
Correction for Currie and Schwandt, Within-mother analysis of seasonal patterns in health at birth
Correction for Li et al., Soluble amyloid precursor protein (APP) regulates transthyretin and Klotho gene expression without rescuing the essential function of APP
Correction for Kong et al., Using distance correlation and SS-ANOVA to assess associations of familial relationships, lifestyle factors, diseases, and mortality
Correction for Chang et al., NF-κB inhibits osteogenic differentiation of mesenchymal stem cells by promoting β-catenin degradation

This message was sent to pascal.alter@gmail.com.

Copyright © 2013 by the National Academy of Sciences

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