Fwd: PNAS Section Alert for August 23, 2016

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Proceedings of the National Academy of Sciences Section Alert for August 23, 2016 Agricultural Sciences Autophagy and ubiquitin–proteasome system contribute to sperm mitophagy after mammalian fertilization Won-Hee Song, Young-Joo Yi, Miriam Sutovsky, Stuart Meyers, and Peter Sutovsky Genetics Overexpression screens identify conserved dosage chromosome instability genes in yeast and human cancer   Supipi Duffy, Hok Khim Fam, Yi Kan Wang, Erin B. Styles, Jung-Hyun Kim, J. Sidney Ang, Tejomayee Singh, Vladimir Larionov, Sohrab P. Shah, Brenda Andrews, Cornelius F. Boerkoel, and Philip Hieter Tandem duplications contribute to not one but two distinct phenotypes Johnathan Watkins, Andrew Tutt, and Anita Grigoriadis Reply to Watkins et al.: Whole-genome sequencing-based identification of diverse tandem duplicator phenotypes in human cancers Francesca Menghi and Edison T. Liu Extensive sequence divergence between the reference genomes of two elite indica rice varieties Zhenshan 97 and Minghui 63  Jianwei Zhang, Ling-Ling Chen, Feng Xing, David A. Kudrna, Wen Yao, Dario Copetti, Ting Mu, Weiming Li, Jia-Ming Song, Weibo Xie, Seunghee Lee, Jayson Talag, Lin Shao, Yue An, Chun-Liu Zhang, Yidan Ouyang, Shuai Sun, Wen-Biao Jiao, Fang Lv, Bogu Du, Meizhong Luo, Carlos Ernesto Maldonado, Jose Luis Goicoechea, Lizhong Xiong, Changyin Wu, Yongzhong Xing, Dao-Xiu Zhou, Sibin Yu, Yu Zhao, Gongwei Wang, Yeisoo Yu, Yijie Luo, Zhi-Wei Zhou, Beatriz Elena Padilla Hurtado, Ann Danowitz, Rod A. Wing, and Qifa Zhang Immunology and Inflammation Protein kinase CK2 governs the molecular decision between encephalitogenic TH17 cell and Treg cell development Alexander Ulges, Esther J. Witsch, Gautam Pramanik, Matthias Klein, Katharina Birkner, Ulrike Bühler, Beatrice Wasser, Felix Luessi, Natascha Stergiou, Sarah Dietzen, Till-Julius Brühl, Toszka Bohn, Georg Bündgen, Horst Kunz, Ari Waisman, Hansjörg Schild, Edgar Schmitt, Frauke Zipp, and Tobias Bopp NK cells activated by Interleukin-4 in cooperation with Interleukin-15 exhibit distinctive characteristics Tsuyoshi Kiniwa, Yutaka Enomoto, Natsumi Terazawa, Ai Omi, Naoko Miyata, Kenji Ishiwata, and Atsushi Miyajima Human mucosal-associated invariant T cells contribute to antiviral influenza immunity via IL-18–dependent activation  Liyen Loh, Zhongfang Wang, Sneha Sant, Marios Koutsakos, Sinthujan Jegaskanda, Alexandra J. Corbett, Ligong Liu, David P. Fairlie, Jane Crowe, Jamie Rossjohn, Jianqing Xu, Peter C. Doherty, James McCluskey, and Katherine Kedzierska Glimpse of natural selection of long-lived T-cell clones in healthy life Baojun Zhang, Qingzhu Jia, Cheryl Bock, Gang Chen, Haili Yu, Qingshan Ni, Ying Wan, Qijing Li, and Yuan Zhuang Applied Biological Sciences Biophysical insight into mechanisms of sonoporation Brandon Helfield, Xucai Chen, Simon C. Watkins, and Flordeliza S. Villanueva Applied Mathematics Fundamental structures of dynamic social networks  Vedran Sekara, Arkadiusz Stopczynski, and Sune Lehmann Rich gets simpler Renaud Lambiotte Medical Sciences Using the shortwave infrared to image middle ear pathologies Jessica A. Carr, Tulio A. Valdez, Oliver T. Bruns, and Moungi G. Bawendi Caspase-1 clipping causes complications for α-synuclein Silke Nuber and Dennis J. Selkoe Why Cockayne syndrome patients do not get cancer despite their DNA repair deficiency Kate S. Reid-Bayliss, Sarah T. Arron, Lawrence A. Loeb, Vladimir Bezrookove, and James E. Cleaver Applied Physical Sciences Electrorheology and classical processing as routes to produce chocolate Paul R. Smith Reply to Smith: Electrorheological technology reduces the chocolate viscosity and fat level Rongjia Tao, Hong Tang, Kazi Tawhid-Al-Islam, Enpeng Du, and Jeongyoon Kim Sandwich-structured polymer nanocomposites with high energy density and great charge–discharge efficiency at elevated temperatures Qi Li, Feihua Liu, Tiannan Yang, Matthew R. Gadinski, Guangzu Zhang, Long-Qing Chen, and Qing Wang Using the shortwave infrared to image middle ear pathologies Jessica A. Carr, Tulio A. Valdez, Oliver T. Bruns, and Moungi G. Bawendi Biophysical insight into mechanisms of sonoporation Brandon Helfield, Xucai Chen, Simon C. Watkins, and Flordeliza S. Villanueva Assembly of porous smectic structures formed from interlocking high-symmetry planar nanorings Carlos Avendaño, George Jackson, Erich A. Müller, and Fernando A. Escobedo Microbiology Vibrio cholerae biofilm growth program and architecture revealed by single-cell live imaging Jing Yan, Andrew G. Sharo, Howard A. Stone, Ned S. Wingreen, and Bonnie L. Bassler Baseplate assembly of phage Mu: Defining the conserved core components of contractile-tailed phages and related bacterial systems Carina R. Büttner, Yingzhou Wu, Karen L. Maxwell, and Alan R. Davidson Disulfide cross-linking influences symbiotic activities of nodule peptide NCR247 Mohammed Shabab, Markus F. F. Arnold, Jon Penterman, Andrew J. Wommack, Hartmut T. Bocker, Paul A. Price, Joel S. Griffitts, Elizabeth M. Nolan, and Graham C. Walker Light-driven carbon dioxide reduction to methane by nitrogenase in a photosynthetic bacterium  Kathryn R. Fixen, Yanning Zheng, Derek F. Harris, Sudipta Shaw, Zhi-Yong Yang, Dennis R. Dean, Lance C. Seefeldt, and Caroline S. Harwood Structural basis for the CsrA-dependent modulation of translation initiation by an ancient regulatory protein Florian Altegoer, Stefan A. Rensing, and Gert Bange Comparative genomics of biotechnologically important yeasts Robert Riley, Sajeet Haridas, Kenneth H. Wolfe, Mariana R. Lopes, Chris Todd Hittinger, Markus Göker, Asaf A. Salamov, Jennifer H. Wisecaver, Tanya M. Long, Christopher H. Calvey, Andrea L. Aerts, Kerrie W. Barry, Cindy Choi, Alicia Clum, Aisling Y. Coughlan, Shweta Deshpande, Alexander P. Douglass, Sara J. Hanson, Hans-Peter Klenk, Kurt M. LaButti, Alla Lapidus, Erika A. Lindquist, Anna M. Lipzen, Jan P. Meier-Kolthoff, Robin A. Ohm, Robert P. Otillar, Jasmyn L. Pangilinan, Yi Peng, Antonis Rokas, Carlos A. Rosa, Carmen Scheuner, Andriy A. Sibirny, Jason C. Slot, J. Benjamin Stielow, Hui Sun, Cletus P. Kurtzman, Meredith Blackwell, Igor V. Grigoriev, and Thomas W. Jeffries Neuroscience Reassessment of long-term depression in cerebellar Purkinje cells in mice carrying mutated GluA2 C terminus  Kazuhiko Yamaguchi, Shigeyoshi Itohara, and Masao Ito Semantic representations in the temporal pole predict false memories  Martin J. Chadwick, Raeesa S. Anjum, Dharshan Kumaran, Daniel L. Schacter, Hugo J. Spiers, and Demis Hassabis Regional scattering of primate subplate Zoltán Molnár and Anna Hoerder-Suabedissen Endogenous macrophage migration inhibitory factor reduces the accumulation and toxicity of misfolded SOD1 in a mouse model of ALS Marcel F. Leyton-Jaimes, Clara Benaim, Salah Abu-Hamad, Joy Kahn, Amos Guetta, Richard Bucala, and Adrian Israelson Biochemistry Catalytic strategy for carbon−carbon bond scission by the cytochrome P450 OleT Job L. Grant, Megan E. Mitchell, and Thomas Michael Makris TANGO1/cTAGE5 receptor as a polyvalent template for assembly of large COPII coats Wenfu Ma and Jonathan Goldberg Structures of the activator of K. pneumonia biofilm formation, MrkH, indicates PilZ domains involved in c-di-GMP and DNA binding  Maria A. Schumacher and Wenjie Zeng Structural characterization of acyl-CoA oxidases reveals a direct link between pheromone biosynthesis and metabolic state in Caenorhabditis elegans Xinxing Zhang, Kunhua Li, Rachel A. Jones, Steven D. Bruner, and Rebecca A. Butcher 2-Sulfonylpyrimidines: Mild alkylating agents with anticancer activity toward p53-compromised cells Matthias R. Bauer, Andreas C. Joerger, and Alan R. Fersht Precision glycocalyx editing as a strategy for cancer immunotherapy Han Xiao, Elliot C. Woods, Petar Vukojicic, and Carolyn R. Bertozzi Pharmacology Signal transmission through the CXC chemokine receptor 4 (CXCR4) transmembrane helices Melanie P. Wescott, Irina Kufareva, Cheryl Paes, Jason R. Goodman, Yana Thaker, Bridget A. Puffer, Eli Berdougo, Joseph B. Rucker, Tracy M. Handel, and Benjamin J. Doranz Biophysics and Computational Biology Emergence of ion channel modal gating from independent subunit kinetics Brendan A. Bicknell and Geoffrey J. Goodhill Changes in active site histidine hydrogen bonding trigger cryptochrome activation Abir Ganguly, Craig C. Manahan, Deniz Top, Estella F. Yee, Changfan Lin, Michael W. Young, Walter Thiel, and Brian R. Crane Clues to the mechanism of cholesterol transfer from the structure of NPC1 middle lumenal domain bound to NPC2  Xiaochun Li, Piyali Saha, Jian Li, Günter Blobel, and Suzanne R. Pfeffer Paradoxical signaling regulates structural plasticity in dendritic spines Padmini Rangamani, Michael G. Levy, Shahid Khan, and George Oster Superresolution intrinsic fluorescence imaging of chromatin utilizing native, unmodified nucleic acids for contrast  Biqin Dong, Luay M. Almassalha, Yolanda Stypula-Cyrus, Ben E. Urban, John E. Chandler, The-Quyen Nguyen, Cheng Sun, Hao F. Zhang, and Vadim Backman Physics The price of complexity in financial networks  Stefano Battiston, Guido Caldarelli, Robert M. May, Tarik Roukny, and Joseph E. Stiglitz Cell Biology PLEKHG3 enhances polarized cell migration by activating actin filaments at the cell front  Trang Thi Thu Nguyen, Wei Sun Park, Byung Ouk Park, Cha Yeon Kim, Yohan Oh, Jin Man Kim, Hana Choi, Taeyoon Kyung, Cheol-Hee Kim, Gabsang Lee, Klaus M. Hahn, Tobias Meyer, and Won Do Heo Clathrin light chains' role in selective endocytosis influences antibody isotype switching Shuang Wu, Sophia R. Majeed, Timothy M. Evans, Marine D. Camus, Nicole M. L. Wong, Yvette Schollmeier, Minjong Park, Jagan R. Muppidi, Andrea Reboldi, Peter Parham, Jason G. Cyster, and Frances M. Brodsky Binding of EBP50 to Nox organizing subunit p47phox is pivotal to cellular reactive species generation and altered vascular phenotype Imad Al Ghouleh, Daniel N. Meijles, Stephanie Mutchler, Qiangmin Zhang, Sanghamitra Sahoo, Anastasia Gorelova, Jefferson Henrich Amaral, Andrés I. Rodríguez, Tatyana Mamonova, Gyun Jee Song, Alessandro Bisello, Peter A. Friedman, M. Eugenia Cifuentes-Pagano, and Patrick J. Pagano Lysine methylation represses p53 activity in teratocarcinoma cancer cells Jiajun Zhu, Zhixun Dou, Morgan A. Sammons, Arnold J. Levine, and Shelley L. Berger Physiology Bioelectric impact of pathological angiogenesis on vascular function  Donald G. Puro, Ryohsuke Kohmoto, Yasushi Fujita, Thomas W. Gardner, and Dolly A. Padovani-Claudio Stromal uptake and transmission of acid is a pathway for venting cancer cell-generated acid  Alzbeta Hulikova, Nicholas Black, Lin-Ting Hsia, Jennifer Wilding, Walter F. Bodmer, and Pawel Swietach Chemistry Catalytic strategy for carbon−carbon bond scission by the cytochrome P450 OleT Job L. Grant, Megan E. Mitchell, and Thomas Michael Makris Changes in active site histidine hydrogen bonding trigger cryptochrome activation Abir Ganguly, Craig C. Manahan, Deniz Top, Estella F. Yee, Changfan Lin, Michael W. Young, Walter Thiel, and Brian R. Crane Precision glycocalyx editing as a strategy for cancer immunotherapy Han Xiao, Elliot C. Woods, Petar Vukojicic, and Carolyn R. Bertozzi Plant Biology Cytosolic activation of cell death and stem rust resistance by cereal MLA-family CC–NLR proteins Stella Cesari, John Moore, Chunhong Chen, Daryl Webb, Sambasivam Periyannan, Rohit Mago, Maud Bernoux, Evans S. Lagudah, and Peter N. Dodds Regulatory network analysis reveals novel regulators of seed desiccation tolerance in Arabidopsis thaliana  Sandra Isabel González-Morales, Ricardo A. Chávez-Montes, Corina Hayano-Kanashiro, Gerardo Alejo-Jacuinde, Thelma Y. Rico-Cambron, Stefan de Folter, and Luis Herrera-Estrella Developmental Biology Hedgehog-dependent E3-ligase Midline1 regulates ubiquitin-mediated proteasomal degradation of Pax6 during visual system development Thorsten Pfirrmann, Enrico Jandt, Swantje Ranft, Ashwin Lokapally, Herbert Neuhaus, Muriel Perron, and Thomas Hollemann Stepwise metamorphosis of the tubeworm Hydroides elegans is mediated by a bacterial inducer and MAPK signaling  Nicholas J. Shikuma, Igor Antoshechkin, João M. Medeiros, Martin Pilhofer, and Dianne K. Newman Notch-mediated lateral inhibition regulates proneural wave propagation when combined with EGF-mediated reaction diffusion  Makoto Sato, Tetsuo Yasugi, Yoshiaki Minami, Takashi Miura, and Masaharu Nagayama Earth, Atmospheric, and Planetary Sciences Jury is still out on the radiative forcing by black carbon Olivier Boucher, Yves Balkanski, Øivind Hodnebrog, Cathrine Lund Myhre, Gunnar Myhre, Johannes Quaas, Bjørn Hallvard Samset, Nick Schutgens, Philip Stier, and Rong Wang Reply to Boucher et al.: Rate and timescale of black carbon aging regulate direct radiative forcing Renyi Zhang, Jianfei Peng, Yuan Wang, and Min Hu Direct observation of aqueous secondary organic aerosol from biomass-burning emissions  Stefania Gilardoni, Paola Massoli, Marco Paglione, Lara Giulianelli, Claudio Carbone, Matteo Rinaldi, Stefano Decesari, Silvia Sandrini, Francesca Costabile, Gian Paolo Gobbi, Maria Chiara Pietrogrande, Marco Visentin, Fabiana Scotto, Sandro Fuzzi, and Maria Cristina Facchini Psychological and Cognitive Sciences Self-regulation via neural simulation Michael Gilead, Chelsea Boccagno, Melanie Silverman, Ran R. Hassin, Jochen Weber, and Kevin N. Ochsner Semantic representations in the temporal pole predict false memories  Martin J. Chadwick, Raeesa S. Anjum, Dharshan Kumaran, Daniel L. Schacter, Hugo J. Spiers, and Demis Hassabis How chimpanzees cooperate in a competitive world Malini Suchak, Timothy M. Eppley, Matthew W. Campbell, Rebecca A. Feldman, Luke F. Quarles, and Frans B. M. de Waal Power in everyday life Pamela K. Smith and Wilhelm Hofmann Ecology Bird assemblage vulnerability depends on the diversity and biogeographic histories of islands  Brian C. Weeks, Nichar Gregory, and Shahid Naeem Social Sciences Fundamental structures of dynamic social networks  Vedran Sekara, Arkadiusz Stopczynski, and Sune Lehmann Rich gets simpler Renaud Lambiotte Economic Sciences The price of complexity in financial networks  Stefano Battiston, Guido Caldarelli, Robert M. May, Tarik Roukny, and Joseph E. Stiglitz Engineering Superresolution intrinsic fluorescence imaging of chromatin utilizing native, unmodified nucleic acids for contrast  Biqin Dong, Luay M. Almassalha, Yolanda Stypula-Cyrus, Ben E. Urban, John E. Chandler, The-Quyen Nguyen, Cheng Sun, Hao F. Zhang, and Vadim Backman Environmental Sciences Climate-driven ground-level ozone extreme in the fall over the Southeast United States  Yuzhong Zhang and Yuhang Wang Systems Biology pH determines the energetic efficiency of the cyanobacterial CO2 concentrating mechanism Niall M. Mangan, Avi Flamholz, Rachel D. Hood, Ron Milo, and David F. Savage Evolution Nutrition mediates the expression of cultivar–farmer conflict in a fungus-growing ant  Jonathan Z. Shik, Ernesto B. Gomez, Pepijn W. Kooij, Juan C. Santos, William T. Wcislo, and Jacobus J. Boomsma Geography and major host evolutionary transitions shape the resource use of plant parasites Joaquín Calatayud, José Luis Hórreo, Jaime Madrigal-González, Alain Migeon, Miguel Á. Rodríguez, Sara Magalhães, and Joaquín Hortal QnAs QnAs with Huda Y. Zoghbi Prashant Nair In This Issue In This Issue Letters and Replies Jury is still out on the radiative forcing by black carbon Olivier Boucher, Yves Balkanski, Øivind Hodnebrog, Cathrine Lund Myhre, Gunnar Myhre, Johannes Quaas, Bjørn Hallvard Samset, Nick Schutgens, Philip Stier, and Rong Wang Reply to Boucher et al.: Rate and timescale of black carbon aging regulate direct radiative forcing Renyi Zhang, Jianfei Peng, Yuan Wang, and Min Hu Electrorheology and classical processing as routes to produce chocolate Paul R. Smith Reply to Smith: Electrorheological technology reduces the chocolate viscosity and fat level Rongjia Tao, Hong Tang, Kazi Tawhid-Al-Islam, Enpeng Du, and Jeongyoon Kim Tandem duplications contribute to not one but two distinct phenotypes Johnathan Watkins, Andrew Tutt, and Anita Grigoriadis Reply to Watkins et al.: Whole-genome sequencing-based identification of diverse tandem duplicator phenotypes in human cancers Francesca Menghi and Edison T. Liu Open Access From the Cover Inaugural Article Classic Cozzarelli Prize Winner Front Matter This message was sent to pascal.alter@gmail.com. Customer Service * 425 Broadway St * Redwood City, CA 94063 * U.S.A. Copyright © 2016 by the National Academy of Sciences