PNAS Table of Contents for May 15, 2018; Vol. 115, No. 20

[PNAS] [Providing immediate access to current research.](/cgi/adclick/?ad=52509&adclick=true&url=http%3A%2F%2Fwww.pnas.org%2Fsite%2Faboutpnas%2Findex.xhtml)   [May 15, 2018; Vol. 115, No. 20]( ) This Week in PNAS [In This Issue]( --------------------------------------------------------------- Letters (Online Only) [Asking endosymbionts to do an enzyme’s job]( Sriram G. Garg and William F. Martin [Reply to Garg and Martin: The mechanism works]( István Zachar, András Szilágyi, Szabolcs Számadó, and Eörs Szathmáry [Diet influences host–microbiota associations in Drosophila]( Benjamin Obadia, Erin S. Keebaugh, Ryuichi Yamada, William B. Ludington, and William W. Ja [Reply to Obadia et al.: Effect of methyl paraben on host–microbiota interactions in Drosophila melanogaster]( Philip T. Leftwich, Naomi V. E. Clarke, Matthew I. Hutchings, and Tracey Chapman --------------------------------------------------------------- Opinion [Opinion: Reproducibility failures are essential to scientific inquiry]( A. David Redish, Erich Kummerfeld, Rebecca Lea Morris, and Alan C. Love Leading scientists discuss current issues. --------------------------------------------------------------- QnAs [QnAs with Nicholas C. Spitzer]( Paul Gabrielsen --------------------------------------------------------------- Retrospective [Jack Halpern (1925–2018): Pioneer of homogeneous catalysis]( John E. Bercaw --------------------------------------------------------------- Commentaries [Rational application of macrophage-specific LXR agonists avoids the pitfalls of SREBP-induced lipogenesis]( Jason A. Magida and Ronald M. Evans [Incorporating light atoms into synthetic analogues of FeMoco]( Daniel E. DeRosha and Patrick L. Holland [Adaptive and nonadaptive changes in phenological synchrony]( Andreas Lindén --------------------------------------------------------------- PNAS Plus Significance Statements [PNAS Plus Significance Statements]( Brief statements written by the authors about the significance of their papers. --------------------------------------------------------------- Physical Sciences Applied Physical Sciences [Quantum indistinguishability in chemical reactions]( Matthew P. A. Fisher and Leo Radzihovsky [Mass-correlated rotational Raman spectra with high resolution, broad bandwidth, and absolute frequency accuracy]( Christian Schröter, Jong Chan Lee, and Thomas Schultz [Site-selective measurement of coupled spin pairs in an organic semiconductor]( S. L. Bayliss, L. R. Weiss, A. Mitioglu, K. Galkowski, Z. Yang, K. Yunusova, A. Surrente, K. J. Thorley, J. Behrends, R. Bittl, J. E. Anthony, A. Rao, R. H. Friend, P. Plochocka, P. C. M. Christianen, N. C. Greenham, and A. D. Chepelianskii Biophysics and Computational Biology [Green function of correlated genes in a minimal mechanical model of protein evolution]( Sandipan Dutta, Jean-Pierre Eckmann, Albert Libchaber, and Tsvi Tlusty [The C-terminal extension landscape of naturally presented HLA-I ligands]( Philippe Guillaume, Sarah Picaud, Petra Baumgaertner, Nicole Montandon, Julien Schmidt, Daniel E. Speiser, George Coukos, Michal Bassani-Sternberg, Panagis Filippakopoulos, and David Gfeller [Tertiary structure of apolipoprotein A-I in nascent high-density lipoproteins]( Mohsen Pourmousa, Hyun D. Song, Yi He, Jay W. Heinecke, Jere P. Segrest, and Richard W. Pastor Chemistry [Local initiation conditions for water autoionization]( Mahmoud Moqadam, Anders Lervik, Enrico Riccardi, Vishwesh Venkatraman, Bjørn Kåre Alsberg, and Titus S. van Erp [Tunneling explains efficient electron transport via protein junctions]( Jerry A. Fereiro, Xi Yu, Israel Pecht, Mordechai Sheves, Juan Carlos Cuevas, and David Cahen [Ligand metathesis as rational strategy for the synthesis of cubane-type heteroleptic iron–sulfur clusters relevant to the FeMo cofactor]( Gan Xu, Zheng Wang, Rong Ling, Jie Zhou, Xu-Dong Chen, and Richard H. Holm [Catalytic amino acid production from biomass-derived intermediates]( Weiping Deng, Yunzhu Wang, Sui Zhang, Krishna M. Gupta, Max J. Hülsey, Hiroyuki Asakura, Lingmei Liu, Yu Han, Eric M. Karp, Gregg T. Beckham, Paul J. Dyson, Jianwen Jiang, Tsunehiro Tanaka, Ye Wang, and Ning Yan [Imaging mycobacterial growth and division with a fluorogenic probe]( Heather L. Hodges, Robert A. Brown, John A. Crooks, Douglas B. Weibel, and Laura L. Kiessling Earth, Atmospheric, and Planetary Sciences [Unexpected slowdown of US pollutant emission reduction in the past decade]( Zhe Jiang, Brian C. McDonald, Helen Worden, John R. Worden, Kazuyuki Miyazaki, Zhen Qu, Daven K. Henze, Dylan B. A. Jones, Avelino F. Arellano, Emily V. Fischer, Liye Zhu, and K. Folkert Boersma [Quantifying flow and stress in ice mélange, the world’s largest granular material]( Justin C. Burton, Jason M. Amundson, Ryan Cassotto, Chin-Chang Kuo, and Michael Dennin [Earth’s magnetic field is probably not reversing]( Maxwell Brown, Monika Korte, Richard Holme, Ingo Wardinski, and Sydney Gunnarson [Quantifying ecological impacts of mass extinctions with network analysis of fossil communities]( A. D. Muscente, Anirudh Prabhu, Hao Zhong, Ahmed Eleish, Michael B. Meyer, Peter Fox, Robert M. Hazen, and Andrew H. Knoll Engineering [Roughness-dependent tribology effects on discontinuous shear thickening]( Chiao-Peng Hsu, Shivaprakash N. Ramakrishna, Michele Zanini, Nicholas D. Spencer, and Lucio Isa Physics [Gravisensors in plant cells behave like an active granular liquid]( Antoine Bérut, Hugo Chauvet, Valérie Legué, Bruno Moulia, Olivier Pouliquen, and Yoël Forterre [Support for the value 5/2 for the spin glass lower critical dimension at zero magnetic field]( Andrea Maiorano and Giorgio Parisi [High-order fractal states in graphene superlattices]( R. Krishna Kumar, A. Mishchenko, X. Chen, S. Pezzini, G. H. Auton, L. A. Ponomarenko, U. Zeitler, L. Eaves, V. I. Fal’ko, and A. K. Geim [Doped Kondo chain, a heavy Luttinger liquid]( Ilia Khait, Patrick Azaria, Claudius Hubig, Ulrich Schollwöck, and Assa Auerbach --------------------------------------------------------------- Social Sciences Anthropology [Symbolic emblems of the Levantine Aurignacians as a regional entity identifier (Hayonim Cave, Lower Galilee, Israel)]( José-Miguel Tejero, Anna Belfer-Cohen, Ofer Bar-Yosef, Vitaly Gutkin, and Rivka Rabinovich Environmental Sciences [Optimizing the impact of low-efficacy influenza vaccines]( Pratha Sah, Jan Medlock, Meagan C. Fitzpatrick, Burton H. Singer, and Alison P. Galvani Psychological and Cognitive Sciences [Neuronal activity regulates neurotransmitter switching in the adult brain following light-induced stress]( Da Meng, Hui-quan Li, Karl Deisseroth, Stefan Leutgeb, and Nicholas C. Spitzer Sustainability Science [Hidden collapse is driven by fire and logging in a socioecological forest ecosystem]( David B. Lindenmayer and Chloe Sato --------------------------------------------------------------- Biological Sciences Applied Biological Sciences [Optimizing the impact of low-efficacy influenza vaccines]( Pratha Sah, Jan Medlock, Meagan C. Fitzpatrick, Burton H. Singer, and Alison P. Galvani Biochemistry [Histone demethylase JMJD1A promotes alternative splicing of AR variant 7 (AR-V7) in prostate cancer cells]( Lingling Fan, Fengbo Zhang, Songhui Xu, Xiaolu Cui, Arif Hussain, Ladan Fazli, Martin Gleave, Xuesen Dong, and Jianfei Qi [An endogenous dAMP ligand in Bacillus subtilis class Ib RNR promotes assembly of a noncanonical dimer for regulation by dATP]( Mackenzie J. Parker, Ailiena O. Maggiolo, William C. Thomas, Albert Kim, Steve P. Meisburger, Nozomi Ando, Amie K. Boal, and JoAnne Stubbe [Mechanistic studies of a small-molecule modulator of SMN2 splicing]( Jingxin Wang, Peter G. Schultz, and Kristen A. Johnson [Ribosome protection by antibiotic resistance ATP-binding cassette protein]( Weixin Su, Veerendra Kumar, Yichen Ding, Rya Ero, Aida Serra, Benjamin Sian Teck Lee, Andrew See Weng Wong, Jian Shi, Siu Kwan Sze, Liang Yang, and Yong-Gui Gao Biophysics and Computational Biology [Green function of correlated genes in a minimal mechanical model of protein evolution]( Sandipan Dutta, Jean-Pierre Eckmann, Albert Libchaber, and Tsvi Tlusty [KIF15 nanomechanics and kinesin inhibitors, with implications for cancer chemotherapeutics]( Bojan Milic, Anirban Chakraborty, Kyuho Han, Michael C. Bassik, and Steven M. Block [Tertiary structure of apolipoprotein A-I in nascent high-density lipoproteins]( Mohsen Pourmousa, Hyun D. Song, Yi He, Jay W. Heinecke, Jere P. Segrest, and Richard W. Pastor [Butane dihedral angle dynamics in water is dominated by internal friction]( Jan O. Daldrop, Julian Kappler, Florian N. Brünig, and Roland R. Netz Cell Biology [Distinct gating mechanism of SOC channel involving STIM–Orai coupling and an intramolecular interaction of Orai in Caenorhabditis elegans]( Kyu Min Kim, Tharaka Wijerathne, Jin-Hoe Hur, Uk Jung Kang, Ihn Hyeong Kim, Yeong Cheon Kweon, Ah Reum Lee, Su Ji Jeong, Sang Kwon Lee, Yoon Young Lee, Bo-Woong Sim, Jong-Hee Lee, Chunggi Baig, Sun-Uk Kim, Kyu-Tae Chang, Kyu Pil Lee, and Chan Young Park [Insulin promoter in human pancreatic β cells contacts diabetes susceptibility loci and regulates genes affecting insulin metabolism]( Xing Jian and Gary Felsenfeld Developmental Biology [A comprehensive omics analysis and functional survey of cuticular proteins in the brown planthopper]( Peng-Lu Pan, Yu-Xuan Ye, Yi-Han Lou, Jia-Bao Lu, Chen Cheng, Yan Shen, Bernard Moussian, and Chuan-Xi Zhang Ecology [Hidden collapse is driven by fire and logging in a socioecological forest ecosystem]( David B. Lindenmayer and Chloe Sato [Plant acclimation to long-term high nitrogen deposition in an N-rich tropical forest]( Xiankai Lu, Peter M. Vitousek, Qinggong Mao, Frank S. Gilliam, Yiqi Luo, Guoyi Zhou, Xiaoming Zou, Edith Bai, Todd M. Scanlon, Enqing Hou, and Jiangming Mo [Habitat degradation negatively affects auditory settlement behavior of coral reef fishes]( Timothy A. C. Gordon, Harry R. Harding, Kathryn E. Wong, Nathan D. Merchant, Mark G. Meekan, Mark I. McCormick, Andrew N. Radford, and Stephen D. Simpson [Symbiotic polydnavirus of a parasite manipulates caterpillar and plant immunity]( Ching-Wen Tan, Michelle Peiffer, Kelli Hoover, Cristina Rosa, Flor E. Acevedo, and Gary W. Felton [Symbiotic polydnavirus and venom reveal parasitoid to its hyperparasitoids]( Feng Zhu, Antonino Cusumano, Janneke Bloem, Berhane T. Weldegergis, Alexandre Villela, Nina E. Fatouros, Joop J. A. van Loon, Marcel Dicke, Jeffrey A. Harvey, Heiko Vogel, and Erik H. Poelman [Global shifts in the phenological synchrony of species interactions over recent decades]( Heather M. Kharouba, Johan Ehrlén, Andrew Gelman, Kjell Bolmgren, Jenica M. Allen, Steve E. Travers, and Elizabeth M. Wolkovich Evolution [Escherichia coli cultures maintain stable subpopulation structure during long-term evolution]( Megan G. Behringer, Brian I. Choi, Samuel F. Miller, Thomas G. Doak, Jonathan A. Karty, Wanfeng Guo, and Michael Lynch [Quantifying ecological impacts of mass extinctions with network analysis of fossil communities]( A. D. Muscente, Anirudh Prabhu, Hao Zhong, Ahmed Eleish, Michael B. Meyer, Peter Fox, Robert M. Hazen, and Andrew H. Knoll [Genomic adaptation to drought in wild barley is driven by edaphic natural selection at the Tabigha Evolution Slope]( Xiaolei Wang, Zhong-Hua Chen, Chongyi Yang, Xuelei Zhang, Gulei Jin, Guang Chen, Yuanyuan Wang, Paul Holford, Eviatar Nevo, Guoping Zhang, and Fei Dai [Symbiont switching and alternative resource acquisition strategies drive mutualism breakdown]( Gijsbert D. A. Werner, Johannes H. C. Cornelissen, William K. Cornwell, Nadejda A. Soudzilovskaia, Jens Kattge, Stuart A. West, and E. Toby Kiers Genetics [CRISPR/Cas9-mediated genome editing in a reef-building coral]( Phillip A. Cleves, Marie E. Strader, Line K. Bay, John R. Pringle, and Mikhail V. Matz [Mechanism for survival of homozygous nonsense mutations in the tumor suppressor gene BRCA1]( Aaron Seo, Orna Steinberg-Shemer, Sule Unal, Silvia Casadei, Tom Walsh, Fatma Gumruk, Stavit Shalev, Akiko Shimamura, Nurten Ayse Akarsu, Hannah Tamary, and Mary-Claire King [Systematic analysis of copy number variation associated with congenital diaphragmatic hernia]( Qihui Zhu, Frances A. High, Chengsheng Zhang, Eliza Cerveira, Meaghan K. Russell, Mauro Longoni, Maliackal P. Joy, Mallory Ryan, Adam Mil-homens, Lauren Bellfy, Caroline M. Coletti, Pooja Bhayani, Regis Hila, Jay M. Wilson, Patricia K. Donahoe, and Charles Lee Immunology and Inflammation [Metabolic control of T cell immune response through glycans in inflammatory bowel disease]( Ana M. Dias, Alexandra Correia, Márcia S. Pereira, Catarina R. Almeida, Inês Alves, Vanda Pinto, Telmo A. Catarino, Nuno Mendes, Magdalena Leander, M. Teresa Oliva-Teles, Luís Maia, Cristina Delerue-Matos, Naoyuki Taniguchi, Margarida Lima, Isabel Pedroto, Ricardo Marcos-Pinto, Paula Lago, Celso A. Reis, Manuel Vilanova, and Salomé S. Pinho [The C-terminal extension landscape of naturally presented HLA-I ligands]( Philippe Guillaume, Sarah Picaud, Petra Baumgaertner, Nicole Montandon, Julien Schmidt, Daniel E. Speiser, George Coukos, Michal Bassani-Sternberg, Panagis Filippakopoulos, and David Gfeller [Revisiting the role of IRF3 in inflammation and immunity by conditional and specifically targeted gene ablation in mice]( Hideyuki Yanai, Shiho Chiba, Sho Hangai, Kohei Kometani, Asuka Inoue, Yoshitaka Kimura, Takaya Abe, Hiroshi Kiyonari, Junko Nishio, Naoko Taguchi-Atarashi, Yu Mizushima, Hideo Negishi, Rudolf Grosschedl, and Tadatsugu Taniguchi [Less immune activation following social stress in rural vs. urban participants raised with regular or no animal contact, respectively]( Till S. Böbel, Sascha B. Hackl, Dominik Langgartner, Marc N. Jarczok, Nicolas Rohleder, Graham A. Rook, Christopher A. Lowry, Harald Gündel, Christiane Waller, and Stefan O. Reber [Revealing the specificity of regulatory T cells in murine autoimmune diabetes]( Allyson Spence, Whitney Purtha, Janice Tam, Shen Dong, Youmin Kim, Chia-Hsin Ju, Teague Sterling, Maki Nakayama, William H. Robinson, Jeffrey A. Bluestone, Mark S. Anderson, and Qizhi Tang Medical Sciences [Distinct roles of resident and nonresident macrophages in nonischemic cardiomyopathy]( Xudong Liao, Yuyan Shen, Rongli Zhang, Keiki Sugi, Neelakantan T. Vasudevan, M. Amer Alaiti, David R. Sweet, Lin Zhou, Yulan Qing, Stanton L. Gerson, Chen Fu, Anthony Wynshaw-Boris, Rui Hu, Martin A. Schwartz, Hisashi Fujioka, Brian Richardson, Mark J. Cameron, Hiroki Hayashi, Jonathan S. Stamler, and Mukesh K. Jain Microbiology [Imaging mycobacterial growth and division with a fluorogenic probe]( Heather L. Hodges, Robert A. Brown, John A. Crooks, Douglas B. Weibel, and Laura L. Kiessling Neuroscience [Structural homo- and heterosynaptic plasticity in mature and adult newborn rat hippocampal granule cells]( Tassilo Jungenitz, Marcel Beining, Tijana Radic, Thomas Deller, Hermann Cuntz, Peter Jedlicka, and Stephan W. Schwarzacher [Neuronal activity regulates neurotransmitter switching in the adult brain following light-induced stress]( Da Meng, Hui-quan Li, Karl Deisseroth, Stefan Leutgeb, and Nicholas C. Spitzer [Structured networks support sparse traveling waves in rodent somatosensory cortex]( Samat Moldakarimov, Maxim Bazhenov, Daniel E. Feldman, and Terrence J. Sejnowski Pharmacology [Lipidomic profiling reveals soluble epoxide hydrolase as a therapeutic target of obesity-induced colonic inflammation]( Weicang Wang, Jun Yang, Jianan Zhang, Yuxin Wang, Sung Hee Hwang, Weipeng Qi, Debin Wan, Daeyoung Kim, Jia Sun, Katherine Z. Sanidad, Haixia Yang, Yeonhwa Park, Jun-Yan Liu, Xinfeng Zhao, Xiaohui Zheng, Zhenhua Liu, Bruce D. Hammock, and Guodong Zhang Physiology [Cell-specific discrimination of desmosterol and desmosterol mimetics confers selective regulation of LXR and SREBP in macrophages]( Evan D. Muse, Shan Yu, Chantle R. Edillor, Jenhan Tao, Nathanael J. Spann, Ty D. Troutman, Jason S. Seidman, Adam Henke, Jason T. Roland, Katherine A. Ozeki, Bonne M. Thompson, Jeffrey G. McDonald, John Bahadorani, Sotirios Tsimikas, Tamar R. Grossman, Matthew S. Tremblay, and Christopher K. Glass Plant Biology [Loss of a highly conserved sterile alpha motif domain gene (WEEP) results in pendulous branch growth in peach trees]( Courtney A. Hollender, Thierry Pascal, Amy Tabb, Toto Hadiarto, Chinnathambi Srinivasan, Wanpeng Wang, Zhongchi Liu, Ralph Scorza, and Chris Dardick [Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses]( Robin van Velzen, Rens Holmer, Fengjiao Bu, Luuk Rutten, Arjan van Zeijl, Wei Liu, Luca Santuari, Qingqin Cao, Trupti Sharma, Defeng Shen, Yuda Roswanjaya, Titis A. K. Wardhani, Maryam Seifi Kalhor, Joelle Jansen, Johan van den Hoogen, Berivan Güngör, Marijke Hartog, Jan Hontelez, Jan Verver, Wei-Cai Yang, Elio Schijlen, Rimi Repin, Menno Schilthuizen, M. Eric Schranz, Renze Heidstra, Kana Miyata, Elena Fedorova, Wouter Kohlen, Ton Bisseling, Sandra Smit, and Rene Geurts [MYB30 links ROS signaling, root cell elongation, and plant immune responses]( Kaho Mabuchi, Hiromasa Maki, Tomotaka Itaya, Takamasa Suzuki, Mika Nomoto, Satomi Sakaoka, Atsushi Morikami, Tetsuya Higashiyama, Yasuomi Tada, Wolfgang Busch, and Hironaka Tsukagoshi [FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis]( Jennifer M. Frost, M. Yvonne Kim, Guen Tae Park, Ping-Hung Hsieh, Miyuki Nakamura, Samuel J. H. Lin, Hyunjin Yoo, Jaemyung Choi, Yoko Ikeda, Tetsu Kinoshita, Yeonhee Choi, Daniel Zilberman, and Robert L. Fischer [Gravisensors in plant cells behave like an active granular liquid]( Antoine Bérut, Hugo Chauvet, Valérie Legué, Bruno Moulia, Olivier Pouliquen, and Yoël Forterre [Symbiotic root infections in Medicago truncatula require remorin-mediated receptor stabilization in membrane nanodomains]( Pengbo Liang, Thomas F. Stratil, Claudia Popp, Macarena Marín, Jessica Folgmann, Kirankumar S. Mysore, Jiangqi Wen, and Thomas Ott Sustainability Science [Comparative terrestrial feed and land use of an aquaculture-dominant world]( Halley E. Froehlich, Claire A. Runge, Rebecca R. Gentry, Steven D. Gaines, and Benjamin S. Halpern --------------------------------------------------------------- Corrections (Online Only) [Correction for Jenkitkasemwong et al., SLC39A14 deficiency alters manganese homeostasis and excretion resulting in brain manganese accumulation and motor deficits in mice]( [Correction for Martin-Sanchez et al., TWEAK and RIPK1 mediate a second wave of cell death during AKI]( [Correction for Sanjak et al., Evidence of directional and stabilizing selection in contemporary humans]( [Cover] --------------------------------------------------------------- This message was sent to {EMAIL}. [Unsubscribe]( from or [edit]( your subscription for this service. Or by mail: Customer Service * 973 University Avenue * Los Gatos, CA 95032 * U.S.A. Copyright © 2018 by the National Academy of Sciences