Table of Contents

Biological Sciences

• Biochemistry

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    The structural basis for cancer drug interactions with the catalytic and allosteric sites of SAMHD1

    Kirsten M. Knecht, Olga Buzovetsky, Constanze Schneider, Dominique Thomas, Vishok Srikanth, Lars Kaderali, Florentina Tofoleanu, Krystle Reiss, Nerea Ferreirós, Gerd Geisslinger, Victor S. Batista, Xiaoyun Ji, Jindrich Cinatl Jr., Oliver T. Keppler, and Yong Xiong

    PNAS October 23, 2018 115 (43) E10022-E10031; first published October 10, 2018. https://doi.org/10.1073/pnas.1805593115
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    Molecular mechanism of activation of the immunoregulatory amidase NAAA

    Alexei Gorelik, Ahmad Gebai, Katalin Illes, Daniele Piomelli, and Bhushan Nagar

    PNAS October 23, 2018 115 (43) E10032-E10040; first published October 9, 2018. https://doi.org/10.1073/pnas.1811759115
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    Meiosis-specific recombinase Dmc1 is a potent inhibitor of the Srs2 antirecombinase

    J. Brooks Crickard, Kyle Kaniecki, Youngho Kwon, Patrick Sung, and Eric C. Greene

    PNAS October 23, 2018 115 (43) E10041-E10048; first published October 9, 2018. https://doi.org/10.1073/pnas.1810457115
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    Cryo-EM structures of ASC and NLRC4 CARD filaments reveal a unified mechanism of nucleation and activation of caspase-1

    • Inaugural Article

    Yang Li, Tian-Min Fu, Alvin Lu, Kristen Witt, Jianbin Ruan, Chen Shen, and Hao Wu

    PNAS October 23, 2018 115 (43) 10845-10852; first published October 2, 2018. https://doi.org/10.1073/pnas.1810524115

    See companion article:

    • Profile of Hao Wu

      - Jan 22, 2019

• Biophysics and Computational Biology

  • Open Access

    Randomly distributed embedding making short-term high-dimensional data predictable

    Huanfei Ma, Siyang Leng, Kazuyuki Aihara, Wei Lin, and Luonan Chen

    PNAS October 23, 2018 115 (43) E9994-E10002; first published October 8, 2018. https://doi.org/10.1073/pnas.1802987115
  • Open Access

    Entropic contribution to enhanced thermal stability in the thermostable P450 CYP119

    Zhuo Liu, Sara Lemmonds, Juan Huang, Madhusudan Tyagi, Liang Hong, and Nitin Jain

    PNAS October 23, 2018 115 (43) E10049-E10058; first published October 8, 2018. https://doi.org/10.1073/pnas.1807473115
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    Swi5–Sfr1 stimulates Rad51 recombinase filament assembly by modulating Rad51 dissociation

    Chih-Hao Lu, Hsin-Yi Yeh, Guan-Chin Su, Kentaro Ito, Yumiko Kurokawa, Hiroshi Iwasaki, Peter Chi, and Hung-Wen Li

    PNAS October 23, 2018 115 (43) E10059-E10068; first published October 8, 2018. https://doi.org/10.1073/pnas.1812753115
  • Open Access

    Nonproteinogenic deep mutational scanning of linear and cyclic peptides

    Joseph M. Rogers, Toby Passioura, and Hiroaki Suga

    PNAS October 23, 2018 115 (43) 10959-10964; first published October 9, 2018. https://doi.org/10.1073/pnas.1809901115
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    Protein shape modulates crowding effects

    Alex J. Guseman, Gerardo M. Perez Goncalves, Shannon L. Speer, Gregory B. Young, and Gary J. Pielak

    PNAS October 23, 2018 115 (43) 10965-10970; first published October 9, 2018. https://doi.org/10.1073/pnas.1810054115
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    Why large icosahedral viruses need scaffolding proteins

    Siyu Li, Polly Roy, Alex Travesset, and Roya Zandi

    PNAS October 23, 2018 115 (43) 10971-10976; first published October 9, 2018. https://doi.org/10.1073/pnas.1807706115

• Cell Biology

  • Open Access

    mTOR inhibitors lower an intrinsic barrier to virus infection mediated by IFITM3

    Guoli Shi, Stosh Ozog, Bruce E. Torbett, and Alex A. Compton

    PNAS October 23, 2018 115 (43) E10069-E10078; first published October 9, 2018. https://doi.org/10.1073/pnas.1811892115
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    Mitosis-specific MRN complex promotes a mitotic signaling cascade to regulate spindle dynamics and chromosome segregation

    Ran Xu, Yixi Xu, Wei Huo, Zhicong Lv, Jingsong Yuan, Shaokai Ning, Qingsong Wang, Mei Hou, Ge Gao, Jianguo Ji, Junjie Chen, Rong Guo, and Dongyi Xu

    PNAS October 23, 2018 115 (43) E10079-E10088; first published October 8, 2018. https://doi.org/10.1073/pnas.1806665115
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    XBP1s activation can globally remodel N-glycan structure distribution patterns

    Madeline Y. Wong, Kenny Chen, Aristotelis Antonopoulos, Brian T. Kasper, Mahender B. Dewal, Rebecca J. Taylor, Charles A. Whittaker, Pyae P. Hein, Anne Dell, Joseph C. Genereux, Stuart M. Haslam, Lara K. Mahal, and Matthew D. Shoulders

    PNAS October 23, 2018 115 (43) E10089-E10098; first published October 10, 2018. https://doi.org/10.1073/pnas.1805425115
  • Open Access

    Noncanonical autophagy at ER exit sites regulates procollagen turnover

    Shakib Omari, Elena Makareeva, Anna Roberts-Pilgrim, Lynn Mirigian, Michal Jarnik, Carolyn Ott, Jennifer Lippincott-Schwartz, and Sergey Leikin

    PNAS October 23, 2018 115 (43) E10099-E10108; first published October 4, 2018. https://doi.org/10.1073/pnas.1814552115
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    Cryo-ET reveals the macromolecular reorganization of S. pombe mitotic chromosomes in vivo

    Shujun Cai, Chen Chen, Zhi Yang Tan, Yinyi Huang, Jian Shi, and Lu Gan

    PNAS October 23, 2018 115 (43) 10977-10982; first published October 8, 2018. https://doi.org/10.1073/pnas.1720476115
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    SUMO protease SENP1 deSUMOylates and stabilizes c-Myc

    Xiao-Xin Sun, Yingxiao Chen, Yulong Su, Xiaoyan Wang, Krishna Mohan Chauhan, Juan Liang, Colin J. Daniel, Rosalie C. Sears, and Mu-Shui Dai

    PNAS October 23, 2018 115 (43) 10983-10988; first published October 10, 2018. https://doi.org/10.1073/pnas.1802932115

• Ecology

  • Open Access

    Changes in temperature alter the relationship between biodiversity and ecosystem functioning

    Francisca C. García, Elvire Bestion, Ruth Warfield, and Gabriel Yvon-Durocher

    PNAS October 23, 2018 115 (43) 10989-10994; first published October 8, 2018. https://doi.org/10.1073/pnas.1805518115
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    Magnetic map in nonanadromous Atlantic salmon

    Michelle M. Scanlan, Nathan F. Putman, Amanda M. Pollock, and David L. G. Noakes

    PNAS October 23, 2018 115 (43) 10995-10999; first published October 8, 2018. https://doi.org/10.1073/pnas.1807705115

• Environmental Sciences

  • Open Access

    Native-state imaging of calcifying and noncalcifying microalgae reveals similarities in their calcium storage organelles

    Assaf Gal, Andrea Sorrentino, Keren Kahil, Eva Pereiro, Damien Faivre, and André Scheffel

    PNAS October 23, 2018 115 (43) 11000-11005; first published October 4, 2018. https://doi.org/10.1073/pnas.1804139115

• Evolution

  • Open Access

    Selection and gene flow shape genomic islands that control floral guides

    Hugo Tavares, Annabel Whibley, David L. Field, Desmond Bradley, Matthew Couchman, Lucy Copsey, Joane Elleouet, Monique Burrus, Christophe Andalo, Miaomiao Li, Qun Li, Yongbiao Xue, Alexandra B. Rebocho, Nicolas H. Barton, and Enrico Coen

    PNAS October 23, 2018 115 (43) 11006-11011; first published October 8, 2018. https://doi.org/10.1073/pnas.1801832115
  • Open Access

    Whole-genome comparison of endogenous retrovirus segregation across wild and domestic host species populations

    Salvador Daniel Rivas-Carrillo, Mats E. Pettersson, Carl-Johan Rubin, and Patric Jern

    PNAS October 23, 2018 115 (43) 11012-11017; first published October 8, 2018. https://doi.org/10.1073/pnas.1815056115

• Genetics

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    Human leukemia mutations corrupt but do not abrogate GATA-2 function

    Koichi R. Katsumura, Charu Mehta, Kyle J. Hewitt, Alexandra A. Soukup, Isabela Fraga de Andrade, Erik A. Ranheim, Kirby D. Johnson, and Emery H. Bresnick

    PNAS October 23, 2018 115 (43) E10109-E10118; first published October 9, 2018. https://doi.org/10.1073/pnas.1813015115
  • Open Access

    Genetic variation in the SIM1 locus is associated with erectile dysfunction

    • From the Cover

    Eric Jorgenson, Navneet Matharu, Melody R. Palmer, Jie Yin, Jun Shan, Thomas J. Hoffmann, Khanh K. Thai, Xujia Zhou, James M. Hotaling, Gail P. Jarvik, Nadav Ahituv, Hunter Wessells, and Stephen K. Van Den Eeden

    PNAS October 23, 2018 115 (43) 11018-11023; first published October 8, 2018. https://doi.org/10.1073/pnas.1809872115

    See companion article:

    • Reply to Liu et al.: Tissue specificity of SIM1 gene expression and erectile dysfunction

      - Feb 26, 2019
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    Human mitochondrial degradosome prevents harmful mitochondrial R loops and mitochondrial genome instability

    Sonia Silva, Lola P. Camino, and Andrés Aguilera

    PNAS October 23, 2018 115 (43) 11024-11029; first published October 9, 2018. https://doi.org/10.1073/pnas.1807258115
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    Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts

    David J. Krause, Jacek Kominek, Dana A. Opulente, Xing-Xing Shen, Xiaofan Zhou, Quinn K. Langdon, Jeremy DeVirgilio, Amanda Beth Hulfachor, Cletus P. Kurtzman, Antonis Rokas, and Chris Todd Hittinger

    PNAS October 23, 2018 115 (43) 11030-11035; first published October 8, 2018. https://doi.org/10.1073/pnas.1806268115

• Immunology and Inflammation

  • Open Access

    Regnase-1 controls colon epithelial regeneration via regulation of mTOR and purine metabolism

    Yasuharu Nagahama, Mayuko Shimoda, Guoliang Mao, Shailendra Kumar Singh, Yuuki Kozakai, Xin Sun, Daisuke Motooka, Shota Nakamura, Hiroki Tanaka, Takashi Satoh, Kazuhiko Maeda, and Shizuo Akira

    PNAS October 23, 2018 115 (43) 11036-11041; first published October 8, 2018. https://doi.org/10.1073/pnas.1809575115
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    Glucose metabolism mediates disease tolerance in cerebral malaria

    Andrew Wang, Sarah C. Huen, Harding H. Luan, Kelly Baker, Henry Rinder, Carmen J. Booth, and Ruslan Medzhitov

    PNAS October 23, 2018 115 (43) 11042-11047; first published October 5, 2018. https://doi.org/10.1073/pnas.1806376115
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    Toxicity of an Fc-engineered anti-CD40 antibody is abrogated by intratumoral injection and results in durable antitumor immunity

    David A. Knorr, Rony Dahan, and Jeffrey V. Ravetch

    PNAS October 23, 2018 115 (43) 11048-11053; first published October 8, 2018. https://doi.org/10.1073/pnas.1810566115
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    C-type lectin receptor LSECtin-mediated apoptotic cell clearance by macrophages directs intestinal repair in experimental colitis

    Zaopeng Yang, Qian Li, Xin Wang, Xuepei Jiang, Dianyuan Zhao, Xin Lin, Fuchu He, and Li Tang

    PNAS October 23, 2018 115 (43) 11054-11059; first published October 9, 2018. https://doi.org/10.1073/pnas.1804094115

• Medical Sciences

  • Open Access

    Differential regulation of PD-L1 expression by immune and tumor cells in NSCLC and the response to treatment with atezolizumab (anti–PD-L1)

    Marcin Kowanetz, Wei Zou, Scott N. Gettinger, Hartmut Koeppen, Mark Kockx, Peter Schmid, Edward E. Kadel III, Ignacio Wistuba, Jamie Chaft, Naiyer A. Rizvi, David R. Spigel, Alexander Spira, Fred R. Hirsch, Victor Cohen, Dustin Smith, Zach Boyd, Natasha Miley, Susan Flynn, Vincent Leveque, David S. Shames, Marcus Ballinger, Simonetta Mocci, Geetha Shankar, Roel Funke, Garret Hampton, Alan Sandler, Lukas Amler, Ira Mellman, Daniel S. Chen, and Priti S. Hegde

    PNAS October 23, 2018 115 (43) E10119-E10126; first published October 8, 2018. https://doi.org/10.1073/pnas.1802166115
  • Open Access

    iNOS promotes CD24⁺CD133⁺ liver cancer stem cell phenotype through a TACE/ADAM17-dependent Notch signaling pathway

    Ronghua Wang, Yawen Li, Allan Tsung, Hai Huang, Qiang Du, Muqing Yang, Meihong Deng, Si Xiong, Xiju Wang, Liyong Zhang, David A. Geller, Bin Cheng, and Timothy R. Billiar

    PNAS October 23, 2018 115 (43) E10127-E10136; first published October 8, 2018. https://doi.org/10.1073/pnas.1722100115
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    Histone methylation regulator PTIP is required to maintain normal and leukemic bone marrow niches

    Prosun Das, Kylee J. Veazey, Hieu T. Van, Saakshi Kaushik, Kevin Lin, Yue Lu, Masaru Ishii, Junichi Kikuta, Kai Ge, Andre Nussenzweig, and Margarida A. Santos

    PNAS October 23, 2018 115 (43) E10137-E10146; first published October 8, 2018. https://doi.org/10.1073/pnas.1806019115
  • Open Access

    Metastatic growth instructed by neutrophil-derived transferrin

    Wei Liang, Qin Li, and Napoleone Ferrara

    PNAS October 23, 2018 115 (43) 11060-11065; first published October 9, 2018. https://doi.org/10.1073/pnas.1811717115
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    Reducing dynamin 2 (DNM2) rescues DNM2-related dominant centronuclear myopathy

    Suzie Buono, Jacob A. Ross, Hichem Tasfaout, Yotam Levy, Christine Kretz, Leighla Tayefeh, John Matson, Shuling Guo, Pascal Kessler, Brett P. Monia, Marc Bitoun, Julien Ochala, Jocelyn Laporte, and Belinda S. Cowling

    PNAS October 23, 2018 115 (43) 11066-11071; first published October 5, 2018. https://doi.org/10.1073/pnas.1808170115

• Microbiology

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    MmpL8_MAB controls Mycobacterium abscessus virulence and production of a previously unknown glycolipid family

    Violaine Dubois, Albertus Viljoen, Laura Laencina, Vincent Le Moigne, Audrey Bernut, Faustine Dubar, Mickaël Blaise, Jean-Louis Gaillard, Yann Guérardel, Laurent Kremer, Jean-Louis Herrmann, and Fabienne Girard-Misguich

    PNAS October 23, 2018 115 (43) E10147-E10156; first published October 9, 2018. https://doi.org/10.1073/pnas.1812984115
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    Interplay between coronavirus, a cytoplasmic RNA virus, and nonsense-mediated mRNA decay pathway

    Masami Wada, Kumari G. Lokugamage, Keisuke Nakagawa, Krishna Narayanan, and Shinji Makino

    PNAS October 23, 2018 115 (43) E10157-E10166; first published October 8, 2018. https://doi.org/10.1073/pnas.1811675115
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    Elongation factor P is required to maintain proteome homeostasis at high growth rate

    Rodney Tollerson II, Anne Witzky, and Michael Ibba

    PNAS October 23, 2018 115 (43) 11072-11077; first published October 8, 2018. https://doi.org/10.1073/pnas.1812025115

• Neuroscience

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    Dopaminergic basis for signaling belief updates, but not surprise, and the link to paranoia

    Matthew M. Nour, Tarik Dahoun, Philipp Schwartenbeck, Rick A. Adams, Thomas H. B. FitzGerald, Christopher Coello, Matthew B. Wall, Raymond J. Dolan, and Oliver D. Howes

    PNAS October 23, 2018 115 (43) E10167-E10176; first published October 8, 2018. https://doi.org/10.1073/pnas.1809298115
  • Open Access

    Activity-dependent bulk endocytosis proteome reveals a key presynaptic role for the monomeric GTPase Rab11

    A. C. Kokotos, J. Peltier, E. C. Davenport, M. Trost, and M. A. Cousin

    PNAS October 23, 2018 115 (43) E10177-E10186; first published October 9, 2018. https://doi.org/10.1073/pnas.1809189115
  • Open Access

    Chronic social stress-induced hyperglycemia in mice couples individual stress susceptibility to impaired spatial memory

    Michael A. van der Kooij, Tanja Jene, Giulia Treccani, Isabelle Miederer, Annika Hasch, Nadine Voelxen, Stefan Walenta, and Marianne B. Müller

    PNAS October 23, 2018 115 (43) E10187-E10196; first published October 9, 2018. https://doi.org/10.1073/pnas.1804412115
  • Open Access

    Long noncoding RNA GM12371 acts as a transcriptional regulator of synapse function

    Bindu L. Raveendra, Supriya Swarnkar, Yosef Avchalumov, Xin-An Liu, Eddie Grinman, Kerriann Badal, Adrian Reich, Bruce D. Pascal, and Sathyanarayanan V. Puthanveettil

    PNAS October 23, 2018 115 (43) E10197-E10205; first published October 8, 2018. https://doi.org/10.1073/pnas.1722587115
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    The brain’s hemodynamic response function rapidly changes under acute psychosocial stress in association with genetic and endocrine stress response markers

    • From the Cover

    Immanuel G. Elbau, Benedikt Brücklmeier, Manfred Uhr, Janine Arloth, Darina Czamara, Victor I. Spoormaker, Michael Czisch, Klaas Enno Stephan, Elisabeth B. Binder, and Philipp G. Sämann

    PNAS October 23, 2018 115 (43) E10206-E10215; first published September 10, 2018. https://doi.org/10.1073/pnas.1804340115

    See companion article:

    • Stress response regulation and the hemodynamic response

      - Oct 23, 2018
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    DSCAM promotes self-avoidance in the developing mouse retina by masking the functions of cadherin superfamily members

    Andrew M. Garrett, Andre Khalil, David O. Walton, and Robert W. Burgess

    PNAS October 23, 2018 115 (43) E10216-E10224; first published October 8, 2018. https://doi.org/10.1073/pnas.1809430115
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    MRI-based assessment of function and dysfunction in myelinated axons

    William M. Spees, Tsen-Hsuan Lin, Peng Sun, Chunyu Song, Ajit George, Sam E. Gary, Hsin-Chieh Yang, and Sheng-Kwei Song

    PNAS October 23, 2018 115 (43) E10225-E10234; first published October 8, 2018. https://doi.org/10.1073/pnas.1801788115
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    Cbln2 and Cbln4 are expressed in distinct medial habenula-interpeduncular projections and contribute to different behavioral outputs

    Erica Seigneur, Jai S. Polepalli, and Thomas C. Südhof

    PNAS October 23, 2018 115 (43) E10235-E10244; first published October 4, 2018. https://doi.org/10.1073/pnas.1811086115
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    Yin-and-yang bifurcation of opioidergic circuits for descending analgesia at the midbrain of the mouse

    Jong-Hyun Kim, Gireesh Gangadharan, Junweon Byun, Eui-Ju Choi, C. Justin Lee, and Hee-Sup Shin

    PNAS October 23, 2018 115 (43) 11078-11083; first published October 8, 2018. https://doi.org/10.1073/pnas.1806082115

• Pharmacology

  • Open Access

    p38α MAPK signaling drives pharmacologically reversible brain and gastrointestinal phenotypes in the SERT Ala56 mouse

    Matthew J. Robson, Meagan A. Quinlan, Kara Gross Margolis, Paula A. Gajewski-Kurdziel, Jeremy Veenstra-VanderWeele, Michael D. Gershon, D. Martin Watterson, and Randy D. Blakely

    PNAS October 23, 2018 115 (43) E10245-E10254; first published October 8, 2018. https://doi.org/10.1073/pnas.1809137115
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    Translating biased signaling in the ghrelin receptor system into differential in vivo functions

    Franziska Mende, Cecilie Hundahl, Bianca Plouffe, Louise Julie Skov, Bjørn Sivertsen, Andreas Nygaard Madsen, Michael Lückmann, Thi Ai Diep, Stefan Offermanns, Thomas Michael Frimurer, Michel Bouvier, and Birgitte Holst

    PNAS October 23, 2018 115 (43) E10255-E10264; first published October 9, 2018. https://doi.org/10.1073/pnas.1804003115

• Plant Biology

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    Quantitative and functional posttranslational modification proteomics reveals that TREPH1 plays a role in plant touch-delayed bolting

    Kai Wang, Zhu Yang, Dongjin Qing, Feng Ren, Shichang Liu, Qingsong Zheng, Jun Liu, Weiping Zhang, Chen Dai, Madeline Wu, E. Wassim Chehab, Janet Braam, and Ning Li

    PNAS October 23, 2018 115 (43) E10265-E10274; first published October 5, 2018. https://doi.org/10.1073/pnas.1814006115

• Psychological and Cognitive Sciences

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    Neural reactivation in parietal cortex enhances memory for episodically linked information

    Tanya R. Jonker, Halle Dimsdale-Zucker, Maureen Ritchey, Alex Clarke, and Charan Ranganath

    PNAS October 23, 2018 115 (43) 11084-11089; first published October 8, 2018. https://doi.org/10.1073/pnas.1800006115
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    Humans incorporate attention-dependent uncertainty into perceptual decisions and confidence

    Rachel N. Denison, William T. Adler, Marisa Carrasco, and Wei Ji Ma

    PNAS October 23, 2018 115 (43) 11090-11095; first published October 8, 2018. https://doi.org/10.1073/pnas.1717720115

• Sustainability Science

  • Open Access

    Bottom trawl fishing footprints on the world’s continental shelves

    Ricardo O. Amoroso, C. Roland Pitcher, Adriaan D. Rijnsdorp, Robert A. McConnaughey, Ana M. Parma, Petri Suuronen, Ole R. Eigaard, Francois Bastardie, Niels T. Hintzen, Franziska Althaus, Susan Jane Baird, Jenny Black, Lene Buhl-Mortensen, Alexander B. Campbell, Rui Catarino, Jeremy Collie, James H. Cowan Jr., Deon Durholtz, Nadia Engstrom, Tracey P. Fairweather, Heino O. Fock, Richard Ford, Patricio A. Gálvez, Hans Gerritsen, María Eva Góngora, Jessica A. González, Jan G. Hiddink, Kathryn M. Hughes, Steven S. Intelmann, Chris Jenkins, Patrik Jonsson, Paulus Kainge, Mervi Kangas, Johannes N. Kathena, Stefanos Kavadas, Rob W. Leslie, Steve G. Lewis, Mathieu Lundy, David Makin, Julie Martin, Tessa Mazor, Genoveva Gonzalez-Mirelis, Stephen J. Newman, Nadia Papadopoulou, Paulette E. Posen, Wayne Rochester, Tommaso Russo, Antonello Sala, Jayson M. Semmens, Cristina Silva, Angelo Tsolos, Bart Vanelslander, Corey B. Wakefield, Brent A. Wood, Ray Hilborn, Michel J. Kaiser, and Simon Jennings

    PNAS October 23, 2018 115 (43) E10275-E10282; first published October 8, 2018. https://doi.org/10.1073/pnas.1802379115

• Systems Biology

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    Characterizing posttranslational modifications in prokaryotic metabolism using a multiscale workflow

    Elizabeth Brunk, Roger L. Chang, Jing Xia, Hooman Hefzi, James T. Yurkovich, Donghyuk Kim, Evan Buckmiller, Harris H. Wang, Byung-Kwan Cho, Chen Yang, Bernhard O. Palsson, George M. Church, and Nathan E. Lewis

    PNAS October 23, 2018 115 (43) 11096-11101; first published October 9, 2018. https://doi.org/10.1073/pnas.1811971115