Table of Contents

Biological Sciences

• Biochemistry

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    Directed evolution of a sphingomyelin flippase reveals mechanism of substrate backbone discrimination by a P4-ATPase

    Bartholomew P. Roland and Todd R. Graham

    PNAS August 2, 2016 113 (31) E4460-E4466; first published July 18, 2016. https://doi.org/10.1073/pnas.1525730113
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    Outer membrane protein functions as integrator of protein import and DNA inheritance in mitochondria

    Sandro Käser, Silke Oeljeklaus, Jiří Týč, Sue Vaughan, Bettina Warscheid, and André Schneider

    PNAS August 2, 2016 113 (31) E4467-E4475; first published July 19, 2016. https://doi.org/10.1073/pnas.1605497113
  • Open Access

    Regulatory role of the respiratory supercomplex factors in Saccharomyces cerevisiae

    Camilla Rydström Lundin, Christoph von Ballmoos, Martin Ott, Pia Ädelroth, and Peter Brzezinski

    PNAS August 2, 2016 113 (31) E4476-E4485; first published July 18, 2016. https://doi.org/10.1073/pnas.1601196113
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    Flexible, symmetry-directed approach to assembling protein cages

    Aaron Sciore, Min Su, Philipp Koldewey, Joseph D. Eschweiler, Kelsey A. Diffley, Brian M. Linhares, Brandon T. Ruotolo, James C. A. Bardwell, Georgios Skiniotis, and E. Neil G. Marsh

    PNAS August 2, 2016 113 (31) 8681-8686; first published July 18, 2016. https://doi.org/10.1073/pnas.1606013113
  • Open Access

    Cardiolipin binds selectively but transiently to conserved lysine residues in the rotor of metazoan ATP synthases

    • From the Cover

    Anna L. Duncan, Alan J. Robinson, and John E. Walker

    PNAS August 2, 2016 113 (31) 8687-8692; first published July 5, 2016. https://doi.org/10.1073/pnas.1608396113

    See companion article:

    • Cardiolipin puts the seal on ATP synthase

      - Jul 20, 2016
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    Probing the structure of Nun transcription arrest factor bound to RNA polymerase

    Arkady Mustaev, Christal L. Vitiello, and Max E. Gottesman

    PNAS August 2, 2016 113 (31) 8693-8698; first published July 19, 2016. https://doi.org/10.1073/pnas.1601056113
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    Regulation of transcriptional pausing through the secondary channel of RNA polymerase

    Daria Esyunina, Aleksei Agapov, and Andrey Kulbachinskiy

    PNAS August 2, 2016 113 (31) 8699-8704; first published July 18, 2016. https://doi.org/10.1073/pnas.1603531113
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    Saturation scanning of ubiquitin variants reveals a common hot spot for binding to USP2 and USP21

    Isabel Leung, Ayelet Dekel, Julia M. Shifman, and Sachdev S. Sidhu

    PNAS August 2, 2016 113 (31) 8705-8710; first published July 19, 2016. https://doi.org/10.1073/pnas.1524648113
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    Mechanism of substrate specificity of phosphatidylinositol phosphate kinases

    Yagmur Muftuoglu, Yi Xue, Xiang Gao, Dianqing Wu, and Ya Ha

    PNAS August 2, 2016 113 (31) 8711-8716; first published July 20, 2016. https://doi.org/10.1073/pnas.1522112113
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    Characterization of a stalled complex on the β-barrel assembly machine

    James Lee, Mingyu Xue, Joseph S. Wzorek, Tao Wu, Marcin Grabowicz, Luisa S. Gronenberg, Holly A. Sutterlin, Rebecca M. Davis, Natividad Ruiz, Thomas J. Silhavy, and Daniel E. Kahne

    PNAS August 2, 2016 113 (31) 8717-8722; first published July 20, 2016. https://doi.org/10.1073/pnas.1604100113

• Biophysics and Computational Biology

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    Evidence for a cysteine-mediated mechanism of excitation energy regulation in a photosynthetic antenna complex

    • From the Cover

    Gregory S. Orf, Rafael G. Saer, Dariusz M. Niedzwiedzki, Hao Zhang, Chelsea L. McIntosh, Jason W. Schultz, Liviu M. Mirica, and Robert E. Blankenship

    PNAS August 2, 2016 113 (31) E4486-E4493; first published June 22, 2016. https://doi.org/10.1073/pnas.1603330113

    See companion article:

    • Cysteine oxidation disrupts energy transfer in FMO

      - Jul 20, 2016
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    Speed-dependent chemotactic precision in marine bacteria

    Kwangmin Son, Filippo Menolascina, and Roman Stocker

    PNAS August 2, 2016 113 (31) 8624-8629; first published July 20, 2016. https://doi.org/10.1073/pnas.1602307113
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    Conformational selectivity in cytochrome P450 redox partner interactions

    Scott A. Hollingsworth, Dipanwita Batabyal, Brian D. Nguyen, and Thomas L. Poulos

    PNAS August 2, 2016 113 (31) 8723-8728; first published July 20, 2016. https://doi.org/10.1073/pnas.1606474113
  • Open Access

    Spatial organization of the Ran pathway by microtubules in mitosis

    Doogie Oh, Che-Hang Yu, and Daniel J. Needleman

    PNAS August 2, 2016 113 (31) 8729-8734; first published July 20, 2016. https://doi.org/10.1073/pnas.1607498113

• Cell Biology

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    Severe muscle wasting and denervation in mice lacking the RNA-binding protein ZFP106

    Douglas M. Anderson, Jessica Cannavino, Hui Li, Kelly M. Anderson, Benjamin R. Nelson, John McAnally, Svetlana Bezprozvannaya, Yun Liu, Weichun Lin, Ning Liu, Rhonda Bassel-Duby, and Eric N. Olson

    PNAS August 2, 2016 113 (31) E4494-E4503; first published July 14, 2016. https://doi.org/10.1073/pnas.1608423113

• Developmental Biology

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    Initiation of diverse epigenetic states during nuclear programming of the Drosophila body plan

    Ann Boija and Mattias Mannervik

    PNAS August 2, 2016 113 (31) 8735-8740; first published July 20, 2016. https://doi.org/10.1073/pnas.1516450113

• Ecology

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    Root morphology and mycorrhizal symbioses together shape nutrient foraging strategies of temperate trees

    Weile Chen, Roger T. Koide, Thomas S. Adams, Jared L. DeForest, Lei Cheng, and David M. Eissenstat

    PNAS August 2, 2016 113 (31) 8741-8746; first published July 18, 2016. https://doi.org/10.1073/pnas.1601006113
  • Open Access

    Rationalizing spatial exploration patterns of wild animals and humans through a temporal discounting framework

    • From the Cover

    Vijay Mohan K. Namboodiri, Joshua M. Levy, Stefan Mihalas, David W. Sims, and Marshall G. Hussain Shuler

    PNAS August 2, 2016 113 (31) 8747-8752; first published July 6, 2016. https://doi.org/10.1073/pnas.1601664113

    See companion article:

    • Expectation of rewards change behavior of foragers

      - Jul 21, 2016

• Evolution

  • Open Access

    Diversity of immune strategies explained by adaptation to pathogen statistics

    Andreas Mayer, Thierry Mora, Olivier Rivoire, and Aleksandra M. Walczak

    PNAS August 2, 2016 113 (31) 8630-8635; first published July 18, 2016. https://doi.org/10.1073/pnas.1600663113
  • Open Access

    Uncalculating cooperation is used to signal trustworthiness

    Jillian J. Jordan, Moshe Hoffman, Martin A. Nowak, and David G. Rand

    PNAS August 2, 2016 113 (31) 8658-8663; first published July 20, 2016. https://doi.org/10.1073/pnas.1601280113
  • Open Access

    Human high intelligence is involved in spectral redshift of biophotonic activities in the brain

    Zhuo Wang, Niting Wang, Zehua Li, Fangyan Xiao, and Jiapei Dai

    PNAS August 2, 2016 113 (31) 8753-8758; first published July 18, 2016. https://doi.org/10.1073/pnas.1604855113

    See companion article:

    • Biophotons related to human intelligence

      - Sep 12, 2016

• Genetics

  • Open Access

    Deletion of DXZ4 on the human inactive X chromosome alters higher-order genome architecture

    Emily M. Darrow, Miriam H. Huntley, Olga Dudchenko, Elena K. Stamenova, Neva C. Durand, Zhuo Sun, Su-Chen Huang, Adrian L. Sanborn, Ido Machol, Muhammad Shamim, Andrew P. Seberg, Eric S. Lander, Brian P. Chadwick, and Erez Lieberman Aiden

    PNAS August 2, 2016 113 (31) E4504-E4512; first published July 18, 2016. https://doi.org/10.1073/pnas.1609643113
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    Loss of function mutation in LOX causes thoracic aortic aneurysm and dissection in humans

    Vivian S. Lee, Carmen M. Halabi, Erin P. Hoffman, Nikkola Carmichael, Ignaty Leshchiner, Christine G. Lian, Andrew J. Bierhals, Dana Vuzman, Brigham Genomic Medicine, Robert P. Mecham, Natasha Y. Frank, and Nathan O. Stitziel

    PNAS August 2, 2016 113 (31) 8759-8764; first published July 18, 2016. https://doi.org/10.1073/pnas.1601442113

• Immunology and Inflammation

  • Open Access

    Alternative splicing of interleukin-33 and type 2 inflammation in asthma

    Erin D. Gordon, Laura J. Simpson, Cydney L. Rios, Lando Ringel, Marrah E. Lachowicz-Scroggins, Michael C. Peters, Agata Wesolowska-Andersen, Jeanmarie R. Gonzalez, Hannah J. MacLeod, Laura S. Christian, Shaopeng Yuan, Liam Barry, Prescott G. Woodruff, K. Mark Ansel, Karl Nocka, Max A. Seibold, and John V. Fahy

    PNAS August 2, 2016 113 (31) 8765-8770; first published July 18, 2016. https://doi.org/10.1073/pnas.1601914113
  • Open Access

    Epigenetic regulation of Kcna3-encoding Kv1.3 potassium channel by cereblon contributes to regulation of CD4⁺ T-cell activation

    Jung-Ah Kang, Sang-Heon Park, Sang Phil Jeong, Min-Hee Han, Cho-Rong Lee, Kwang Min Lee, Namhee Kim, Mi-Ryoung Song, Murim Choi, Michael Ye, Guhung Jung, Won-Woo Lee, Soo Hyun Eom, Chul-Seung Park, and Sung-Gyoo Park

    PNAS August 2, 2016 113 (31) 8771-8776; first published July 20, 2016. https://doi.org/10.1073/pnas.1502166113

• Medical Sciences

  • Open Access

    Anatomically shaped tissue-engineered cartilage with tunable and inducible anticytokine delivery for biological joint resurfacing

    Franklin T. Moutos, Katherine A. Glass, Sarah A. Compton, Alison K. Ross, Charles A. Gersbach, Farshid Guilak, and Bradley T. Estes

    PNAS August 2, 2016 113 (31) E4513-E4522; first published July 18, 2016. https://doi.org/10.1073/pnas.1601639113
  • Open Access

    Boosting medical diagnostics by pooling independent judgments

    Ralf H. J. M. Kurvers, Stefan M. Herzog, Ralph Hertwig, Jens Krause, Patricia A. Carney, Andy Bogart, Giuseppe Argenziano, Iris Zalaudek, and Max Wolf

    PNAS August 2, 2016 113 (31) 8777-8782; first published July 18, 2016. https://doi.org/10.1073/pnas.1601827113
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    Defective HIV-1 proviruses produce novel protein-coding RNA species in HIV-infected patients on combination antiretroviral therapy

    Hiromi Imamichi, Robin L. Dewar, Joseph W. Adelsberger, Catherine A. Rehm, Una O’Doherty, Ellen E. Paxinos, Anthony S. Fauci, and H. Clifford Lane

    PNAS August 2, 2016 113 (31) 8783-8788; first published July 18, 2016. https://doi.org/10.1073/pnas.1609057113
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    Protective responses to sublytic complement in the retinal pigment epithelium

    Li Xuan Tan, Kimberly A. Toops, and Aparna Lakkaraju

    PNAS August 2, 2016 113 (31) 8789-8794; first published July 18, 2016. https://doi.org/10.1073/pnas.1523061113
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    Insulin receptor substrate-1 deficiency drives a proinflammatory phenotype in KRAS mutant lung adenocarcinoma

    Heather E. Metz, Julia Kargl, Stephanie E. Busch, Kyoung-Hee Kim, Brenda F. Kurland, Shira R. Abberbock, Julie Randolph-Habecker, Sue E. Knoblaugh, Jay K. Kolls, Morris F. White, and A. McGarry Houghton

    PNAS August 2, 2016 113 (31) 8795-8800; first published July 20, 2016. https://doi.org/10.1073/pnas.1601989113
  • Open Access

    HIF2α–arginase axis is essential for the development of pulmonary hypertension

    Andrew S. Cowburn, Alexi Crosby, David Macias, Cristina Branco, Renato D. D. R. Colaço, Mark Southwood, Mark Toshner, Laura E. Crotty Alexander, Nicholas W. Morrell, Edwin R. Chilvers, and Randall S. Johnson

    PNAS August 2, 2016 113 (31) 8801-8806; first published July 18, 2016. https://doi.org/10.1073/pnas.1602978113

• Microbiology

  • Open Access

    N-methylation of a bactericidal compound as a resistance mechanism in Mycobacterium tuberculosis

    Thulasi Warrier, Kanishk Kapilashrami, Argyrides Argyrou, Thomas R. Ioerger, David Little, Kenan C. Murphy, Madhumitha Nandakumar, Suna Park, Ben Gold, Jianjie Mi, Tuo Zhang, Eugenia Meiler, Mike Rees, Selin Somersan-Karakaya, Esther Porras-De Francisco, Maria Martinez-Hoyos, Kristin Burns-Huang, Julia Roberts, Yan Ling, Kyu Y. Rhee, Alfonso Mendoza-Losana, Minkui Luo, and Carl F. Nathan

    PNAS August 2, 2016 113 (31) E4523-E4530; first published July 18, 2016. https://doi.org/10.1073/pnas.1606590113
  • Open Access

    Direct targeting of membrane fusion by SNARE mimicry: Convergent evolution of Legionella effectors

    Xingqi Shi, Partho Halder, Halenur Yavuz, Reinhard Jahn, and Howard A. Shuman

    PNAS August 2, 2016 113 (31) 8807-8812; first published July 19, 2016. https://doi.org/10.1073/pnas.1608755113
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    Silencing of natural transformation by an RNA chaperone and a multitarget small RNA

    Laetitia Attaiech, Aïda Boughammoura, Céline Brochier-Armanet, Omran Allatif, Flora Peillard-Fiorente, Ross A. Edwards, Ayat R. Omar, Andrew M. MacMillan, Mark Glover, and Xavier Charpentier

    PNAS August 2, 2016 113 (31) 8813-8818; first published July 18, 2016. https://doi.org/10.1073/pnas.1601626113
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    Viral binding-induced signaling drives a unique and extended intracellular trafficking pattern during infection of primary monocytes

    Jung Heon Kim, Donna Collins-McMillen, Patrizia Caposio, and Andrew D. Yurochko

    PNAS August 2, 2016 113 (31) 8819-8824; first published July 18, 2016. https://doi.org/10.1073/pnas.1604317113
  • Open Access

    Bunyamwera orthobunyavirus glycoprotein precursor is processed by cellular signal peptidase and signal peptide peptidase

    Xiaohong Shi, Catherine H. Botting, Ping Li, Mark Niglas, Benjamin Brennan, Sally L. Shirran, Agnieszka M. Szemiel, and Richard M. Elliott

    PNAS August 2, 2016 113 (31) 8825-8830; first published July 20, 2016. https://doi.org/10.1073/pnas.1603364113

• Neuroscience

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    Hierarchical decision processes that operate over distinct timescales underlie choice and changes in strategy

    Braden A. Purcell and Roozbeh Kiani

    PNAS August 2, 2016 113 (31) E4531-E4540; first published July 18, 2016. https://doi.org/10.1073/pnas.1524685113
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    Constituents and functional implications of the rat default mode network

    Li-Ming Hsu, Xia Liang, Hong Gu, Julia K. Brynildsen, Jennifer A. Stark, Jessica A. Ash, Ching-Po Lin, Hanbing Lu, Peter R. Rapp, Elliot A. Stein, and Yihong Yang

    PNAS August 2, 2016 113 (31) E4541-E4547; first published July 20, 2016. https://doi.org/10.1073/pnas.1601485113
  • Open Access

    Superpriming of synaptic vesicles as a common basis for intersynapse variability and modulation of synaptic strength

    Holger Taschenberger, Andrew Woehler, and Erwin Neher

    PNAS August 2, 2016 113 (31) E4548-E4557; first published July 18, 2016. https://doi.org/10.1073/pnas.1606383113
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    Conservation law for self-paced movements

    Dongsung Huh and Terrence J. Sejnowski

    PNAS August 2, 2016 113 (31) 8831-8836; first published July 14, 2016. https://doi.org/10.1073/pnas.1608724113
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    Dynamic neural activity during stress signals resilient coping

    Rajita Sinha, Cheryl M. Lacadie, R. Todd Constable, and Dongju Seo

    PNAS August 2, 2016 113 (31) 8837-8842; first published July 18, 2016. https://doi.org/10.1073/pnas.1600965113
  • Open Access

    Transcriptional control of amino acid homeostasis is disrupted in Huntington’s disease

    Juan I. Sbodio, Solomon H. Snyder, and Bindu D. Paul

    PNAS August 2, 2016 113 (31) 8843-8848; first published July 19, 2016. https://doi.org/10.1073/pnas.1608264113
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    Visual guidance of forward flight in hummingbirds reveals control based on image features instead of pattern velocity

    Roslyn Dakin, Tyee K. Fellows, and Douglas L. Altshuler

    PNAS August 2, 2016 113 (31) 8849-8854; first published July 18, 2016. https://doi.org/10.1073/pnas.1603221113

• Pharmacology

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    Loss of TRIM33 causes resistance to BET bromodomain inhibitors through MYC- and TGF-β–dependent mechanisms

    Xiarong Shi, Valia T. Mihaylova, Leena Kuruvilla, Fang Chen, Stephen Viviano, Massimiliano Baldassarre, David Sperandio, Ruben Martinez, Peng Yue, Jamie G. Bates, David G. Breckenridge, Joseph Schlessinger, Benjamin E. Turk, and David A. Calderwood

    PNAS August 2, 2016 113 (31) E4558-E4566; first published July 18, 2016. https://doi.org/10.1073/pnas.1608319113

• Plant Biology

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    Sensing and signaling of oxidative stress in chloroplasts by inactivation of the SAL1 phosphoadenosine phosphatase

    Kai Xun Chan, Peter D. Mabbitt, Su Yin Phua, Jonathan W. Mueller, Nazia Nisar, Tamara Gigolashvili, Elke Stroeher, Julia Grassl, Wiebke Arlt, Gonzalo M. Estavillo, Colin J. Jackson, and Barry J. Pogson

    PNAS August 2, 2016 113 (31) E4567-E4576; first published July 18, 2016. https://doi.org/10.1073/pnas.1604936113
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    Plastidial metabolite MEcPP induces a transcriptionally centered stress-response hub via the transcription factor CAMTA3

    Geoffrey Benn, Marta Bjornson, Haiyan Ke, Amancio De Souza, Edward I. Balmond, Jared T. Shaw, and Katayoon Dehesh

    PNAS August 2, 2016 113 (31) 8855-8860; first published July 18, 2016. https://doi.org/10.1073/pnas.1602582113
  • Open Access

    Grasses suppress shoot-borne roots to conserve water during drought

    Jose Sebastian, Muh-Ching Yee, Willian Goudinho Viana, Rubén Rellán-Álvarez, Max Feldman, Henry D. Priest, Charlotte Trontin, Tak Lee, Hui Jiang, Ivan Baxter, Todd C. Mockler, Frank Hochholdinger, Thomas P. Brutnell, and José R. Dinneny

    PNAS August 2, 2016 113 (31) 8861-8866; first published July 15, 2016. https://doi.org/10.1073/pnas.1604021113

• Psychological and Cognitive Sciences

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    Extending experiences of voluntary action by association

    Nima Khalighinejad and Patrick Haggard

    PNAS August 2, 2016 113 (31) 8867-8872; first published July 19, 2016. https://doi.org/10.1073/pnas.1521223113