Table of Contents

Biological Sciences

• Anthropology

  • Open Access

    Drought stress variability in ancient Near Eastern agricultural systems evidenced by δ¹³C in barley grain

    Simone Riehl, Konstantin E. Pustovoytov, Heike Weippert, Stefan Klett, and Frank Hole

    PNAS August 26, 2014 111 (34) 12348-12353; first published August 11, 2014. https://doi.org/10.1073/pnas.1409516111

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    • Stable isotopes and archaeobotany

      - Nov 03, 2014

• Applied Biological Sciences

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    Diversity-oriented combinatorial biosynthesis of benzenediol lactone scaffolds by subunit shuffling of fungal polyketide synthases

    • From the Cover

    Yuquan Xu, Tong Zhou, Shuwei Zhang, Patricia Espinosa-Artiles, Luoyi Wang, Wei Zhang, Min Lin, A. A. Leslie Gunatilaka, Jixun Zhan, and István Molnár

    PNAS August 26, 2014 111 (34) 12354-12359; first published July 21, 2014. https://doi.org/10.1073/pnas.1406999111

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    • Polyketide engineering

      - Aug 12, 2014
  • Open Access

    Hybrid biosynthetic gene therapy vector development and dual engineering capacity

    Charles H. Jones, Anitha Ravikrishnan, Mingfu Chen, Ryan Reddinger, Mahmoud Kamal Ahmadi, Snehal Rane, Anders P. Hakansson, and Blaine A. Pfeifer

    PNAS August 26, 2014 111 (34) 12360-12365; first published August 11, 2014. https://doi.org/10.1073/pnas.1411355111

• Biochemistry

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    A sequence-specific transcription activator motif and powerful synthetic variants that bind Mediator using a fuzzy protein interface

    Linda Warfield, Lisa M. Tuttle, Derek Pacheco, Rachel E. Klevit, and Steven Hahn

    PNAS August 26, 2014 111 (34) E3506-E3513; first published August 13, 2014. https://doi.org/10.1073/pnas.1412088111
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    Mapping the λ Integrase bridges in the nucleoprotein Holliday junction intermediates of viral integrative and excisive recombination

    Wenjun Tong, David Warren, Nicole E. Seah, Gurunathan Laxmikanthan, Gregory D. Van Duyne, and Arthur Landy

    PNAS August 26, 2014 111 (34) 12366-12371; first published August 11, 2014. https://doi.org/10.1073/pnas.1413007111

    See companion article:

    • Architecture of integrative and excisive complexes

      - Aug 11, 2014
  • Open Access

    Nucleoprotein architectures regulating the directionality of viral integration and excision

    Nicole E. Seah, David Warren, Wenjun Tong, Gurunathan Laxmikanthan, Gregory D. Van Duyne, and Arthur Landy

    PNAS August 26, 2014 111 (34) 12372-12377; first published August 11, 2014. https://doi.org/10.1073/pnas.1413019111

    See companion article:

    • λ Int bridges in Holliday junction complexes

      - Aug 11, 2014
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    EFA6 controls Arf1 and Arf6 activation through a negative feedback loop

    Dominique Padovani, Marcia Folly-Klan, Audrey Labarde, Sonia Boulakirba, Valérie Campanacci, Michel Franco, Mahel Zeghouf, and Jacqueline Cherfils

    PNAS August 26, 2014 111 (34) 12378-12383; first published August 11, 2014. https://doi.org/10.1073/pnas.1409832111
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    α-Fluorophosphonates reveal how a phosphomutase conserves transition state conformation over hexose recognition in its two-step reaction

    Yi Jin, Debabrata Bhattasali, Erika Pellegrini, Stephanie M. Forget, Nicola J. Baxter, Matthew J. Cliff, Matthew W. Bowler, David L. Jakeman, G. Michael Blackburn, and Jonathan P. Waltho

    PNAS August 26, 2014 111 (34) 12384-12389; first published August 7, 2014. https://doi.org/10.1073/pnas.1402850111
  • Open Access

    Chaperone-enhanced purification of unconventional myosin 15, a molecular motor specialized for stereocilia protein trafficking

    Jonathan E. Bird, Yasuharu Takagi, Neil Billington, Marie-Paule Strub, James R. Sellers, and Thomas B. Friedman

    PNAS August 26, 2014 111 (34) 12390-12395; first published August 11, 2014. https://doi.org/10.1073/pnas.1409459111
  • Open Access

    Microbial-induced meprin β cleavage in MUC2 mucin and a functional CFTR channel are required to release anchored small intestinal mucus

    André Schütte, Anna Ermund, Christoph Becker-Pauly, Malin E. V. Johansson, Ana M. Rodriguez-Pineiro, Fredrik Bäckhed, Stefan Müller, Daniel Lottaz, Judith S. Bond, and Gunnar C. Hansson

    PNAS August 26, 2014 111 (34) 12396-12401; first published August 11, 2014. https://doi.org/10.1073/pnas.1407597111

• Biophysics and Computational Biology

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    Structural basis for the recruitment and activation of the Legionella phospholipase VipD by the host GTPase Rab5

    María Lucas, Andrew H. Gaspar, Chiara Pallara, Adriana Lucely Rojas, Juan Fernández-Recio, Matthias P. Machner, and Aitor Hierro

    PNAS August 26, 2014 111 (34) E3514-E3523; first published August 11, 2014. https://doi.org/10.1073/pnas.1405391111
  • Open Access

    Electron spin changes during general anesthesia in Drosophila

    Luca Turin, Efthimios M. C. Skoulakis, and Andrew P. Horsfield

    PNAS August 26, 2014 111 (34) E3524-E3533; first published August 11, 2014. https://doi.org/10.1073/pnas.1404387111
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    A cellular solution to an information-processing problem

    Garud Iyengar and Madan Rao

    PNAS August 26, 2014 111 (34) 12402-12407; first published August 11, 2014. https://doi.org/10.1073/pnas.1406608111
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    Coevolutionary information, protein folding landscapes, and the thermodynamics of natural selection

    Faruck Morcos, Nicholas P. Schafer, Ryan R. Cheng, José N. Onuchic, and Peter G. Wolynes

    PNAS August 26, 2014 111 (34) 12408-12413; first published August 11, 2014. https://doi.org/10.1073/pnas.1413575111
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    Characterizing the proton loading site in cytochrome c oxidase

    Jianxun Lu and M. R. Gunner

    PNAS August 26, 2014 111 (34) 12414-12419; first published August 11, 2014. https://doi.org/10.1073/pnas.1407187111
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    Engineered kinase activation reveals unique morphodynamic phenotypes and associated trafficking for Src family isoforms

    Pei-Hsuan Chu, Denis Tsygankov, Matthew E. Berginski, Onur Dagliyan, Shawn M. Gomez, Timothy C. Elston, Andrei V. Karginov, and Klaus M. Hahn

    PNAS August 26, 2014 111 (34) 12420-12425; first published August 12, 2014. https://doi.org/10.1073/pnas.1404487111

• Cell Biology

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    Distinct isoform of FABP7 revealed by screening for retroelement-activated genes in diffuse large B-cell lymphoma

    Frances E. Lock, Rita Rebollo, Katharine Miceli-Royer, Liane Gagnier, Sabrina Kuah, Artem Babaian, Maialen Sistiaga-Poveda, C. Benjamin Lai, Oksana Nemirovsky, Isabel Serrano, Christian Steidl, Mohammad M. Karimi, and Dixie L. Mager

    PNAS August 26, 2014 111 (34) E3534-E3543; first published August 11, 2014. https://doi.org/10.1073/pnas.1405507111
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    Calcineurin determines toxic versus beneficial responses to α-synuclein

    Gabriela Caraveo, Pavan K. Auluck, Luke Whitesell, Chee Yeun Chung, Valeriya Baru, Eugene V. Mosharov, Xiaohui Yan, Manu Ben-Johny, Martin Soste, Paola Picotti, Hanna Kim, Kim A. Caldwell, Guy A. Caldwell, David Sulzer, David T. Yue, and Susan Lindquist

    PNAS August 26, 2014 111 (34) E3544-E3552; first published August 13, 2014. https://doi.org/10.1073/pnas.1413201111
  • Open Access

    Dynamic regulation of human endogenous retroviruses mediates factor-induced reprogramming and differentiation potential

    Mari Ohnuki, Koji Tanabe, Kenta Sutou, Ito Teramoto, Yuka Sawamura, Megumi Narita, Michiko Nakamura, Yumie Tokunaga, Masahiro Nakamura, Akira Watanabe, Shinya Yamanaka, and Kazutoshi Takahashi

    PNAS August 26, 2014 111 (34) 12426-12431; first published August 5, 2014. https://doi.org/10.1073/pnas.1413299111
  • Open Access

    Mapping of SUMO sites and analysis of SUMOylation changes induced by external stimuli

    Francis Impens, Lilliana Radoshevich, Pascale Cossart, and David Ribet

    PNAS August 26, 2014 111 (34) 12432-12437; first published August 11, 2014. https://doi.org/10.1073/pnas.1413825111

• Developmental Biology

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    Primary cilia are required in a unique subpopulation of neural progenitors

    Cheuk Ka Tong, Young-Goo Han, Jugal K. Shah, Kirsten Obernier, Cristina D. Guinto, and Arturo Alvarez-Buylla

    PNAS August 26, 2014 111 (34) 12438-12443; first published August 11, 2014. https://doi.org/10.1073/pnas.1321425111
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    Wnt ligand/Frizzled 2 receptor signaling regulates tube shape and branch-point formation in the lung through control of epithelial cell shape

    Rachel S. Kadzik, Ethan David Cohen, Michael P. Morley, Kathleen M. Stewart, Min Min Lu, and Edward E. Morrisey

    PNAS August 26, 2014 111 (34) 12444-12449; first published August 11, 2014. https://doi.org/10.1073/pnas.1406639111

• Genetics

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    Small RNA combination therapy for lung cancer

    Wen Xue, James E. Dahlman, Tuomas Tammela, Omar F. Khan, Sabina Sood, Apeksha Dave, Wenxin Cai, Leilani M. Chirino, Gillian R. Yang, Roderick Bronson, Denise G. Crowley, Gaurav Sahay, Avi Schroeder, Robert Langer, Daniel G. Anderson, and Tyler Jacks

    PNAS August 26, 2014 111 (34) E3553-E3561; first published August 11, 2014. https://doi.org/10.1073/pnas.1412686111
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    Molecular pathogenesis of congenital diaphragmatic hernia revealed by exome sequencing, developmental data, and bioinformatics

    Mauro Longoni, Frances A. High, Meaghan K. Russell, Alireza Kashani, Adam A. Tracy, Caroline M. Coletti, Regis Hila, Ahmed Shamia, Julie Wells, Kate G. Ackerman, Jay M. Wilson, Carol J. Bult, Charles Lee, Kasper Lage, Barbara R. Pober, and Patricia K. Donahoe

    PNAS August 26, 2014 111 (34) 12450-12455; first published August 8, 2014. https://doi.org/10.1073/pnas.1412509111
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    Predicting hybrid performance in rice using genomic best linear unbiased prediction

    Shizhong Xu, Dan Zhu, and Qifa Zhang

    PNAS August 26, 2014 111 (34) 12456-12461; first published August 11, 2014. https://doi.org/10.1073/pnas.1413750111
  • Open Access

    Enhanced killing of antibiotic-resistant bacteria enabled by massively parallel combinatorial genetics

    • From the Cover

    Allen A. Cheng, Huiming Ding, and Timothy K. Lu

    PNAS August 26, 2014 111 (34) 12462-12467; first published August 11, 2014. https://doi.org/10.1073/pnas.1400093111

• Immunology and Inflammation

  • Open Access

    Murine CD27⁽⁻⁾ Vγ6⁽⁺⁾ γδ T cells producing IL-17A promote ovarian cancer growth via mobilization of protumor small peritoneal macrophages

    Margarida Rei, Natacha Gonçalves-Sousa, Telma Lança, Richard G. Thompson, Sofia Mensurado, Frances R. Balkwill, Hagen Kulbe, Daniel J. Pennington, and Bruno Silva-Santos

    PNAS August 26, 2014 111 (34) E3562-E3570; first published August 11, 2014. https://doi.org/10.1073/pnas.1403424111
  • Open Access

    Small-molecule screening identifies inhibition of salt-inducible kinases as a therapeutic strategy to enhance immunoregulatory functions of dendritic cells

    Thomas B. Sundberg, Hwan Geun Choi, Joo-Hye Song, Caitlin N. Russell, Mahmud M. Hussain, Daniel B. Graham, Bernard Khor, John Gagnon, Daniel J. O’Connell, Kavitha Narayan, Vlado Dančík, Jose R. Perez, Hans-Christian Reinecker, Nathanael S. Gray, Stuart L. Schreiber, Ramnik J. Xavier, and Alykhan F. Shamji

    PNAS August 26, 2014 111 (34) 12468-12473; first published August 11, 2014. https://doi.org/10.1073/pnas.1412308111
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    KLRG⁺ invariant natural killer T cells are long-lived effectors

    Kanako Shimizu, Yusuke Sato, Jun Shinga, Takashi Watanabe, Takaho Endo, Miki Asakura, Satoru Yamasaki, Kazuyoshi Kawahara, Yuki Kinjo, Hiroshi Kitamura, Hiroshi Watarai, Yasuyuki Ishii, Moriya Tsuji, Masaru Taniguchi, Osamu Ohara, and Shin-ichiro Fujii

    PNAS August 26, 2014 111 (34) 12474-12479; first published August 12, 2014. https://doi.org/10.1073/pnas.1406240111
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    Autophagy protects C. elegans against necrosis during Pseudomonas aeruginosa infection

    Cheng-Gang Zou, Yi-Cheng Ma, Li-Li Dai, and Ke-Qin Zhang

    PNAS August 26, 2014 111 (34) 12480-12485; first published August 11, 2014. https://doi.org/10.1073/pnas.1405032111

• Medical Sciences

  • Open Access

    Tumorigenicity of hypoxic respiring cancer cells revealed by a hypoxia–cell cycle dual reporter

    Anne Le, Zachary E. Stine, Christopher Nguyen, Junaid Afzal, Peng Sun, Max Hamaker, Nicholas M. Siegel, Arvin M. Gouw, Byung-hak Kang, Shu-Han Yu, Rory L. Cochran, Kurt A. Sailor, Hongjun Song, and Chi V. Dang

    PNAS August 26, 2014 111 (34) 12486-12491; first published August 11, 2014. https://doi.org/10.1073/pnas.1402012111
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    Interleukin-1 deficiency prolongs ovarian lifespan in mice

    Shiri Uri-Belapolsky, Aviv Shaish, Efrat Eliyahu, Hadas Grossman, Mattan Levi, Dana Chuderland, Lihi Ninio-Many, Noa Hasky, David Shashar, Tal Almog, Michal Kandel-Kfir, Dror Harats, Ruth Shalgi, and Yehuda Kamari

    PNAS August 26, 2014 111 (34) 12492-12497; first published August 11, 2014. https://doi.org/10.1073/pnas.1323955111

• Microbiology

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    Native microbiome impedes vertical transmission of Wolbachia in Anopheles mosquitoes

    Grant L. Hughes, Brittany L. Dodson, Rebecca M. Johnson, Courtney C. Murdock, Hitoshi Tsujimoto, Yasutsugu Suzuki, Alyssa A. Patt, Long Cui, Carlos W. Nossa, Rhiannon M. Barry, Joyce M. Sakamoto, Emily A. Hornett, and Jason L. Rasgon

    PNAS August 26, 2014 111 (34) 12498-12503; first published August 11, 2014. https://doi.org/10.1073/pnas.1408888111
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    Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation

    Wei Qin, Shady A. Amin, Willm Martens-Habbena, Christopher B. Walker, Hidetoshi Urakawa, Allan H. Devol, Anitra E. Ingalls, James W. Moffett, E. Virginia Armbrust, and David A. Stahl

    PNAS August 26, 2014 111 (34) 12504-12509; first published August 11, 2014. https://doi.org/10.1073/pnas.1324115111
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    Compound-gene interaction mapping reveals distinct roles for Staphylococcus aureus teichoic acids

    John P. Santa Maria Jr., Ama Sadaka, Samir H. Moussa, Stephanie Brown, Yanjia J. Zhang, Eric J. Rubin, Michael S. Gilmore, and Suzanne Walker

    PNAS August 26, 2014 111 (34) 12510-12515; first published August 7, 2014. https://doi.org/10.1073/pnas.1404099111
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    Receptor usage and cell entry of bat coronavirus HKU4 provide insight into bat-to-human transmission of MERS coronavirus

    Yang Yang, Lanying Du, Chang Liu, Lili Wang, Cuiqing Ma, Jian Tang, Ralph S. Baric, Shibo Jiang, and Fang Li

    PNAS August 26, 2014 111 (34) 12516-12521; first published August 11, 2014. https://doi.org/10.1073/pnas.1405889111
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    Patterned progression of bacterial populations in the premature infant gut

    Patricio S. La Rosa, Barbara B. Warner, Yanjiao Zhou, George M. Weinstock, Erica Sodergren, Carla M. Hall-Moore, Harold J. Stevens, William E. Bennett Jr., Nurmohammad Shaikh, Laura A. Linneman, Julie A. Hoffmann, Aaron Hamvas, Elena Deych, Berkley A. Shands, William D. Shannon, and Phillip I. Tarr

    PNAS August 26, 2014 111 (34) 12522-12527; first published August 11, 2014. https://doi.org/10.1073/pnas.1409497111
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    Vectored antibody gene delivery protects against Plasmodium falciparum sporozoite challenge in mice

    Cailin Deal, Alejandro B. Balazs, Diego A. Espinosa, Fidel Zavala, David Baltimore, and Gary Ketner

    PNAS August 26, 2014 111 (34) 12528-12532; first published August 11, 2014. https://doi.org/10.1073/pnas.1407362111

• Neuroscience

  • Open Access

    Socially responsive effects of brain oxidative metabolism on aggression

    Hongmei Li-Byarlay, Clare C. Rittschof, Jonathan H. Massey, Barry R. Pittendrigh, and Gene E. Robinson

    PNAS August 26, 2014 111 (34) 12533-12537; first published August 4, 2014. https://doi.org/10.1073/pnas.1412306111
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    Nicotinic and muscarinic agonists and acetylcholinesterase inhibitors stimulate a common pathway to enhance GluN2B-NMDAR responses

    Masaru Ishibashi, Yoshihiko Yamazaki, Ricardo Miledi, and Katumi Sumikawa

    PNAS August 26, 2014 111 (34) 12538-12543; first published August 11, 2014. https://doi.org/10.1073/pnas.1408805111
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    DRK/DOS/SOS converge with Crk/Mbc/dCed-12 to activate Rac1 during glial engulfment of axonal debris

    Tsai-Yi Lu, Johnna Doherty, and Marc R. Freeman

    PNAS August 26, 2014 111 (34) 12544-12549; first published August 6, 2014. https://doi.org/10.1073/pnas.1403450111
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    MRI-localized biopsies reveal subtype-specific differences in molecular and cellular composition at the margins of glioblastoma

    Brian J. Gill, David J. Pisapia, Hani R. Malone, Hannah Goldstein, Liang Lei, Adam Sonabend, Jonathan Yun, Jorge Samanamud, Jennifer S. Sims, Matei Banu, Athanassios Dovas, Andrew F. Teich, Sameer A. Sheth, Guy M. McKhann, Michael B. Sisti, Jeffrey N. Bruce, Peter A. Sims, and Peter Canoll

    PNAS August 26, 2014 111 (34) 12550-12555; first published August 11, 2014. https://doi.org/10.1073/pnas.1405839111

• Pharmacology

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    Inhibitor of MYC identified in a Kröhnke pyridine library

    Jonathan R. Hart, Amanda L. Garner, Jing Yu, Yoshihiro Ito, Minghao Sun, Lynn Ueno, Jin-Kyu Rhee, Michael M. Baksh, Eduard Stefan, Markus Hartl, Klaus Bister, Peter K. Vogt, and Kim D. Janda

    PNAS August 26, 2014 111 (34) 12556-12561; first published August 11, 2014. https://doi.org/10.1073/pnas.1319488111

• Physiology

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    Genetic–epigenetic dysregulation of thymic TSH receptor gene expression triggers thyroid autoimmunity

    Mihaela Stefan, Chengguo Wei, Angela Lombardi, Cheuk Wun Li, Erlinda S. Concepcion, William B. Inabnet III, Randall Owen, Weijia Zhang, and Yaron Tomer

    PNAS August 26, 2014 111 (34) 12562-12567; first published August 13, 2014. https://doi.org/10.1073/pnas.1408821111

• Plant Biology

  • Open Access

    DELAY OF GERMINATION 1 mediates a conserved coat-dormancy mechanism for the temperature- and gibberellin-dependent control of seed germination

    Kai Graeber, Ada Linkies, Tina Steinbrecher, Klaus Mummenhoff, Danuše Tarkowská, Veronika Turečková, Michael Ignatz, Katja Sperber, Antje Voegele, Hans de Jong, Terezie Urbanová, Miroslav Strnad, and Gerhard Leubner-Metzger

    PNAS August 26, 2014 111 (34) E3571-E3580; first published August 11, 2014. https://doi.org/10.1073/pnas.1403851111