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Table of Contents

March 18, 2014; vol. 111 no. 11

This Week in PNAS

  • You have access
    In This Issue
    PNAS March 18, 2014 111 (11) 3897-3898; https://doi.org/10.1073/iti1114111

Letters (Online Only)

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    Distinguishing constitutional and acquired nonclonal aneuploidy
    Henry H. Heng
    PNAS March 18, 2014 111 (11) E972; https://doi.org/10.1073/pnas.1323636111
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    Reply to Heng: Inborn aneuploidy and chromosomal instability
    Anders Valind and David Gisselsson
    PNAS March 18, 2014 111 (11) E973; https://doi.org/10.1073/pnas.1323978111

    See companion article:

    • Constitutional aneuploidy and genome instability
      - Dec 09, 2013
  • You have access
    Does aneuploidy destabilize karyotypes automatically?
    Peter H. Duesberg
    PNAS March 18, 2014 111 (11) E974; https://doi.org/10.1073/pnas.1401413111
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    Reply to Duesberg: Stability of peritriploid and triploid states in neoplastic and nonneoplastic cells
    Anders Valind and David Gisselsson
    PNAS March 18, 2014 111 (11) E975; https://doi.org/10.1073/pnas.1402008111

    See companion article:

    • Constitutional aneuploidy and genome instability
      - Dec 09, 2013
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    Concerns over the origin of NIH-CQV, a novel virus discovered in Chinese patients with seronegative hepatitis
    Samia N. Naccache, John Hackett Jr., Eric L. Delwart, and Charles Y. Chiu
    PNAS March 18, 2014 111 (11) E976; https://doi.org/10.1073/pnas.1317064111
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    Reply to Naccache et al: Viral sequences of NIH-CQV virus, a contamination of DNA extraction method
    Ning Zhi, Gangqing Hu, Susan Wong, Keji Zhao, Qing Mao, and Neal S. Young
    PNAS March 18, 2014 111 (11) E977; https://doi.org/10.1073/pnas.1318965111

    See companion article:

    • Discovery of a virus in non-A–E hepatitis
      - May 28, 2013

Science and Culture

How science intersects with culture.
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    Protein structure paintings
    • Front Matter
    J. D. Talasek
    PNAS March 18, 2014 111 (11) 3899; https://doi.org/10.1073/pnas.1400947111

Profile

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    Profile of Andrea Rinaldo
    Paul Gabrielsen
    PNAS March 18, 2014 111 (11) 3900-3902; https://doi.org/10.1073/pnas.1401995111

    See companion article:

    • Optimal channel networks
      - Feb 03, 2014

Commentaries

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    Design and development of effective siRNA delivery vehicles
    David Putnam
    PNAS March 18, 2014 111 (11) 3903-3904; https://doi.org/10.1073/pnas.1401746111

    See companion article:

    • Lipopeptides and selective siRNA delivery
      - Feb 10, 2014
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    Transcriptional pausing to scout ahead for DNA damage
    Bennett Van Houten and Caroline Kisker
    PNAS March 18, 2014 111 (11) 3905-3906; https://doi.org/10.1073/pnas.1402020111

    See companion article:

    • Transcription-coupled repair at a distance
      - Feb 19, 2014
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    Oxygen and animals in Earth history
    Andrew H. Knoll and Erik A. Sperling
    PNAS March 18, 2014 111 (11) 3907-3908; https://doi.org/10.1073/pnas.1401745111

    See companion article:

    • Oxygen requirements of the earliest animals
      - Feb 18, 2014
  • You have access
    Matching and mechanisms in protected area and poverty alleviation research
    Arun Agrawal
    PNAS March 18, 2014 111 (11) 3909-3910; https://doi.org/10.1073/pnas.1401327111

    See companion article:

    • Causal mechanisms of protected areas
      - Feb 24, 2014

PNAS Plus Significance Statements

Brief statements written by the authors about the significance of their papers.
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    PNAS Plus Significance Statements
    PNAS March 18, 2014 111 (11) 3911-3912; https://doi.org/10.1073/pnas.ss11111

Physical Sciences

  • Applied Physical Sciences

    • Open Access
      In vivo X-ray cine-tomography for tracking morphological dynamics
      Tomy dos Santos Rolo, Alexey Ershov, Thomas van de Kamp, and Tilo Baumbach
      PNAS March 18, 2014 111 (11) 3921-3926; https://doi.org/10.1073/pnas.1308650111
    • You have access
      Harvesting renewable energy from Earth’s mid-infrared emissions
      Steven J. Byrnes, Romain Blanchard, and Federico Capasso
      PNAS March 18, 2014 111 (11) 3927-3932; https://doi.org/10.1073/pnas.1402036111
    • Open Access
      Anisotropic two-dimensional electron gas at SrTiO3(110)
      Zhiming Wang, Zhicheng Zhong, Xianfeng Hao, Stefan Gerhold, Bernhard Stöger, Michael Schmid, Jaime Sánchez-Barriga, Andrei Varykhalov, Cesare Franchini, Karsten Held, and Ulrike Diebold
      PNAS March 18, 2014 111 (11) 3933-3937; https://doi.org/10.1073/pnas.1318304111
    • You have access
      Nucleation of shear bands in amorphous alloys
      John H. Perepezko, Seth D. Imhoff, Ming-Wei Chen, Jun-Qiang Wang, and Sergio Gonzalez
      PNAS March 18, 2014 111 (11) 3938-3942; https://doi.org/10.1073/pnas.1321518111
  • Chemistry

    • You have access
      Identifying the macromolecular targets of de novo-designed chemical entities through self-organizing map consensus
      Daniel Reker, Tiago Rodrigues, Petra Schneider, and Gisbert Schneider
      PNAS March 18, 2014 111 (11) 4067-4072; https://doi.org/10.1073/pnas.1320001111
    • You have access
      Chemical defenses and resource trade-offs structure sponge communities on Caribbean coral reefs
      • From the Cover
      Tse-Lynn Loh and Joseph R. Pawlik
      PNAS March 18, 2014 111 (11) 4151-4156; https://doi.org/10.1073/pnas.1321626111
  • Earth, Atmospheric, and Planetary Sciences

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      A controlling role for the air−sea interface in the chemical processing of reactive nitrogen in the coastal marine boundary layer
      Michelle J. Kim, Delphine K. Farmer, and Timothy H. Bertram
      PNAS March 18, 2014 111 (11) 3943-3948; https://doi.org/10.1073/pnas.1318694111
    • Open Access
      Oxygen requirements of the earliest animals
      • From the Cover
      Daniel B. Mills, Lewis M. Ward, CarriAyne Jones, Brittany Sweeten, Michael Forth, Alexander H. Treusch, and Donald E. Canfield
      PNAS March 18, 2014 111 (11) 4168-4172; https://doi.org/10.1073/pnas.1400547111

      See companion article:

      • Oxygen and animals
        - Mar 10, 2014
  • Engineering

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      Three-dimensional cell migration does not follow a random walk
      Pei-Hsun Wu, Anjil Giri, Sean X. Sun, and Denis Wirtz
      PNAS March 18, 2014 111 (11) 3949-3954; https://doi.org/10.1073/pnas.1318967111
    • Open Access
      Lipopeptide nanoparticles for potent and selective siRNA delivery in rodents and nonhuman primates
      • From the Cover
      Yizhou Dong, Kevin T. Love, J. Robert Dorkin, Sasilada Sirirungruang, Yunlong Zhang, Delai Chen, Roman L. Bogorad, Hao Yin, Yi Chen, Arturo J. Vegas, Christopher A. Alabi, Gaurav Sahay, Karsten T. Olejnik, Weiheng Wang, Avi Schroeder, Abigail K. R. Lytton-Jean, Daniel J. Siegwart, Akin Akinc, Carmen Barnes, Scott A. Barros, Mary Carioto, Kevin Fitzgerald, Julia Hettinger, Varun Kumar, Tatiana I. Novobrantseva, June Qin, William Querbes, Victor Koteliansky, Robert Langer, and Daniel G. Anderson
      PNAS March 18, 2014 111 (11) 3955-3960; https://doi.org/10.1073/pnas.1322937111

      See companion article:

      • Speeding evolution
        - Mar 06, 2014
  • Environmental Sciences

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      A soil actinobacterium scavenges atmospheric H2 using two membrane-associated, oxygen-dependent [NiFe] hydrogenases
      Chris Greening, Michael Berney, Kiel Hards, Gregory M. Cook, and Ralf Conrad
      PNAS March 18, 2014 111 (11) 4257-4261; https://doi.org/10.1073/pnas.1320586111
  • Mathematics

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      Holomorphic projections and Ramanujan’s mock theta functions
      Özlem Imamoğlu, Martin Raum, and Olav K. Richter
      PNAS March 18, 2014 111 (11) 3961-3967; https://doi.org/10.1073/pnas.1311621111
  • Physics

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      Quantifying the atomic-level mechanics of single long physisorbed molecular chains
      Shigeki Kawai, Matthias Koch, Enrico Gnecco, Ali Sadeghi, Rémy Pawlak, Thilo Glatzel, Jutta Schwarz, Stefan Goedecker, Stefan Hecht, Alexis Baratoff, Leonhard Grill, and Ernst Meyer
      PNAS March 18, 2014 111 (11) 3968-3972; https://doi.org/10.1073/pnas.1319938111
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      Molecular interferometer to decode attosecond electron–nuclear dynamics
      Alicia Palacios, Alberto González-Castrillo, and Fernando Martín
      PNAS March 18, 2014 111 (11) 3973-3978; https://doi.org/10.1073/pnas.1316762111
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      Electric double-layer transistor using layered iron selenide Mott insulator TlFe1.6Se2
      Takayoshi Katase, Hidenori Hiramatsu, Toshio Kamiya, and Hideo Hosono
      PNAS March 18, 2014 111 (11) 3979-3983; https://doi.org/10.1073/pnas.1318045111

Social Sciences

  • Social Sciences

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      Principles of scientific research team formation and evolution
      Staša Milojević
      PNAS March 18, 2014 111 (11) 3984-3989; https://doi.org/10.1073/pnas.1309723111
    • Open Access
      Two distinct neural mechanisms underlying indirect reciprocity
      Takamitsu Watanabe, Masanori Takezawa, Yo Nakawake, Akira Kunimatsu, Hidenori Yamasue, Mitsuhiro Nakamura, Yasushi Miyashita, and Naoki Masuda
      PNAS March 18, 2014 111 (11) 3990-3995; https://doi.org/10.1073/pnas.1318570111
    • Open Access
      Contextual effect of positive intergroup contact on outgroup prejudice
      Oliver Christ, Katharina Schmid, Simon Lolliot, Hermann Swart, Dietlind Stolle, Nicole Tausch, Ananthi Al Ramiah, Ulrich Wagner, Steven Vertovec, and Miles Hewstone
      PNAS March 18, 2014 111 (11) 3996-4000; https://doi.org/10.1073/pnas.1320901111
  • Sustainability Science

    • Open Access
      Increasing homogeneity in global food supplies and the implications for food security
      Colin K. Khoury, Anne D. Bjorkman, Hannes Dempewolf, Julian Ramirez-Villegas, Luigi Guarino, Andy Jarvis, Loren H. Rieseberg, and Paul C. Struik
      PNAS March 18, 2014 111 (11) 4001-4006; https://doi.org/10.1073/pnas.1313490111
    • Open Access
      Quantifying causal mechanisms to determine how protected areas affect poverty through changes in ecosystem services and infrastructure
      • From the Cover
      Paul J. Ferraro and Merlin M. Hanauer
      PNAS March 18, 2014 111 (11) 4332-4337; https://doi.org/10.1073/pnas.1307712111

      See companion article:

      • Matching and causal mechanisms
        - Mar 05, 2014

Biological Sciences

  • Agricultural Sciences

    • Open Access
      Increasing homogeneity in global food supplies and the implications for food security
      Colin K. Khoury, Anne D. Bjorkman, Hannes Dempewolf, Julian Ramirez-Villegas, Luigi Guarino, Andy Jarvis, Loren H. Rieseberg, and Paul C. Struik
      PNAS March 18, 2014 111 (11) 4001-4006; https://doi.org/10.1073/pnas.1313490111
  • Biochemistry

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      Hic-5 is a transcription coregulator that acts before and/or after glucocorticoid receptor genome occupancy in a gene-selective manner
      Rajas Chodankar, Dai-Ying Wu, Benjamin J. Schiller, Keith R. Yamamoto, and Michael R. Stallcup
      PNAS March 18, 2014 111 (11) 4007-4012; https://doi.org/10.1073/pnas.1400522111
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      Clioquinol promotes the degradation of metal-dependent amyloid-β (Aβ) oligomers to restore endocytosis and ameliorate Aβ toxicity
      Kent E. S. Matlack, Daniel F. Tardiff, Priyanka Narayan, Shusei Hamamichi, Kim A. Caldwell, Guy A. Caldwell, and Susan Lindquist
      PNAS March 18, 2014 111 (11) 4013-4018; https://doi.org/10.1073/pnas.1402228111
    • Open Access
      Hydroxylation of the eukaryotic ribosomal decoding center affects translational accuracy
      Christoph Loenarz, Rok Sekirnik, Armin Thalhammer, Wei Ge, Ekaterina Spivakovsky, Mukram M. Mackeen, Michael A. McDonough, Matthew E. Cockman, Benedikt M. Kessler, Peter J. Ratcliffe, Alexander Wolf, and Christopher J. Schofield
      PNAS March 18, 2014 111 (11) 4019-4024; https://doi.org/10.1073/pnas.1311750111

      See companion article:

      • Prolyl hydroxylation of RPS23 by OGFOD1
        - Feb 18, 2014
      • Drosophila ribosomal protein hydroxylation
        - Feb 18, 2014
    • Open Access
      Sudestada1, a Drosophila ribosomal prolyl-hydroxylase required for mRNA translation, cell homeostasis, and organ growth
      Maximiliano J. Katz, Julieta M. Acevedo, Christoph Loenarz, Diego Galagovsky, Phebee Liu-Yi, Marcelo Pérez-Pepe, Armin Thalhammer, Rok Sekirnik, Wei Ge, Mariana Melani, María G. Thomas, Sergio Simonetta, Graciela L. Boccaccio, Christopher J. Schofield, Matthew E. Cockman, Peter J. Ratcliffe, and Pablo Wappner
      PNAS March 18, 2014 111 (11) 4025-4030; https://doi.org/10.1073/pnas.1314485111

      See companion article:

      • Prolyl hydroxylation of RPS23 by OGFOD1
        - Feb 18, 2014
      • Ribosome hydroxylation and translation termination
        - Feb 18, 2014
    • Open Access
      OGFOD1 catalyzes prolyl hydroxylation of RPS23 and is involved in translation control and stress granule formation
      Rachelle S. Singleton, Phebee Liu-Yi, Fabio Formenti, Wei Ge, Rok Sekirnik, Roman Fischer, Julie Adam, Patrick J. Pollard, Alexander Wolf, Armin Thalhammer, Christoph Loenarz, Emily Flashman, Atsushi Yamamoto, Mathew L. Coleman, Benedikt M. Kessler, Pablo Wappner, Christopher J. Schofield, Peter J. Ratcliffe, and Matthew E. Cockman
      PNAS March 18, 2014 111 (11) 4031-4036; https://doi.org/10.1073/pnas.1314482111

      See companion article:

      • Drosophila ribosomal protein hydroxylation
        - Feb 18, 2014
      • Ribosome hydroxylation and translation termination
        - Feb 18, 2014
    • You have access
      Stalled transcription complexes promote DNA repair at a distance
      • From the Cover
      Nia M. Haines, Young-In T. Kim, Abigail J. Smith, and Nigel J. Savery
      PNAS March 18, 2014 111 (11) 4037-4042; https://doi.org/10.1073/pnas.1322350111

      See companion article:

      • Pausing to scout ahead for damage
        - Mar 05, 2014
    • You have access
      Molecular mechanism and structure of the Saccharomyces cerevisiae iron regulator Aft2
      Catherine B. Poor, Seraphine V. Wegner, Haoran Li, Adrienne C. Dlouhy, Jonathan P. Schuermann, Ruslan Sanishvili, James R. Hinshaw, Pamela J. Riggs-Gelasco, Caryn E. Outten, and Chuan He
      PNAS March 18, 2014 111 (11) 4043-4048; https://doi.org/10.1073/pnas.1318869111
    • You have access
      Structural basis for gating mechanisms of a eukaryotic P-glycoprotein homolog
      Atsushi Kodan, Tomohiro Yamaguchi, Toru Nakatsu, Keita Sakiyama, Christopher J. Hipolito, Akane Fujioka, Ryo Hirokane, Keiji Ikeguchi, Bunta Watanabe, Jun Hiratake, Yasuhisa Kimura, Hiroaki Suga, Kazumitsu Ueda, and Hiroaki Kato
      PNAS March 18, 2014 111 (11) 4049-4054; https://doi.org/10.1073/pnas.1321562111
    • You have access
      Parkinson disease-associated mutation R1441H in LRRK2 prolongs the “active state” of its GTPase domain
      Jingling Liao, Chun-Xiang Wu, Christopher Burlak, Sheng Zhang, Heather Sahm, Mu Wang, Zhong-Yin Zhang, Kurt W. Vogel, Mark Federici, Steve M. Riddle, R. Jeremy Nichols, Dali Liu, Mark R. Cookson, Todd A. Stone, and Quyen Q. Hoang
      PNAS March 18, 2014 111 (11) 4055-4060; https://doi.org/10.1073/pnas.1323285111
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      Redesign of extensive protein–DNA interfaces of meganucleases using iterative cycles of in vitro compartmentalization
      Ryo Takeuchi, Michael Choi, and Barry L. Stoddard
      PNAS March 18, 2014 111 (11) 4061-4066; https://doi.org/10.1073/pnas.1321030111
  • Biophysics and Computational Biology

    • Open Access
      In vivo X-ray cine-tomography for tracking morphological dynamics
      Tomy dos Santos Rolo, Alexey Ershov, Thomas van de Kamp, and Tilo Baumbach
      PNAS March 18, 2014 111 (11) 3921-3926; https://doi.org/10.1073/pnas.1308650111
    • You have access
      Identifying the macromolecular targets of de novo-designed chemical entities through self-organizing map consensus
      Daniel Reker, Tiago Rodrigues, Petra Schneider, and Gisbert Schneider
      PNAS March 18, 2014 111 (11) 4067-4072; https://doi.org/10.1073/pnas.1320001111
    • You have access
      Single-molecule studies of polymerase dynamics and stoichiometry at the bacteriophage T7 replication machinery
      Hylkje J. Geertsema, Arkadiusz W. Kulczyk, Charles C. Richardson, and Antoine M. van Oijen
      PNAS March 18, 2014 111 (11) 4073-4078; https://doi.org/10.1073/pnas.1402010111
    • You have access
      Graph-based sampling for approximating global helical topologies of RNA
      Namhee Kim, Christian Laing, Shereef Elmetwaly, Segun Jung, Jeremy Curuksu, and Tamar Schlick
      PNAS March 18, 2014 111 (11) 4079-4084; https://doi.org/10.1073/pnas.1318893111
    • You have access
      Strength of a bifurcated H bond
      Esther S. Feldblum and Isaiah T. Arkin
      PNAS March 18, 2014 111 (11) 4085-4090; https://doi.org/10.1073/pnas.1319827111
    • You have access
      Myosin lever arm directs collective motion on cellular actin network
      Rizal F. Hariadi, Mario Cale, and Sivaraj Sivaramakrishnan
      PNAS March 18, 2014 111 (11) 4091-4096; https://doi.org/10.1073/pnas.1315923111
    • You have access
      Understanding the antagonism of retinoblastoma protein dephosphorylation by PNUTS provides insights into the PP1 regulatory code
      Meng S. Choy, Martina Hieke, Ganesan Senthil Kumar, Greyson R. Lewis, Kristofer R. Gonzalez-DeWhitt, Rene P. Kessler, Benjamin J. Stein, Manuel Hessenberger, Angus C. Nairn, Wolfgang Peti, and Rebecca Page
      PNAS March 18, 2014 111 (11) 4097-4102; https://doi.org/10.1073/pnas.1317395111
  • Cell Biology

    • Open Access
      Sequential breakdown of 3-phosphorylated phosphoinositides is essential for the completion of macropinocytosis
      Masashi Maekawa, Shimpei Terasaka, Yasuhiro Mochizuki, Katsuhisa Kawai, Yuka Ikeda, Nobukazu Araki, Edward Y. Skolnik, Tomohiko Taguchi, and Hiroyuki Arai
      PNAS March 18, 2014 111 (11) E978-E987; https://doi.org/10.1073/pnas.1311029111
    • You have access
      Three-dimensional cell migration does not follow a random walk
      Pei-Hsun Wu, Anjil Giri, Sean X. Sun, and Denis Wirtz
      PNAS March 18, 2014 111 (11) 3949-3954; https://doi.org/10.1073/pnas.1318967111
    • Open Access
      Transcriptional divergence and conservation of human and mouse erythropoiesis
      Novalia Pishesha, Prathapan Thiru, Jiahai Shi, Jennifer C. Eng, Vijay G. Sankaran, and Harvey F. Lodish
      PNAS March 18, 2014 111 (11) 4103-4108; https://doi.org/10.1073/pnas.1401598111
    • You have access
      Requirement of MEF2A, C, and D for skeletal muscle regeneration
      Ning Liu, Benjamin R. Nelson, Svetlana Bezprozvannaya, John M. Shelton, James A. Richardson, Rhonda Bassel-Duby, and Eric N. Olson
      PNAS March 18, 2014 111 (11) 4109-4114; https://doi.org/10.1073/pnas.1401732111
    • You have access
      BAT3 modulates p300-dependent acetylation of p53 and autophagy-related protein 7 (ATG7) during autophagy
      Salwa Sebti, Christine Prébois, Esther Pérez-Gracia, Chantal Bauvy, Fabienne Desmots, Nelly Pirot, Céline Gongora, Anne-Sophie Bach, Andrew V. Hubberstey, Valérie Palissot, Guy Berchem, Patrice Codogno, Laetitia K. Linares, Emmanuelle Liaudet-Coopman, and Sophie Pattingre
      PNAS March 18, 2014 111 (11) 4115-4120; https://doi.org/10.1073/pnas.1313618111
    • You have access
      Ena/VASP Enabled is a highly processive actin polymerase tailored to self-assemble parallel-bundled F-actin networks with Fascin
      Jonathan D. Winkelman, Colleen G. Bilancia, Mark Peifer, and David R. Kovar
      PNAS March 18, 2014 111 (11) 4121-4126; https://doi.org/10.1073/pnas.1322093111
    • You have access
      Four-dimensional live imaging of apical biosynthetic trafficking reveals a post-Golgi sorting role of apical endosomal intermediates
      Roland Thuenauer, Ya-Chu Hsu, Jose Maria Carvajal-Gonzalez, Sylvie Deborde, Jen-Zen Chuang, Winfried Römer, Alois Sonnleitner, Enrique Rodriguez-Boulan, and Ching-Hwa Sung
      PNAS March 18, 2014 111 (11) 4127-4132; https://doi.org/10.1073/pnas.1304168111
  • Developmental Biology

    • You have access
      BMP signaling is required for the generation of primordial germ cells in an insect
      Seth Donoughe, Taro Nakamura, Ben Ewen-Campen, Delbert A. Green II, Lory Henderson, and Cassandra G. Extavour
      PNAS March 18, 2014 111 (11) 4133-4138; https://doi.org/10.1073/pnas.1400525111
    • You have access
      Fine mapping of genome activation in bovine embryos by RNA sequencing
      Alexander Graf, Stefan Krebs, Valeri Zakhartchenko, Björn Schwalb, Helmut Blum, and Eckhard Wolf
      PNAS March 18, 2014 111 (11) 4139-4144; https://doi.org/10.1073/pnas.1321569111
    • Open Access
      Seminal vesicle protein SVS2 is required for sperm survival in the uterus
      Natsuko Kawano, Naoya Araki, Kaoru Yoshida, Taku Hibino, Naoko Ohnami, Maako Makino, Seiya Kanai, Hidetoshi Hasuwa, Manabu Yoshida, Kenji Miyado, and Akihiro Umezawa
      PNAS March 18, 2014 111 (11) 4145-4150; https://doi.org/10.1073/pnas.1320715111
  • Ecology

    • You have access
      Chemical defenses and resource trade-offs structure sponge communities on Caribbean coral reefs
      • From the Cover
      Tse-Lynn Loh and Joseph R. Pawlik
      PNAS March 18, 2014 111 (11) 4151-4156; https://doi.org/10.1073/pnas.1321626111
    • Open Access
      Evidence that dimethyl sulfide facilitates a tritrophic mutualism between marine primary producers and top predators
      Matthew S. Savoca and Gabrielle A. Nevitt
      PNAS March 18, 2014 111 (11) 4157-4161; https://doi.org/10.1073/pnas.1317120111
    • Open Access
      High herbivore density associated with vegetation diversity in interglacial ecosystems
      Christopher J. Sandom, Rasmus Ejrnæs, Morten D. D. Hansen, and Jens-Christian Svenning
      PNAS March 18, 2014 111 (11) 4162-4167; https://doi.org/10.1073/pnas.1311014111
  • Evolution

    • Open Access
      Oxygen requirements of the earliest animals
      • From the Cover
      Daniel B. Mills, Lewis M. Ward, CarriAyne Jones, Brittany Sweeten, Michael Forth, Alexander H. Treusch, and Donald E. Canfield
      PNAS March 18, 2014 111 (11) 4168-4172; https://doi.org/10.1073/pnas.1400547111

      See companion article:

      • Oxygen and animals
        - Mar 10, 2014
  • Genetics

    • You have access
      Long-range interaction and correlation between MYC enhancer and oncogenic long noncoding RNA CARLo-5
      Taewan Kim, Ri Cui, Young-Jun Jeon, Ji-Hoon Lee, Ju Hee Lee, Hosung Sim, Jong Kook Park, Paolo Fadda, Esmerina Tili, Hiroshi Nakanishi, Man-Il Huh, Sung-Hak Kim, Ju Hwan Cho, Bong Hwan Sung, Yong Peng, Tae Jin Lee, Zhenghua Luo, Hui-Lung Sun, Huijun Wei, Hansjuerg Alder, Jeong Su Oh, Kang Sup Shim, Sang-Bong Ko, and Carlo M. Croce
      PNAS March 18, 2014 111 (11) 4173-4178; https://doi.org/10.1073/pnas.1400350111
    • You have access
      NRAS isoforms differentially affect downstream pathways, cell growth, and cell transformation
      Ann-Kathrin Eisfeld, Sebastian Schwind, Kevin W. Hoag, Christopher J. Walker, Sandya Liyanarachchi, Ravi Patel, Xiaomeng Huang, Joseph Markowitz, Wenrui Duan, Gregory A. Otterson, William E. Carson III, Guido Marcucci, Clara D. Bloomfield, and Albert de la Chapelle
      PNAS March 18, 2014 111 (11) 4179-4184; https://doi.org/10.1073/pnas.1401727111
    • Open Access
      Individual letters of the RNA polymerase II CTD code govern distinct gene expression programs in fission yeast
      Beate Schwer, Danny Asher Bitton, Ana M. Sanchez, Jürg Bähler, and Stewart Shuman
      PNAS March 18, 2014 111 (11) 4185-4190; https://doi.org/10.1073/pnas.1321842111
    • You have access
      G-protein–coupled receptor GPR161 is overexpressed in breast cancer and is a promoter of cell proliferation and invasion
      Michael E. Feigin, Bin Xue, Molly C. Hammell, and Senthil K. Muthuswamy
      PNAS March 18, 2014 111 (11) 4191-4196; https://doi.org/10.1073/pnas.1320239111
    • You have access
      Activating mutations in STIM1 and ORAI1 cause overlapping syndromes of tubular myopathy and congenital miosis
      Vasyl Nesin, Graham Wiley, Maria Kousi, E-Ching Ong, Thomas Lehmann, David J. Nicholl, Mohnish Suri, Nortina Shahrizaila, Nicholas Katsanis, Patrick M. Gaffney, Klaas J. Wierenga, and Leonidas Tsiokas
      PNAS March 18, 2014 111 (11) 4197-4202; https://doi.org/10.1073/pnas.1312520111
  • Immunology

    • You have access
      Activation induced deaminase C-terminal domain links DNA breaks to end protection and repair during class switch recombination
      Astrid Zahn, Anil K. Eranki, Anne-Marie Patenaude, Stephen P. Methot, Heather Fifield, Elena M. Cortizas, Paul Foster, Kohsuke Imai, Anne Durandy, Mani Larijani, Ramiro E. Verdun, and Javier M. Di Noia
      PNAS March 18, 2014 111 (11) E988-E997; https://doi.org/10.1073/pnas.1320486111
    • You have access
      Dendritic cell fate is determined by BCL11A
      Gregory C. Ippolito, Joseph D. Dekker, Yui-Hsi Wang, Bum-Kyu Lee, Arthur L. Shaffer III, Jian Lin, Jason K. Wall, Baeck-Seung Lee, Louis M. Staudt, Yong-Jun Liu, Vishwanath R. Iyer, and Haley O. Tucker
      PNAS March 18, 2014 111 (11) E998-E1006; https://doi.org/10.1073/pnas.1319228111
    • You have access
      Duality of the murine CD8 compartment
      Raphaël Genolet, Julie Leignadier, Magne Østerås, Laurent Farinelli, Brian J. Stevenson, and Immanuel F. Luescher
      PNAS March 18, 2014 111 (11) E1007-E1015; https://doi.org/10.1073/pnas.1317847111
    • You have access
      Differential regulation of S-region hypermutation and class-switch recombination by noncanonical functions of uracil DNA glycosylase
      Ashraf S. Yousif, Andre Stanlie, Samiran Mondal, Tasuku Honjo, and Nasim A. Begum
      PNAS March 18, 2014 111 (11) E1016-E1024; https://doi.org/10.1073/pnas.1402391111
    • Open Access
      TGF-β–inducible microRNA-183 silences tumor-associated natural killer cells
      Sarah S. Donatelli, Jun-Min Zhou, Danielle L. Gilvary, Erika A. Eksioglu, Xianghong Chen, W. Douglas Cress, Eric B. Haura, Matthew B. Schabath, Domenico Coppola, Sheng Wei, and Julie Y. Djeu
      PNAS March 18, 2014 111 (11) 4203-4208; https://doi.org/10.1073/pnas.1319269111
    • Open Access
      C1q as a unique player in angiogenesis with therapeutic implication in wound healing
      Fleur Bossi, Claudio Tripodo, Lucia Rizzi, Roberta Bulla, Chiara Agostinis, Carla Guarnotta, Carine Munaut, Gustavo Baldassarre, Giovanni Papa, Sonia Zorzet, Berhane Ghebrehiwet, Guang Sheng Ling, Marina Botto, and Francesco Tedesco
      PNAS March 18, 2014 111 (11) 4209-4214; https://doi.org/10.1073/pnas.1311968111
    • You have access
      Marginal zone CD169+ macrophages coordinate apoptotic cell-driven cellular recruitment and tolerance
      Buvana Ravishankar, Rahul Shinde, Haiyun Liu, Kapil Chaudhary, Jillian Bradley, Henrique P. Lemos, Phillip Chandler, Masato Tanaka, David H. Munn, Andrew L. Mellor, and Tracy L. McGaha
      PNAS March 18, 2014 111 (11) 4215-4220; https://doi.org/10.1073/pnas.1320924111
    • You have access
      Circulating hematopoietic stem and progenitor cells are myeloid-biased in cancer patients
      Wen-Chao Wu, Hong-Wei Sun, Hai-Tian Chen, Jing Liang, Xing-Juan Yu, Chong Wu, Zilian Wang, and Limin Zheng
      PNAS March 18, 2014 111 (11) 4221-4226; https://doi.org/10.1073/pnas.1320753111
  • Medical Sciences

    • Open Access
      Binding of Pro-Gly-Pro at the active site of leukotriene A4 hydrolase/aminopeptidase and development of an epoxide hydrolase selective inhibitor
      Alena Stsiapanava, Ulrika Olsson, Min Wan, Thea Kleinschmidt, Dorothea Rutishauser, Roman A. Zubarev, Bengt Samuelsson, Agnes Rinaldo-Matthis, and Jesper Z. Haeggström
      PNAS March 18, 2014 111 (11) 4227-4232; https://doi.org/10.1073/pnas.1402136111
    • You have access
      Identification of the transforming STRN-ALK fusion as a potential therapeutic target in the aggressive forms of thyroid cancer
      Lindsey M. Kelly, Guillermo Barila, Pengyuan Liu, Viktoria N. Evdokimova, Sumita Trivedi, Federica Panebianco, Manoj Gandhi, Sally E. Carty, Steven P. Hodak, Jianhua Luo, Sanja Dacic, Yan P. Yu, Marina N. Nikiforova, Robert L. Ferris, Daniel L. Altschuler, and Yuri E. Nikiforov
      PNAS March 18, 2014 111 (11) 4233-4238; https://doi.org/10.1073/pnas.1321937111
    • Open Access
      Tumor suppressor role of phospholipase Cε in Ras-triggered cancers
      Marta Martins, Afshan McCarthy, Rhona Baxendale, Sabrina Guichard, Lorenza Magno, Nicoletta Kessaris, Mona El-Bahrawy, Philipp Yu, and Matilda Katan
      PNAS March 18, 2014 111 (11) 4239-4244; https://doi.org/10.1073/pnas.1311500111
    • You have access
      Real-time analysis of composite magnetic nanoparticle disassembly in vascular cells and biomimetic media
      Jillian E. Tengood, Ivan S. Alferiev, Kehan Zhang, Ilia Fishbein, Robert J. Levy, and Michael Chorny
      PNAS March 18, 2014 111 (11) 4245-4250; https://doi.org/10.1073/pnas.1324104111
    • Open Access
      Ablation of the oncogenic transcription factor ERG by deubiquitinase inhibition in prostate cancer
      Shan Wang, Rahul K. Kollipara, Nishi Srivastava, Rui Li, Preethi Ravindranathan, Elizabeth Hernandez, Eva Freeman, Caroline G. Humphries, Payal Kapur, Yair Lotan, Ladan Fazli, Martin E. Gleave, Stephen R. Plymate, Ganesh V. Raj, Jer-Tsong Hsieh, and Ralf Kittler
      PNAS March 18, 2014 111 (11) 4251-4256; https://doi.org/10.1073/pnas.1322198111
  • Microbiology

    • You have access
      Rod-like bacterial shape is maintained by feedback between cell curvature and cytoskeletal localization
      Tristan S. Ursell, Jeffrey Nguyen, Russell D. Monds, Alexandre Colavin, Gabriel Billings, Nikolay Ouzounov, Zemer Gitai, Joshua W. Shaevitz, and Kerwyn Casey Huang
      PNAS March 18, 2014 111 (11) E1025-E1034; https://doi.org/10.1073/pnas.1317174111
    • You have access
      A soil actinobacterium scavenges atmospheric H2 using two membrane-associated, oxygen-dependent [NiFe] hydrogenases
      Chris Greening, Michael Berney, Kiel Hards, Gregory M. Cook, and Ralf Conrad
      PNAS March 18, 2014 111 (11) 4257-4261; https://doi.org/10.1073/pnas.1320586111
    • You have access
      microRNAs are biomarkers of oncogenic human papillomavirus infections
      Xiaohong Wang, Hsu-Kun Wang, Yang Li, Markus Hafner, Nilam Sanjib Banerjee, Shuang Tang, Daniel Briskin, Craig Meyers, Louise T. Chow, Xing Xie, Thomas Tuschl, and Zhi-Ming Zheng
      PNAS March 18, 2014 111 (11) 4262-4267; https://doi.org/10.1073/pnas.1401430111
    • Open Access
      Carnitine metabolism to trimethylamine by an unusual Rieske-type oxygenase from human microbiota
      Yijun Zhu, Eleanor Jameson, Marialuisa Crosatti, Hendrik Schäfer, Kumar Rajakumar, Timothy D. H. Bugg, and Yin Chen
      PNAS March 18, 2014 111 (11) 4268-4273; https://doi.org/10.1073/pnas.1316569111
    • You have access
      Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology
      Matthieu Legendre, Julia Bartoli, Lyubov Shmakova, Sandra Jeudy, Karine Labadie, Annie Adrait, Magali Lescot, Olivier Poirot, Lionel Bertaux, Christophe Bruley, Yohann Couté, Elizaveta Rivkina, Chantal Abergel, and Jean-Michel Claverie
      PNAS March 18, 2014 111 (11) 4274-4279; https://doi.org/10.1073/pnas.1320670111
    • Open Access
      Combinatorial quorum sensing allows bacteria to resolve their social and physical environment
      Daniel M. Cornforth, Roman Popat, Luke McNally, James Gurney, Thomas C. Scott-Phillips, Alasdair Ivens, Stephen P. Diggle, and Sam P. Brown
      PNAS March 18, 2014 111 (11) 4280-4284; https://doi.org/10.1073/pnas.1319175111
    • You have access
      Structural basis of Flavivirus NS1 assembly and antibody recognition
      Melissa A. Edeling, Michael S. Diamond, and Daved H. Fremont
      PNAS March 18, 2014 111 (11) 4285-4290; https://doi.org/10.1073/pnas.1322036111
    • You have access
      Gene silencing and gene expression in phytopathogenic fungi using a plant virus vector
      Tiziana Mascia, Franco Nigro, Alì Abdallah, Massimo Ferrara, Angelo De Stradis, Roberto Faedda, Peter Palukaitis, and Donato Gallitelli
      PNAS March 18, 2014 111 (11) 4291-4296; https://doi.org/10.1073/pnas.1315668111
  • Neuroscience

    • Open Access
      Blood–spinal cord barrier disruption contributes to early motor-neuron degeneration in ALS-model mice
      Ethan A. Winkler, Jesse D. Sengillo, Abhay P. Sagare, Zhen Zhao, Qingyi Ma, Edward Zuniga, Yaoming Wang, Zhihui Zhong, John S. Sullivan, John H. Griffin, Don W. Cleveland, and Berislav V. Zlokovic
      PNAS March 18, 2014 111 (11) E1035-E1042; https://doi.org/10.1073/pnas.1401595111
    • You have access
      Identification of ocular dominance domains in New World owl monkeys by immediate-early gene expression
      Toru Takahata, Masanobu Miyashita, Shigeru Tanaka, and Jon H. Kaas
      PNAS March 18, 2014 111 (11) 4297-4302; https://doi.org/10.1073/pnas.1401951111
    • Open Access
      Mossy fiber-evoked subthreshold responses induce timing-dependent plasticity at hippocampal CA3 recurrent synapses
      Federico Brandalise and Urs Gerber
      PNAS March 18, 2014 111 (11) 4303-4308; https://doi.org/10.1073/pnas.1317667111
    • Open Access
      Disease causing mutants of TDP-43 nucleic acid binding domains are resistant to aggregation and have increased stability and half-life
      James A. Austin, Gareth S. A. Wright, Seiji Watanabe, J. Günter Grossmann, Svetlana V. Antonyuk, Koji Yamanaka, and S. Samar Hasnain
      PNAS March 18, 2014 111 (11) 4309-4314; https://doi.org/10.1073/pnas.1317317111
    • You have access
      Memory loss in a nonnavigational spatial task after hippocampal inactivation in monkeys
      Patrick A. Forcelli, Guillermo Palchik, Taylor Leath, Jacqueline T. DesJardin, Karen Gale, and Ludise Malkova
      PNAS March 18, 2014 111 (11) 4315-4320; https://doi.org/10.1073/pnas.1320562111
    • Open Access
      Developmental switch in the kinase dependency of long-term potentiation depends on expression of GluA4 subunit-containing AMPA receptors
      Natalia V. Luchkina, Johanna Huupponen, Vernon R. J. Clarke, Sarah K. Coleman, Kari Keinänen, Tomi Taira, and Sari E. Lauri
      PNAS March 18, 2014 111 (11) 4321-4326; https://doi.org/10.1073/pnas.1315769111
  • Physiology

    • You have access
      Fatty acid-inducible ANGPTL4 governs lipid metabolic response to exercise
      Milène Catoire, Sheril Alex, Nicolas Paraskevopulos, Frits Mattijssen, Inkie Evers-van Gogh, Gert Schaart, Jacob Jeppesen, Anita Kneppers, Marco Mensink, Peter J. Voshol, Gunilla Olivecrona, Nguan Soon Tan, Matthijs K. C. Hesselink, Jimmy F. Berbée, Patrick C. N. Rensen, Eric Kalkhoven, Patrick Schrauwen, and Sander Kersten
      PNAS March 18, 2014 111 (11) E1043-E1052; https://doi.org/10.1073/pnas.1400889111
  • Plant Biology

    • You have access
      Endogenous localizome identifies 43 mitotic kinesins in a plant cell
      Tomohiro Miki, Haruko Naito, Momoko Nishina, and Gohta Goshima
      PNAS March 18, 2014 111 (11) E1053-E1061; https://doi.org/10.1073/pnas.1311243111
    • You have access
      Ethylene-orchestrated circuitry coordinates a seedling’s response to soil cover and etiolated growth
      • Inaugural Article
      Shangwei Zhong, Hui Shi, Chang Xue, Ning Wei, Hongwei Guo, and Xing Wang Deng
      PNAS March 18, 2014 111 (11) 3913-3920; https://doi.org/10.1073/pnas.1402491111
    • You have access
      Actin-dependent plastid movement is required for motive force generation in directional nuclear movement in plants
      Takeshi Higa, Noriyuki Suetsugu, Sam-Geun Kong, and Masamitsu Wada
      PNAS March 18, 2014 111 (11) 4327-4331; https://doi.org/10.1073/pnas.1317902111
  • Sustainability Science

    • Open Access
      Quantifying causal mechanisms to determine how protected areas affect poverty through changes in ecosystem services and infrastructure
      • From the Cover
      Paul J. Ferraro and Merlin M. Hanauer
      PNAS March 18, 2014 111 (11) 4332-4337; https://doi.org/10.1073/pnas.1307712111

      See companion article:

      • Matching and causal mechanisms
        - Mar 05, 2014
  • Systems Biology

    • You have access
      Mapping posttranscriptional regulation of the human glycome uncovers microRNA defining the glycocode
      Praveen Agrawal, Tomasz Kurcon, Kanoelani T. Pilobello, John F. Rakus, Sujeethraj Koppolu, Zhongyin Liu, Bianca S. Batista, William S. Eng, Ku-Lung Hsu, Yaxuan Liang, and Lara K. Mahal
      PNAS March 18, 2014 111 (11) 4338-4343; https://doi.org/10.1073/pnas.1321524111

Corrections

  • You have access
    Correction for Xu et al., Hybrid DNA virus in Chinese patients with seronegative hepatitis discovered by deep sequencing
    PNAS March 18, 2014 111 (11) 4344-4345; https://doi.org/10.1073/pnas.1402288111
  • You have access
    Correction for Mitchell et al., mChIP-KAT-MS, a method to map protein interactions and acetylation sites for lysine acetyltransferases
    PNAS March 18, 2014 111 (11) 4346; https://doi.org/10.1073/pnas.1401790111
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Proceedings of the National Academy of Sciences: 111 (11)
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