August 2013

Unlike sigG mutants of B. subtilis, C. perfringens, and C. acetobutyilcum, C. difficile sigG^- mutant cells produce forespores with ruffled membranes that appear to be surrounded by spore coat layers. See Fimlaid et al.

Image Credit: Kelly Fimlaid and Keyan Pishdadian (Department of Microbiology and Molecular Genetics, The University of Vermont, USA).

Interview

The Innocence Project at Twenty: An Interview with Barry Scheck

Jane Gitschier

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003692

Viewpoints

Chromatin Sampling—An Emerging Perspective on Targeting Polycomb Repressor Proteins

Robert J. Klose, Sarah Cooper, Anca M. Farcas, Neil P. Blackledge, Neil Brockdorff

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003717

Perspectives

Fifty Years On: GWAS Confirms the Role of a Rare Variant in Lung Disease

Alice M. Turner

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003768

Past Visits Present: TCF/LEFs Partner with ATFs for β-Catenin–Independent Activity

Stephanie Sprowl, Marian L. Waterman

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003745

Reviews

Gene Expression Regulation by Upstream Open Reading Frames and Human Disease

Cristina Barbosa, Isabel Peixeiro, Luísa Romão

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003529

Transposon Domestication versus Mutualism in Ciliate Genome Rearrangements

Alexander Vogt, Aaron David Goldman, Kazufumi Mochizuki, Laura F. Landweber

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003659

Research Articles

Comparative Anatomy of Chromosomal Domains with Imprinted and Non-Imprinted Allele-Specific DNA Methylation

Anupam Paliwal, Alexis M. Temkin, Kristi Kerkel, Alexander Yale, Iveta Yotova, Natalia Drost, Simon Lax, Chia-Ling Nhan-Chang, Charles Powell, Alain Borczuk, Abraham Aviv, Ronald Wapner, Xiaowei Chen, Peter L. Nagy, Nicholas Schork, Catherine Do, Ali Torkamani, Benjamin Tycko

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003622

A Recessive Founder Mutation in Regulator of Telomere Elongation Helicase 1, RTEL1, Underlies Severe Immunodeficiency and Features of Hoyeraal Hreidarsson Syndrome

Bari J. Ballew, Vijai Joseph, Saurav De, Grzegorz Sarek, Jean-Baptiste Vannier, Travis Stracker, Kasmintan A. Schrader, Trudy N. Small, Richard O'Reilly, Chris Manschreck, Megan M. Harlan Fleischut, Liying Zhang, John Sullivan, Kelly Stratton, Meredith Yeager, Kevin Jacobs, Neelam Giri, Blanche P. Alter, Joseph Boland, Laurie Burdett, Kenneth Offit, Simon J. Boulton, Sharon A. Savage, John H. J. Petrini

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003695

Ras-Induced Changes in H3K27me3 Occur after Those in Transcriptional Activity

Masaki Hosogane, Ryo Funayama, Yuichiro Nishida, Takeshi Nagashima, Keiko Nakayama

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003698

Neuronal Reprograming of Protein Homeostasis by Calcium-Dependent Regulation of the Heat Shock Response

M. Catarina Silva, Margarida D. Amaral, Richard I. Morimoto

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003711

A Critical Function of Mad2l2 in Primordial Germ Cell Development of Mice

Mehdi Pirouz, Sven Pilarski, Michael Kessel

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003712

Species and Population Level Molecular Profiling Reveals Cryptic Recombination and Emergent Asymmetry in the Dimorphic Mating Locus of C. reinhardtii

Peter L. De Hoff, Patrick Ferris, Bradley J. S. C. Olson, Ayano Miyagi, Sa Geng, James G. Umen

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003724

Cross-Species Array Comparative Genomic Hybridization Identifies Novel Oncogenic Events in Zebrafish and Human Embryonal Rhabdomyosarcoma

Eleanor Y. Chen, Kimberly P. Dobrinski, Kim H. Brown, Ryan Clagg, Elena Edelman, Myron S. Ignatius, Jin Yun Helen Chen, Jillian Brockmann, G. Petur Nielsen, Sridhar Ramaswamy, Charles Keller, Charles Lee, David M. Langenau

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003727

The Enhancer Landscape during Early Neocortical Development Reveals Patterns of Dense Regulation and Co-option

Aaron M. Wenger, Shoa L. Clarke, James H. Notwell, Tisha Chung, Geetu Tuteja, Harendra Guturu, Bruce T. Schaar, Gill Bejerano

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003728

The Relative Contribution of Proximal 5′ Flanking Sequence and Microsatellite Variation on Brain Vasopressin 1a Receptor (Avpr1a) Gene Expression and Behavior

Zoe R. Donaldson, Larry J. Young

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003729

Dynamic Rewiring of the Drosophila Retinal Determination Network Switches Its Function from Selector to Differentiation

Mardelle Atkins, Yuwei Jiang, Leticia Sansores-Garcia, Barbara Jusiak, Georg Halder, Graeme Mardon

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003731

Meiotic Recombination Initiation in and around Retrotransposable Elements in Saccharomyces cerevisiae

Mariko Sasaki, Sam E. Tischfield, Megan van Overbeek, Scott Keeney

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003732

Comparative Oncogenomic Analysis of Copy Number Alterations in Human and Zebrafish Tumors Enables Cancer Driver Discovery

GuangJun Zhang, Sebastian Hoersch, Adam Amsterdam, Charles A. Whittaker, Eline Beert, Julian M. Catchen, Sarah Farrington, John H. Postlethwait, Eric Legius, Nancy Hopkins, Jacqueline A. Lees

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003734

Deletion of microRNA-80 Activates Dietary Restriction to Extend C. elegans Healthspan and Lifespan

Mehul Vora, Mitalie Shah, Silvana Ostafi, Brian Onken, Jian Xue, Julie Zhouli Ni, Sam Gu, Monica Driscoll

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003737

Recurrent Modification of a Conserved Cis-Regulatory Element Underlies Fruit Fly Pigmentation Diversity

William A. Rogers, Joseph R. Salomone, David J. Tacy, Eric M. Camino, Kristen A. Davis, Mark Rebeiz, Thomas M. Williams

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003740

Cauli: A Mouse Strain with an Ift140 Mutation That Results in a Skeletal Ciliopathy Modelling Jeune Syndrome

Kerry A. Miller, Casey J. Ah-Cann, Megan F. Welfare, Tiong Y. Tan, Kate Pope, Georgina Caruana, Mary-Louise Freckmann, Ravi Savarirayan, John F. Bertram, Michael S. Dobbie, John F. Bateman, Peter G. Farlie

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003746

A Nuclear Calcium-Sensing Pathway Is Critical for Gene Regulation and Salt Stress Tolerance in Arabidopsis

Qingmei Guan, Jianmin Wu, Xiule Yue, Yanyan Zhang, Jianhua Zhu

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003755

High-Throughput Genetic and Gene Expression Analysis of the RNAPII-CTD Reveals Unexpected Connections to SRB10/CDK8

Maria J. Aristizabal, Gian Luca Negri, Joris J. Benschop, Frank C. P. Holstege, Nevan J. Krogan, Michael S. Kobor

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003758

Endogenous Stress Caused by Faulty Oxidation Reactions Fosters Evolution of 2,4-Dinitrotoluene-Degrading Bacteria

Danilo Pérez-Pantoja, Pablo I. Nikel, Max Chavarría, Víctor de Lorenzo

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003764

Reversible and Rapid Transfer-RNA Deactivation as a Mechanism of Translational Repression in Stress

Andreas Czech, Sandra Wende, Mario Mörl, Tao Pan, Zoya Ignatova

PLOS Genetics: published August 29, 2013 | https://doi.org/10.1371/journal.pgen.1003767

Causal and Synthetic Associations of Variants in the SERPINA Gene Cluster with Alpha1-antitrypsin Serum Levels

Gian Andri Thun, Medea Imboden, Ilaria Ferrarotti, Ashish Kumar, Ma'en Obeidat, Michele Zorzetto, Margot Haun, Ivan Curjuric, Alexessander Couto Alves, Victoria E. Jackson, Eva Albrecht, Janina S. Ried, Alexander Teumer, Lorna M. Lopez, Jennifer E. Huffman, Stefan Enroth, Yohan Bossé, Ke Hao, Wim Timens, Ulf Gyllensten, Ozren Polasek, James F. Wilson, Igor Rudan, Caroline Hayward, Andrew J. Sandford, Ian J. Deary, Beate Koch, Eva Reischl, Holger Schulz, Jennie Hui, Alan L. James, Thierry Rochat, Erich W. Russi, Marjo-Riitta Jarvelin, David P. Strachan, Ian P. Hall, Martin D. Tobin, Morten Dahl, Sune Fallgaard Nielsen, Børge G. Nordestgaard, Florian Kronenberg, Maurizio Luisetti, Nicole M. Probst-Hensch

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003585

Regulation of Sister Chromosome Cohesion by the Replication Fork Tracking Protein SeqA

Mohan C. Joshi, David Magnan, Timothy P. Montminy, Mark Lies, Nicholas Stepankiw, David Bates

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003673

The Genome of Spraguea lophii and the Basis of Host-Microsporidian Interactions

Scott E. Campbell, Tom A. Williams, Asim Yousuf, Darren M. Soanes, Konrad H. Paszkiewicz, Bryony A. P. Williams

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003676

The PSEN1, p.E318G Variant Increases the Risk of Alzheimer's Disease in APOE-ε4 Carriers

Bruno A. Benitez, Celeste M. Karch, Yefei Cai, Sheng Chih Jin, Breanna Cooper, David Carrell, Sarah Bertelsen, Lori Chibnik, Julie A. Schneider, David A. Bennett, Alzheimer's Disease Neuroimaging Initiative (ADNI), Genetic and Environmental Risk for Alzheimer's Disease Consortium (GERAD1), Anne M. Fagan, David Holtzman, John C. Morris, Alison M. Goate, Carlos Cruchaga

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003685

Brittle Culm1, a COBRA-Like Protein, Functions in Cellulose Assembly through Binding Cellulose Microfibrils

Lifeng Liu, Keke Shang-Guan, Baocai Zhang, Xiangling Liu, Meixian Yan, Lanjun Zhang, Yanyun Shi, Mu Zhang, Qian Qian, Jiayang Li, Yihua Zhou

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003704

The Intronic Long Noncoding RNA ANRASSF1 Recruits PRC2 to the RASSF1A Promoter, Reducing the Expression of RASSF1A and Increasing Cell Proliferation

Felipe C. Beckedorff, Ana C. Ayupe, Renan Crocci-Souza, Murilo S. Amaral, Helder I. Nakaya, Daniela T. Soltys, Carlos F. M. Menck, Eduardo M. Reis, Sergio Verjovski-Almeida

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003705

The Architecture of a Prototypical Bacterial Signaling Circuit Enables a Single Point Mutation to Confer Novel Network Properties

Sri Ram, Mark Goulian

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003706

Hard Selective Sweep and Ectopic Gene Conversion in a Gene Cluster Affording Environmental Adaptation

Marc Hanikenne, Juergen Kroymann, Aleksandra Trampczynska, María Bernal, Patrick Motte, Stephan Clemens, Ute Krämer

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003707

The Ribosomal Protein Rpl22 Controls Ribosome Composition by Directly Repressing Expression of Its Own Paralog, Rpl22l1

Monique N. O'Leary, Katherine H. Schreiber, Yong Zhang, Anne-Cécile E. Duc, Shuyun Rao, J. Scott Hale, Emmeline C. Academia, Shreya R. Shah, John F. Morton, Carly A. Holstein, Dan B. Martin, Matt Kaeberlein, Warren C. Ladiges, Pamela J. Fink, Vivian L. MacKay, David L. Wiest, Brian K. Kennedy

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003708

Genic Intolerance to Functional Variation and the Interpretation of Personal Genomes

Slavé Petrovski, Quanli Wang, Erin L. Heinzen, Andrew S. Allen, David B. Goldstein

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003709

Combining Quantitative Genetic Footprinting and Trait Enrichment Analysis to Identify Fitness Determinants of a Bacterial Pathogen

Travis J. Wiles, J. Paul Norton, Colin W. Russell, Brian K. Dalley, Kael F. Fischer, Matthew A. Mulvey

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003716

H2A.Z Acidic Patch Couples Chromatin Dynamics to Regulation of Gene Expression Programs during ESC Differentiation

Vidya Subramanian, Aprotim Mazumder, Lauren E. Surface, Vincent L. Butty, Paul A. Fields, Allison Alwan, Lillian Torrey, Kevin K. Thai, Stuart S. Levine, Mark Bathe, Laurie A. Boyer

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003725

Histone Variant HTZ1 Shows Extensive Epistasis with, but Does Not Increase Robustness to, New Mutations

Joshua B. Richardson, Locke D. Uppendahl, Maria K. Traficante, Sasha F. Levy, Mark L. Siegal

PLOS Genetics: published August 22, 2013 | https://doi.org/10.1371/journal.pgen.1003733

β-Catenin-Independent Activation of TCF1/LEF1 in Human Hematopoietic Tumor Cells through Interaction with ATF2 Transcription Factors

Luca Grumolato, Guizhong Liu, Tomomi Haremaki, Sathish Kumar Mungamuri, Phyllus Mong, Gal Akiri, Pablo Lopez-Bergami, Adriana Arita, Youssef Anouar, Marek Mlodzik, Ze'ev A. Ronai, Joshua Brody, Daniel C. Weinstein, Stuart A. Aaronson

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003603

Integrated Model of De Novo and Inherited Genetic Variants Yields Greater Power to Identify Risk Genes

Xin He, Stephan J. Sanders, Li Liu, Silvia De Rubeis, Elaine T. Lim, James S. Sutcliffe, Gerard D. Schellenberg, Richard A. Gibbs, Mark J. Daly, Joseph D. Buxbaum, Matthew W. State, Bernie Devlin, Kathryn Roeder

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003671

Mediator Directs Co-transcriptional Heterochromatin Assembly by RNA Interference-Dependent and -Independent Pathways

Eriko Oya, Hiroaki Kato, Yuji Chikashige, Chihiro Tsutsumi, Yasushi Hiraoka, Yota Murakami

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003677

Genome-Wide Association of Body Fat Distribution in African Ancestry Populations Suggests New Loci

Ching-Ti Liu, Keri L. Monda, Kira C. Taylor, Leslie Lange, Ellen W. Demerath, Walter Palmas, Mary K. Wojczynski, Jaclyn C. Ellis, Mara Z. Vitolins, Simin Liu, George J. Papanicolaou, Marguerite R. Irvin, Luting Xue, Paula J. Griffin, Michael A. Nalls, Adebowale Adeyemo, Jiankang Liu, Guo Li, Edward A. Ruiz-Narvaez, Wei-Min Chen, Fang Chen, Brian E. Henderson, Robert C. Millikan, Christine B. Ambrosone, Sara S. Strom, Xiuqing Guo, Jeanette S. Andrews, Yan V. Sun, Thomas H. Mosley, Lisa R. Yanek, Daniel Shriner, Talin Haritunians, Jerome I. Rotter, Elizabeth K. Speliotes, Megan Smith, Lynn Rosenberg, Josyf Mychaleckyj, Uma Nayak, Ida Spruill, W. Timothy Garvey, Curtis Pettaway, Sarah Nyante, Elisa V. Bandera, Angela F. Britton, Alan B. Zonderman, Laura J. Rasmussen-Torvik, Yii-Der Ida Chen, Jingzhong Ding, Kurt Lohman, Stephen B. Kritchevsky, Wei Zhao, Patricia A. Peyser, Sharon L. R. Kardia, Edmond Kabagambe, Ulrich Broeckel, Guanjie Chen, Jie Zhou, Sylvia Wassertheil-Smoller, Marian L. Neuhouser, Evadnie Rampersaud, Bruce Psaty, Charles Kooperberg, JoAnn E. Manson, Lewis H. Kuller, Heather M. Ochs-Balcom, Karen C. Johnson, Lara Sucheston, Jose M. Ordovas, Julie R. Palmer, Christopher A. Haiman, Barbara McKnight, Barbara V. Howard, Diane M. Becker, Lawrence F. Bielak, Yongmei Liu, Matthew A. Allison, Struan F. A. Grant, Gregory L. Burke, Sanjay R. Patel, Pamela J. Schreiner, Ingrid B. Borecki, Michele K. Evans, Herman Taylor, Michele M. Sale, Virginia Howard, Christopher S. Carlson, Charles N. Rotimi, Mary Cushman, Tamara B. Harris, Alexander P. Reiner, L. Adrienne Cupples, Kari E. North, Caroline S. Fox

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003681

Comparative Genomic and Functional Analysis of 100 Lactobacillus rhamnosus Strains and Their Comparison with Strain GG

François P. Douillard, Angela Ribbera, Ravi Kant, Taija E. Pietilä, Hanna M. Järvinen, Marcel Messing, Cinzia L. Randazzo, Lars Paulin, Pia Laine, Jarmo Ritari, Cinzia Caggia, Tanja Lähteinen, Stan J. J. Brouns, Reetta Satokari, Ingemar von Ossowski, Justus Reunanen, Airi Palva, Willem M. de Vos

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003683

A Model-Based Analysis of GC-Biased Gene Conversion in the Human and Chimpanzee Genomes

John A. Capra, Melissa J. Hubisz, Dennis Kostka, Katherine S. Pollard, Adam Siepel

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003684

Introns Regulate Gene Expression in Cryptococcus neoformans in a Pab2p Dependent Pathway

Carolin Goebels, Aline Thonn, Sara Gonzalez-Hilarion, Olga Rolland, Frederique Moyrand, Traude H. Beilharz, Guilhem Janbon

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003686

Genetic Circuits that Govern Bisexual and Unisexual Reproduction in Cryptococcus neoformans

Marianna Feretzaki, Joseph Heitman

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003688

Generation of Tandem Direct Duplications by Reversed-Ends Transposition of Maize Ac Elements

Jianbo Zhang, Tao Zuo, Thomas Peterson

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003691

QTL Analysis of High Thermotolerance with Superior and Downgraded Parental Yeast Strains Reveals New Minor QTLs and Converges on Novel Causative Alleles Involved in RNA Processing

Yudi Yang, Maria R. Foulquié-Moreno, Lieven Clement, Éva Erdei, An Tanghe, Kristien Schaerlaekens, Françoise Dumortier, Johan M. Thevelein

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003693

A Flexible Approach for the Analysis of Rare Variants Allowing for a Mixture of Effects on Binary or Quantitative Traits

Geraldine M. Clarke, Manuel A. Rivas, Andrew P. Morris

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003694

Associations of Mitochondrial Haplogroups B4 and E with Biliary Atresia and Differential Susceptibility to Hydrophobic Bile Acid

Mao-Meng Tiao, Chia-Wei Liou, Li-Tung Huang, Pei-Wen Wang, Tsu-Kung Lin, Jin-Bor Chen, Yao-Min Chou, Ying-Hsien Huang, Hung-Yu Lin, Chao-Long Chen, Jiin-Haur Chuang

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003696

Masculinization of Gene Expression Is Associated with Exaggeration of Male Sexual Dimorphism

Marie A. Pointer, Peter W. Harrison, Alison E. Wright, Judith E. Mank

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003697

Binding of TFIIIC to SINE Elements Controls the Relocation of Activity-Dependent Neuronal Genes to Transcription Factories

Luca Crepaldi, Cristina Policarpi, Alessandro Coatti, William T. Sherlock, Bart C. Jongbloets, Thomas A. Down, Antonella Riccio

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003699

A Highly Redundant Gene Network Controls Assembly of the Outer Spore Wall in S. cerevisiae

Coney Pei-Chen Lin, Carey Kim, Steven O. Smith, Aaron M. Neiman

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003700

Chromosomal Copy Number Variation, Selection and Uneven Rates of Recombination Reveal Cryptic Genome Diversity Linked to Pathogenicity

Rhys A. Farrer, Daniel A. Henk, Trenton W. J. Garner, Francois Balloux, Douglas C. Woodhams, Matthew C. Fisher

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003703

A Role for CF1A 3′ End Processing Complex in Promoter-Associated Transcription

Nadra Al Husini, Paul Kudla, Athar Ansari

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003722

Characterization of the p53 Cistrome – DNA Binding Cooperativity Dissects p53's Tumor Suppressor Functions

Katharina Schlereth, Charlotte Heyl, Anna-Maria Krampitz, Marco Mernberger, Florian Finkernagel, Maren Scharfe, Michael Jarek, Ellen Leich, Andreas Rosenwald, Thorsten Stiewe

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003726

Vitellogenin Underwent Subfunctionalization to Acquire Caste and Behavioral Specific Expression in the Harvester Ant Pogonomyrmex barbatus

Miguel Corona, Romain Libbrecht, Yannick Wurm, Oksana Riba-Grognuz, Romain A. Studer, Laurent Keller

PLOS Genetics: published August 15, 2013 | https://doi.org/10.1371/journal.pgen.1003730

Re-Ranking Sequencing Variants in the Post-GWAS Era for Accurate Causal Variant Identification

Laura L. Faye, Mitchell J. Machiela, Peter Kraft, Shelley B. Bull, Lei Sun

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003609

Sociogenomics of Cooperation and Conflict during Colony Founding in the Fire Ant Solenopsis invicta

Fabio Manfredini, Oksana Riba-Grognuz, Yannick Wurm, Laurent Keller, DeWayne Shoemaker, Christina M. Grozinger

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003633

GUESS-ing Polygenic Associations with Multiple Phenotypes Using a GPU-Based Evolutionary Stochastic Search Algorithm

Leonardo Bottolo, Marc Chadeau-Hyam, David I. Hastie, Tanja Zeller, Benoit Liquet, Paul Newcombe, Loic Yengo, Philipp S. Wild, Arne Schillert, Andreas Ziegler, Sune F. Nielsen, Adam S. Butterworth, Weang Kee Ho, Raphaële Castagné, Thomas Munzel, David Tregouet, Mario Falchi, François Cambien, Børge G. Nordestgaard, Fredéric Fumeron, Anne Tybjærg-Hansen, Philippe Froguel, John Danesh, Enrico Petretto, Stefan Blankenberg, Laurence Tiret, Sylvia Richardson

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003657

Global Analysis of the Sporulation Pathway of Clostridium difficile

Kelly A. Fimlaid, Jeffrey P. Bond, Kristin C. Schutz, Emily E. Putnam, Jacqueline M. Leung, Trevor D. Lawley, Aimee Shen

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003660

Myc-Driven Overgrowth Requires Unfolded Protein Response-Mediated Induction of Autophagy and Antioxidant Responses in Drosophila melanogaster

Péter Nagy, Ágnes Varga, Karolina Pircs, Krisztina Hegedűs, Gábor Juhász

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003664

The C. elegans DSB-2 Protein Reveals a Regulatory Network that Controls Competence for Meiotic DSB Formation and Promotes Crossover Assurance

Simona Rosu, Karl A. Zawadzki, Ericca L. Stamper, Diana E. Libuda, Angela L. Reese, Abby F. Dernburg, Anne M. Villeneuve

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003674

Genome-Wide DNA Methylation Analysis of Systemic Lupus Erythematosus Reveals Persistent Hypomethylation of Interferon Genes and Compositional Changes to CD4+ T-cell Populations

Devin M. Absher, Xinrui Li, Lindsay L. Waite, Andrew Gibson, Kevin Roberts, Jeffrey Edberg, W. Winn Chatham, Robert P. Kimberly

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003678

Identification of DSB-1, a Protein Required for Initiation of Meiotic Recombination in Caenorhabditis elegans, Illuminates a Crossover Assurance Checkpoint

Ericca L. Stamper, Stacia E. Rodenbusch, Simona Rosu, Julie Ahringer, Anne M. Villeneuve, Abby F. Dernburg

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003679

Ras1 Acts through Duplicated Cdc42 and Rac Proteins to Regulate Morphogenesis and Pathogenesis in the Human Fungal Pathogen Cryptococcus neoformans

Elizabeth Ripley Ballou, Lukasz Kozubowski, Connie B. Nichols, J. Andrew Alspaugh

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003687

Depletion of Retinoic Acid Receptors Initiates a Novel Positive Feedback Mechanism that Promotes Teratogenic Increases in Retinoic Acid

Enrico D'Aniello, Ariel B. Rydeen, Jane L. Anderson, Amrita Mandal, Joshua S. Waxman

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003689

Masculinization of the X Chromosome in the Pea Aphid

Julie Jaquiéry, Claude Rispe, Denis Roze, Fabrice Legeai, Gaël Le Trionnaire, Solenn Stoeckel, Lucie Mieuzet, Corinne Da Silva, Julie Poulain, Nathalie Prunier-Leterme, Béatrice Ségurens, Denis Tagu, Jean-Christophe Simon

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003690

An Essential Function for the ATR-Activation-Domain (AAD) of TopBP1 in Mouse Development and Cellular Senescence

Zhong-Wei Zhou, Cong Liu, Tang-Liang Li, Christopher Bruhn, Anja Krueger, WooKee Min, Zhao-Qi Wang, Antony M. Carr

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003702

Global Analysis of Fission Yeast Mating Genes Reveals New Autophagy Factors

Ling-Ling Sun, Ming Li, Fang Suo, Xiao-Man Liu, En-Zhi Shen, Bing Yang, Meng-Qiu Dong, Wan-Zhong He, Li-Lin Du

PLOS Genetics: published August 8, 2013 | https://doi.org/10.1371/journal.pgen.1003715

Computational Identification of Diverse Mechanisms Underlying Transcription Factor-DNA Occupancy

Qiong Cheng, Majid Kazemian, Hannah Pham, Charles Blatti, Susan E. Celniker, Scot A. Wolfe, Michael H. Brodsky, Saurabh Sinha

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003571

Genetic Mapping of Specific Interactions between Aedes aegypti Mosquitoes and Dengue Viruses

Thanyalak Fansiri, Albin Fontaine, Laure Diancourt, Valérie Caro, Butsaya Thaisomboonsuk, Jason H. Richardson, Richard G. Jarman, Alongkot Ponlawat, Louis Lambrechts

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003621

Functional Characterisation of Alpha-Galactosidase A Mutations as a Basis for a New Classification System in Fabry Disease

Jan Lukas, Anne-Katrin Giese, Arseni Markoff, Ulrike Grittner, Ed Kolodny, Hermann Mascher, Karl J. Lackner, Wolfgang Meyer, Phillip Wree, Viatcheslav Saviouk, Arndt Rolfs

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003632

Cited1 Deficiency Suppresses Intestinal Tumorigenesis

Valérie Méniel, Fei Song, Toby Phesse, Madeleine Young, Oliver Poetz, Lee Parry, John R. Jenkins, Geraint T. Williams, Sally L. Dunwoodie, Alastair Watson, Alan R. Clarke

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003638

The Wilms Tumor Gene, Wt1, Is Critical for Mouse Spermatogenesis via Regulation of Sertoli Cell Polarity and Is Associated with Non-Obstructive Azoospermia in Humans

Xiao Na Wang, Ze Song Li, Yu Ren, Tao Jiang, Ya Qing Wang, Min Chen, Jun Zhang, Jian Xiu Hao, Yan Bo Wang, Ri Na Sha, Yi Huang, Xiao Liu, Jing Chu Hu, Guang Qing Sun, Hong Gang Li, Cheng Liang Xiong, Jun Xie, Zhi Mao Jiang, Zhi Ming Cai, Jun Wang, Jian Wang, Vicki Huff, Yao Ting Gui, Fei Gao

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003645

Integrative Modeling of eQTLs and Cis-Regulatory Elements Suggests Mechanisms Underlying Cell Type Specificity of eQTLs

Christopher D. Brown, Lara M. Mangravite, Barbara E. Engelhardt

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003649

The Conditional Nature of Genetic Interactions: The Consequences of Wild-Type Backgrounds on Mutational Interactions in a Genome-Wide Modifier Screen

Sudarshan Chari, Ian Dworkin

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003661

Origin and Functional Diversification of an Amphibian Defense Peptide Arsenal

Kim Roelants, Bryan G. Fry, Lumeng Ye, Benoit Stijlemans, Lea Brys, Philippe Kok, Elke Clynen, Liliane Schoofs, Pierre Cornelis, Franky Bossuyt

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003662

ATM Release at Resected Double-Strand Breaks Provides Heterochromatin Reconstitution to Facilitate Homologous Recombination

Verena Geuting, Christian Reul, Markus Löbrich

PLOS Genetics: published August 1, 2013 | https://doi.org/10.1371/journal.pgen.1003667

Cover

Transcriptional profiling of sporulation sigma factor mutants of the nosocomial pathogen Clostridium difficile highlights that diverse regulatory pathways control spore formation in the Firmicutes.

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**Transcriptional profiling of sporulation sigma factor mutants of the nosocomial pathogen Clostridium difficile highlights that diverse regulatory pathways control spore formation in the Firmicutes.**