October 2014

In this issue of PLOS Genetics, DiTommaso et al. describe the phenotype of mice carrying inactivating mutations in Keratin 76 (Krt76), highlighting the gene as indispensable for skin barrier function and cutaneous wound healing. They also describe a role for KRT76 in maintaining the function of intercellular tight junctions, where it is required for normal CLAUDIN1 localisation. This work supports an emerging body of evidence which challenges the classical view of the keratins as simple structural proteins. Image: Claudin 1 (green), Ecadherin (red) and keratin 14 (blue) in the tail skin of a mouse. See DiTommaso et al.

Image Credit: Tia DiTommaso

Reviews

Keeping mtDNA in Shape between Generations

James B. Stewart, Nils-Göran Larsson

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004670

Uncovering Enhancer Functions Using the α-Globin Locus

Douglas Vernimmen

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004668

Research Articles

Foxf Genes Integrate Tbx5 and Hedgehog Pathways in the Second Heart Field for Cardiac Septation

Andrew D. Hoffmann, Xinan Holly Yang, Ozanna Burnicka-Turek, Joshua D. Bosman, Xiaomeng Ren, Jeffrey D. Steimle, Steven A. Vokes, Andrew P. McMahon, Vladimir V. Kalinichenko, Ivan P. Moskowitz

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004604

Evidence of a Bacterial Receptor for Lysozyme: Binding of Lysozyme to the Anti-σ Factor RsiV Controls Activation of the ECF σ Factor σ^V

Jessica L. Hastie, Kyle B. Williams, Carolina Sepúlveda, Jon C. Houtman, Katrina T. Forest, Craig D. Ellermeier

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004643

Comprehensive Mapping of the Escherichia coli Flagellar Regulatory Network

Devon M. Fitzgerald, Richard P. Bonocora, Joseph T. Wade

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004649

Payoffs, Not Tradeoffs, in the Adaptation of a Virus to Ostensibly Conflicting Selective Pressures

Lindsey W. McGee, Erick W. Aitchison, S. Brian Caudle, Anneliese J. Morrison, Lianqing Zheng, Wei Yang, Darin R. Rokyta

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004611

Analysis of Candida albicans Mutants Defective in the Cdk8 Module of Mediator Reveal Links between Metabolism and Biofilm Formation

Allia K. Lindsay, Diana K. Morales, Zhongle Liu, Nora Grahl, Anda Zhang, Sven D. Willger, Lawrence C. Myers, Deborah A. Hogan

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004567

Beclin 1 Is Required for Neuron Viability and Regulates Endosome Pathways via the UVRAG-VPS34 Complex

Nicole C. McKnight, Yun Zhong, Mitchell S. Wold, Shiaoching Gong, Greg R. Phillips, Zhixun Dou, Yanxiang Zhao, Nathaniel Heintz, Wei-Xing Zong, Zhenyu Yue

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004626

An ARHGEF10 Deletion Is Highly Associated with a Juvenile-Onset Inherited Polyneuropathy in Leonberger and Saint Bernard Dogs

Kari J. Ekenstedt, Doreen Becker, Katie M. Minor, G. Diane Shelton, Edward E. Patterson, Tim Bley, Anna Oevermann, Thomas Bilzer, Tosso Leeb, Cord Drögemüller, James R. Mickelson

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004635

Mechanism of Suppression of Chromosomal Instability by DNA Polymerase POLQ

Matthew J. Yousefzadeh, David W. Wyatt, Kei-ichi Takata, Yunxiang Mu, Sean C. Hensley, Junya Tomida, Göran O. Bylund, Sylvie Doublié, Erik Johansson, Dale A. Ramsden, Kevin M. McBride, Richard D. Wood

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004654

Disruption of SUMO-Specific Protease 2 Induces Mitochondria Mediated Neurodegeneration

Jiang Fu, H.-M. Ivy Yu, Shang-Yi Chiu, Anthony J. Mirando, Eri O. Maruyama, Jr-Gang Cheng, Wei Hsu

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004579

Genome-Wide Discovery of Drug-Dependent Human Liver Regulatory Elements

Robin P. Smith, Walter L. Eckalbar, Kari M. Morrissey, Marcelo R. Luizon, Thomas J. Hoffmann, Xuefeng Sun, Stacy L. Jones, Shelley Force Aldred, Anuradha Ramamoorthy, Zeruesenay Desta, Yunlong Liu, Todd C. Skaar, Nathan D. Trinklein, Kathleen M. Giacomini, Nadav Ahituv

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004648

The Vesicle Protein SAM-4 Regulates the Processivity of Synaptic Vesicle Transport

Qun Zheng, Shikha Ahlawat, Anneliese Schaefer, Tim Mahoney, Sandhya P. Koushika, Michael L. Nonet

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004644

H2B Mono-ubiquitylation Facilitates Fork Stalling and Recovery during Replication Stress by Coordinating Rad53 Activation and Chromatin Assembly

Chia-Yeh Lin, Meng-Ying Wu, Sophie Gay, Lisette Marjavaara, Mong Sing Lai, Wei-Chun Hsiao, Shih-Hsun Hung, Hsin-Yi Tseng, Duncan Edward Wright, Chen-Yi Wang, Guoo-Shyng W. Hsu, Didier Devys, Andrei Chabes, Cheng-Fu Kao

PLOS Genetics: published October 2, 2014 | https://doi.org/10.1371/journal.pgen.1004667

The bHLH-PAS Transcription Factor Dysfusion Regulates Tarsal Joint Formation in Response to Notch Activity during Drosophila Leg Development

Sergio Córdoba, Carlos Estella

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004621

Developmentally-Regulated Excision of the SPβ Prophage Reconstitutes a Gene Required for Spore Envelope Maturation in Bacillus subtilis

Kimihiro Abe, Yuta Kawano, Keito Iwamoto, Kenji Arai, Yuki Maruyama, Patrick Eichenberger, Tsutomu Sato

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004636

Genome-Wide Mapping of Yeast RNA Polymerase II Termination

Paul Schaughency, Jonathan Merran, Jeffry L. Corden

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004632

The Specification and Global Reprogramming of Histone Epigenetic Marks during Gamete Formation and Early Embryo Development in C. elegans

Mark Samson, Margaret M. Jow, Catherine C. L. Wong, Colin Fitzpatrick, Aaron Aslanian, Israel Saucedo, Rodrigo Estrada, Takashi Ito, Sung-kyu Robin Park, John R. Yates III, Diana S. Chu

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004588

Targeted Exon Capture and Sequencing in Sporadic Amyotrophic Lateral Sclerosis

Julien Couthouis, Alya R. Raphael, Roxana Daneshjou, Aaron D. Gitler

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004704

Fast Evolution from Precast Bricks: Genomics of Young Freshwater Populations of Threespine Stickleback Gasterosteus aculeatus

Nadezhda V. Terekhanova, Maria D. Logacheva, Aleksey A. Penin, Tatiana V. Neretina, Anna E. Barmintseva, Georgii A. Bazykin, Alexey S. Kondrashov, Nikolai S. Mugue

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004696

Ethylene-Induced Inhibition of Root Growth Requires Abscisic Acid Function in Rice (Oryza sativa L.) Seedlings

Biao Ma, Cui-Cui Yin, Si-Jie He, Xiang Lu, Wan-Ke Zhang, Tie-Gang Lu, Shou-Yi Chen, Jin-Song Zhang

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004701

The Formation of Endoderm-Derived Taste Sensory Organs Requires a Pax9-Dependent Expansion of Embryonic Taste Bud Progenitor Cells

Ralf Kist, Michelle Watson, Moira Crosier, Max Robinson, Jennifer Fuchs, Julia Reichelt, Heiko Peters

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004709

Sensors at Centrosomes Reveal Determinants of Local Separase Activity

Fikret Gurkan Agircan, Elmar Schiebel

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004672

Dominant Sequences of Human Major Histocompatibility Complex Conserved Extended Haplotypes from HLA-DQA2 to DAXX

Charles E. Larsen, Dennis R. Alford, Michael R. Trautwein, Yanoh K. Jalloh, Jennifer L. Tarnacki, Sushruta K. Kunnenkeri, Dolores A. Fici, Edmond J. Yunis, Zuheir L. Awdeh, Chester A. Alper

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004637

Role of STN1 and DNA Polymerase α in Telomere Stability and Genome-Wide Replication in Arabidopsis

Elisa Derboven, Heinz Ekker, Branislav Kusenda, Petra Bulankova, Karel Riha

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004682

Cell-Autonomous Progeroid Changes in Conditional Mouse Models for Repair Endonuclease XPG Deficiency

Sander Barnhoorn, Lieneke M. Uittenboogaard, Dick Jaarsma, Wilbert P. Vermeij, Maria Tresini, Michael Weymaere, Hervé Menoni, Renata M. C. Brandt, Monique C. de Waard, Sander M. Botter, Altaf H. Sarker, Nicolaas G. J. Jaspers, Gijsbertus T. J. van der Horst, Priscilla K. Cooper, Jan H. J. Hoeijmakers, Ingrid van der Pluijm

PLOS Genetics: published October 9, 2014 | https://doi.org/10.1371/journal.pgen.1004686

An Integrated Cell Purification and Genomics Strategy Reveals Multiple Regulators of Pancreas Development

Cecil M. Benitez, Kun Qu, Takuya Sugiyama, Philip T. Pauerstein, Yinghua Liu, Jennifer Tsai, Xueying Gu, Amar Ghodasara, H. Efsun Arda, Jiajing Zhang, Joseph D. Dekker, Haley O. Tucker, Howard Y. Chang, Seung K. Kim

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004645

KDM5 Interacts with Foxo to Modulate Cellular Levels of Oxidative Stress

Xingyin Liu, Christina Greer, Julie Secombe

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004676

Caudal Regulates the Spatiotemporal Dynamics of Pair-Rule Waves in Tribolium

Ezzat El-Sherif, Xin Zhu, Jinping Fu, Susan J. Brown

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004677

At Short Telomeres Tel1 Directs Early Replication and Phosphorylates Rif1

Akila Sridhar, Sylwia Kedziora, Anne D. Donaldson

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004691

Break-Induced Replication Requires DNA Damage-Induced Phosphorylation of Pif1 and Leads to Telomere Lengthening

Yulia Vasianovich, Lea A. Harrington, Svetlana Makovets

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004679

RNA-Processing Protein TDP-43 Regulates FOXO-Dependent Protein Quality Control in Stress Response

Tao Zhang, Gerard Baldie, Goran Periz, Jiou Wang

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004693

Selection on a Variant Associated with Improved Viral Clearance Drives Local, Adaptive Pseudogenization of Interferon Lambda 4 (IFNL4)

Felix M. Key, Benjamin Peter, Megan Y. Dennis, Emilia Huerta-Sánchez, Wei Tang, Ludmila Prokunina-Olsson, Rasmus Nielsen, Aida M. Andrés

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004681

daf-31 Encodes the Catalytic Subunit of N Alpha-Acetyltransferase that Regulates Caenorhabditis elegans Development, Metabolism and Adult Lifespan

Di Chen, Jiuli Zhang, Justin Minnerly, Tiffany Kaul, Donald L. Riddle, Kailiang Jia

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004699

BMP-FGF Signaling Axis Mediates Wnt-Induced Epidermal Stratification in Developing Mammalian Skin

Xiao-Jing Zhu, YuDong Liu, Zhong-Min Dai, Xiaoyun Zhang, XueQin Yang, Yan Li, Mengsheng Qiu, Jiang Fu, Wei Hsu, YiPing Chen, Zunyi Zhang

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004687

Salt-Induced Stabilization of EIN3/EIL1 Confers Salinity Tolerance by Deterring ROS Accumulation in Arabidopsis

Jinying Peng, Zhonghai Li, Xing Wen, Wenyang Li, Hui Shi, Longshu Yang, Huaiqiu Zhu, Hongwei Guo

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004664

The Chromosomal Association of the Smc5/6 Complex Depends on Cohesion and Predicts the Level of Sister Chromatid Entanglement

Kristian Jeppsson, Kristian K. Carlborg, Ryuichiro Nakato, Davide G. Berta, Ingrid Lilienthal, Takaharu Kanno, Arne Lindqvist, Maartje C. Brink, Nico P. Dantuma, Yuki Katou, Katsuhiko Shirahige, Camilla Sjögren

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004680

Controlling Meiotic Recombinational Repair – Specifying the Roles of ZMMs, Sgs1 and Mus81/Mms4 in Crossover Formation

Ashwini Oke, Carol M. Anderson, Phoebe Yam, Jennifer C. Fung

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004690

Hsp40s Specify Functions of Hsp104 and Hsp90 Protein Chaperone Machines

Michael Reidy, Ruchika Sharma, Shankar Shastry, Brittany-Lee Roberts, Ivan Albino-Flores, Sue Wickner, Daniel C. Masison

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004720

Oligoasthenoteratozoospermia and Infertility in Mice Deficient for miR-34b/c and miR-449 Loci

Stefano Comazzetto, Monica Di Giacomo, Kasper Dindler Rasmussen, Christian Much, Chiara Azzi, Emerald Perlas, Marcos Morgan, Dónal O'Carroll

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004597

Basement Membrane and Cell Integrity of Self-Tissues in Maintaining Drosophila Immunological Tolerance

Moon Jong Kim, Kwang-Min Choe

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004683

Functional Interaction between Ribosomal Protein L6 and RbgA during Ribosome Assembly

Megha Gulati, Nikhil Jain, Joseph H. Davis, James R. Williamson, Robert A. Britton

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004694

Coexistence and Within-Host Evolution of Diversified Lineages of Hypermutable Pseudomonas aeruginosa in Long-term Cystic Fibrosis Infections

Sofía Feliziani, Rasmus L. Marvig, Adela M. Luján, Alejandro J. Moyano, Julio A. Di Rienzo, Helle Krogh Johansen, Søren Molin, Andrea M. Smania

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004651

A Mouse Model Uncovers LKB1 as an UVB-Induced DNA Damage Sensor Mediating CDKN1A (p21^WAF1/CIP1) Degradation

Rosaura Esteve-Puig, Rosa Gil, Elena González-Sánchez, Joan Josep Bech-Serra, Judit Grueso, Javier Hernández-Losa, Teresa Moliné, Francesc Canals, Berta Ferrer, Javier Cortés, Boris Bastian, Santiago Ramón y Cajal, Juan Martín-Caballero, Juana Maria Flores, Ana Vivancos, Vicenç García-Patos, Juan Ángel Recio

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004721

Signature Gene Expression Reveals Novel Clues to the Molecular Mechanisms of Dimorphic Transition in Penicillium marneffei

Ence Yang, Wang-Ngai Chow, Gang Wang, Patrick C. Y. Woo, Susanna K. P. Lau, Kwok-Yung Yuen, Xiaorong Lin, James J. Cai

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004662

An AGEF-1/Arf GTPase/AP-1 Ensemble Antagonizes LET-23 EGFR Basolateral Localization and Signaling during C. elegans Vulva Induction

Olga Skorobogata, Juan M. Escobar-Restrepo, Christian E. Rocheleau

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004728

White Cells Facilitate Opposite- and Same-Sex Mating of Opaque Cells in Candida albicans

Li Tao, Chengjun Cao, Weihong Liang, Guobo Guan, Qiuyu Zhang, Clarissa J. Nobile, Guanghua Huang

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004737

The Kinesin AtPSS1 Promotes Synapsis and is Required for Proper Crossover Distribution in Meiosis

Yann Duroc, Afef Lemhemdi, Cécile Larchevêque, Aurélie Hurel, Maria Cuacos, Laurence Cromer, Christine Horlow, Susan J. Armstrong, Liudmila Chelysheva, Raphael Mercier

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004674

ZTF-8 Interacts with the 9-1-1 Complex and Is Required for DNA Damage Response and Double-Strand Break Repair in the C. elegans Germline

Hyun-Min Kim, Monica P. Colaiácovo

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004723

POT1a and Components of CST Engage Telomerase and Regulate Its Activity in Arabidopsis

Kyle B. Renfrew, Xiangyu Song, Jung Ro Lee, Amit Arora, Dorothy E. Shippen

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004738

Genetic Modifiers of Neurofibromatosis Type 1-Associated Café-au-Lait Macule Count Identified Using Multi-platform Analysis

Alexander Pemov, Heejong Sung, Paula L. Hyland, Jennifer L. Sloan, Sarah L. Ruppert, Andrea M. Baldwin, Joseph F. Boland, Sara E. Bass, Hyo Jung Lee, Kristine M. Jones, Xijun Zhang, NISC Comparative Sequencing Program, James C. Mullikin, Brigitte C. Widemann, Alexander F. Wilson, Douglas R. Stewart

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004575

The Proteomic Landscape of the Suprachiasmatic Nucleus Clock Reveals Large-Scale Coordination of Key Biological Processes

Cheng-Kang Chiang, Neel Mehta, Abhilasha Patel, Peng Zhang, Zhibin Ning, Janice Mayne, Warren Y. L. Sun, Hai-Ying M. Cheng, Daniel Figeys

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004695

ssb Gene Duplication Restores the Viability of ΔholC and ΔholD Escherichia coli Mutants

Stéphane Duigou, Maud Silvain, Enrique Viguera, Bénédicte Michel

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004719

The DAF-16 FOXO Transcription Factor Regulates natc-1 to Modulate Stress Resistance in Caenorhabditis elegans, Linking Insulin/IGF-1 Signaling to Protein N-Terminal Acetylation

Kurt Warnhoff, John T. Murphy, Sandeep Kumar, Daniel L. Schneider, Michelle Peterson, Simon Hsu, James Guthrie, J. David Robertson, Kerry Kornfeld

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004703

Systematic Dissection of Coding Exons at Single Nucleotide Resolution Supports an Additional Role in Cell-Specific Transcriptional Regulation

Ramon Y. Birnbaum, Rupali P. Patwardhan, Mee J. Kim, Gregory M. Findlay, Beth Martin, Jingjing Zhao, Robert J. A. Bell, Robin P. Smith, Angel A. Ku, Jay Shendure, Nadav Ahituv

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004592

Nephronophthisis-Associated CEP164 Regulates Cell Cycle Progression, Apoptosis and Epithelial-to-Mesenchymal Transition

Gisela G. Slaats, Amiya K. Ghosh, Lucas L. Falke, Stéphanie Le Corre, Indra A. Shaltiel, Glenn van de Hoek, Timothy D. Klasson, Marijn F. Stokman, Ive Logister, Marianne C. Verhaar, Roel Goldschmeding, Tri Q. Nguyen, Iain A. Drummond, Friedhelm Hildebrandt, Rachel H. Giles

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004594

Licensing of Yeast Centrosome Duplication Requires Phosphoregulation of Sfi1

Jennifer S. Avena, Shannon Burns, Zulin Yu, Christopher C. Ebmeier, William M. Old, Sue L. Jaspersen, Mark Winey

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004666

Juvenile Hormone-Receptor Complex Acts on Mcm4 and Mcm7 to Promote Polyploidy and Vitellogenesis in the Migratory Locust

Wei Guo, Zhongxia Wu, Jiasheng Song, Feng Jiang, Zhiming Wang, Shun Deng, Virginia K. Walker, Shutang Zhou

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004702

A Complex Genetic Switch Involving Overlapping Divergent Promoters and DNA Looping Regulates Expression of Conjugation Genes of a Gram-positive Plasmid

Gayetri Ramachandran, Praveen K. Singh, Juan Roman Luque-Ortega, Luis Yuste, Carlos Alfonso, Fernando Rojo, Ling J. Wu, Wilfried J. J. Meijer

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004733

Tpz1-Ccq1 and Tpz1-Poz1 Interactions within Fission Yeast Shelterin Modulate Ccq1 Thr93 Phosphorylation and Telomerase Recruitment

Jennifer L. Harland, Ya-Ting Chang, Bettina A. Moser, Toru M. Nakamura

PLOS Genetics: published October 16, 2014 | https://doi.org/10.1371/journal.pgen.1004708

Unifying Genetic Canalization, Genetic Constraint, and Genotype-by-Environment Interaction: QTL by Genomic Background by Environment Interaction of Flowering Time in Boechera stricta

Cheng-Ruei Lee, Jill T. Anderson, Thomas Mitchell-Olds

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004727

A Mutation in the Mouse Ttc26 Gene Leads to Impaired Hedgehog Signaling

Ruth E. Swiderski, Yoko Nakano, Robert F. Mullins, Seongjin Seo, Botond Bánfi

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004689

Germline Mutations in MAP3K6 Are Associated with Familial Gastric Cancer

Daniel Gaston, Samantha Hansford, Carla Oliveira, Mathew Nightingale, Hugo Pinheiro, Christine Macgillivray, Pardeep Kaurah, Andrea L. Rideout, Patricia Steele, Gabriela Soares, Weei-Yuarn Huang, Scott Whitehouse, Sarah Blowers, Marissa A. LeBlanc, Haiyan Jiang, Wenda Greer, Mark E. Samuels, Andrew Orr, Conrad V. Fernandez, Jacek Majewski, Mark Ludman, Sarah Dyack, Lynette S. Penney, Christopher R. McMaster, David Huntsman, Karen Bedard

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004669

Copy Number Variation in the Horse Genome

Sharmila Ghosh, Zhipeng Qu, Pranab J. Das, Erica Fang, Rytis Juras, E. Gus Cothran, Sue McDonell, Daniel G. Kenney, Teri L. Lear, David L. Adelson, Bhanu P. Chowdhary, Terje Raudsepp

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004712

The Not5 Subunit of the Ccr4-Not Complex Connects Transcription and Translation

Zoltan Villanyi, Virginie Ribaud, Sari Kassem, Olesya O. Panasenko, Zoltan Pahi, Ishaan Gupta, Lars Steinmetz, Imre Boros, Martine A. Collart

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004569

Topoisomerase II Is Required for the Proper Separation of Heterochromatic Regions during Drosophila melanogaster Female Meiosis

Stacie E. Hughes, R. Scott Hawley

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004650

Recovery from an Acute Infection in C. elegans Requires the GATA Transcription Factor ELT-2

Brian Head, Alejandro Aballay

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004609

Abnormal Dosage of Ultraconserved Elements Is Highly Disfavored in Healthy Cells but Not Cancer Cells

Ruth B. McCole, Chamith Y. Fonseka, Amnon Koren, C.-ting Wu

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004646

FHIT Suppresses Epithelial-Mesenchymal Transition (EMT) and Metastasis in Lung Cancer through Modulation of MicroRNAs

Sung-Suk Suh, Ji Young Yoo, Ri Cui, Balveen Kaur, Kay Huebner, Taek-Kyun Lee, Rami I. Aqeilan, Carlo M. Croce

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004652

HIPPO Pathway Members Restrict SOX2 to the Inner Cell Mass Where It Promotes ICM Fates in the Mouse Blastocyst

Eryn Wicklow, Stephanie Blij, Tristan Frum, Yoshikazu Hirate, Richard A. Lang, Hiroshi Sasaki, Amy Ralston

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004618

Protein Phosphatase 4 Promotes Chromosome Pairing and Synapsis, and Contributes to Maintaining Crossover Competence with Increasing Age

Aya Sato-Carlton, Xuan Li, Oliver Crawley, Sarah Testori, Enrique Martinez-Perez, Asako Sugimoto, Peter M. Carlton

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004638

Role of abd-A and Abd-B in Development of Abdominal Epithelia Breaks Posterior Prevalence Rule

Narendra Pratap Singh, Rakesh Kumar Mishra

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004717

A Splice Mutation in the PHKG1 Gene Causes High Glycogen Content and Low Meat Quality in Pig Skeletal Muscle

Junwu Ma, Jie Yang, Lisheng Zhou, Jun Ren, Xianxian Liu, Hui Zhang, Bin Yang, Zhiyan Zhang, Huanban Ma, Xianhua Xie, Yuyun Xing, Yuanmei Guo, Lusheng Huang

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004710

The Nuclear Immune Receptor RPS4 Is Required for RRS1^SLH1-Dependent Constitutive Defense Activation in Arabidopsis thaliana

Kee Hoon Sohn, Cécile Segonzac, Ghanasyam Rallapalli, Panagiotis F. Sarris, Joo Yong Woo, Simon J. Williams, Toby E. Newman, Kyung Hee Paek, Bostjan Kobe, Jonathan D. G. Jones

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004655

A Conserved Role for p48 Homologs in Protecting Dopaminergic Neurons from Oxidative Stress

Peter Bou Dib, Bettina Gnägi, Fiona Daly, Virginie Sabado, Damla Tas, Dominique A. Glauser, Peter Meister, Emi Nagoshi

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004718

Keratin 76 Is Required for Tight Junction Function and Maintenance of the Skin Barrier

Tia DiTommaso, Denny L. Cottle, Helen B. Pearson, Holger Schlüter, Pritinder Kaur, Patrick O. Humbert, Ian M. Smyth

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004706

Fat-Dachsous Signaling Coordinates Cartilage Differentiation and Polarity during Craniofacial Development

Pierre Le Pabic, Carrie Ng, Thomas F. Schilling

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004726

Dynamic Partnership between TFIIH, PGC-1α and SIRT1 Is Impaired in Trichothiodystrophy

Hussein Traboulsi, Serena Davoli, Philippe Catez, Jean-Marc Egly, Emmanuel Compe

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004732

Multiple Regulatory Systems Coordinate DNA Replication with Cell Growth in Bacillus subtilis

Heath Murray, Alan Koh

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004731

Examination of Prokaryotic Multipartite Genome Evolution through Experimental Genome Reduction

George C. diCenzo, Allyson M. MacLean, Branislava Milunovic, G. Brian Golding, Turlough M. Finan

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004742

It's All in Your Mind: Determining Germ Cell Fate by Neuronal IRE-1 in C. elegans

Mor Levi-Ferber, Yehuda Salzberg, Modi Safra, Anat Haviv-Chesner, Hannes E. Bülow, Sivan Henis-Korenblit

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004747

The Master Activator of IncA/C Conjugative Plasmids Stimulates Genomic Islands and Multidrug Resistance Dissemination

Nicolas Carraro, Dominick Matteau, Peng Luo, Sébastien Rodrigue, Vincent Burrus

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004714

MMS Exposure Promotes Increased MtDNA Mutagenesis in the Presence of Replication-Defective Disease-Associated DNA Polymerase γ Variants

Jeffrey D. Stumpf, William C. Copeland

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004748

Ancient Expansion of the Hox Cluster in Lepidoptera Generated Four Homeobox Genes Implicated in Extra-Embryonic Tissue Formation

Laura Ferguson, Ferdinand Marlétaz, Jean-Michel Carter, William R. Taylor, Melanie Gibbs, Casper J. Breuker, Peter W. H. Holland

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004698

The Analysis of Mutant Alleles of Different Strength Reveals Multiple Functions of Topoisomerase 2 in Regulation of Drosophila Chromosome Structure

Valentina Mengoli, Elisabetta Bucciarelli, Ramona Lattao, Roberto Piergentili, Maurizio Gatti, Silvia Bonaccorsi

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004739

Genome-Wide Distribution of RNA-DNA Hybrids Identifies RNase H Targets in tRNA Genes, Retrotransposons and Mitochondria

Aziz El Hage, Shaun Webb, Alastair Kerr, David Tollervey

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004716

Identification of Genes Important for Cutaneous Function Revealed by a Large Scale Reverse Genetic Screen in the Mouse

Tia DiTommaso, Lynelle K. Jones, Denny L. Cottle, The WTSI Mouse Genetics Program, Anna-Karin Gerdin, Valerie E. Vancollie, Fiona M. Watt, Ramiro Ramirez-Solis, Allan Bradley, Karen P. Steel, John P. Sundberg, Jacqueline K. White, Ian M. Smyth

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004705

A Gain-of-Function Mutation in Tnni2 Impeded Bone Development through Increasing Hif3a Expression in DA2B Mice

Xiaoquan Zhu, Fengchao Wang, Yanyang Zhao, Peng Yang, Jun Chen, Hanzi Sun, Lei Liu, Wenjun Li, Lin Pan, Yanru Guo, Zhaohui Kou, Yu Zhang, Cheng Zhou, Jiang He, Xue Zhang, Jianxin Li, Weitian Han, Jian Li, Guanghui Liu, Shaorong Gao, Ze Yang

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004589

Genetic Influences on Translation in Yeast

Frank W. Albert, Dale Muzzey, Jonathan S. Weissman, Leonid Kruglyak

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004692

Multifaceted Genome Control by Set1 Dependent and Independent of H3K4 Methylation and the Set1C/COMPASS Complex

Irina V. Mikheyeva, Patrick J. R. Grady, Fiona B. Tamburini, David R. Lorenz, Hugh P. Cam

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004740

Mmp1 Processing of the PDF Neuropeptide Regulates Circadian Structural Plasticity of Pacemaker Neurons

Ana Depetris-Chauvin, Ágata Fernández-Gamba, E. Axel Gorostiza, Anastasia Herrero, Eduardo M. Castaño, M. Fernanda Ceriani

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004700

Ribosomal Readthrough at a Short UGA Stop Codon Context Triggers Dual Localization of Metabolic Enzymes in Fungi and Animals

Alina C. Stiebler, Johannes Freitag, Kay O. Schink, Thorsten Stehlik, Britta A. M. Tillmann, Julia Ast, Michael Bölker

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004685

Integrating Functional Data to Prioritize Causal Variants in Statistical Fine-Mapping Studies

Gleb Kichaev, Wen-Yun Yang, Sara Lindstrom, Farhad Hormozdiari, Eleazar Eskin, Alkes L. Price, Peter Kraft, Bogdan Pasaniuc

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004722

Feeding State, Insulin and NPR-1 Modulate Chemoreceptor Gene Expression via Integration of Sensory and Circuit Inputs

Matthew Gruner, Dru Nelson, Ari Winbush, Rebecca Hintz, Leesun Ryu, Samuel H. Chung, Kyuhyung Kim, Chrisopher V. Gabel, Alexander M. van der Linden

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004707

Metabolic Respiration Induces AMPK- and Ire1p-Dependent Activation of the p38-Type HOG MAPK Pathway

Hema Adhikari, Paul J. Cullen

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004734

COE Loss-of-Function Analysis Reveals a Genetic Program Underlying Maintenance and Regeneration of the Nervous System in Planarians

Martis W. Cowles, Kerilyn C. Omuro, Brianna N. Stanley, Carlo G. Quintanilla, Ricardo M. Zayas

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004746

A Role for Taiman in Insect Metamorphosis

Jesus Lozano, Takumi Kayukawa, Tetsuro Shinoda, Xavier Belles

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004769

TIF-IA-Dependent Regulation of Ribosome Synthesis in Drosophila Muscle Is Required to Maintain Systemic Insulin Signaling and Larval Growth

Abhishek Ghosh, Elizabeth J. Rideout, Savraj S. Grewal

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004750

Genome-Wide Association Study of CSF Levels of 59 Alzheimer's Disease Candidate Proteins: Significant Associations with Proteins Involved in Amyloid Processing and Inflammation

John S. K. Kauwe, Matthew H. Bailey, Perry G. Ridge, Rachel Perry, Mark E. Wadsworth, Kaitlyn L. Hoyt, Lyndsay A. Staley, Celeste M. Karch, Oscar Harari, Carlos Cruchaga, Benjamin J. Ainscough, Kelly Bales, Eve H. Pickering, Sarah Bertelsen, the Alzheimer's Disease Neuroimaging Initiative, Anne M. Fagan, David M. Holtzman, John C. Morris, Alison M. Goate

PLOS Genetics: published October 23, 2014 | https://doi.org/10.1371/journal.pgen.1004758

Spinster Homolog 2 (Spns2) Deficiency Causes Early Onset Progressive Hearing Loss

Jing Chen, Neil Ingham, John Kelly, Shalini Jadeja, David Goulding, Johanna Pass, Vinit B. Mahajan, Stephen H. Tsang, Anastasia Nijnik, Ian J. Jackson, Jacqueline K. White, Andrew Forge, Daniel Jagger, Karen P. Steel

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004688

Gene Pathways That Delay Caenorhabditis elegans Reproductive Senescence

Meng C. Wang, Holly D. Oakley, Christopher E. Carr, Jessica N. Sowa, Gary Ruvkun

PLOS Genetics: published December 4, 2014 | https://doi.org/10.1371/journal.pgen.1004752

Notch3 Interactome Analysis Identified WWP2 as a Negative Regulator of Notch3 Signaling in Ovarian Cancer

Jin-Gyoung Jung, Alexander Stoeck, Bin Guan, Ren-Chin Wu, Heng Zhu, Seth Blackshaw, Ie-Ming Shih, Tian-Li Wang

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004751

De Novo Mutations in Moderate or Severe Intellectual Disability

Fadi F. Hamdan, Myriam Srour, Jose-Mario Capo-Chichi, Hussein Daoud, Christina Nassif, Lysanne Patry, Christine Massicotte, Amirthagowri Ambalavanan, Dan Spiegelman, Ousmane Diallo, Edouard Henrion, Alexandre Dionne-Laporte, Anne Fougerat, Alexey V. Pshezhetsky, Sunita Venkateswaran, Guy A. Rouleau, Jacques L. Michaud

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004772

Telomeric ORFs (TLOs) in Candida spp. Encode Mediator Subunits That Regulate Distinct Virulence Traits

John Haran, Hannah Boyle, Karsten Hokamp, Tim Yeomans, Zhongle Liu, Michael Church, Alastair B. Fleming, Matthew Z. Anderson, Judith Berman, Lawrence C. Myers, Derek J. Sullivan, Gary P. Moran

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004658

The Listeria Small RNA Rli27 Regulates a Cell Wall Protein inside Eukaryotic Cells by Targeting a Long 5′-UTR Variant

Juan J. Quereda, Álvaro D. Ortega, M. Graciela Pucciarelli, Francisco García-del Portillo

PLOS Genetics: published October 30, 2014 | https://doi.org/10.1371/journal.pgen.1004765

Corrections

Correction: Requirements for Pseudomonas aeruginosa Acute Burn and Chronic Surgical Wound Infection

The PLOS Genetics Staff

PLOS Genetics: published October 17, 2014 | https://doi.org/10.1371/journal.pgen.1004743

Correction: Functional EF-Hands in Neuronal Calcium Sensor GCAP2 Determine Its Phosphorylation State and Subcellular Distribution In Vivo, and Are Essential for Photoreceptor Cell Integrity

The PLOS Genetics Staff

PLOS Genetics: published October 17, 2014 | https://doi.org/10.1371/journal.pgen.1004744

Correction: Mechanisms of CFTR Functional Variants That Impair Regulated Bicarbonate Permeation and Increase Risk for Pancreatitis but Not for Cystic Fibrosis

The PLOS Genetics Staff

PLOS Genetics: published October 6, 2014 | https://doi.org/10.1371/journal.pgen.1004778

Correction: Differential Responses to Wnt and PCP Disruption Predict Expression and Developmental Function of Conserved and Novel Genes in a Cnidarian

The PLOS Genetics Staff

PLOS Genetics: published October 17, 2014 | https://doi.org/10.1371/journal.pgen.1004781

Correction: Genomic Restructuring in the Tasmanian Devil Facial Tumour: Chromosome Painting and Gene Mapping Provide Clues to Evolution of a Transmissible Tumour

The PLOS Genetics Staff

PLOS Genetics: published October 31, 2014 | https://doi.org/10.1371/journal.pgen.1004840

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Claudin 1, Ecadherin and keratin 14 in the tail skin of a mouse.

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