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New Articles in PLOS Genetics

Published November 01, 2016 to November 30, 2016

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PLOS Genetics
Volume 12(11) November 2016

View Table of Contents on web site

Perspectives

The Mighty Fruit Fly Moves into Outbred Genetics
Ewan Birney

The Rise of FXR1: Escaping Cellular Senescence in Head and Neck Squamous Cell Carcinoma
Erlinda Fernández, Frédérick A. Mallette

Suggestions from Geroscience for the Genetics of Age-Related Diseases
Claudio Franceschi, Paolo Garagnani

A Helping Hand: RNA-Binding Proteins Guide Gene-Binding Choices by Cohesin Complexes
Alyssa N. Coyne, Daniela C. Zarnescu

Research Articles

Craniofacial Ciliopathies Reveal Specific Requirements for GLI Proteins during Development of the Facial Midline
Ching-Fang Chang, Ya-Ting Chang, Grethel Millington, Samantha A. Brugmann

Programmed Minichromosome Elimination as a Mechanism for Somatic Genome Reduction in Tetrahymena thermophila
Chih-Yi Gabriela Lin, I-Ting Lin, Meng-Chao Yao

Multiple Origins of the Pathogenic Yeast Candida orthopsilosis by Separate Hybridizations between Two Parental Species
Markus S. Schröder, Kontxi Martinez de San Vicente, Tâmara H. R. Prandini, Stephen Hammel, Desmond G. Higgins, Eduardo Bagagli, Kenneth H. Wolfe, Geraldine Butler

Experimental Evolution Reveals Interplay between Sch9 and Polyploid Stability in Yeast
Yi-Jin Lu, Krishna B. S. Swamy, Jun-Yi Leu

The miR165/166 Mediated Regulatory Module Plays Critical Roles in ABA Homeostasis and Response in Arabidopsis thaliana
Jun Yan, Chunzhao Zhao, Jianping Zhou, Yu Yang, Pengcheng Wang, Xiaohong Zhu, Guiliang Tang, Ray A. Bressan, Jian-Kang Zhu

Ancient Out-of-Africa Mitochondrial DNA Variants Associate with Distinct Mitochondrial Gene Expression Patterns
Tal Cohen, Liron Levin, Dan Mishmar

A Mutational Hotspot and Strong Selection Contribute to the Order of Mutations Selected for during Escherichia coli Adaptation to the Gut
Marta Lourenço, Ricardo S. Ramiro, Daniela Güleresi, João Barroso-Batista, Karina B. Xavier, Isabel Gordo, Ana Sousa

The Genetic Architecture of Quantitative Traits Cannot Be Inferred from Variance Component Analysis
Wen Huang, Trudy F. C. Mackay

A Novel Tiller Angle Gene, TAC3, together with TAC1 and D2 Largely Determine the Natural Variation of Tiller Angle in Rice Cultivars
Haijiao Dong, Hu Zhao, Weibo Xie, Zhongmin Han, Guangwei Li, Wen Yao, Xufeng Bai, Yong Hu, Zilong Guo, Kai Lu, Lin Yang, Yongzhong Xing

Experimental Evolution of Metabolic Dependency in Bacteria
Glen D’Souza, Christian Kost

CLOCKWORK ORANGE Enhances PERIOD Mediated Rhythms in Transcriptional Repression by Antagonizing E-box Binding by CLOCK-CYCLE
Jian Zhou, Wangjie Yu, Paul E. Hardin

Distinct Prion Domain Sequences Ensure Efficient Amyloid Propagation by Promoting Chaperone Binding or Processing In Vivo
Christine R. Langlois, Fen Pei, Suzanne S. Sindi, Tricia R. Serio

Scribbled Optimizes BMP Signaling through Its Receptor Internalization to the Rab5 Endosome and Promote Robust Epithelial Morphogenesis
Jinghua Gui, Yunxian Huang, Osamu Shimmi

Budding Yeast Rif1 Controls Genome Integrity by Inhibiting rDNA Replication
Maksym Shyian, Stefano Mattarocci, Benjamin Albert, Lukas Hafner, Aleksandra Lezaja, Michael Costanzo, Charlie Boone, David Shore

Bottom-up Assembly of the Phytochrome Network
Maximiliano Sánchez-Lamas, Christian D. Lorenzo, Pablo D. Cerdán

Regional Control of Chromosome Segregation in Pseudomonas aeruginosa
Valentine Lagage, Frédéric Boccard, Isabelle Vallet-Gely

The Strength of Selection against Neanderthal Introgression
Ivan Juric, Simon Aeschbacher, Graham Coop

Proteomic Landscape of Tissue-Specific Cyclin E Functions in Vivo
Junko Odajima, Siddharth Saini, Piotr Jung, Yasmine Ndassa-Colday, Scott Ficaro, Yan Geng, Eugenio Marco, Wojciech Michowski, Yaoyu E. Wang, James A. DeCaprio, Larisa Litovchick, Jarrod Marto, Piotr Sicinski

Prion-Associated Toxicity is Rescued by Elimination of Cotranslational Chaperones
Kathryn M. Keefer, Heather L. True

Pleiotropic Associations of Allelic Variants in a 2q22 Region with Risks of Major Human Diseases and Mortality
Alexander M. Kulminski, Liang He, Irina Culminskaya, Yury Loika, Yelena Kernogitski, Konstantin G. Arbeev, Elena Loiko, Liubov Arbeeva, Olivia Bagley, Matt Duan, Arseniy Yashkin, Fang Fang, Mikhail Kovtun, Svetlana V. Ukraintseva, Deqing Wu, Anatoliy I. Yashin

Complex Breakpoints and Template Switching Associated with Non-canonical Termination of Homologous Recombination in Mammalian Cells
Andrea J. Hartlerode, Nicholas A. Willis, Anbazhagan Rajendran, John P. Manis, Ralph Scully

Survey of the Heritability and Sparse Architecture of Gene Expression Traits across Human Tissues
Heather E. Wheeler, Kaanan P. Shah, Jonathon Brenner, Tzintzuni Garcia, Keston Aquino-Michaels, GTEx Consortium , Nancy J. Cox, Dan L. Nicolae, Hae Kyung Im

MTV, an ssDNA Protecting Complex Essential for Transposon-Based Telomere Maintenance in Drosophila
Yi Zhang, Liang Zhang, Xiaona Tang, Shilpa R. Bhardwaj, Jingyun Ji, Yikang S. Rong

Human Oocyte-Derived Methylation Differences Persist in the Placenta Revealing Widespread Transient Imprinting
Marta Sanchez-Delgado, Franck Court, Enrique Vidal, Jose Medrano, Ana Monteagudo-Sánchez, Alex Martin-Trujillo, Chiharu Tayama, Isabel Iglesias-Platas, Ivanela Kondova, Ronald Bontrop, Maria Eugenia Poo-Llanillo, Tomas Marques-Bonet, Kazuhiko Nakabayashi, Carlos Simón, David Monk

Multi-nucleotide de novo Mutations in Humans
Søren Besenbacher, Patrick Sulem, Agnar Helgason, Hannes Helgason, Helgi Kristjansson, Aslaug Jonasdottir, Adalbjorg Jonasdottir, Olafur Th. Magnusson, Unnur Thorsteinsdottir, Gisli Masson, Augustine Kong, Daniel F. Gudbjartsson, Kari Stefansson

Combgap Promotes Ovarian Niche Development and Chromatin Association of EcR-Binding Regions in BR-C
Anna Hitrik, Malka Popliker, Dana Gancz, Zohar Mukamel, Aviezer Lifshitz, Omer Schwartzman, Amos Tanay, Lilach Gilboa

Pleiotropic Mechanisms Indicated for Sex Differences in Autism
Ileena Mitra, Kathryn Tsang, Christine Ladd-Acosta, Lisa A. Croen, Kimberly A. Aldinger, Robert L. Hendren, Michela Traglia, Alinoë Lavillaureix, Noah Zaitlen, Michael C. Oldham, Pat Levitt, Stanley Nelson, David G. Amaral, Irva Herz-Picciotto, M. Daniele Fallin, Lauren A. Weiss

Transcription Factors Encoded on Core and Accessory Chromosomes of Fusarium oxysporum Induce Expression of Effector Genes
H. Charlotte van der Does, Like Fokkens, Ally Yang, Sarah M. Schmidt, Léon Langereis, Joanna M. Lukasiewicz, Timothy R. Hughes, Martijn Rep

High-Resolution Genetics Identifies the Lipid Transfer Protein Sec14p as Target for Antifungal Ergolines
Ireos Filipuzzi, Simona Cotesta, Francesca Perruccio, Britta Knapp, Yue Fu, Christian Studer, Verena Pries, Ralph Riedl, Stephen B. Helliwell, Katarina T. Petrovic, N. Rao Movva, Dominique Sanglard, Jianshi Tao, Dominic Hoepfner

Myosin phosphatase Fine-tunes Zebrafish Motoneuron Position during Axonogenesis
Juliane Bremer, Michael Granato

CDC-42 Orients Cell Migration during Epithelial Intercalation in the Caenorhabditis elegans Epidermis
Elise Walck-Shannon, Bethany Lucas, Ian Chin-Sang, David Reiner, Kraig Kumfer, Hunter Cochran, William Bothfeld, Jeff Hardin

Intron Lariat RNA Inhibits MicroRNA Biogenesis by Sequestering the Dicing Complex in Arabidopsis
Ziwei Li, Shengpeng Wang, Jinping Cheng, Chuanbin Su, Songxiao Zhong, Qi Liu, Yuda Fang, Yao Yu, Hong Lv, Yun Zheng, Binglian Zheng

Genetically Blocking the Zebrafish Pineal Clock Affects Circadian Behavior
Zohar Ben-Moshe Livne, Shahar Alon, Daniela Vallone, Yared Bayleyen, Adi Tovin, Inbal Shainer, Laura G. Nisembaum, Idit Aviram, Sima Smadja-Storz, Michael Fuentes, Jack Falcón, Eli Eisenberg, David C. Klein, Harold A. Burgess, Nicholas S. Foulkes, Yoav Gothilf

Phosphorylation of CBP20 Links MicroRNA to Root Growth in the Ethylene Response
Fan Zhang, Likai wang, Jae Yun Lim, Taewook Kim, Youngjae Pyo, Sibum Sung, Chanseok Shin, Hong Qiao

Functional Genomic Analysis of Candida albicans Adherence Reveals a Key Role for the Arp2/3 Complex in Cell Wall Remodelling and Biofilm Formation
Jason A. Lee, Nicole Robbins, Jinglin L. Xie, Troy Ketela, Leah E. Cowen

Loss of C9orf72 Enhances Autophagic Activity via Deregulated mTOR and TFEB Signaling
Janet Ugolino, Yon Ju Ji, Karen Conchina, Justin Chu, Raja Sekhar Nirujogi, Akhilesh Pandey, Nathan R. Brady, Anne Hamacher-Brady, Jiou Wang

Mechanisms for Complex Chromosomal Insertions
Shen Gu, Przemyslaw Szafranski, Zeynep Coban Akdemir, Bo Yuan, Mitchell L. Cooper, Maria A. Magriñá, Carlos A. Bacino, Seema R. Lalani, Amy M. Breman, Janice L. Smith, Ankita Patel, Rodger H. Song, Weimin Bi, Sau Wai Cheung, Claudia M. B. Carvalho, Paweł Stankiewicz, James R. Lupski

Maintenance of Taste Organs Is Strictly Dependent on Epithelial Hedgehog/GLI Signaling
Alexandre N. Ermilov, Archana Kumari, Libo Li, Ariell M. Joiner, Marina A. Grachtchouk, Benjamin L. Allen, Andrzej A. Dlugosz, Charlotte M. Mistretta

High-Resolution Phenotypic Landscape of the RNA Polymerase II Trigger Loop
Chenxi Qiu, Olivia C. Erinne, Jui M. Dave, Ping Cui, Huiyan Jin, Nandhini Muthukrishnan, Leung K. Tang, Sabareesh Ganesh Babu, Kenny C. Lam, Paul J. Vandeventer, Ralf Strohner, Jan Van den Brulle, Sing-Hoi Sze, Craig D. Kaplan

Genomic Characterization of Metformin Hepatic Response
Marcelo R. Luizon, Walter L. Eckalbar, Yao Wang, Stacy L. Jones, Robin P. Smith, Megan Laurance, Lawrence Lin, Paul J. Gallins, Amy S. Etheridge, Fred Wright, Yihui Zhou, Cliona Molony, Federico Innocenti, Sook Wah Yee, Kathleen M. Giacomini, Nadav Ahituv

Heads, Shoulders, Elbows, Knees, and Toes: Modular Gdf5 Enhancers Control Different Joints in the Vertebrate Skeleton
Hao Chen, Terence D. Capellini, Michael Schoor, Doug P. Mortlock, A. Hari Reddi, David M. Kingsley

A Novel Zebrafish ret Heterozygous Model of Hirschsprung Disease Identifies a Functional Role for mapk10 as a Modifier of Enteric Nervous System Phenotype Severity
Tiffany A. Heanue, Werend Boesmans, Donald M. Bell, Koichi Kawakami, Pieter Vanden Berghe, Vassilis Pachnis

Neuronal Ndrg4 Is Essential for Nodes of Ranvier Organization in Zebrafish
Laura Fontenas, Flavia De Santis, Vincenzo Di Donato, Cindy Degerny, Béatrice Chambraud, Filippo Del Bene, Marcel Tawk

Corrections

Correction: The Musashi 1 Controls the Splicing of Photoreceptor-Specific Exons in the Vertebrate Retina
PLOS Genetics Staff

Correction: Functional Translational Readthrough: A Systems Biology Perspective
The PLOS Genetics Staff

Correction: Joint Estimation of Contamination, Error and Demography for Nuclear DNA from Ancient Humans
Fernando Racimo, Gabriel Renaud, Montgomery Slatkin

Correction: Directed Evolution Reveals Unexpected Epistatic Interactions That Alter Metabolic Regulation and Enable Anaerobic Xylose Use by Saccharomyces cerevisiae
Trey K. Sato, Mary Tremaine, Lucas S. Parreiras, Alexander S. Hebert, Kevin S. Myers, Alan J. Higbee, Maria Sardi, Sean J. McIlwain, Irene M. Ong, Rebecca J. Breuer, Ragothaman Avanasi Narasimhan, Mick A. McGee, Quinn Dickinson, Alex La Reau, Dan Xie, Mingyuan Tian, Jeff S. Piotrowski, Jennifer L. Reed, Yaoping Zhang, Joshua J. Coon, Chris Todd Hittinger, Audrey P. Gasch, Robert Landick

Correction: Rare Functional Variant in TM2D3 is Associated with Late-Onset Alzheimer's Disease
The PLOS Genetics Staff

Correction: Predicting Carriers of Ongoing Selective Sweeps without Knowledge of the Favored Allele
Roy Ronen, Glenn Tesler, Ali Akbari, Shay Zakov, Noah A. Rosenberg, Vineet Bafna

Correction: The Diguanylate Cyclase HsbD Intersects with the HptB Regulatory Cascade to Control Pseudomonas aeruginosa Biofilm and Motility
Martina Valentini, Benoît-Joseph Laventie, Joana A. Moscoso, Urs Jenal, Alain Filloux



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