Transcription coactivator and lncRNA duet evoke Hox genes

Kevin C. Wang, Howard Y. Chang

PLOS Genetics: published June 29, 2017 | https://doi.org/10.1371/journal.pgen.1006797

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Transcriptomes of six mutants in the Sen1 pathway reveal combinatorial control of transcription termination across the Saccharomyces cerevisiae genome

Xin Chen, Kunal Poorey, Melissa N. Carver, Ulrika Müller, Stefan Bekiranov, David T. Auble, David A. Brow

PLOS Genetics: published June 30, 2017 | https://doi.org/10.1371/journal.pgen.1006863

A conserved mitochondrial surveillance pathway is required for defense against Pseudomonas aeruginosa

Elissa Tjahjono, Natalia V. Kirienko

PLOS Genetics: published June 29, 2017 | https://doi.org/10.1371/journal.pgen.1006876

A genetic framework controlling the differentiation of intestinal stem cells during regeneration in Drosophila

Zongzhao Zhai, Jean-Philippe Boquete, Bruno Lemaitre

PLOS Genetics: published June 29, 2017 | https://doi.org/10.1371/journal.pgen.1006854

One ligand, two regulators and three binding sites: How KDPG controls primary carbon metabolism in Pseudomonas

Rosaria Campilongo, Rowena K. Y. Fung, Richard H. Little, Lucia Grenga, Eleftheria Trampari, Simona Pepe, Govind Chandra, Clare E. M. Stevenson, Davide Roncarati, Jacob G. Malone

PLOS Genetics: published June 28, 2017 | https://doi.org/10.1371/journal.pgen.1006839

Distinguishing functional polymorphism from random variation in the sequences of >10,000 HLA-A, -B and -C alleles

James Robinson, Lisbeth A. Guethlein, Nezih Cereb, Soo Young Yang, Paul J. Norman, Steven G. E. Marsh, Peter Parham

PLOS Genetics: published June 26, 2017 | https://doi.org/10.1371/journal.pgen.1006862

Dynamics and impact of homologous recombination on the evolution of Legionella pneumophila

Sophia David, Leonor Sánchez-Busó, Simon R. Harris, Pekka Marttinen, Christophe Rusniok, Carmen Buchrieser, Timothy G. Harrison, Julian Parkhill

PLOS Genetics: published June 26, 2017 | https://doi.org/10.1371/journal.pgen.1006855

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Genomic introgression mapping of field-derived multiple-anthelmintic resistance in Teladorsagia circumcincta

Young-Jun Choi, Stewart A. Bisset, Stephen R. Doyle, Kymberlie Hallsworth-Pepin, John Martin, Warwick N. Grant, Makedonka Mitreva

PLOS Genetics: published June 23, 2017 | https://doi.org/10.1371/journal.pgen.1006857

Spatio-temporal orientation of microtubules controls conical cell shape in Arabidopsis thaliana petals

Huibo Ren, Xie Dang, Xianzhi Cai, Peihang Yu, Yajun Li, Shanshan Zhang, Menghong Liu, Binqing Chen, Deshu Lin

PLOS Genetics: published June 23, 2017 | https://doi.org/10.1371/journal.pgen.1006851

Time dependent genetic analysis links field and controlled environment phenotypes in the model C₄ grass Setaria

Max J. Feldman, Rachel E. Paul, Darshi Banan, Jennifer F. Barrett, Jose Sebastian, Muh-Ching Yee, Hui Jiang, Alexander E. Lipka, Thomas P. Brutnell, José R. Dinneny, Andrew D. B. Leakey, Ivan Baxter

PLOS Genetics: published June 23, 2017 | https://doi.org/10.1371/journal.pgen.1006841

An autonomous metabolic role for Spen

Kelsey E. Hazegh, Travis Nemkov, Angelo D’Alessandro, John D. Diller, Jenifer Monks, James L. McManaman, Kenneth L. Jones, Kirk C. Hansen, Tânia Reis

PLOS Genetics: published June 22, 2017 | https://doi.org/10.1371/journal.pgen.1006859

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Lack of a peroxiredoxin suppresses the lethality of cells devoid of electron donors by channelling electrons to oxidized ribonucleotide reductase

Susanna Boronat, Alba Domènech, Mercè Carmona, Sarela García-Santamarina, M. Carmen Bañó, José Ayté, Elena Hidalgo

PLOS Genetics: published June 22, 2017 | https://doi.org/10.1371/journal.pgen.1006858

Peroxisomal biogenesis is genetically and biochemically linked to carbohydrate metabolism in Drosophila and mouse

Michael F. Wangler, Yu-Hsin Chao, Vafa Bayat, Nikolaos Giagtzoglou, Abhijit Babaji Shinde, Nagireddy Putluri, Cristian Coarfa, Taraka Donti, Brett H. Graham, Joseph E. Faust, James A. McNew, Ann Moser, Marco Sardiello, Myriam Baes, Hugo J. Bellen

PLOS Genetics: published June 22, 2017 | https://doi.org/10.1371/journal.pgen.1006825

Identification of a Sjögren's syndrome susceptibility locus at OAS1 that influences isoform switching, protein expression, and responsiveness to type I interferons

He Li, Tove Ragna Reksten, John A. Ice, Jennifer A. Kelly, Indra Adrianto, Astrid Rasmussen, Shaofeng Wang, Bo He, Kiely M. Grundahl, Stuart B. Glenn, Corinne Miceli-Richard, Simon Bowman, Sue Lester, Per Eriksson, Maija-Leena Eloranta, Johan G. Brun, Lasse G. Gøransson, Erna Harboe, Joel M. Guthridge, Kenneth M. Kaufman, Marika Kvarnström, Deborah S. Cunninghame Graham, Ketan Patel, Adam J. Adler, A. Darise Farris, Michael T. Brennan, James Chodosh, Rajaram Gopalakrishnan, Michael H. Weisman, Swamy Venuturupalli, Daniel J. Wallace, Kimberly S. Hefner, Glen D. Houston, Andrew J. W. Huang, Pamela J. Hughes, David M. Lewis, Lida Radfar, Evan S. Vista, Contessa E. Edgar, Michael D. Rohrer, Donald U. Stone, Timothy J. Vyse, John B. Harley, Patrick M. Gaffney, Judith A. James, Sean Turner, Ilias Alevizos, Juan-Manuel Anaya, Nelson L. Rhodus, Barbara M. Segal, Courtney G. Montgomery, R. Hal Scofield, Susan Kovats, Xavier Mariette, Lars Rönnblom, Torsten Witte, Maureen Rischmueller, Marie Wahren-Herlenius, Roald Omdal, Roland Jonsson, Wan-Fai Ng, for UK Primary Sjögren's Syndrome Registry, Gunnel Nordmark, Christopher J. Lessard, Kathy L. Sivils

PLOS Genetics: published June 22, 2017 | https://doi.org/10.1371/journal.pgen.1006820

Optimal sequencing strategies for identifying disease-associated singletons

Sara Rashkin, Goo Jun, Sai Chen, Genetics and Epidemiology of Colorectal Cancer Consortium (GECCO), Goncalo R. Abecasis

PLOS Genetics: published June 22, 2017 | https://doi.org/10.1371/journal.pgen.1006811

Ribosomal DNA copy number loss and sequence variation in cancer

Baoshan Xu, Hua Li, John M. Perry, Vijay Pratap Singh, Jay Unruh, Zulin Yu, Musinu Zakari, William McDowell, Linheng Li, Jennifer L. Gerton

PLOS Genetics: published June 22, 2017 | https://doi.org/10.1371/journal.pgen.1006771

Genetic loci associated with coronary artery disease harbor evidence of selection and antagonistic pleiotropy

Sean G. Byars, Qin Qin Huang, Lesley-Ann Gray, Andrew Bakshi, Samuli Ripatti, Gad Abraham, Stephen C. Stearns, Michael Inouye

PLOS Genetics: published June 22, 2017 | https://doi.org/10.1371/journal.pgen.1006328

Integrative analysis of genomic alterations in triple-negative breast cancer in association with homologous recombination deficiency

Masahito Kawazu, Shinya Kojima, Toshihide Ueno, Yasushi Totoki, Hiromi Nakamura, Akiko Kunita, Wei Qu, Jun Yoshimura, Manabu Soda, Takahiko Yasuda, Natsuko Hama, Mihoko Saito-Adachi, Kazuhito Sato, Shinji Kohsaka, Eirin Sai, Masako Ikemura, Shigeru Yamamoto, Tomoko Ogawa, Masashi Fukayama, Keiichiro Tada, Yasuyuki Seto, Shinichi Morishita, Shoichi Hazama, Tatsuhiro Shibata, Yoshihiro Yamashita, Hiroyuki Mano

PLOS Genetics: published June 21, 2017 | https://doi.org/10.1371/journal.pgen.1006853

Differential regulation of polarized synaptic vesicle trafficking and synapse stability in neural circuit rewiring in Caenorhabditis elegans

Naina Kurup, Dong Yan, Karina Kono, Yishi Jin

PLOS Genetics: published June 21, 2017 | https://doi.org/10.1371/journal.pgen.1006844

Splicing stimulates siRNA formation at Drosophila DNA double-strand breaks

Karin Merk, Marco Breinig, Romy Böttcher, Stefan Krebs, Helmut Blum, Michael Boutros, Klaus Förstemann

PLOS Genetics: published June 19, 2017 | https://doi.org/10.1371/journal.pgen.1006861

Novel interplay between JNK and Egfr signaling in Drosophila dorsal closure

Tatyana Kushnir, Sharon Mezuman, Shaked Bar-Cohen, Rotem Lange, Ze'ev Paroush, Aharon Helman

PLOS Genetics: published June 19, 2017 | https://doi.org/10.1371/journal.pgen.1006860

TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis

Akane Kubota, Shogo Ito, Jae Sung Shim, Richard S. Johnson, Yong Hun Song, Ghislain Breton, Greg S. Goralogia, Michael S. Kwon, Dianne Laboy Cintrón, Tomotsugu Koyama, Masaru Ohme-Takagi, Jose L. Pruneda-Paz, Steve A. Kay, Michael J. MacCoss, Takato Imaizumi

PLOS Genetics: published June 19, 2017 | https://doi.org/10.1371/journal.pgen.1006856

Flipping chromosomes in deep-sea archaea

Matteo Cossu, Catherine Badel, Ryan Catchpole, Danièle Gadelle, Evelyne Marguet, Valérie Barbe, Patrick Forterre, Jacques Oberto

PLOS Genetics: published June 19, 2017 | https://doi.org/10.1371/journal.pgen.1006847

A chromosome 5q31.1 locus associates with tuberculin skin test reactivity in HIV-positive individuals from tuberculosis hyper-endemic regions in east Africa

Rafal S. Sobota, Catherine M. Stein, Nuri Kodaman, Isaac Maro, Wendy Wieland-Alter, Robert P. Igo Jr., Albert Magohe, LaShaunda L. Malone, Keith Chervenak, Noemi B. Hall, Mecky Matee, Harriet Mayanja-Kizza, Moses Joloba, Jason H. Moore, William K. Scott, Timothy Lahey, W. Henry Boom, C. Fordham von Reyn, Scott M. Williams, Giorgio Sirugo

PLOS Genetics: published June 19, 2017 | https://doi.org/10.1371/journal.pgen.1006710

Identification of Padi2 as a novel angiogenesis-regulating gene by genome association studies in mice

Mehrdad Khajavi, Yi Zhou, Amy E. Birsner, Lauren Bazinet, Amanda Rosa Di Sant, Alex J. Schiffer, Michael S. Rogers, Subrahmanian Tarakkad Krishnaji, Bella Hu, Vy Nguyen, Leonard Zon, Robert J. D’Amato

PLOS Genetics: published June 15, 2017 | https://doi.org/10.1371/journal.pgen.1006848

p53 and TAp63 participate in the recombination-dependent pachytene arrest in mouse spermatocytes

Marina Marcet-Ortega, Sarai Pacheco, Ana Martínez-Marchal, Helena Castillo, Elsa Flores, Maria Jasin, Scott Keeney, Ignasi Roig

PLOS Genetics: published June 15, 2017 | https://doi.org/10.1371/journal.pgen.1006845

Genetic, structural, and chemical insights into the dual function of GRASP55 in germ cell Golgi remodeling and JAM-C polarized localization during spermatogenesis

Amandine Cartier-Michaud, Anne-Laure Bailly, Stéphane Betzi, Xiaoli Shi, Jean-Claude Lissitzky, Ana Zarubica, Arnauld Sergé, Philippe Roche, Adrien Lugari, Véronique Hamon, Florence Bardin, Carine Derviaux, Frédérique Lembo, Stéphane Audebert, Sylvie Marchetto, Bénédicte Durand, Jean-Paul Borg, Ning Shi, Xavier Morelli, Michel Aurrand-Lions

PLOS Genetics: published June 15, 2017 | https://doi.org/10.1371/journal.pgen.1006803

Ranking and characterization of established BMI and lipid associated loci as candidates for gene-environment interactions

Dmitry Shungin, Wei Q. Deng, Tibor V. Varga, Jian'an Luan, Evelin Mihailov, Andres Metspalu, GIANT Consortium, Andrew P. Morris, Nita G. Forouhi, Cecilia Lindgren, Patrik K. E. Magnusson, Nancy L. Pedersen, Göran Hallmans, Audrey Y. Chu, Anne E. Justice, Mariaelisa Graff, Thomas W. Winkler, Lynda M. Rose, Claudia Langenberg, L. Adrienne Cupples, Paul M. Ridker, Nicholas J. Wareham, Ken K. Ong, Ruth J. F. Loos, Daniel I. Chasman, Erik Ingelsson, Tuomas O. Kilpeläinen, Robert A. Scott, Reedik Mägi, Guillaume Paré, Paul W. Franks

PLOS Genetics: published June 14, 2017 | https://doi.org/10.1371/journal.pgen.1006812

Cleavage of the SUN-domain protein Mps3 at its N-terminus regulates centrosome disjunction in budding yeast meiosis

Ping Li, Hui Jin, Bailey A. Koch, Rebecca L. Abblett, Xuemei Han, John R. Yates III, Hong-Guo Yu

PLOS Genetics: published June 13, 2017 | https://doi.org/10.1371/journal.pgen.1006830

The yeast protein kinase Sch9 adjusts V-ATPase assembly/disassembly to control pH homeostasis and longevity in response to glucose availability

Tobias Wilms, Erwin Swinnen, Elja Eskes, Laura Dolz-Edo, Alice Uwineza, Ruben Van Essche, Joëlle Rosseels, Piotr Zabrocki, Elisabetta Cameroni, Vanessa Franssens, Claudio De Virgilio, Gertien J. Smits, Joris Winderickx

PLOS Genetics: published June 12, 2017 | https://doi.org/10.1371/journal.pgen.1006835

The Arabidopsis leucine-rich repeat receptor kinase MIK2/LRR-KISS connects cell wall integrity sensing, root growth and response to abiotic and biotic stresses

Dieuwertje Van der Does, Freddy Boutrot, Timo Engelsdorf, Jack Rhodes, Joseph F. McKenna, Samantha Vernhettes, Iko Koevoets, Nico Tintor, Manikandan Veerabagu, Eva Miedes, Cécile Segonzac, Milena Roux, Alice S. Breda, Christian S. Hardtke, Antonio Molina, Martijn Rep, Christa Testerink, Grégory Mouille, Herman Höfte, Thorsten Hamann, Cyril Zipfel

PLOS Genetics: published June 12, 2017 | https://doi.org/10.1371/journal.pgen.1006832

p63 exerts spatio-temporal control of palatal epithelial cell fate to prevent cleft palate

Rose Richardson, Karen Mitchell, Nigel L. Hammond, Maria Rosaria Mollo, Evelyn N. Kouwenhoven, Niki D. Wyatt, Ian J. Donaldson, Leo Zeef, Tim Burgis, Rognvald Blance, Simon J. van Heeringen, Hendrik G. Stunnenberg, Huiqing Zhou, Caterina Missero, Rose Anne Romano, Satrajit Sinha, Michael J. Dixon, Jill Dixon

PLOS Genetics: published June 12, 2017 | https://doi.org/10.1371/journal.pgen.1006828

Pervasive antagonistic interactions among hybrid incompatibility loci

Rafael F. Guerrero, Christopher D. Muir, Sarah Josway, Leonie C. Moyle

PLOS Genetics: published June 12, 2017 | https://doi.org/10.1371/journal.pgen.1006817

Lokiarchaea are close relatives of Euryarchaeota, not bridging the gap between prokaryotes and eukaryotes

Violette Da Cunha, Morgan Gaia, Daniele Gadelle, Arshan Nasir, Patrick Forterre

PLOS Genetics: published June 12, 2017 | https://doi.org/10.1371/journal.pgen.1006810

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Joint modeling of genetically correlated diseases and functional annotations increases accuracy of polygenic risk prediction

Yiming Hu, Qiongshi Lu, Wei Liu, Yuhua Zhang, Mo Li, Hongyu Zhao

PLOS Genetics: published June 9, 2017 | https://doi.org/10.1371/journal.pgen.1006836

A highly specific phage defense system is a conserved feature of the Vibrio cholerae mobilome

Brendan J. O’Hara, Zachary K. Barth, Amelia C. McKitterick, Kimberley D. Seed

PLOS Genetics: published June 8, 2017 | https://doi.org/10.1371/journal.pgen.1006838

Dynamics of DNA methylomes underlie oyster development

Guillaume Riviere, Yan He, Samuele Tecchio, Elizabeth Crowell, Michaël Gras, Pascal Sourdaine, Ximing Guo, Pascal Favrel

PLOS Genetics: published June 8, 2017 | https://doi.org/10.1371/journal.pgen.1006807

Hybridization and polyploidy enable genomic plasticity without sex in the most devastating plant-parasitic nematodes

Romain Blanc-Mathieu, Laetitia Perfus-Barbeoch, Jean-Marc Aury, Martine Da Rocha, Jérôme Gouzy, Erika Sallet, Cristina Martin-Jimenez, Marc Bailly-Bechet, Philippe Castagnone-Sereno, Jean-François Flot, Djampa K. Kozlowski, Julie Cazareth, Arnaud Couloux, Corinne Da Silva, Julie Guy, Yu-Jin Kim-Jo, Corinne Rancurel, Thomas Schiex, Pierre Abad, Patrick Wincker, Etienne G. J. Danchin

PLOS Genetics: published June 8, 2017 | https://doi.org/10.1371/journal.pgen.1006777

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A conserved role for the ESCRT membrane budding complex in LINE retrotransposition

Axel V. Horn, Ivana Celic, Chun Dong, Irena Martirosyan, Jeffrey S. Han

PLOS Genetics: published June 6, 2017 | https://doi.org/10.1371/journal.pgen.1006837

Allelic variants of OsHKT1;1 underlie the divergence between indica and japonica subspecies of rice (Oryza sativa) for root sodium content

Malachy T. Campbell, Nonoy Bandillo, Fouad Razzaq A. Al Shiblawi, Sandeep Sharma, Kan Liu, Qian Du, Aaron J. Schmitz, Chi Zhang, Anne-Aliénor Véry, Aaron J. Lorenz, Harkamal Walia

PLOS Genetics: published June 5, 2017 | https://doi.org/10.1371/journal.pgen.1006823

Analysis of DNA polymerase ν function in meiotic recombination, immunoglobulin class-switching, and DNA damage tolerance

Kei-ichi Takata, Shelley Reh, Matthew J. Yousefzadeh, Maciej J. Zelazowski, Sarita Bhetawal, David Trono, Megan G. Lowery, Maria Sandoval, Yoko Takata, Yue Lu, Kevin Lin, Jianjun Shen, Donna F. Kusewitt, Kevin M. McBride, Francesca Cole, Richard D. Wood

PLOS Genetics: published June 1, 2017 | https://doi.org/10.1371/journal.pgen.1006818