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PLOS Genetics - Číslo 4/2021

Perspective

1009494
Putting the brakes on centromere drive in Mimulus

Ching-Ho Chang, Harmit S. Malik


Viewpoints

1009496
Multiplexed assays reveal effects of missense variants in MSH2 and cancer predisposition

Sofie V. Nielsen, Rasmus Hartmann-Petersen, Amelie Stein, Kresten Lindorff-Larsen


Correction

1009503
Correction: A missense variant in Mitochondrial Amidoxime Reducing Component 1 gene and protection against liver disease

Connor A. Emdin, Mary E. Haas, Amit V. Khera, Krishna Aragam, Mark Chaffin, Derek Klarin, George Hindy, Lan Jiang, Wei-Qi Wei, Qiping Feng, Juha Karjalainen, Aki Havulinna, Tuomo Kiiskinen, Alexander Bick, Diego Ardissino, James G. Wilson, Heribert Schunkert, Ruth McPherson, Hugh Watkins, Roberto Elosua, Matthew J. Bown, Nilesh J. Samani, Usman Baber, Jeanette Erdmann, Namrata Gupta, John Danesh, Danish Saleheen, Kyong-Mi Chang, Marijana Vujkovic, Ben Voight, Scott Damrauer, Julie Lynch, David Kaplan, Marina Serper, Philip Tsao, Million Veteran Program, Josep Mercader, Craig Hanis, Mark Daly, Joshua Denny, Stacey Gabriel, Sekar Kathiresan

1009504
Correction: Inference of past demography, dormancy and self-fertilization rates from whole genome sequence data

Thibaut Paul Patrick Sellinger, Diala Abu Awad, Markus Moest, Aurélien Tellier

1009509
Correction: Genome-Wide Reprogramming of Transcript Architecture by Temperature Specifies the Developmental States of the Human Pathogen Histoplasma

Sarah A. Gilmore, Mark Voorhies, Dana Gebhart, Anita Sil


Research Article

1008973
Leveraging expression from multiple tissues using sparse canonical correlation analysis and aggregate tests improves the power of transcriptome-wide association studies

Helian Feng, Nicholas Mancuso, Alexander Gusev, Arunabha Majumdar, Megan Major, Bogdan Pasaniuc, Peter Kraft

1009112
Functional assessment of the “two-hit” model for neurodevelopmental defects in Drosophila and X. laevis

Lucilla Pizzo, Micaela Lasser, Tanzeen Yusuff, Matthew Jensen, Phoebe Ingraham, Emily Huber, Mayanglambam Dhruba Singh, Connor Monahan, Janani Iyer, Inshya Desai, Siddharth Karthikeyan, Dagny J. Gould, Sneha Yennawar, Alexis T. Weiner, Vijay Kumar Pounraja, Arjun Krishnan, Melissa M. Rolls, Laura Anne Lowery, Santhosh Girirajan

1009238
ARID1A regulates R-loop associated DNA replication stress

Shuhe Tsai, Louis-Alexandre Fournier, Emily Yun-chia Chang, James P. Wells, Sean W. Minaker, Yi Dan Zhu, Alan Ying-Hsu Wang, Yemin Wang, David G. Huntsman, Peter C. Stirling

1009240
Analysis of cell-type-specific chromatin modifications and gene expression in Drosophila neurons that direct reproductive behavior

Colleen M. Palmateer, Shawn C. Moseley, Surjyendu Ray, Savannah G. Brovero, Michelle N. Arbeitman

1009275
Ubiquitin-protein ligase Ubr5 cooperates with hedgehog signalling to promote skeletal tissue homeostasis

David Mellis, Katherine A. Staines, Silvia Peluso, Ioanna Ch. Georgiou, Natalie Dora, Malgorzata Kubiak, Rob van’t Hof, Michela Grillo, Colin Farquharson, Elaine Kinsella, Anna Thornburn, Stuart H. Ralston, Donald M. Salter, Natalia A. Riobo-Del Galdo, Robert E. Hill, Mark Ditzel

1009324
Virus-derived variation in diverse human genomes

Shohei Kojima, Anselmo Jiro Kamada, Nicholas F. Parrish

1009327
Aurora kinase A is essential for meiosis in mouse oocytes

Cecilia S. Blengini, Patricia Ibrahimian, Michaela Vaskovicova, David Drutovic, Petr Solc, Karen Schindler

1009329
Pathways and signatures of mutagenesis at targeted DNA nicks

Yinbo Zhang, Luther Davis, Nancy Maizels

1009336
LuxT controls specific quorum-sensing-regulated behaviors in Vibrionaceae spp. via repression of qrr1, encoding a small regulatory RNA

Michaela J. Eickhoff, Chenyi Fei, Xiuliang Huang, Bonnie L. Bassler

1009364
A complex genetic architecture in zebrafish relatives Danio quagga and D. kyathit underlies development of stripes and spots

Braedan M. McCluskey, Susumu Uji, Joseph L. Mancusi, John H. Postlethwait, David M. Parichy

1009366
Genetic analysis of the septal peptidoglycan synthase FtsWI complex supports a conserved activation mechanism for SEDS-bPBP complexes

Ying Li, Han Gong, Rui Zhan, Shushan Ouyang, Kyung-Tae Park, Joe Lutkenhaus, Shishen Du

1009406
PLD3 is a neuronal lysosomal phospholipase D associated with β-amyloid plaques and cognitive function in Alzheimer’s disease

Alex G. Nackenoff, Timothy J. Hohman, Sarah M. Neuner, Carolyn S. Akers, Nicole C. Weitzel, Alena Shostak, Shawn M. Ferguson, Bret Mobley, David A. Bennett, Julie A. Schneider, Angela L. Jefferson, Catherine C. Kaczorowski, Matthew S. Schrag

1009418
Selfish chromosomal drive shapes recent centromeric histone evolution in monkeyflowers

Findley R. Finseth, Thomas C. Nelson, Lila Fishman

1009428
Sex-stratified genome-wide association study of multisite chronic pain in UK Biobank

Keira J. A. Johnston, Joey Ward, Pradipta R. Ray, Mark J. Adams, Andrew M. McIntosh, Blair H. Smith, Rona J. Strawbridge, Theodore J. Price, Daniel J. Smith, Barbara I. Nicholl, Mark E. S. Bailey

1009438
Toxic Y chromosome: Increased repeat expression and age-associated heterochromatin loss in male Drosophila with a young Y chromosome

Alison H. Nguyen, Doris Bachtrog

1009455
MRLocus: Identifying causal genes mediating a trait through Bayesian estimation of allelic heterogeneity

Anqi Zhu, Nana Matoba, Emma P. Wilson, Amanda L. Tapia, Yun Li, Joseph G. Ibrahim, Jason L. Stein, Michael I. Love

1009457
Caenorhabditis elegans PTR/PTCHD PTR-18 promotes the clearance of extracellular hedgehog-related protein via endocytosis

Hirohisa Chiyoda, Masahiko Kume, Carla Cadena del Castillo, Kenji Kontani, Anne Spang, Toshiaki Katada, Masamitsu Fukuyama

1009464
Tissue specificity-aware TWAS (TSA-TWAS) framework identifies novel associations with metabolic, immunologic, and virologic traits in HIV-positive adults

Binglan Li, Yogasudha Veturi, Anurag Verma, Yuki Bradford, Eric S. Daar, Roy M. Gulick, Sharon A. Riddler, Gregory K. Robbins, Jeffrey L. Lennox, David W. Haas, Marylyn D. Ritchie

1009465
Two transcriptionally distinct pathways drive female development in a reptile with both genetic and temperature dependent sex determination

Sarah L. Whiteley, Clare E. Holleley, Susan Wagner, James Blackburn, Ira W. Deveson, Jennifer A. Marshall Graves, Arthur Georges

1009469
Extracellular spreading of Wingless is required for Drosophila oogenesis

Xiaoxi Wang, Kimberly S. LaFever, Indrayani Waghmare, Andrea Page-McCaw

1009471
Control of pre-replicative complex during the division cycle in Chlamydomonas reinhardtii

Amy E. Ikui, Noriko Ueki, Kresti Pecani, Frederick R. Cross

1009476
Quantifying evolutionary importance of protein sites: A Tale of two measures

Avital Sharir-Ivry, Yu Xia

1009479
Optogenetic delivery of trophic signals in a genetic model of Parkinson’s disease

Alvaro Ingles-Prieto, Nikolas Furthmann, Samuel H. Crossman, Alexandra-Madelaine Tichy, Nina Hoyer, Meike Petersen, Vanessa Zheden, Julia Biebl, Eva Reichhart, Attila Gyoergy, Daria E. Siekhaus, Peter Soba, Konstanze F. Winklhofer, Harald Janovjak

1009482
Novel Variance-Component TWAS method for studying complex human diseases with applications to Alzheimer’s dementia

Shizhen Tang, Aron S. Buchman, Philip L. De Jager, David A. Bennett, Michael P. Epstein, Jingjing Yang

1009484
A mouse model of Bardet-Biedl Syndrome has impaired fear memory, which is rescued by lithium treatment

Thomas K. Pak, Calvin S. Carter, Qihong Zhang, Sunny C. Huang, Charles Searby, Ying Hsu, Rebecca J. Taugher, Tim Vogel, Christopher C. Cychosz, Rachel Genova, Nina N. Moreira, Hanna Stevens, John A. Wemmie, Andrew A. Pieper, Kai Wang, Val C. Sheffield

1009485
Sperm acrosome overgrowth and infertility in mice lacking chromosome 18 pachytene piRNA

Heejin Choi, Zhengpin Wang, Jurrien Dean

1009491
Widespread imprinting of transposable elements and variable genes in the maize endosperm

Sarah N. Anderson, Peng Zhou, Kaitlin Higgins, Yaniv Brandvain, Nathan M. Springer

1009492
A structural signature motif enlightens the origin and diversification of nuclear receptors

Brice Beinsteiner, Gabriel V. Markov, Stéphane Erb, Yassmine Chebaro, Alastair G. McEwen, Sarah Cianférani, Vincent Laudet, Dino Moras, Isabelle M. L. Billas

1009498
DNA methylation patterns expose variations in enhancer-chromatin modifications during embryonic stem cell differentiation

Adi Alajem, Hava Roth, Sofia Ratgauzer, Danny Bavli, Alex Motzik, Shlomtzion Lahav, Itay Peled, Oren Ram

1009499
Ionotropic Receptor-dependent cool cells control the transition of temperature preference in Drosophila larvae

Jordan J. Tyrrell, Jackson T. Wilbourne, Alisa A. Omelchenko, Jin Yoon, Lina Ni

1009500
Opposing roles for Egalitarian and Staufen in transport, anchoring and localization of oskar mRNA in the Drosophila oocyte

Sabine Mohr, Andrew Kenny, Simon T. Y. Lam, Miles B. Morgan, Craig A. Smibert, Howard D. Lipshitz, Paul M. Macdonald

1009501
ANGPTL8 protein-truncating variant associated with lower serum triglycerides and risk of coronary disease

Pyry Helkkula, Tuomo Kiiskinen, Aki S. Havulinna, Juha Karjalainen, Seppo Koskinen, Veikko Salomaa, Mark J. Daly, Aarno Palotie, Ida Surakka, Samuli Ripatti,

1009502
Tempo and mode in karyotype evolution revealed by a probabilistic model incorporating both chromosome number and morphology

Kohta Yoshida, Jun Kitano

1009505
The canonical α-SNAP is essential for gametophytic development in Arabidopsis

Fei Liu, Ji-Peng Li, Lu-Shen Li, Qi Liu, Shan-Wei Li, Ming-Lei Song, Sha Li, Yan Zhang

1009512
The actin nucleation factors JMY and WHAMM enable a rapid Arp2/3 complex-mediated intrinsic pathway of apoptosis

Virginia L. King, Nathan K. Leclair, Alyssa M. Coulter, Kenneth G. Campellone

1009514
Subunit P60 of phosphatidylinositol 3-kinase promotes cell proliferation or apoptosis depending on its phosphorylation status

Yu-Qin Di, Yu-Meng Zhao, Ke-Yan Jin, Xiao-Fan Zhao

1009521
Dynamic post-transcriptional regulation by Mrn1 links cell wall homeostasis to mitochondrial structure and function

Kendra Reynaud, Molly Brothers, Michael Ly, Nicholas T. Ingolia

1009523
Aicardi-Goutières syndrome-associated gene SAMHD1 preserves genome integrity by preventing R-loop formation at transcription–replication conflict regions

Kiwon Park, Jeongmin Ryoo, Heena Jeong, Minsu Kim, Sungwon Lee, Sung-Yeon Hwang, Jiyoung Ahn, Doyeon Kim, Hyungseok C. Moon, Daehyun Baek, Kwangsoo Kim, Hye Yoon Park, Kwangseog Ahn

1009524
Trehalose and α-glucan mediate distinct abiotic stress responses in Pseudomonas aeruginosa

Stuart D. Woodcock, Karl Syson, Richard H. Little, Danny Ward, Despoina Sifouna, James K. M. Brown, Stephen Bornemann, Jacob G. Malone

1009525
Using genetic variants to evaluate the causal effect of cholesterol lowering on head and neck cancer risk: A Mendelian randomization study

Mark Gormley, James Yarmolinsky, Tom Dudding, Kimberley Burrows, Richard M. Martin, Steven Thomas, Jessica Tyrrell, Paul Brennan, Miranda Pring, Stefania Boccia, Andrew F. Olshan, Brenda Diergaarde, Rayjean J. Hung, Geoffrey Liu, Danny Legge, Eloiza H. Tajara, Patricia Severino, Martin Lacko, Andrew R. Ness, George Davey Smith, Emma E. Vincent, Rebecca C. Richmond

1009532
Evolutionary dynamics of the human pseudoautosomal regions

Bruno Monteiro, Miguel Arenas, Maria Joao Prata, António Amorim

1009535
Intercellular viral spread and intracellular transposition of Drosophila gypsy

Richard M. Keegan, Lillian R. Talbot, Yung-Heng Chang, Michael J. Metzger, Josh Dubnau

1009536
An insulator blocks access to enhancers by an illegitimate promoter, preventing repression by transcriptional interference

Miki Fujioka, Anastasiya Nezdyur, James B. Jaynes

1009537
Coordinating the morphogenesis-differentiation balance by tweaking the cytokinin-gibberellin equilibrium

Alon Israeli, Yogev Burko, Sharona Shleizer-Burko, Iris Daphne Zelnik, Noa Sela, Mohammad R. Hajirezaei, Alisdair R. Fernie, Takayuki Tohge, Naomi Ori, Maya Bar

1009538
Transcriptome-wide investigation of stop codon readthrough in Saccharomyces cerevisiae

Kotchaphorn Mangkalaphiban, Feng He, Robin Ganesan, Chan Wu, Richard Baker, Allan Jacobson

1009541
Mobile Type VI secretion system loci of the gut Bacteroidales display extensive intra-ecosystem transfer, multi-species spread and geographical clustering

Leonor García-Bayona, Michael J. Coyne, Laurie E. Comstock

1009549
DNA methylation-mediated modulation of rapid desiccation tolerance acquisition and dehydration stress memory in the resurrection plant Boea hygrometrica

Run-Ze Sun, Jie Liu, Yuan-Yuan Wang, Xin Deng


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