March 2021

Natural variation in the regulation of neurodevelopmental genes modifies flight performance in Drosophila

Adam N. Spierer, Jim A. Mossman, Samuel Pattillo Smith, Lorin Crawford, Sohini Ramachandran, David M. Rand

PLOS Genetics: published March 18, 2021 | https://doi.org/10.1371/journal.pgen.1008887

Detecting cell-type-specific allelic expression imbalance by integrative analysis of bulk and single-cell RNA sequencing data

Jiaxin Fan, Xuran Wang, Rui Xiao, Mingyao Li

PLOS Genetics: published March 4, 2021 | https://doi.org/10.1371/journal.pgen.1009080

miRNA-mediated loss of m⁶A increases nascent translation in glioblastoma

John P. Zepecki, David Karambizi, J. Eduardo Fajardo, Kristin M. Snyder, Charlotte Guetta-Terrier, Oliver Y. Tang, Jia-Shu Chen, Atom Sarkar, Andras Fiser, Steven A. Toms, Nikos Tapinos

PLOS Genetics: published March 8, 2021 | https://doi.org/10.1371/journal.pgen.1009086

The haplolethality paradox of the wupA gene in Drosophila

Sergio Casas-Tintó, Alberto Ferrús

PLOS Genetics: published March 19, 2021 | https://doi.org/10.1371/journal.pgen.1009108

Independent domains for recruitment of PRC1 and PRC2 by human XIST

Thomas Dixon-McDougall, Carolyn J. Brown

PLOS Genetics: published March 22, 2021 | https://doi.org/10.1371/journal.pgen.1009123

Synaptonemal Complex dimerization regulates chromosome alignment and crossover patterning in meiosis

Spencer G. Gordon, Lisa E. Kursel, Kewei Xu, Ofer Rog

PLOS Genetics: published March 17, 2021 | https://doi.org/10.1371/journal.pgen.1009205

Short-range template switching in great ape genomes explored using pair hidden Markov models

Conor R. Walker, Aylwyn Scally, Nicola De Maio, Nick Goldman

PLOS Genetics: published March 2, 2021 | https://doi.org/10.1371/journal.pgen.1009221

Genome-wide association meta-analysis identifies pleiotropic risk loci for aerodigestive squamous cell cancers

Corina Lesseur, Aida Ferreiro-Iglesias, James D. McKay, Yohan Bossé, Mattias Johansson, Valerie Gaborieau, Maria Teresa Landi, David C. Christiani, Neil C. Caporaso, Stig E. Bojesen, Christopher I. Amos, Sanjay Shete, Geoffrey Liu, Gadi Rennert, Demetrius Albanes, Melinda C. Aldrich, Adonina Tardon, Chu Chen, Liloglou Triantafillos, John K. Field, Marion Dawn Teare, Lambertus A. Kiemeney, Brenda Diergaarde, Robert L. Ferris, Shanbeh Zienolddiny, Stephen Lam, Andrew F. Olshan, Mark C. Weissler, Martin Lacko, Angela Risch, Heike Bickeböller, Andy R. Ness, Steve Thomas, Loic Le Marchand, Matthew B. Schabath, Victor Wünsch-Filho, Eloiza H. Tajara, Angeline S. Andrew, Gary M. Clifford, Philip Lazarus, Kjell Grankvist, Mikael Johansson, Susanne Arnold, Olle Melander, Hans Brunnström, Stefania Boccia, Gabriella Cadoni, Wim Timens, Ma’en Obeidat, Xiangjun Xiao, Richard S. Houlston, Rayjean J. Hung, Paul Brennan

PLOS Genetics: published March 5, 2021 | https://doi.org/10.1371/journal.pgen.1009254

Mechanism and consequences of herpes simplex virus 1-mediated regulation of host mRNA alternative polyadenylation

Xiuye Wang, Liang Liu, Adam W. Whisnant, Thomas Hennig, Lara Djakovic, Nabila Haque, Cindy Bach, Rozanne M. Sandri-Goldin, Florian Erhard, Caroline C. Friedel, Lars Dölken, Yongsheng Shi

PLOS Genetics: published March 8, 2021 | https://doi.org/10.1371/journal.pgen.1009263

DNA polymerase theta suppresses mitotic crossing over

Juan Carvajal-Garcia, K. Nicole Crown, Dale A. Ramsden, Jeff Sekelsky

PLOS Genetics: published March 22, 2021 | https://doi.org/10.1371/journal.pgen.1009267

Double drives and private alleles for localised population genetic control

Katie Willis, Austin Burt

PLOS Genetics: published March 23, 2021 | https://doi.org/10.1371/journal.pgen.1009333

Changes in the fine-scale genetic structure of Finland through the 20^th century

Sini Kerminen, Nicola Cerioli, Darius Pacauskas, Aki S. Havulinna, Markus Perola, Pekka Jousilahti, Veikko Salomaa, Mark J. Daly, Rupesh Vyas, Samuli Ripatti, Matti Pirinen

PLOS Genetics: published March 4, 2021 | https://doi.org/10.1371/journal.pgen.1009347

Integrative genomic analysis of early neurogenesis reveals a temporal genetic program for differentiation and specification of preplate and Cajal-Retzius neurons

Jia Li, Lei Sun, Xue-Liang Peng, Xiao-Ming Yu, Shao-Jun Qi, Zhi John Lu, Jing-Dong J. Han, Qin Shen

PLOS Genetics: published March 24, 2021 | https://doi.org/10.1371/journal.pgen.1009355

Neuronal SKN-1B modulates nutritional signalling pathways and mitochondrial networks to control satiety

Nikolaos Tataridas-Pallas, Maximillian A. Thompson, Alexander Howard, Ian Brown, Marina Ezcurra, Ziyun Wu, Isabel Goncalves Silva, Christopher D. Saunter, Timo Kuerten, David Weinkove, T. Keith Blackwell, Jennifer M. A. Tullet

PLOS Genetics: published March 4, 2021 | https://doi.org/10.1371/journal.pgen.1009358

TOR functions as a molecular switch connecting an iron cue with host innate defense against bacterial infection

Yi-Cheng Ma, Li-Li Dai, Bei-Bei Qiu, Ying Zhou, Yu-Qiang Zhao, Yu Ran, Ke-Qin Zhang, Cheng-Gang Zou

PLOS Genetics: published March 3, 2021 | https://doi.org/10.1371/journal.pgen.1009383

Ccdc113/Ccdc96 complex, a novel regulator of ciliary beating that connects radial spoke 3 to dynein g and the nexin link

Rafał Bazan, Adam Schröfel, Ewa Joachimiak, Martyna Poprzeczko, Gaia Pigino, Dorota Wloga

PLOS Genetics: published March 4, 2021 | https://doi.org/10.1371/journal.pgen.1009388

Gene disruption by structural mutations drives selection in US rice breeding over the last century

Justin N. Vaughn, Walid Korani, Joshua C. Stein, Jeremy D. Edwards, Daniel G. Peterson, Sheron A. Simpson, Ramey C. Youngblood, Jane Grimwood, Kapeel Chougule, Doreen H. Ware, Anna M. McClung, Brian E. Scheffler

PLOS Genetics: published March 18, 2021 | https://doi.org/10.1371/journal.pgen.1009389

Genome-wide association study of resistance to Mycobacterium tuberculosis infection identifies a locus at 10q26.2 in three distinct populations

Jocelyn Quistrebert, Marianna Orlova, Gaspard Kerner, Le Thi Ton, Nguyễn Trong Luong, Nguyễn Thanh Danh, Quentin B. Vincent, Fabienne Jabot-Hanin, Yoann Seeleuthner, Jacinta Bustamante, Stéphanie Boisson-Dupuis, Nguyen Thu Huong, Nguyen Ngoc Ba, Jean-Laurent Casanova, Christophe Delacourt, Eileen G. Hoal, Alexandre Alcaïs, Vu Hong Thai, Lai The Thành, Laurent Abel, Erwin Schurr, Aurélie Cobat

PLOS Genetics: published March 4, 2021 | https://doi.org/10.1371/journal.pgen.1009392

MOSTWAS: Multi-Omic Strategies for Transcriptome-Wide Association Studies

Arjun Bhattacharya, Yun Li, Michael I. Love

PLOS Genetics: published March 8, 2021 | https://doi.org/10.1371/journal.pgen.1009398

NCK-associated protein 1 like (nckap1l) minor splice variant regulates intrahepatic biliary network morphogenesis

Kimia Ghaffari, Lain X. Pierce, Maria Roufaeil, Isabel Gibson, Kevin Tae, Saswat Sahoo, James R. Cantrell, Olov Andersson, Jasmine Lau, Takuya F. Sakaguchi

PLOS Genetics: published March 19, 2021 | https://doi.org/10.1371/journal.pgen.1009402

Changes in both trans- and cis-regulatory elements mediate insecticide resistance in a lepidopteron pest, Spodoptera exigua

Bo Hu, He Huang, Songzhu Hu, Miaomiao Ren, Qi Wei, Xiangrui Tian, Mohammed Esmail Abdalla Elzaki, Chris Bass, Jianya Su, Subba Reddy Palli

PLOS Genetics: published March 9, 2021 | https://doi.org/10.1371/journal.pgen.1009403

DEAD-box RNA helicase Dbp4/DDX10 is an enhancer of α-synuclein toxicity and oligomerization

Blagovesta Popova, Dan Wang, Christina Pätz, Dagmar Akkermann, Diana F. Lázaro, Dajana Galka, Miriam Kolog Gulko, Markus T. Bohnsack, Wiebke Möbius, Katherine E. Bohnsack, Tiago F. Outeiro, Gerhard H. Braus

PLOS Genetics: published March 3, 2021 | https://doi.org/10.1371/journal.pgen.1009407

Widespread misregulation of inter-species hybrid transcriptomes due to sex-specific and sex-chromosome regulatory evolution

Santiago Sánchez-Ramírez, Jörg G. Weiss, Cristel G. Thomas, Asher D. Cutter

PLOS Genetics: published March 5, 2021 | https://doi.org/10.1371/journal.pgen.1009409

AKT-dependent signaling of extracellular cues through telomeres impact on tumorigenesis

Raúl Sánchez-Vázquez, Paula Martínez, Maria A. Blasco

PLOS Genetics: published March 9, 2021 | https://doi.org/10.1371/journal.pgen.1009410

Deleterious mutation accumulation and the long-term fate of chromosomal inversions

Emma L. Berdan, Alexandre Blanckaert, Roger K. Butlin, Claudia Bank

PLOS Genetics: published March 4, 2021 | https://doi.org/10.1371/journal.pgen.1009411

Paternal genetic variants and risk of obstructive heart defects: A parent-of-origin approach

Jenil Patel, Emine Bircan, Xinyu Tang, Mohammed Orloff, Charlotte A. Hobbs, Marilyn L. Browne, Lorenzo D. Botto, Richard H. Finnell, Mary M. Jenkins, Andrew Olshan, Paul A. Romitti, Gary M. Shaw, Martha M. Werler, Jingyun Li, Wendy N. Nembhard, the National Birth Defects Prevention Study

PLOS Genetics: published March 8, 2021 | https://doi.org/10.1371/journal.pgen.1009413

Indole-3-acetic acid is a physiological inhibitor of TORC1 in yeast

Raffaele Nicastro, Serena Raucci, Agnès H. Michel, Michael Stumpe, Guillermo Miguel Garcia Osuna, Malika Jaquenoud, Benoît Kornmann, Claudio De Virgilio

PLOS Genetics: published March 9, 2021 | https://doi.org/10.1371/journal.pgen.1009414

Reduction of WDR81 impairs autophagic clearance of aggregated proteins and cell viability in neurodegenerative phenotypes

Xuezhao Liu, Limin Yin, Tianyou Li, Lingxi Lin, Jie Zhang, Yang Li

PLOS Genetics: published March 17, 2021 | https://doi.org/10.1371/journal.pgen.1009415

Stability of the cytosine methylome during post-testicular sperm maturation in mouse

Carolina Galan, Ryan W. Serra, Fengyun Sun, Vera D. Rinaldi, Colin C. Conine, Oliver J. Rando

PLOS Genetics: published March 4, 2021 | https://doi.org/10.1371/journal.pgen.1009416

A neuroendocrine pathway modulating osmotic stress in Drosophila

Meet Zandawala, Thomas Nguyen, Marta Balanyà Segura, Helena A. D. Johard, Mirjam Amcoff, Christian Wegener, Jean-Paul Paluzzi, Dick R. Nässel

PLOS Genetics: published March 8, 2021 | https://doi.org/10.1371/journal.pgen.1009425

A transcription-centric model of SNP-age interaction

Kun Wang, Mahashweta Basu, Justin Malin, Sridhar Hannenhalli

PLOS Genetics: published March 26, 2021 | https://doi.org/10.1371/journal.pgen.1009427

A loss-of-function mutation in RORB disrupts saltatorial locomotion in rabbits

Miguel Carneiro, Jennifer Vieillard, Pedro Andrade, Samuel Boucher, Sandra Afonso, José A. Blanco-Aguiar, Nuno Santos, João Branco, Pedro J. Esteves, Nuno Ferrand, Klas Kullander, Leif Andersson

PLOS Genetics: published March 25, 2021 | https://doi.org/10.1371/journal.pgen.1009429

Genome-wide association study of fish oil supplementation on lipid traits in 81,246 individuals reveals new gene-diet interaction loci

Michael Francis, Changwei Li, Yitang Sun, Jingqi Zhou, Xiang Li, J. Thomas Brenna, Kaixiong Ye

PLOS Genetics: published March 24, 2021 | https://doi.org/10.1371/journal.pgen.1009431

Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

Satish Adhikari, Ivan Erill, Patrick D. Curtis

PLOS Genetics: published March 11, 2021 | https://doi.org/10.1371/journal.pgen.1009433

The velvet protein Vel1 controls initial plant root colonization and conidia formation for xylem distribution in Verticillium wilt

Annalena M. Höfer, Rebekka Harting, Nils F. Aßmann, Jennifer Gerke, Kerstin Schmitt, Jessica Starke, Özgür Bayram, Van-Tuan Tran, Oliver Valerius, Susanna A. Braus-Stromeyer, Gerhard H. Braus

PLOS Genetics: published March 15, 2021 | https://doi.org/10.1371/journal.pgen.1009434

A cohesin cancer mutation reveals a role for the hinge domain in genome organization and gene expression

Zachary M. Carico, Holden C. Stefan, Megan Justice, Askar Yimit, Jill M. Dowen

PLOS Genetics: published March 24, 2021 | https://doi.org/10.1371/journal.pgen.1009435

The microcephaly gene Donson is essential for progenitors of cortical glutamatergic and GABAergic neurons

Sathish Venkataramanappa, Dagmar Schütz, Friederike Saaber, Praveen Ashok Kumar, Philipp Abe, Stefan Schulz, Ralf Stumm

PLOS Genetics: published March 19, 2021 | https://doi.org/10.1371/journal.pgen.1009441

Behavior of dicentric chromosomes in budding yeast

Diana Cook, Sarah Long, John Stanton, Patrick Cusick, Colleen Lawrimore, Elaine Yeh, Sarah Grant, Kerry Bloom

PLOS Genetics: published March 18, 2021 | https://doi.org/10.1371/journal.pgen.1009442

Assessing the co-variability of DNA methylation across peripheral cells and tissues: Implications for the interpretation of findings in epigenetic epidemiology

Eilis Hannon, Georgina Mansell, Emma Walker, Marta F. Nabais, Joe Burrage, Agnieszka Kepa, Janis Best-Lane, Anna Rose, Suzanne Heck, Terrie E. Moffitt, Avshalom Caspi, Louise Arseneault, Jonathan Mill

PLOS Genetics: published March 19, 2021 | https://doi.org/10.1371/journal.pgen.1009443

Polyploidy-associated paramutation in Arabidopsis is determined by small RNAs, temperature, and allele structure

Heinrich Bente, Andrea M. Foerster, Nicole Lettner, Ortrun Mittelsten Scheid

PLOS Genetics: published March 9, 2021 | https://doi.org/10.1371/journal.pgen.1009444

Characterization of C9orf72 haplotypes to evaluate the effects of normal and pathological variations on its expression and splicing

Israel Ben-Dor, Crystal Pacut, Yuval Nevo, Eva L. Feldman, Benjamin E. Reubinoff

PLOS Genetics: published March 29, 2021 | https://doi.org/10.1371/journal.pgen.1009445

Critical role of the BAF chromatin remodeling complex during murine neural crest development

Kathleen Wung Bi-Lin, Pratap Veerabrahma Seshachalam, Tran Tuoc, Anastassia Stoykova, Sujoy Ghosh, Manvendra K. Singh

PLOS Genetics: published March 22, 2021 | https://doi.org/10.1371/journal.pgen.1009446

Recent loss of the Dim2 DNA methyltransferase decreases mutation rate in repeats and changes evolutionary trajectory in a fungal pathogen

Mareike Möller, Michael Habig, Cécile Lorrain, Alice Feurtey, Janine Haueisen, Wagner C. Fagundes, Alireza Alizadeh, Michael Freitag, Eva H. Stukenbrock

PLOS Genetics: published March 22, 2021 | https://doi.org/10.1371/journal.pgen.1009448

Structure-function analysis of fission yeast cleavage and polyadenylation factor (CPF) subunit Ppn1 and its interactions with Dis2 and Swd22

Bradley Benjamin, Ana M. Sanchez, Angad Garg, Beate Schwer, Stewart Shuman

PLOS Genetics: published March 12, 2021 | https://doi.org/10.1371/journal.pgen.1009452

Neuropeptide F signaling regulates parasitoid-specific germline development and egg-laying in Drosophila

Madhumala K. Sadanandappa, Shivaprasad H. Sathyanarayana, Shu Kondo, Giovanni Bosco

PLOS Genetics: published March 26, 2021 | https://doi.org/10.1371/journal.pgen.1009456

Identification of MFRP and the secreted serine proteases PRSS56 and ADAMTS19 as part of a molecular network involved in ocular growth regulation

Swanand Koli, Cassandre Labelle-Dumais, Yin Zhao, Seyyedhassan Paylakhi, K. Saidas Nair

PLOS Genetics: published March 23, 2021 | https://doi.org/10.1371/journal.pgen.1009458

The long noncoding RNA FRILAIR regulates strawberry fruit ripening by functioning as a noncanonical target mimic

Yajun Tang, Zhipeng Qu, Jiajun Lei, Reqing He, David L. Adelson, Youlin Zhu, Zhenbiao Yang, Dong Wang

PLOS Genetics: published March 19, 2021 | https://doi.org/10.1371/journal.pgen.1009461

The etiology of Down syndrome: Maternal MCM9 polymorphisms increase risk of reduced recombination and nondisjunction of chromosome 21 during meiosis I within oocyte

Upamanyu Pal, Pinku Halder, Anirban Ray, Sumantra Sarkar, Supratim Datta, Papiya Ghosh, Sujay Ghosh

PLOS Genetics: published March 22, 2021 | https://doi.org/10.1371/journal.pgen.1009462

Analysis of the SNARE Stx8 recycling reveals that the retromer-sorting motif has undergone evolutionary divergence

Francisco Yanguas, M.-Henar Valdivieso

PLOS Genetics: published March 31, 2021 | https://doi.org/10.1371/journal.pgen.1009463

activin-2 is required for regeneration of polarity on the planarian anterior-posterior axis

Jennifer K. Cloutier, Conor L. McMann, Isaac M. Oderberg, Peter W. Reddien

PLOS Genetics: published March 29, 2021 | https://doi.org/10.1371/journal.pgen.1009466

The capacity of origins to load MCM establishes replication timing patterns

Livio Dukaj, Nicholas Rhind

PLOS Genetics: published March 25, 2021 | https://doi.org/10.1371/journal.pgen.1009467

Doublesex regulates fruitless expression to promote sexual dimorphism of the gonad stem cell niche

Hong Zhou, Cale Whitworth, Caitlin Pozmanter, Megan C. Neville, Mark Van Doren

PLOS Genetics: published March 31, 2021 | https://doi.org/10.1371/journal.pgen.1009468

Drivers of linkage disequilibrium across a species’ geographic range

Kay Lucek, Yvonne Willi

PLOS Genetics: published March 26, 2021 | https://doi.org/10.1371/journal.pgen.1009477

IKAROS is required for the measured response of NOTCH target genes upon external NOTCH signaling

Maud Lemarié, Stefania Bottardi, Lionel Mavoungou, Helen Pak, Eric Milot

PLOS Genetics: published March 26, 2021 | https://doi.org/10.1371/journal.pgen.1009478

Androgens regulate ovarian gene expression by balancing Ezh2-Jmjd3 mediated H3K27me3 dynamics

Sambit Roy, Binbin Huang, Niharika Sinha, Jianrong Wang, Aritro Sen

PLOS Genetics: published March 30, 2021 | https://doi.org/10.1371/journal.pgen.1009483

AMPK-dependent and -independent coordination of mitochondrial function and muscle fiber type by FNIP1

Liwei Xiao, Jing Liu, Zongchao Sun, Yujing Yin, Yan Mao, Dengqiu Xu, Lin Liu, Zhisheng Xu, Qiqi Guo, Chenyun Ding, Wanping Sun, Likun Yang, Zheng Zhou, Danxia Zhou, Tingting Fu, Wenjing Zhou, Yuangang Zhu, Xiao-Wei Chen, John Zhong Li, Shuai Chen, Xiaoduo Xie, Zhenji Gan

PLOS Genetics: published March 29, 2021 | https://doi.org/10.1371/journal.pgen.1009488

Distant activation of Notch signaling induces stem cell niche assembly

Andriy S. Yatsenko, Halyna R. Shcherbata

PLOS Genetics: published March 29, 2021 | https://doi.org/10.1371/journal.pgen.1009489

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Genetic pleiotropy in squamous cell carcinomas of the aerodigestive tract.

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