Germline genome modification through novel political, ethical, and social lenses

Vicki Xafis, G. Owen Schaefer, Markus K. Labude, Yujia Zhu, Soren Holm, Roger Sik-Yin Foo, Poh San Lai, Ruth Chadwick

PLOS Genetics: published September 9, 2021 | https://doi.org/10.1371/journal.pgen.1009741

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Germline genome editing: Moratorium, hard law, or an informed adaptive consensus?

Terry Kaan, Vicki Xafis, G. Owen Schaefer, Yujia Zhu, Markus K. Labude, Ruth Chadwick

PLOS Genetics: published September 9, 2021 | https://doi.org/10.1371/journal.pgen.1009742

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Rhino breaks the deadlock in Drosophila testis

Anahi Molla Herman, Emilie Brasset

PLOS Genetics: published September 2, 2021 | https://doi.org/10.1371/journal.pgen.1009702

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Enhancers with cooperative Notch binding sites are more resistant to regulation by the Hairless co-repressor

Yi Kuang, Anna Pyo, Natanel Eafergan, Brittany Cain, Lisa M. Gutzwiller, Ofri Axelrod, Ellen K. Gagliani, Matthew T. Weirauch, Raphael Kopan, Rhett A. Kovall, David Sprinzak, Brian Gebelein

PLOS Genetics: published September 24, 2021 | https://doi.org/10.1371/journal.pgen.1009039

Region-specific H3K9me3 gain in aged somatic tissues in Caenorhabditis elegans

Cheng-Lin Li, Mintie Pu, Wenke Wang, Amaresh Chaturbedi, Felicity J. Emerson, Siu Sylvia Lee

PLOS Genetics: published September 10, 2021 | https://doi.org/10.1371/journal.pgen.1009432

A more accurate method for colocalisation analysis allowing for multiple causal variants

Chris Wallace

PLOS Genetics: published September 29, 2021 | https://doi.org/10.1371/journal.pgen.1009440

Dynamic neurogenomic responses to social interactions and dominance outcomes in female paper wasps

Floria M. K. Uy, Christopher M. Jernigan, Natalie C. Zaba, Eshan Mehrotra, Sara E. Miller, Michael J. Sheehan

PLOS Genetics: published September 3, 2021 | https://doi.org/10.1371/journal.pgen.1009474

A signature of Neanderthal introgression on molecular mechanisms of environmental responses

Anthony S. Findley, Xinjun Zhang, Carly Boye, Yen Lung Lin, Cynthia A. Kalita, Luis Barreiro, Kirk E. Lohmueller, Roger Pique-Regi, Francesca Luca

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009493

The Candida glabrata Upc2A transcription factor is a global regulator of antifungal drug resistance pathways

Bao Gia Vu, Mark A. Stamnes, Yu Li, P. David Rogers, W. Scott Moye-Rowley

PLOS Genetics: published September 30, 2021 | https://doi.org/10.1371/journal.pgen.1009582

RDC complex executes a dynamic piRNA program during Drosophila spermatogenesis to safeguard male fertility

Peiwei Chen, Yicheng Luo, Alexei A. Aravin

PLOS Genetics: published September 2, 2021 | https://doi.org/10.1371/journal.pgen.1009591

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A functionally divergent intrinsically disordered region underlying the conservation of stochastic signaling

Ian S. Hsu, Bob Strome, Emma Lash, Nicole Robbins, Leah E. Cowen, Alan M. Moses

PLOS Genetics: published September 10, 2021 | https://doi.org/10.1371/journal.pgen.1009629

On cross-ancestry cancer polygenic risk scores

Lars G. Fritsche, Ying Ma, Daiwei Zhang, Maxwell Salvatore, Seunggeun Lee, Xiang Zhou, Bhramar Mukherjee

PLOS Genetics: published September 16, 2021 | https://doi.org/10.1371/journal.pgen.1009670

Reduction of Derlin activity suppresses Notch-dependent tumours in the C. elegans germ line

Ramya Singh, Ryan B. Smit, Xin Wang, Chris Wang, Hilary Racher, Dave Hansen

PLOS Genetics: published September 23, 2021 | https://doi.org/10.1371/journal.pgen.1009687

Chromosomal Mcm2-7 distribution and the genome replication program in species from yeast to humans

Eric J. Foss, Smitha Sripathy, Tonibelle Gatbonton-Schwager, Hyunchang Kwak, Adam H. Thiesen, Uyen Lao, Antonio Bedalov

PLOS Genetics: published September 2, 2021 | https://doi.org/10.1371/journal.pgen.1009714

Discovery of photosynthesis genes through whole-genome sequencing of acetate-requiring mutants of Chlamydomonas reinhardtii

Setsuko Wakao, Patrick M. Shih, Katharine Guan, Wendy Schackwitz, Joshua Ye, Dhruv Patel, Robert M. Shih, Rachel M. Dent, Mansi Chovatia, Aditi Sharma, Joel Martin, Chia-Lin Wei, Krishna K. Niyogi

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009725

The genetic consequences of dog breed formation—Accumulation of deleterious genetic variation and fixation of mutations associated with myxomatous mitral valve disease in cavalier King Charles spaniels

Erik Axelsson, Ingrid Ljungvall, Priyasma Bhoumik, Laura Bas Conn, Eva Muren, Åsa Ohlsson, Lisbeth Høier Olsen, Karolina Engdahl, Ragnvi Hagman, Jeanette Hanson, Dmytro Kryvokhyzha, Mats Pettersson, Olivier Grenet, Jonathan Moggs, Alberto Del Rio-Espinola, Christian Epe, Bruce Taillon, Nilesh Tawari, Shrinivas Mane, Troy Hawkins, Åke Hedhammar, Philippe Gruet, Jens Häggström, Kerstin Lindblad-Toh

PLOS Genetics: published September 2, 2021 | https://doi.org/10.1371/journal.pgen.1009726

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Identifying causal variants by fine mapping across multiple studies

Nathan LaPierre, Kodi Taraszka, Helen Huang, Rosemary He, Farhad Hormozdiari, Eleazar Eskin

PLOS Genetics: published September 20, 2021 | https://doi.org/10.1371/journal.pgen.1009733

Genes in human obesity loci are causal obesity genes in C. elegans

Wenfan Ke, Jordan N. Reed, Chenyu Yang, Noel Higgason, Leila Rayyan, Carolina Wählby, Anne E. Carpenter, Mete Civelek, Eyleen J. O’Rourke

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009736

Genome-wide methylation data improves dissection of the effect of smoking on body mass index

Carmen Amador, Yanni Zeng, Michael Barber, Rosie M. Walker, Archie Campbell, Andrew M. McIntosh, Kathryn L. Evans, David J. Porteous, Caroline Hayward, James F. Wilson, Pau Navarro, Chris S. Haley

PLOS Genetics: published September 9, 2021 | https://doi.org/10.1371/journal.pgen.1009750

Bracoviruses recruit host integrases for their integration into caterpillar’s genome

Zehua Wang, Xiqian Ye, Yuenan Zhou, Xiaotong Wu, Rongmin Hu, Jiachen Zhu, Ting Chen, Elisabeth Huguet, Min Shi, Jean-Michel Drezen, Jianhua Huang, Xuexin Chen

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009751

CSYseq: The first Y-chromosome sequencing tool typing a large number of Y-SNPs and Y-STRs to unravel worldwide human population genetics

Sofie Claerhout, Paulien Verstraete, Liesbeth Warnez, Simon Vanpaemel, Maarten Larmuseau, Ronny Decorte

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009758

Genomic anatomy of male-specific microchromosomes in a gynogenetic fish

Miao Ding, Xi-Yin Li, Zhi-Xuan Zhu, Jun-Hui Chen, Meng Lu, Qian Shi, Yang Wang, Zhi Li, Xin Zhao, Tao Wang, Wen-Xuan Du, Chun Miao, Tian-Zi Yao, Ming-Tao Wang, Xiao-Juan Zhang, Zhong-Wei Wang, Li Zhou, Jian-Fang Gui

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009760

The CovR regulatory network drives the evolution of Group B Streptococcus virulence

Maria-Vittoria Mazzuoli, Maëlle Daunesse, Hugo Varet, Isabelle Rosinski-Chupin, Rachel Legendre, Odile Sismeiro, Myriam Gominet, Pierre Alexandre Kaminski, Philippe Glaser, Claudia Chica, Patrick Trieu-Cuot, Arnaud Firon

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009761

Deficiency of Polη in Saccharomyces cerevisiae reveals the impact of transcription on damage-induced cohesion

Pei-Shang Wu, Jan Grosser, Donald P. Cameron, Laura Baranello, Lena Ström

PLOS Genetics: published September 9, 2021 | https://doi.org/10.1371/journal.pgen.1009763

Rare variants in the endocytic pathway are associated with Alzheimer’s disease, its related phenotypes, and functional consequences

Lingyu Zhan, Jiajin Li, Brandon Jew, Jae Hoon Sul

PLOS Genetics: published September 13, 2021 | https://doi.org/10.1371/journal.pgen.1009772

Transcriptional progression during meiotic prophase I reveals sex-specific features and X chromosome dynamics in human fetal female germline

Xueying Fan, Ioannis Moustakas, Vanessa Torrens-Juaneda, Qijing Lei, Geert Hamer, Leoni A. Louwe, Gonneke S. K. Pilgram, Karoly Szuhai, Roberto Matorras, Cristina Eguizabal, Lucette van der Westerlaken, Hailiang Mei, Susana M. Chuva de Sousa Lopes

PLOS Genetics: published September 9, 2021 | https://doi.org/10.1371/journal.pgen.1009773

A scalable Drosophila assay for clinical interpretation of human PTEN variants in suppression of PI3K/AKT induced cellular proliferation

Payel Ganguly, Landiso Madonsela, Jesse T. Chao, Christopher J. R. Loewen, Timothy P. O’Connor, Esther M. Verheyen, Douglas W. Allan

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009774

Dyrk1a gene dosage in glutamatergic neurons has key effects in cognitive deficits observed in mouse models of MRD7 and Down syndrome

Véronique Brault, Thu Lan Nguyen, Javier Flores-Gutiérrez, Giovanni Iacono, Marie-Christine Birling, Valérie Lalanne, Hamid Meziane, Antigoni Manousopoulou, Guillaume Pavlovic, Loïc Lindner, Mohammed Selloum, Tania Sorg, Eugene Yu, Spiros D. Garbis, Yann Hérault

PLOS Genetics: published September 29, 2021 | https://doi.org/10.1371/journal.pgen.1009777

IGSF11 is required for pericentric heterochromatin dissociation during meiotic diplotene

Bo Chen, Gengzhen Zhu, An Yan, Jing He, Yang Liu, Lin Li, Xuerui Yang, Chen Dong, Kehkooi Kee

PLOS Genetics: published September 7, 2021 | https://doi.org/10.1371/journal.pgen.1009778

A CENH3 mutation promotes meiotic exit and restores fertility in SMG7-deficient Arabidopsis

Claudio Capitao, Sorin Tanasa, Jaroslav Fulnecek, Vivek K. Raxwal, Svetlana Akimcheva, Petra Bulankova, Pavlina Mikulkova, Lucie Crhak Khaitova, Manikandan Kalidass, Inna Lermontova, Ortrun Mittelsten Scheid, Karel Riha

PLOS Genetics: published September 30, 2021 | https://doi.org/10.1371/journal.pgen.1009779

Mediator complex proximal Tail subunit MED30 is critical for Mediator core stability and cardiomyocyte transcriptional network

Changming Tan, Siting Zhu, Zee Chen, Canzhao Liu, Yang E. Li, Mason Zhu, Zhiyuan Zhang, Zhiwei Zhang, Lunfeng Zhang, Yusu Gu, Zhengyu Liang, Thomas G. Boyer, Kunfu Ouyang, Sylvia M. Evans, Xi Fang

PLOS Genetics: published September 10, 2021 | https://doi.org/10.1371/journal.pgen.1009785

A putative de novo evolved gene required for spermatid chromatin condensation in Drosophila melanogaster

Emily L. Rivard, Andrew G. Ludwig, Prajal H. Patel, Anna Grandchamp, Sarah E. Arnold, Alina Berger, Emilie M. Scott, Brendan J. Kelly, Grace C. Mascha, Erich Bornberg-Bauer, Geoffrey D. Findlay

PLOS Genetics: published September 3, 2021 | https://doi.org/10.1371/journal.pgen.1009787

Circadian regulation of the Drosophila astrocyte transcriptome

Samantha You, Alder M. Yu, Mary A. Roberts, Ivanna J. Joseph, F. Rob Jackson

PLOS Genetics: published September 20, 2021 | https://doi.org/10.1371/journal.pgen.1009790

A lipoprotein allosterically activates the CwlD amidase during Clostridioides difficile spore formation

Carolina Alves Feliciano, Brian E. Eckenroth, Oscar R. Diaz, Sylvie Doublié, Aimee Shen

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009791

Joint effects of genes underlying a temperature specialization tradeoff in yeast

Faisal AlZaben, Julie N. Chuong, Melanie B. Abrams, Rachel B. Brem

PLOS Genetics: published September 14, 2021 | https://doi.org/10.1371/journal.pgen.1009793

Deletion of lrrk2 causes early developmental abnormalities and age-dependent increase of monoamine catabolism in the zebrafish brain

Stefano Suzzi, Reiner Ahrendt, Stefan Hans, Svetlana A. Semenova, Avinash Chekuru, Paul Wirsching, Volker Kroehne, Saygın Bilican, Shady Sayed, Sylke Winkler, Sandra Spieß, Anja Machate, Jan Kaslin, Pertti Panula, Michael Brand

PLOS Genetics: published September 13, 2021 | https://doi.org/10.1371/journal.pgen.1009794

Drug resistance in diploid yeast is acquired through dominant alleles, haploinsufficiency, gene duplication and aneuploidy

Jordan B. Barney, Dakshayini G. Chandrashekarappa, Samantha R. Soncini, Martin C. Schmidt

PLOS Genetics: published September 23, 2021 | https://doi.org/10.1371/journal.pgen.1009800

Tramtrack acts during late pupal development to direct ant caste identity

Karl M. Glastad, Linyang Ju, Shelley L. Berger

PLOS Genetics: published September 22, 2021 | https://doi.org/10.1371/journal.pgen.1009801

Endothelial lipase mediates efficient lipolysis of triglyceride-rich lipoproteins

Sumeet A. Khetarpal, Cecilia Vitali, Michael G. Levin, Derek Klarin, Joseph Park, Akhil Pampana, John S. Millar, Takashi Kuwano, Dhavamani Sugasini, Papasani V. Subbaiah, Jeffrey T. Billheimer, Pradeep Natarajan, Daniel J. Rader

PLOS Genetics: published September 20, 2021 | https://doi.org/10.1371/journal.pgen.1009802

A biallelic SNIP1 Amish founder variant causes a recognizable neurodevelopmental disorder

Zineb Ammous, Lettie E. Rawlins, Hannah Jones, Joseph S. Leslie, Olivia Wenger, Ethan Scott, Jim Deline, Tom Herr, Rebecca Evans, Angela Scheid, Joanna Kennedy, Barry A. Chioza, Ryan M. Ames, Harold E. Cross, Erik G. Puffenberger, Lorna Harries, Emma L. Baple, Andrew H. Crosby

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009803

A broad analysis of splicing regulation in yeast using a large library of synthetic introns

Dvir Schirman, Zohar Yakhini, Yitzhak Pilpel, Orna Dahan

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009805

The chromatin remodeler Chd1 supports MRX and Exo1 functions in resection of DNA double-strand breaks

Marco Gnugnoli, Erika Casari, Maria Pia Longhese

PLOS Genetics: published September 14, 2021 | https://doi.org/10.1371/journal.pgen.1009807

A Bayesian network approach incorporating imputation of missing data enables exploratory analysis of complex causal biological relationships

Richard Howey, Alexander D. Clark, Najib Naamane, Louise N. Reynard, Arthur G. Pratt, Heather J. Cordell

PLOS Genetics: published September 29, 2021 | https://doi.org/10.1371/journal.pgen.1009811

Antagonistic relationship of NuA4 with the non-homologous end-joining machinery at DNA damage sites

Salar Ahmad, Valérie Côté, Xue Cheng, Gaëlle Bourriquen, Vasileia Sapountzi, Mohammed Altaf, Jacques Côté

PLOS Genetics: published September 20, 2021 | https://doi.org/10.1371/journal.pgen.1009816

Genomic population structure associated with repeated escape of Salmonella enterica ATCC14028s from the laboratory into nature

Mark Achtman, Frederik Van den Broeck, Kerry K. Cooper, Philippe Lemey, Craig T. Parker, Zhemin Zhou, the ATCC14028s Study Group

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009820

RiboRid: A low cost, advanced, and ultra-efficient method to remove ribosomal RNA for bacterial transcriptomics

Donghui Choe, Richard Szubin, Saugat Poudel, Anand Sastry, Yoseb Song, Yongjae Lee, Suhyung Cho, Bernhard Palsson, Byung-Kwan Cho

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009821

Mitochondrial dysfunction in adult midbrain dopamine neurons triggers an early immune response

Roberta Filograna, Seungmin Lee, Katarína Tiklová, Mara Mennuni, Viktor Jonsson, Markus Ringnér, Linda Gillberg, Elena Sopova, Oleg Shupliakov, Camilla Koolmeister, Lars Olson, Thomas Perlmann, Nils-Göran Larsson

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009822

Grhl3 promotes retention of epidermal cells under endocytic stress to maintain epidermal architecture in zebrafish

Mandar Phatak, Shruti Kulkarni, Lee B. Miles, Nazma Anjum, Sebastian Dworkin, Mahendra Sonawane

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009823

Dynamic sumoylation of promoter-bound general transcription factors facilitates transcription by RNA polymerase II

Mohammad S. Baig, Yimo Dou, Benjamin G. Bergey, Russell Bahar, Justin M. Burgener, Marjan Moallem, James B. McNeil, Akhi Akhter, Giovanni L. Burke, Veroni S. Sri Theivakadadcham, Patricia Richard, Damien D’Amours, Emanuel Rosonina

PLOS Genetics: published September 29, 2021 | https://doi.org/10.1371/journal.pgen.1009828

Quantifying bacterial evolution in the wild: A birthday problem for Campylobacter lineages

Jessica K. Calland, Ben Pascoe, Sion C. Bayliss, Evangelos Mourkas, Elvire Berthenet, Harry A. Thorpe, Matthew D. Hitchings, Edward J. Feil, Jukka Corander, Martin J. Blaser, Daniel Falush, Samuel K. Sheppard

PLOS Genetics: published September 28, 2021 | https://doi.org/10.1371/journal.pgen.1009829

Allele frequency divergence reveals ubiquitous influence of positive selection in Drosophila

Jason Bertram

PLOS Genetics: published September 30, 2021 | https://doi.org/10.1371/journal.pgen.1009833

Correction: Integrative analysis of genomic variants reveals new associations of candidate haploinsufficient genes with congenital heart disease

Enrique Audain, Anna Wilsdon, Jeroen Breckpot, Jose M. G. Izarzugaza, Tomas W. Fitzgerald, Anne-Karin Kahlert, Alejandro Sifrim, Florian Wünnemann, Yasset Perez-Riverol, Hashim Abdul-Khaliq, Mads Bak, Anne S. Bassett, D. Woodrow Benson, Felix Berger, Ingo Daehnert, Koenraad Devriendt, Sven Dittrich, Piers EF Daubeney, Vidu Garg, Karl Hackmann, Kirstin Hoff, Philipp Hofmann, Gregor Dombrowsky, Thomas Pickardt, Ulrike Bauer, Bernard D. Keavney, Sabine Klaassen, Hans-Heiner Kramer, Christian R. Marshall, Dianna M. Milewicz, Scott Lemaire, Joseph S. Coselli, Michael E. Mitchell, Aoy Tomita-Mitchell, Siddharth K. Prakash, Karl Stamm, Alexandre F. R. Stewart, Candice K. Silversides, Reiner Siebert, Brigitte Stiller, Jill A. Rosenfeld, Inga Vater, Alex V. Postma, Almuth Caliebe, J. David Brook, Gregor Andelfinger, Matthew E. Hurles, Bernard Thienpont, Lars Allan Larsen, Marc-Phillip Hitz

PLOS Genetics: published September 21, 2021 | https://doi.org/10.1371/journal.pgen.1009809

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Correction: Variation and selection on codon usage bias across an entire subphylum

Abigail L. LaBella, Dana A. Opulente, Jacob L. Steenwyk, Chris Todd Hittinger, Antonis Rokas

PLOS Genetics: published September 27, 2021 | https://doi.org/10.1371/journal.pgen.1009824

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Correction: Incomplete dominance of deleterious alleles contributes substantially to trait variation and heterosis in maize

Jinliang Yang, Sofiane Mezmouk, Andy Baumgarten, Edward S. Buckler, Katherine E. Guill, Michael D. McMullen, Rita H. Mumm, Jeffrey Ross-Ibarra

PLOS Genetics: published September 28, 2021 | https://doi.org/10.1371/journal.pgen.1009825

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The Triangulation WIthin a STudy (TWIST) framework for causal inference within pharmacogenetic research

Jack Bowden, Luke C Pilling, Deniz Türkmen, Chia-Ling Kuo, David Melzer

PLOS Genetics: published September 8, 2021 | https://doi.org/10.1371/journal.pgen.1009783