July 2023

A female Hydractinia symbiolongicarpus colony affixed on a glass slide, with tentacled feeding polyps extending outward into the foreground, and sexual polyps bearing pink gonophore clusters near the base. Owing to the ease with which they spawn, Hydractinia are an emerging cnidarian model to investigate early embryonic development. See Ayers et al. Download July's cover page.

Image Credit: Matthew Nicotra

Review

Building the synaptonemal complex: Molecular interactions between the axis and the central region

Spencer G. Gordon, Ofer Rog

PLOS Genetics: published July 20, 2023 | https://doi.org/10.1371/journal.pgen.1010822

Research Articles

Thousands of Pristionchus pacificus orphan genes were integrated into developmental networks that respond to diverse environmental microbiota

Marina Athanasouli, Nermin Akduman, Waltraud Röseler, Penghieng Theam, Christian Rödelsperger

PLOS Genetics: published July 3, 2023 | https://doi.org/10.1371/journal.pgen.1010832

Wolfram syndrome 1 regulates sleep in dopamine receptor neurons by modulating calcium homeostasis

Huanfeng Hao, Li Song, Luoying Zhang

PLOS Genetics: published July 3, 2023 | https://doi.org/10.1371/journal.pgen.1010827

Yeast NDI1 reconfigures neuronal metabolism and prevents the unfolded protein response in mitochondrial complex I deficiency

Lucy Granat, Debbra Y. Knorr, Daniel C. Ranson, Emma L. Hamer, Ram Prosad Chakrabarty, Francesca Mattedi, Laura Fort-Aznar, Frank Hirth, Sean T. Sweeney, Alessio Vagnoni, Navdeep S. Chandel, Joseph M. Bateman

PLOS Genetics: published July 3, 2023 | https://doi.org/10.1371/journal.pgen.1010793

ZCCHC3 is a stress granule zinc knuckle protein that strongly suppresses LINE-1 retrotransposition

John L. Goodier, Han Wan, Alisha O. Soares, Laura Sanchez, John Michael Selser, Gavin C. Pereira, Sadik Karma, José Luis García-Pérez, Haig H. Kazazian Jr, Marta M. García Cañadas

PLOS Genetics: published July 5, 2023 | https://doi.org/10.1371/journal.pgen.1010795

A genetic tradeoff for tolerance to moderate and severe heat stress in US hybrid maize

Aaron Kusmec, Lakshmi Attigala, Xiongtao Dai, Srikant Srinivasan, Cheng-Ting “Eddy” Yeh, Patrick S. Schnable

PLOS Genetics: published July 6, 2023 | https://doi.org/10.1371/journal.pgen.1010799

PKA regulatory subunit Bcy1 couples growth, lipid metabolism, and fermentation during anaerobic xylose growth in Saccharomyces cerevisiae

Ellen R. Wagner, Nicole M. Nightingale, Annie Jen, Katherine A. Overmyer, Mick McGee, Joshua J. Coon, Audrey P. Gasch

PLOS Genetics: published July 6, 2023 | https://doi.org/10.1371/journal.pgen.1010593

Characterizing the landscape of gene expression variance in humans

Scott Wolf, Diogo Melo, Kristina M. Garske, Luisa F. Pallares, Amanda J. Lea, Julien F. Ayroles

PLOS Genetics: published July 6, 2023 | https://doi.org/10.1371/journal.pgen.1010833

The glutathione import system satisfies the Staphylococcus aureus nutrient sulfur requirement and promotes interspecies competition

Joshua M. Lensmire, Michael R. Wischer, Cristina Kraemer-Zimpel, Paige J. Kies, Lo Sosinski, Elliot Ensink, Jack P. Dodson, John C. Shook, Phillip C. Delekta, Christopher C. Cooper, Daniel H. Havlichek Jr., Martha H. Mulks, Sophia Y. Lunt, Janani Ravi, Neal D. Hammer

PLOS Genetics: published July 7, 2023 | https://doi.org/10.1371/journal.pgen.1010834

Perturbation of protein homeostasis brings plastids at the crossroad between repair and dismantling

Luca Tadini, Nicolaj Jeran, Guido Domingo, Federico Zambelli, Simona Masiero, Anna Calabritto, Elena Costantini, Sara Forlani, Milena Marsoni, Federica Briani, Candida Vannini, Paolo Pesaresi

PLOS Genetics: published July 7, 2023 | https://doi.org/10.1371/journal.pgen.1010344

Two RNA binding proteins, ADAD2 and RNF17, interact to form a heterogeneous population of novel meiotic germ cell granules with developmentally dependent organelle association

Lauren G. Chukrallah, Sarah Potgieter, Lisa Chueh, Elizabeth M. Snyder

PLOS Genetics: published July 10, 2023 | https://doi.org/10.1371/journal.pgen.1010519

The oxidative stress response, in particular the katY gene, is temperature-regulated in Yersinia pseudotuberculosis

Daniel Scheller, Franziska Becker, Andrea Wimbert, Dominik Meggers, Stephan Pienkoß, Christian Twittenhoff, Lisa R. Knoke, Lars I. Leichert, Franz Narberhaus

PLOS Genetics: published July 10, 2023 | https://doi.org/10.1371/journal.pgen.1010669

Nuclear elongation during spermiogenesis depends on physical linkage of nuclear pore complexes to bundled microtubules by Drosophila Mst27D

Pengfei Li, Giovanni Messina, Christian F. Lehner

PLOS Genetics: published July 10, 2023 | https://doi.org/10.1371/journal.pgen.1010837

Loss of STING in parkin mutant flies suppresses muscle defects and mitochondria damage

Andrew T. Moehlman, Gil Kanfer, Richard J. Youle

PLOS Genetics: published July 13, 2023 | https://doi.org/10.1371/journal.pgen.1010828

Parallels and contrasts between the cnidarian and bilaterian maternal-to-zygotic transition are revealed in Hydractinia embryos

Taylor N. Ayers, Matthew L. Nicotra, Miler T. Lee

PLOS Genetics: published July 13, 2023 | https://doi.org/10.1371/journal.pgen.1010845

Combined genome-wide association study of 136 quantitative ear morphology traits in multiple populations reveal 8 novel loci

Yi Li, Ziyi Xiong, Manfei Zhang, Pirro G. Hysi, Yu Qian, Kaustubh Adhikari, Jun Weng, Sijie Wu, Siyuan Du, Rolando Gonzalez-Jose, Lavinia Schuler-Faccini, Maria-Catira Bortolini, Victor Acuna-Alonzo, Samuel Canizales-Quinteros, Carla Gallo, Giovanni Poletti, Gabriel Bedoya, Francisco Rothhammer, Jiucun Wang, Jingze Tan, Ziyu Yuan, Li Jin, André G. Uitterlinden, Mohsen Ghanbari, M. Arfan Ikram, Tamar Nijsten, Xiangyu Zhu, Zhen Lei, Peilin Jia, Andres Ruiz-Linares, Timothy D. Spector, Sijia Wang, Manfred Kayser, Fan Liu

PLOS Genetics: published July 17, 2023 | https://doi.org/10.1371/journal.pgen.1010786

UBQLN1 deficiency mediates telomere shortening and IPF through interacting with RPA1

Haoxian Zhou, Chen Xie, Yujie Xie, Yunru He, Yanlian Chen, Canfeng Zhang, Yan Zhang, Yong Zhao, Haiying Liu

PLOS Genetics: published July 18, 2023 | https://doi.org/10.1371/journal.pgen.1010856

A Van Gogh/Vangl tyrosine phosphorylation switch regulates its interaction with core Planar Cell Polarity factors Prickle and Dishevelled

Ashley C. Humphries, Claudia Molina-Pelayo, Parijat Sil, C. Clayton Hazelett, Danelle Devenport, Marek Mlodzik

PLOS Genetics: published July 18, 2023 | https://doi.org/10.1371/journal.pgen.1010849

Characterization of factors that underlie transcriptional silencing in C. elegans oocytes

Mezmur D. Belew, Emilie Chien, W. Matthew Michael

PLOS Genetics: published July 21, 2023 | https://doi.org/10.1371/journal.pgen.1010831

Identification of the nuclear localization signal in the Saccharomyces cerevisiae Pif1 DNA helicase

Rosemary S. Lee, Carly L. Geronimo, Liping Liu, Jerzy M. Twarowski, Anna Malkova, Virginia A. Zakian

PLOS Genetics: published July 24, 2023 | https://doi.org/10.1371/journal.pgen.1010853

Organization and replicon interactions within the highly segmented genome of Borrelia burgdorferi

Zhongqing Ren, Constantin N. Takacs, Hugo B. Brandão, Christine Jacobs-Wagner, Xindan Wang

PLOS Genetics: published July 26, 2023 | https://doi.org/10.1371/journal.pgen.1010857

A novel nematode species from the Siberian permafrost shares adaptive mechanisms for cryptobiotic survival with C. elegans dauer larva

Anastasia Shatilovich, Vamshidhar R. Gade, Martin Pippel, Tarja T. Hoffmeyer, Alexei V. Tchesunov, Lewis Stevens, Sylke Winkler, Graham M. Hughes, Sofia Traikov, Michael Hiller, Elizaveta Rivkina, Philipp H. Schiffer, Eugene W. Myers, Teymuras V. Kurzchalia

PLOS Genetics: published July 27, 2023 | https://doi.org/10.1371/journal.pgen.1010798

Feature architecture aware phylogenetic profiling indicates a functional diversification of type IVa pili in the nosocomial pathogen Acinetobacter baumannii

Ruben Iruegas, Katharina Pfefferle, Stephan Göttig, Beate Averhoff, Ingo Ebersberger

PLOS Genetics: published July 27, 2023 | https://doi.org/10.1371/journal.pgen.1010646

DHX38 restricts chemoresistance by regulating the alternative pre-mRNA splicing of RELL2 in pancreatic ductal adenocarcinoma

Zeru Li, Cheng Qin, Bangbo Zhao, Yuanyang Wang, Tianyu Li, Yutong Zhao, Weibin Wang

PLOS Genetics: published July 28, 2023 | https://doi.org/10.1371/journal.pgen.1010847

Lipidomic QTL in Diversity Outbred mice identifies a novel function for α/β hydrolase domain 2 (Abhd2) as an enzyme that metabolizes phosphatidylcholine and cardiolipin

Tara R. Price, Donnie S. Stapleton, Kathryn L. Schueler, Marie K. Norris, Brian W. Parks, Brian S. Yandell, Gary A. Churchill, William L. Holland, Mark P. Keller, Alan D. Attie

PLOS Genetics: published July 31, 2023 | https://doi.org/10.1371/journal.pgen.1010713

Natural silencing of quorum-sensing activity protects Vibrio parahaemolyticus from lysis by an autoinducer-detecting phage

Olivia P. Duddy, Justin E. Silpe, Chenyi Fei, Bonnie L. Bassler

PLOS Genetics: published July 31, 2023 | https://doi.org/10.1371/journal.pgen.1010809

Arginine methyltransferases PRMT2 and PRMT3 are essential for biosynthesis of plant-polysaccharide-degrading enzymes in Penicillium oxalicum

Shuai Zhao, Li-Xiang Mo, Wen-Tong Li, Lian-Li Jiang, Yi-Yuan Meng, Jian-Feng Ou, Lu-Sheng Liao, Yu-Si Yan, Xue-Mei Luo, Jia-Xun Feng

PLOS Genetics: published July 31, 2023 | https://doi.org/10.1371/journal.pgen.1010867

Correction

Correction: Ploidy and recombination proficiency shape the evolutionary adaptation to constitutive DNA replication stress

Marco Fumasoni, Andrew W. Murray

PLOS Genetics: published July 28, 2023 | https://doi.org/10.1371/journal.pgen.1010864

Methods

Regularized sequence-context mutational trees capture variation in mutation rates across the human genome

Christopher J. Adams, Mitchell Conery, Benjamin J. Auerbach, Shane T. Jensen, Iain Mathieson, Benjamin F. Voight

PLOS Genetics: published July 7, 2023 | https://doi.org/10.1371/journal.pgen.1010807

A flexible empirical Bayes approach to multivariate multiple regression, and its improved accuracy in predicting multi-tissue gene expression from genotypes

Fabio Morgante, Peter Carbonetto, Gao Wang, Yuxin Zou, Abhishek Sarkar, Matthew Stephens

PLOS Genetics: published July 7, 2023 | https://doi.org/10.1371/journal.pgen.1010539

A statistical framework to identify cell types whose genetically regulated proportions are associated with complex diseases

Wei Liu, Wenxuan Deng, Ming Chen, Zihan Dong, Biqing Zhu, Zhaolong Yu, Daiwei Tang, Maor Sauler, Chen Lin, Louise V. Wain, Michael H. Cho, Naftali Kaminski, Hongyu Zhao

PLOS Genetics: published July 31, 2023 | https://doi.org/10.1371/journal.pgen.1010825

Cover

**Parallels and contrasts between the cnidarian and bilaterian maternal-to-zygotic transition are revealed in Hydractinia embryos**