Substrate-specific effects of natural genetic variation on proteasome activity

Mahlon A. Collins, Randi Avery, Frank W. Albert

PLOS Genetics: published May 1, 2023 | https://doi.org/10.1371/journal.pgen.1010734

The MOV10 RNA helicase is a dosage-dependent host restriction factor for LINE1 retrotransposition in mice

Yongjuan Guan, Hongyan Gao, N. Adrian Leu, Anastassios Vourekas, Panagiotis Alexiou, Manolis Maragkakis, Zhenlong Kang, Zissimos Mourelatos, Guanxiang Liang, P. Jeremy Wang

PLOS Genetics: published May 1, 2023 | https://doi.org/10.1371/journal.pgen.1010566

Changes in locus wide repression underlie the evolution of Drosophila abdominal pigmentation

Iván D. Méndez-González, Thomas M. Williams, Mark Rebeiz

PLOS Genetics: published May 3, 2023 | https://doi.org/10.1371/journal.pgen.1010722

Structural variation underlies functional diversity at methyl salicylate loci in tomato

Manoj Sapkota, Lara Pereira, Yanbing Wang, Lei Zhang, Yasin Topcu, Denise Tieman, Esther van der Knaap

PLOS Genetics: published May 4, 2023 | https://doi.org/10.1371/journal.pgen.1010751

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Characterization of a pathway of genomic instability induced by R-loops and its regulation by topoisomerases in E. coli

Julien Brochu, Émilie Vlachos-Breton, Dina Irsenco, Marc Drolet

PLOS Genetics: published May 4, 2023 | https://doi.org/10.1371/journal.pgen.1010754

On the causes of gene-body methylation variation in Arabidopsis thaliana

Rahul Pisupati, Viktoria Nizhynska, Almudena Mollá Morales, Magnus Nordborg

PLOS Genetics: published May 4, 2023 | https://doi.org/10.1371/journal.pgen.1010728

Bacillus subtilis encodes a discrete flap endonuclease that cleaves RNA-DNA hybrids

Frances Caroline Lowder, Lyle A. Simmons

PLOS Genetics: published May 5, 2023 | https://doi.org/10.1371/journal.pgen.1010585

Genetic variation in chromatin state across multiple tissues in Drosophila melanogaster

Khoi Huynh, Brittny R. Smith, Stuart J. Macdonald, Anthony D. Long

PLOS Genetics: published May 5, 2023 | https://doi.org/10.1371/journal.pgen.1010439

XRN2 suppresses aberrant entry of tRNA trailers into argonaute in humans and Arabidopsis

Briana Wilson, Zhangli Su, Pankaj Kumar, Anindya Dutta

PLOS Genetics: published May 5, 2023 | https://doi.org/10.1371/journal.pgen.1010755

ZFP92, a KRAB domain zinc finger protein enriched in pancreatic islets, binds to B1/Alu SINE transposable elements and regulates retroelements and genes

Anna B. Osipovich, Karrie D. Dudek, Linh T. Trinh, Lily H. Kim, Shristi Shrestha, Jean-Philippe Cartailler, Mark A. Magnuson

PLOS Genetics: published May 8, 2023 | https://doi.org/10.1371/journal.pgen.1010729

EARLY FLOWERING 3 interactions with PHYTOCHROME B and PHOTOPERIOD1 are critical for the photoperiodic regulation of wheat heading time

Maria Alejandra Alvarez, Chengxia Li, Huiqiong Lin, Anna Joe, Mariana Padilla, Daniel P. Woods, Jorge Dubcovsky

PLOS Genetics: published May 10, 2023 | https://doi.org/10.1371/journal.pgen.1010655

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PHYTOCHROME C regulation of photoperiodic flowering via PHOTOPERIOD1 is mediated by EARLY FLOWERING 3 in Brachypodium distachyon

Daniel P. Woods, Weiya Li, Richard Sibout, Mingqin Shao, Debbie Laudencia-Chingcuanco, John P. Vogel, Jorge Dubcovsky, Richard M. Amasino

PLOS Genetics: published May 10, 2023 | https://doi.org/10.1371/journal.pgen.1010706

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TORC1 regulation of dendrite regrowth after pruning is linked to actin and exocytosis

Neeraja Sanal, Lorena Keding, Ulrike Gigengack, Esther Michalke, Sebastian Rumpf

PLOS Genetics: published May 11, 2023 | https://doi.org/10.1371/journal.pgen.1010526

Integration of a multi-omics stem cell differentiation dataset using a dynamical model

Patrick R. van den Berg, Noémie M. L. P. Bérenger-Currias, Bogdan Budnik, Nikolai Slavov, Stefan Semrau

PLOS Genetics: published May 11, 2023 | https://doi.org/10.1371/journal.pgen.1010744

The molecular mechanism for carbon catabolite repression of the chitin response in Vibrio cholerae

Virginia E. Green, Catherine A. Klancher, Shouji Yamamoto, Ankur B. Dalia

PLOS Genetics: published May 12, 2023 | https://doi.org/10.1371/journal.pgen.1010767

Hydrophobic cue-induced appressorium formation depends on MoSep1-mediated MoRgs7 phosphorylation and internalization in Magnaporthe oryzae

Jiayun Xu, Xinyu Liu, Wei Zhang, Wanzhen Feng, Muxing Liu, Leiyun Yang, Zhixiang Yang, Haifeng Zhang, Zhengguang Zhang, Ping Wang

PLOS Genetics: published May 15, 2023 | https://doi.org/10.1371/journal.pgen.1010748

Evolution, persistence, and host adaption of a gonococcal AMR plasmid that emerged in the pre-antibiotic era

Wearn-Xin Yee, Muhammad Yasir, A. Keith Turner, David J. Baker, Ana Cehovin, Christoph M. Tang

PLOS Genetics: published May 15, 2023 | https://doi.org/10.1371/journal.pgen.1010743

The bZIP transcription factor AREB3 mediates FT signalling and floral transition at the Arabidopsis shoot apical meristem

Damiano Martignago, Vítor da Silveira Falavigna, Alessandra Lombardi, He Gao, Paolo Korwin Kurkowski, Massimo Galbiati, Chiara Tonelli, George Coupland, Lucio Conti

PLOS Genetics: published May 15, 2023 | https://doi.org/10.1371/journal.pgen.1010766

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1. Correction: The bZIP transcription factor AREB3 mediates FT signalling and floral transition at the Arabidopsis shoot apical meristem

Regulation by cyclic di-GMP attenuates dynamics and enhances robustness of bimodal curli gene activation in Escherichia coli

Olga Lamprecht, Maryia Ratnikava, Paulina Jacek, Eugen Kaganovitch, Nina Buettner, Kirstin Fritz, Ina Biazruchka, Robin Köhler, Julian Pietsch, Victor Sourjik

PLOS Genetics: published May 15, 2023 | https://doi.org/10.1371/journal.pgen.1010750

Rab8, Rab11, and Rab35 coordinate lumen and cilia formation during zebrafish left-right organizer development

Abrar A. Aljiboury, Eric Ingram, Nikhila Krishnan, Favour Ononiwu, Debadrita Pal, Julie Manikas, Christopher Taveras, Nicole A. Hall, Jonah Da Silva, Judy Freshour, Heidi Hehnly

PLOS Genetics: published May 15, 2023 | https://doi.org/10.1371/journal.pgen.1010765

Paths to adaptation under fluctuating nitrogen starvation: The spectrum of adaptive mutations in Saccharomyces cerevisiae is shaped by retrotransposons and microhomology-mediated recombination

Michelle Hays, Katja Schwartz, Danica T. Schmidtke, Dimitra Aggeli, Gavin Sherlock

PLOS Genetics: published May 16, 2023 | https://doi.org/10.1371/journal.pgen.1010747

Changing course: Glucose starvation drives nuclear accumulation of Hexokinase 2 in S. cerevisiae

Mitchell A. Lesko, Dakshayini G. Chandrashekarappa, Eric M. Jordahl, Katherine G. Oppenheimer, Ray W. Bowman II, Chaowei Shang, Jacob D. Durrant, Martin C. Schmidt, Allyson F. O’Donnell

PLOS Genetics: published May 17, 2023 | https://doi.org/10.1371/journal.pgen.1010745

Combining Mendelian randomization and network deconvolution for inference of causal networks with GWAS summary data

Zhaotong Lin, Haoran Xue, Wei Pan

PLOS Genetics: published May 18, 2023 | https://doi.org/10.1371/journal.pgen.1010762

Functional screening of lysosomal storage disorder genes identifies modifiers of alpha-synuclein neurotoxicity

Meigen Yu, Hui Ye, Ruth B. De-Paula, Carl Grant Mangleburg, Timothy Wu, Tom V. Lee, Yarong Li, Duc Duong, Bridget Phillips, Carlos Cruchaga, Genevera I. Allen, Nicholas T. Seyfried, Ismael Al-Ramahi, Juan Botas, Joshua M. Shulman

PLOS Genetics: published May 18, 2023 | https://doi.org/10.1371/journal.pgen.1010760

Comprehensive mutational analysis of the checkpoint signaling function of Rpa1/Ssb1 in fission yeast

Yong-jie Xu, Sankhadip Bhadra, Alaa Taha A. Mahdi, Kamal Dev, Ilknur Yurtsever, Toru M. Nakamura

PLOS Genetics: published May 18, 2023 | https://doi.org/10.1371/journal.pgen.1010691

Functional analysis of three new alpha-thalassemia deletions involving MCS-R2 reveals the presence of an additional enhancer element in the 5’ boundary region

Serena Capasso, Giovanna Cardiero, Gennaro Musollino, Romeo Prezioso, Rosario Testa, Sabrina Dembech, Giulio Piluso, Vincenzo Nigro, F. Anna Digilio, Giuseppina Lacerra

PLOS Genetics: published May 22, 2023 | https://doi.org/10.1371/journal.pgen.1010727

Transcriptome-wide gene-gene interaction associations elucidate pathways and functional enrichment of complex traits

Luke M. Evans, Christopher H. Arehart, Andrew D. Grotzinger, Travis J. Mize, Maizy S. Brasher, Jerry A. Stitzel, Marissa A. Ehringer, Charles A. Hoeffer

PLOS Genetics: published May 22, 2023 | https://doi.org/10.1371/journal.pgen.1010693

Pbp1 associates with Puf3 and promotes translation of its target mRNAs involved in mitochondrial biogenesis

Floortje van de Poll, Benjamin M. Sutter, Michelle Grace Acoba, Daniel Caballero, Samira Jahangiri, Yu-San Yang, Chien-Der Lee, Benjamin P. Tu

PLOS Genetics: published May 22, 2023 | https://doi.org/10.1371/journal.pgen.1010774

Arabidopsis FIN219/JAR1 interacts with phytochrome A under far-red light and jasmonates in regulating hypocotyl elongation via a functional demand manner

Han-Wei Jiang, Kai-Chun Peng, Ting-Yu Hsu, Yen-Chang Chiou, Hsu-Liang Hsieh

PLOS Genetics: published May 22, 2023 | https://doi.org/10.1371/journal.pgen.1010779

Canonical correlation analysis for multi-omics: Application to cross-cohort analysis

Min-Zhi Jiang, François Aguet, Kristin Ardlie, Jiawen Chen, Elaine Cornell, Dan Cruz, Peter Durda, Stacey B. Gabriel, Robert E. Gerszten, Xiuqing Guo, Craig W. Johnson, Silva Kasela, Leslie A. Lange, Tuuli Lappalainen, Yongmei Liu, Alex P. Reiner, Josh Smith, Tamar Sofer, Kent D. Taylor, Russell P. Tracy, David J. VanDenBerg, James G. Wilson, Stephen S. Rich, Jerome I. Rotter, Michael I. Love, Laura M. Raffield, Yun Li, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Analysis Working Group

PLOS Genetics: published May 22, 2023 | https://doi.org/10.1371/journal.pgen.1010517

Taste and pheromonal inputs govern the regulation of time investment for mating by sexual experience in male Drosophila melanogaster

Seung Gee Lee, Dongyu Sun, Hongyu Miao, Zekun Wu, Changku Kang, Baraa Saad, Khoi-Nguyen Ha Nguyen, Adrian Guerra-Phalen, Dorothy Bui, Al-Hassan Abbas, Brian Trinh, Ashvent Malik, Mahdi Zeghal, Anne-Christine Auge, Md Ehteshamul Islam, Kyle Wong, Tiffany Stern, Elizabeth Lebedev, Thomas N. Sherratt, Woo Jae Kim

PLOS Genetics: published May 22, 2023 | https://doi.org/10.1371/journal.pgen.1010753

Hsp90 mutants with distinct defects provide novel insights into cochaperone regulation of the folding cycle

Rebecca Mercier, Danielle Yama, Paul LaPointe, Jill L. Johnson

PLOS Genetics: published May 25, 2023 | https://doi.org/10.1371/journal.pgen.1010772

Evolutionary trade-off and mutational bias could favor transcriptional over translational divergence within paralog pairs

Simon Aubé, Lou Nielly-Thibault, Christian R. Landry

PLOS Genetics: published May 26, 2023 | https://doi.org/10.1371/journal.pgen.1010756

Interacting bactofilins impact cell shape of the MreB-less multicellular Rhodomicrobium vannielii

Pia Richter, Brigitte Melzer, Frank D. Müller

PLOS Genetics: published May 31, 2023 | https://doi.org/10.1371/journal.pgen.1010788

Sex modifies the effect of genetic risk scores for polycystic ovary syndrome on metabolic phenotypes

Ky’Era V. Actkins, Genevieve Jean-Pierre, Melinda C. Aldrich, Digna R. Velez Edwards, Lea K. Davis

PLOS Genetics: published May 31, 2023 | https://doi.org/10.1371/journal.pgen.1010764

Correction: Suppression of class I compensated cell enlargement by xs2 mutation is mediated by salicylic acid signaling

Ushio Fujikura, Kazune Ezaki, Gorou Horiguchi, Mitsunori Seo, Yuri Kanno, Yuji Kamiya, Michael Lenhard, Hirokazu Tsukaya

PLOS Genetics: published May 19, 2023 | https://doi.org/10.1371/journal.pgen.1010775

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1. Suppression of class I compensated cell enlargement by xs2 mutation is mediated by salicylic acid signaling