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Table of Contents

April 2020

Meiotic recombination is initiated by generating DNA double-strand breaks (DSBs) via SPO11, a topoisomerase-related enzyme. The activity of SPO11 protein must be tightly regulated, given its potential threat to genome integrity. The surface-rendering image of a maize meiocyte shows that numerous SPO11-1 foci (green) are located within chromatin (blue) which is partially displayed, whereas only a small fraction of SPO11-1, correlating with DSB number, is loaded on DSY2-labeled chromosome axes (red). The analysis of maize spo11-1 mutants further suggests a possible SPO11-1-dependent mechanism which mediates conformational changes of meiotic chromosome axes. See Ku et al.

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Image Credit: Chiting Wang, Jeremy Catinot and Chung-Ju Rachel Wang.

Reviews

Is imprinting the result of “friendly fire” by the host defense system?

Miroslava Ondičová, Rebecca J. Oakey, Colum P. Walsh

Deconstructing cerebellar development cell by cell

Max J. van Essen, Samuel Nayler, Esther B. E. Becker, John Jacob

Research Articles

High expression in maize pollen correlates with genetic contributions to pollen fitness as well as with coordinated transcription from neighboring transposable elements

Cedar Warman, Kaushik Panda, Zuzana Vejlupkova, Sam Hokin, Erica Unger-Wallace, Rex A. Cole, Antony M. Chettoor, Duo Jiang, Erik Vollbrecht, Matthew M. S. Evans, R. Keith Slotkin, John E. Fowler

The nanophthalmos protein TMEM98 inhibits MYRF self-cleavage and is required for eye size specification

Sally H. Cross, Lisa Mckie, Toby W. Hurd, Sam Riley, Jimi Wills, Alun R. Barnard, Fiona Young, Robert E. MacLaren, Ian J. Jackson

The MAPK substrate MASS proteins regulate stomatal development in Arabidopsis

Xueyi Xue, Chao Bian, Xiaoyu Guo, Rong Di, Juan Dong

Loss-of-function tolerance of enhancers in the human genome

Duo Xu, Omer Gokcumen, Ekta Khurana

Is adaptation limited by mutation? A timescale-dependent effect of genetic diversity on the adaptive substitution rate in animals

Marjolaine Rousselle, Paul Simion, Marie-Ka Tilak, Emeric Figuet, Benoit Nabholz, Nicolas Galtier

Postglacial migration shaped the genomic diversity and global distribution of the wild ancestor of lager-brewing hybrids

Quinn K. Langdon, David Peris, Juan I. Eizaguirre, Dana A. Opulente, Kelly V. Buh, Kayla Sylvester, Martin Jarzyna, María E. Rodríguez, Christian A. Lopes, Diego Libkind, Chris Todd Hittinger

Fluorescence fluctuation analysis reveals PpV dependent Cdc25 protein dynamics in living embryos

Boyang Liu, Ingo Gregor, H.-Arno Müller, Jörg Großhans

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

O-linked β-N-acetylglucosamine transferase plays an essential role in heart development through regulating angiopoietin-1

Yongxin Mu, Houzhi Yu, Tongbin Wu, Jianlin Zhang, Sylvia M. Evans, Ju Chen

Pathological mechanism and antisense oligonucleotide-mediated rescue of a non-coding variant suppressing factor 9 RNA biogenesis leading to hemophilia B

Simon Krooss, Sonja Werwitzke, Johannes Kopp, Alice Rovai, Dirk Varnholt, Amelie S. Wachs, Aurelie Goyenvalle, Annemieke Aarstma-Rus, Michael Ott, Andreas Tiede, Jörg Langemeier, Jens Bohne

Molecular genetics of maternally-controlled cell divisions

Elliott W. Abrams, Ricardo Fuentes, Florence L. Marlow, Manami Kobayashi, Hong Zhang, Sumei Lu, Lee Kapp, Shai R. Joseph, Amy Kugath, Tripti Gupta, Virginia Lemon, Greg Runke, Amanda A. Amodeo, Nadine L. Vastenhouw, Mary C. Mullins

Loss of FOXM1 in macrophages promotes pulmonary fibrosis by activating p38 MAPK signaling pathway

Chinmayee Goda, David Balli, Markaisa Black, David Milewski, Tien Le, Vladimir Ustiyan, Xiaomeng Ren, Vladimir V. Kalinichenko, Tanya V. Kalin

The transcription and export complex THO/TREX contributes to transcription termination in plants

Ghazanfar Abbas Khan, Jules Deforges, Rodrigo S. Reis, Yi-Fang Hsieh, Jonatan Montpetit, Wojciech Antosz, Luca Santuari, Christian S. Hardtke, Klaus D. Grasser, Yves Poirier

C9orf72/ALFA-1 controls TFEB/HLH-30-dependent metabolism through dynamic regulation of Rag GTPases

Yon Ju Ji, Janet Ugolino, Tao Zhang, Jiayin Lu, Dohoon Kim, Jiou Wang

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

Conserved nuclear hormone receptors controlling a novel plastic trait target fast-evolving genes expressed in a single cell

Bogdan Sieriebriennikov, Shuai Sun, James W. Lightfoot, Hanh Witte, Eduardo Moreno, Christian Rödelsperger, Ralf J. Sommer

The plant mobile domain proteins MAIN and MAIL1 interact with the phosphatase PP7L to regulate gene expression and silence transposable elements in Arabidopsis thaliana

Melody Nicolau, Nathalie Picault, Julie Descombin, Yasaman Jami-Alahmadi, Suhua Feng, Etienne Bucher, Steven E. Jacobsen, Jean-Marc Deragon, James Wohlschlegel, Guillaume Moissiard

Loss of Cdc13 causes genome instability by a deficiency in replication-dependent telomere capping

Rachel E. Langston, Dominic Palazzola, Erin Bonnell, Raymund J. Wellinger, Ted Weinert

Variants encoding a restricted carboxy-terminal domain of SLC12A2 cause hereditary hearing loss in humans

Hideki Mutai, Koichiro Wasano, Yukihide Momozawa, Yoichiro Kamatani, Fuyuki Miya, Sawako Masuda, Noriko Morimoto, Kiyomitsu Nara, Satoe Takahashi, Tatsuhiko Tsunoda, Kazuaki Homma, Michiaki Kubo, Tatsuo Matsunaga

An integrated analysis of cell-type specific gene expression reveals genes regulated by REVOLUTA and KANADI1 in the Arabidopsis shoot apical meristem

Hasthi Ram, Sudeep Sahadevan, Nittaya Gale, Monica Pia Caggiano, Xiulian Yu, Carolyn Ohno, Marcus G. Heisler

Functional diversification of Paramecium Ku80 paralogs safeguards genome integrity during precise programmed DNA elimination

Arthur Abello, Vinciane Régnier, Olivier Arnaiz, Romain Le Bars, Mireille Bétermier, Julien Bischerour

Parallelism in eco-morphology and gene expression despite variable evolutionary and genomic backgrounds in a Holarctic fish

Arne Jacobs, Madeleine Carruthers, Andrey Yurchenko, Natalia V. Gordeeva, Sergey S. Alekseyev, Oliver Hooker, Jong S. Leong, David R. Minkley, Eric B. Rondeau, Ben F. Koop, Colin E. Adams, Kathryn R. Elmer

The Drosophila FUS ortholog cabeza promotes adult founder myoblast selection by Xrp1-dependent regulation of FGF signaling

Marica Catinozzi, Moushami Mallik, Marie Frickenhaus, Marije Been, Céline Sijlmans, Divita Kulshrestha, Ioannis Alexopoulos, Manuela Weitkunat, Frank Schnorrer, Erik Storkebaum

Discovery of novel hepatocyte eQTLs in African Americans

Yizhen Zhong, Tanima De, Cristina Alarcon, C. Sehwan Park, Bianca Lec, Minoli A. Perera

Dynamic localization of SPO11-1 and conformational changes of meiotic axial elements during recombination initiation of maize meiosis

Jia-Chi Ku, Arnaud Ronceret, Inna Golubovskaya, Ding Hua Lee, Chiting Wang, Ljudmilla Timofejeva, Yu-Hsin Kao, Ana Karen Gomez Angoa, Karl Kremling, Rosalind Williams-Carrier, Robert Meeley, Alice Barkan, W. Zacheus Cande, Chung-Ju Rachel Wang

The genomic landscape of undifferentiated embryonal sarcoma of the liver is typified by C19MC structural rearrangement and overexpression combined with TP53 mutation or loss

Bhuvana A. Setty, Goodwin G. Jinesh, Michael Arnold, Fredrik Pettersson, Chia-Ho Cheng, Ling Cen, Sean J. Yoder, Jamie K. Teer, Elsa R. Flores, Damon R. Reed, Andrew S. Brohl

Spastin mutations impair coordination between lipid droplet dispersion and reticulum

Yoan Arribat, Dogan Grepper, Sylviane Lagarrigue, Timothy Qi, Sarah Cohen, Francesca Amati

Drosophila NUAK functions with Starvin/BAG3 in autophagic protein turnover

David Brooks, Fawwaz Naeem, Marta Stetsiv, Samantha C. Goetting, Simranjot Bawa, Nicole Green, Cheryl Clark, Arash Bashirullah, Erika R. Geisbrecht

Inositol 1,4,5-trisphosphate receptors are essential for fetal-maternal connection and embryo viability

Feili Yang, Lei Huang, Alexandria Tso, Hong Wang, Li Cui, Lizhu Lin, Xiaohong Wang, Mingming Ren, Xi Fang, Jie Liu, Zhen Han, Ju Chen, Kunfu Ouyang

Ribosome binding protein GCN1 regulates the cell cycle and cell proliferation and is essential for the embryonic development of mice

Hiromi Yamazaki, Shuya Kasai, Junsei Mimura, Peng Ye, Atsushi Inose-Maruyama, Kunikazu Tanji, Koichi Wakabayashi, Seiya Mizuno, Fumihiro Sugiyama, Satoru Takahashi, Tsubasa Sato, Taku Ozaki, Douglas R. Cavener, Masayuki Yamamoto, Ken Itoh

The Drosophila actin nucleator DAAM is essential for left-right asymmetry

Anil Chougule, François Lapraz, István Földi, Delphine Cerezo, József Mihály, Stéphane Noselli

Integrative and quantitative view of the CtrA regulatory network in a stalked budding bacterium

Oliver Leicht, Muriel C. F. van Teeseling, Gaël Panis, Celine Reif, Heiko Wendt, Patrick H. Viollier, Martin Thanbichler

Targeting mitochondrial and cytosolic substrates of TRIT1 isopentenyltransferase: Specificity determinants and tRNA-i6A37 profiles

Abdul Khalique, Sandy Mattijssen, Alexander F. Haddad, Shereen Chaudhry, Richard J. Maraia

UNBRANCHED3 Expression and Inflorescence Development is Mediated by UNBRANCHED2 and the Distal Enhancer, KRN4, in Maize

Yanfang Du, Lei Liu, Yong Peng, Manfei Li, Yunfu Li, Dan Liu, Xingwang Li, Zuxin Zhang

Mutations in SPATA13/ASEF2 cause primary angle closure glaucoma

Naushin H. Waseem, Sancy Low, Amna Z. Shah, Deepa Avisetti, Pia Ostergaard, Michael Simpson, Katarzyna A. Niemiec, Belen Martin-Martin, Hebah Aldehlawi, Saima Usman, Pak Sang Lee, Anthony P. Khawaja, Jonathan B. Ruddle, Ameet Shah, Ege Sackey, Alexander Day, Yuzhen Jiang, Geoff Swinfield, Ananth Viswanathan, Giovanna Alfano, Christina Chakarova, Heather J. Cordell, David F. Garway-Heath, Peng T. Khaw, Shomi S. Bhattacharya, Ahmad Waseem, Paul J. Foster

Analysis of genes within the schizophrenia-linked 22q11.2 deletion identifies interaction of night owl/LZTR1 and NF1 in GABAergic sleep control

Gianna W. Maurer, Alina Malita, Stanislav Nagy, Takashi Koyama, Thomas M. Werge, Kenneth A. Halberg, Michael J. Texada, Kim Rewitz

Dynamic miRNA-mRNA interactions coordinate gene expression in adult Anopheles gambiae

Xiaonan Fu, Pengcheng Liu, George Dimopoulos, Jinsong Zhu

DNA methylation-mediated repression of exosomal miR-652-5p expression promotes oesophageal squamous cell carcinoma aggressiveness by targeting PARG and VEGF pathways

Peng Gao, Dan Wang, Meiyue Liu, Siyuan Chen, Zhao Yang, Jie Zhang, Huan Wang, Yi Niu, Wei Wang, Jilong Yang, Guogui Sun

The coordinate actions of calcineurin and Hog1 mediate the stress response through multiple nodes of the cell cycle network

Cassandra M. Leech, Mackenzie J. Flynn, Heather E. Arsenault, Jianhong Ou, Haibo Liu, Lihua Julie Zhu, Jennifer A. Benanti

Juvenile hormone suppresses aggregation behavior through influencing antennal gene expression in locusts

Wei Guo, Juan Song, Pengcheng Yang, Xiangyong Chen, Dafeng Chen, Dani Ren, Le Kang, Xianhui Wang

ArdC, a ssDNA-binding protein with a metalloprotease domain, overpasses the recipient hsdRMS restriction system broadening conjugation host range

Lorena González-Montes, Irene del Campo, M. Pilar Garcillán-Barcia, Fernando de la Cruz, Gabriel Moncalián

Quantitative live imaging of Venus::BMAL1 in a mouse model reveals complex dynamics of the master circadian clock regulator

Nan Yang, Nicola J. Smyllie, Honor Morris, Cátia F. Gonçalves, Michal Dudek, Dharshika R. J. Pathiranage, Johanna E. Chesham, Antony Adamson, David G. Spiller, Egor Zindy, James Bagnall, Neil Humphreys, Judith Hoyland, Andrew S. I. Loudon, Michael H. Hastings, Qing-Jun Meng

Interaction between host genes and Mycobacterium tuberculosis lineage can affect tuberculosis severity: Evidence for coevolution?

Michael L. McHenry, Jacquelaine Bartlett, Robert P. Igo Jr, Eddie M. Wampande, Penelope Benchek, Harriet Mayanja-Kizza, Kyle Fluegge, Noemi B. Hall, Sebastien Gagneux, Sarah A. Tishkoff, Christian Wejse, Giorgio Sirugo, W. Henry Boom, Moses Joloba, Scott M. Williams, Catherine M. Stein

Opinion Piece

Getting clear about the F-word in genomics

Stefan Linquist, W. Ford Doolittle, Alexander F. Palazzo