New in G3: mutant screens, Japanese quail evolution, and mating design in MAGIC sorghum

Check out the January issue of G3!

Table of Contents

Genome Report

Reference Assembly and Annotation of the Pyrenophora teres f. teres Isolate 0-1

Nathan A. Wyatt, Jonathan K. Richards, Robert S. Brueggeman, Timothy L. Friesen

G3: Genes, Genomes, Genetics January 2018 8: 1-8;

DOI: https://doi.org/10.1534/g3.117.300196

Mutant Screen Reports

Mapping Second Chromosome Mutations to Defined Genomic Regions in Drosophila melanogaster

Lily Kahsai, Kevin R. Cook

G3: Genes, Genomes, Genetics January 2018 8: 9-16;

DOI: https://doi.org/10.1534/g3.117.300289

A Caenorhabditis elegans Zinc Finger Transcription Factor, ztf-6, Required for the Specification of a Dopamine Neuron-Producing Lineage

Maria Doitsidou, Gregory Minevich, Jason R. Kroll, Gwen Soete, Sriharsh Gowtham, Hendrik C. Korswagen, Jeroen Sebastiaan van Zon, Oliver Hobert

G3: Genes, Genomes, Genetics January 2018 8: 17-26;

DOI: https://doi.org/10.1534/g3.117.300132

Investigations

Phosphorylation of Pnut in the Early Stages of Drosophila Embryo Development Affects Association of the Septin Complex with the Membrane and Is Important for Viability

Katarina Akhmetova, Maxim Balasov, Anton Svitin, Elena Chesnokova, Matthew Renfrow, Igor Chesnokov

G3: Genes, Genomes, Genetics January 2018 8: 27-38;

DOI: https://doi.org/10.1534/g3.117.300186

Genes Integral to the Reproductive Function of Male Reproductive Tissues Drive Heterogeneity in Evolutionary Rates in Japanese Quail

Findley R. Finseth, Richard G. Harrison

G3: Genes, Genomes, Genetics January 2018 8: 39-51;

DOI: https://doi.org/10.1534/g3.117.300095

Improving Genomic Prediction in Cassava Field Experiments Using Spatial Analysis

Ani A. Elias, Ismail Rabbi, Peter Kulakow, Jean-Luc Jannink

G3: Genes, Genomes, Genetics January 2018 8: 53-62;

DOI: https://doi.org/10.1534/g3.117.300323

Genome-Wide Screen for Saccharomyces cerevisiae Genes Contributing to Opportunistic Pathogenicity in an Invertebrate Model Host

Sujal S. Phadke, Calum J. Maclean, Serena Y. Zhao, Emmi A. Mueller, Lucas A. Michelotti, Kaitlyn L. Norman, Anuj Kumar, Timothy Y. James

G3: Genes, Genomes, Genetics January 2018 8: 63-78;

DOI: https://doi.org/10.1534/g3.117.300245

Large-Scale Low-Cost NGS Library Preparation Using a Robust Tn5 Purification and Tagmentation Protocol

Bianca P. Hennig, Lars Velten, Ines Racke, Chelsea Szu Tu, Matthias Thoms, Vladimir Rybin, Hüseyin Besir, Kim Remans, Lars M. Steinmetz

G3: Genes, Genomes, Genetics January 2018 8: 79-89;

DOI: https://doi.org/10.1534/g3.117.300257

A Resource for the Allele-Specific Analysis of DNA Methylation at Multiple Genomically Imprinted Loci in Mice

Jadiel A. Wasson, Onur Birol, David J. Katz

G3: Genes, Genomes, Genetics January 2018 8: 91-103;

DOI: https://doi.org/10.1534/g3.117.300417

Analysis of Copy Number Variants on Chromosome 21 in Down Syndrome-Associated Congenital Heart Defects

Benjamin L. Rambo-Martin, Jennifer G. Mulle, David J. Cutler, Lora J. H. Bean, Tracie C. Rosser, Kenneth J. Dooley, Clifford Cua, George Capone, Cheryl L. Maslen, Roger H. Reeves, Stephanie L. Sherman, Michael E. Zwick

G3: Genes, Genomes, Genetics January 2018 8: 105-111;

DOI: https://doi.org/10.1534/g3.117.300366

Which Individuals To Choose To Update the Reference Population? Minimizing the Loss of Genetic Diversity in Animal Genomic Selection Programs

Sonia E. Eynard, Pascal Croiseau, Denis Laloë, Sebastien Fritz, Mario P. L. Calus, Gwendal Restoux

G3: Genes, Genomes, Genetics January 2018 8: 113-121;

DOI: https://doi.org/10.1534/g3.117.1117

Modeling the Evolution of Female Meiotic Drive in Maize

David W. Hall, R. Kelly Dawe

G3: Genes, Genomes, Genetics January 2018 8: 123-130;

DOI: https://doi.org/10.1534/g3.117.300073

Prediction of Multiple-Trait and Multiple-Environment Genomic Data Using Recommender Systems

Osval A. Montesinos-López, Abelardo Montesinos-López, José Crossa, José C. Montesinos-López, David Mota-Sanchez, Fermín Estrada-González, Jussi Gillberg, Ravi Singh, Suchismita Mondal, Philomin Juliana

G3: Genes, Genomes, Genetics January 2018 8: 131-147;

DOI: https://doi.org/10.1534/g3.117.300309Severe Fertility Effects of sheepish Sperm Caused by Failure To Enter Female Sperm Storage Organs in Drosophila melanogaster

Masatoshi Tomaru, Takashi Ohsako, Masahide Watanabe, Naoto Juni, Hiroshi Matsubayashi, Hiromi Sato, Ayako Takahashi, Masa-Toshi Yamamoto

G3: Genes, Genomes, Genetics January 2018 8: 149-160;

DOI: https://doi.org/10.1534/g3.117.300171

Genotyping by Sequencing in Almond: SNP Discovery, Linkage Mapping, and Marker Design

Shashi N. Goonetilleke, Timothy J. March, Michelle G. Wirthensohn, Pere Arús, Amanda R. Walker, Diane E. Mather

G3: Genes, Genomes, Genetics January 2018 8: 161-172;

DOI: https://doi.org/10.1534/g3.117.300376

Rapid and Efficient CRISPR/Cas9-Based Mating-Type Switching of Saccharomyces cerevisiae

Ze-Xiong Xie, Leslie A. Mitchell, Hui-Min Liu, Bing-Zhi Li, Duo Liu, Neta Agmon, Yi Wu, Xia Li, Xiao Zhou, Bo Li, Wen-Hai Xiao, Ming-Zhu Ding, Ying Wang, Ying-Jin Yuan, Jef D. Boeke

G3: Genes, Genomes, Genetics January 2018 8: 173-183;

DOI: https://doi.org/10.1534/g3.117.300347

MicroRNA Tissue Atlas of the Malaria Mosquito Anopheles gambiae

Lena Lampe, Elena A. Levashina

G3: Genes, Genomes, Genetics January 2018 8: 185-193;

DOI: https://doi.org/10.1534/g3.117.300170

The Substrates of Nonsense-Mediated mRNA Decay in Caenorhabditis elegans

Virginia S. Muir, Audrey P. Gasch, Philip AndersonG3: Genes, Genomes, Genetics January 2018 8: 195-205;

DOI: https://doi.org/10.1534/g3.117.300254

Global Transcriptome Sequencing Reveals Molecular Profiles of Summer Diapause Induction Stage of Onion Maggot, Delia antiqua (Diptera: Anthomyiidae)

Shuang Ren, You-Jin Hao, Bin Chen, You-Ping Yin

G3: Genes, Genomes, Genetics January 2018 8: 207-217;

DOI: https://doi.org/10.1534/g3.117.300393

Comparison of ChIP-Seq Data and a Reference Motif Set for Human KRAB C2H2 Zinc Finger Proteins

Marjan Barazandeh, Samuel A. Lambert, Mihai Albu, Timothy R. Hughes

G3: Genes, Genomes, Genetics January 2018 8: 219-229;

DOI: https://doi.org/10.1534/g3.117.300296

Egg Case Silk Gene Sequences from Argiope Spiders: Evidence for Multiple Loci and a Loss of Function Between Paralogs

R. Crystal Chaw, Matthew Collin, Marjorie Wimmer, Kara-Leigh Helmrick, Cheryl Y. Hayashi

G3: Genes, Genomes, Genetics January 2018 8: 231-238;

DOI: https://doi.org/10.1534/g3.117.300283

Natural Variation in SER1 and ENA6 Underlie Condition-Specific Growth Defects in Saccharomyces cerevisiae

Amy Sirr, Adrian C. Scott, Gareth A. Cromie, Catherine L. Ludlow, Vida Ahyong, Trey S. Morgan, Teresa Gilbert, Aimée M. Dudley

G3: Genes, Genomes, Genetics January 2018 8: 239-251;

DOI: https://doi.org/10.1534/g3.117.300392

Rice TSV3 Encoding Obg-Like GTPase Protein Is Essential for Chloroplast Development During the Early Leaf Stage Under Cold Stress

Dongzhi Lin, Quan Jiang, Xiaojing Ma, Kailun Zheng, Xiaodi Gong, Sheng Teng, Jianlong Xu, Yanjun Dong

G3: Genes, Genomes, Genetics January 2018 8: 253-263;

DOI: https://doi.org/10.1534/g3.117.300249

The Influence of Genetic Stability on Aspergillus fumigatus Virulence and Azole Resistance

Thaila Fernanda dos Reis, Lilian Pereira Silva, Patrícia Alves de Castro, Pollyne Borborema Almeida de Lima, Rafaela Andrade do Carmo, Marjorie Mendes Marini, José Franco da Silveira, Beatriz Henriques Ferreira, Fernando Rodrigues, Iran Malavazi, Gustavo H. Goldman

G3: Genes, Genomes, Genetics January 2018 8: 265-278;

DOI: https://doi.org/10.1534/g3.117.300265

RNA-Sequencing of Drosophila melanogaster Head Tissue on High-Sugar and High-Fat Diets

Wayne Hemphill, Osvaldo Rivera, Matthew Talbert

G3: Genes, Genomes, Genetics January 2018 8: 279-290;

DOI: https://doi.org/10.1534/g3.117.300397

Restorer-of-Fertility Mutations Recovered in Transposon-Active Lines of S Male-Sterile Maize

Susan Gabay-Laughnan, A. Mark Settles, L. Curtis Hannah, Timothy G. Porch, Philip W. Becraft, Donald R. McCarty, Karen E. Koch, Liming Zhao, Terry L. Kamps, Karen C. Chamusco, Christine D. Chase

G3: Genes, Genomes, Genetics January 2018 8: 291-302;

DOI: https://doi.org/10.1534/g3.117.300304

A Deconvolution Protocol for ChIP-Seq Reveals Analogous Enhancer Structures on the Mouse and Human Ribosomal RNA Genes

Jean-Clement Mars, Marianne Sabourin-Felix, Michel G. Tremblay, Tom Moss

G3: Genes, Genomes, Genetics January 2018 8: 303-314;

DOI: https://doi.org/10.1534/g3.117.300225

Genome-Wide Mapping of Decay Factor–mRNA Interactions in Yeast Identifies Nutrient-Responsive Transcripts as Targets of the Deadenylase Ccr4

Jason E. Miller, Liye Zhang, Haoyang Jiang, Yunfei Li, B. Franklin Pugh, Joseph C. Reese

G3: Genes, Genomes, Genetics January 2018 8: 315-330;

DOI: https://doi.org/10.1534/g3.117.300415

Mating Design and Genetic Structure of a Multi-Parent Advanced Generation Intercross (MAGIC) Population of Sorghum (Sorghum bicolor (L.) Moench)

Patrick O. Ongom, Gebisa Ejeta

G3: Genes, Genomes, Genetics January 2018 8: 331-341;

DOI: https://doi.org/10.1534/g3.117.300248

Caenorhabditis elegans DBL-1/BMP Regulates Lipid Accumulation via Interaction with Insulin Signaling

James F. Clark, Michael Meade, Gehan Ranepura, David H. Hall, Cathy Savage-Dunn

G3: Genes, Genomes, Genetics January 2018 8: 343-351;

DOI: https://doi.org/10.1534/g3.117.300416

Rapid Gene Family Evolution of a Nematode Sperm Protein Despite Sequence Hyper-conservation

Katja R. Kasimatis, Patrick C. Phillips

G3: Genes, Genomes, Genetics January 2018 8: 353-362;

DOI: https://doi.org/10.1534/g3.117.300281

A Single Residue Mutation in the Ga_q Subunit of the G Protein Complex Causes Blindness in Drosophila

Jinguo Cao, Murali K. Bollepalli, Yuhui Hu, Jin Zhang, Qiang Li, Hongmei Li, Hua Chang, Feng Xiao, Roger C. Hardie, Yikang S. Rong, Wen Hu

G3: Genes, Genomes, Genetics January 2018 8: 363-371;

DOI: https://doi.org/10.1534/g3.117.300340

Letters

The Complexities and Nuances of Analyzing the Genome of Drosophila ananassae and Its Wolbachia Endosymbiont

Julie C. Dunning Hotopp, Lisa Klasson

G3: Genes, Genomes, Genetics January 2018 8: 373-374;

DOI: https://doi.org/10.1534/g3.117.300164

Response to the Letter to the Editor by Dunning Hotopp and Klasson

Wilson Leung, Sarah C. R. Elgin

G3: Genes, Genomes, Genetics January 2018 8: 375;

DOI: https://doi.org/10.1534/g3.117.300379