Common water fleas (Daphnia pulex) visualized by means of confocal laser scanning microscopy. Micrographs: Jan Michels, Christian-Albrechts-Universität zu Kiel, Germany. See Maruki and Lynch (pp. 1393) and Ye et al. 2017 (pp. 1405) in this issue and Ackerman et al. 2017 (pp. 105) and Lynch et al. 2017 (pp. 315) in the GENETICS May issue for related work.

Check out the May issue of G3!

Table of Contents

Investigations

Accurate Classification of Protein Subcellular Localization from High-Throughput Microscopy Images Using Deep Learning

Tanel Pärnamaa, Leopold Parts

G3: Genes, Genomes, Genetics May 2017 7: 1385-1392;

DOI: https://doi.org/10.1534/g3.116.033654

Genotype Calling from Population-Genomic Sequencing Data

Takahiro Maruki, Michael Lynch

G3: Genes, Genomes, Genetics May 2017 7: 1393-1404;

DOI: https://doi.org/10.1534/g3.117.039008

A New Reference Genome Assembly for the Microcrustacean Daphnia pulex

Zhiqiang Ye, Sen Xu, Ken Spitze, Jana Asselman, Xiaoqian Jiang, Matthew S. Ackerman, Jacqueline Lopez, Brent Harker, R. Taylor Raborn, W. Kelley Thomas, Jordan Ramsdell, Michael E. Pfrender, Michael Lynch

G3: Genes, Genomes, Genetics May 2017 7: 1405-1416;

DOI: https://doi.org/10.1534/g3.116.038638

Dynamic Notch Signaling Specifies Each Cell Fate in Drosophila Spermathecal Lineage

Wei Shen, Jianjun Sun

G3: Genes, Genomes, Genetics May 2017 7: 1417-1427;

DOI: https://doi.org/10.1534/g3.117.040212

Reliable CRISPR/Cas9 Genome Engineering in Caenorhabditis elegans Using a Single Efficient sgRNA and an Easily Recognizable Phenotype

Sonia El Mouridi, Claire Lecroisey, Philippe Tardy, Marine Mercier, Alice Leclercq-Blondel, Nora Zariohi, Thomas Boulin

G3: Genes, Genomes, Genetics May 2017 7: 1429-1437;

DOI: https://doi.org/10.1534/g3.117.040824

The Interaction of Genetic Background and Mutational Effects in Regulation of Mouse Craniofacial Shape

Christopher J. Percival, Pauline Marangoni, Vagan Tapaltsyan, Ophir Klein, Benedikt Hallgrímsson

G3: Genes, Genomes, Genetics May 2017 7: 1439-1450;

DOI: https://doi.org/10.1534/g3.117.040659

Aging Effects of Caenorhabditis elegans Ryanodine Receptor Variants Corresponding to Human Myopathic Mutations

Katie Nicoll Baines, Célia Ferreira, Philip M. Hopkins, Marie-Anne Shaw, Ian A. Hope

G3: Genes, Genomes, Genetics May 2017 7: 1451-1461;

DOI: https://doi.org/10.1534/g3.117.040535

Schizosaccharomyces pombe MutSa and MutLa Maintain Stability of Tetra-Nucleotide Repeats and Msh3 of Hepta-Nucleotide Repeats

Desirée Villahermosa, Olaf Christensen, Karen Knapp, Oliver Fleck

G3: Genes, Genomes, Genetics May 2017 7: 1463-1473;

DOI: https://doi.org/10.1534/g3.117.040816

Extensive Copy Number Variation in Fermentation-Related Genes Among Saccharomyces cerevisiae Wine Strains

Jacob Steenwyk, Antonis Rokas

G3: Genes, Genomes, Genetics May 2017 7: 1475-1485;

DOI: https://doi.org/10.1534/g3.117.040105

Paternal Induction of Hybrid Dysgenesis in Drosophila melanogaster Is Weakly Correlated with Both P-Element and hobo Element Dosage

Satyam P. Srivastav, Erin S. Kelleher

G3: Genes, Genomes, Genetics May 2017 7: 1487-1497;

DOI: https://doi.org/10.1534/g3.117.040634

Evaluating Methods of Updating Training Data in Long-Term Genomewide Selection

Jeffrey L. Neyhart, Tyler Tiede, Aaron J. Lorenz, Kevin P. Smith

G3: Genes, Genomes, Genetics May 2017 7: 1499-1510;

DOI: https://doi.org/10.1534/g3.117.040550

Modulating Crossover Frequency and Interference for Obligate Crossovers in Saccharomyces cerevisiae Meiosis

Parijat Chakraborty, Ajith V. Pankajam, Gen Lin, Abhishek Dutta, Krishnaprasad G. Nandanan, Manu M. Tekkedil, Akira Shinohara, Lars M. Steinmetz, Nishant K. Thazath

G3: Genes, Genomes, Genetics May 2017 7: 1511-1524;

DOI: https://doi.org/10.1534/g3.117.040071

Genomic Comparison of Indigenous African and Northern European Chickens Reveals Putative Mechanisms of Stress Tolerance Related to Environmental Selection Pressure

Damarius S. Fleming, Steffen Weigend, Henner Simianer, Annett Weigend, Max Rothschild, Carl Schmidt, Chris Ashwell, Mike Persia, James Reecy, Susan J. Lamont

G3: Genes, Genomes, Genetics May 2017 7: 1525-1537;

DOI: https://doi.org/10.1534/g3.117.041228

TheCellMap.org: A Web-Accessible Database for Visualizing and Mining the Global Yeast Genetic Interaction Network

Matej Usaj, Yizhao Tan, Wen Wang, Benjamin VanderSluis, Albert Zou, Chad L. Myers, Michael Costanzo, Brenda Andrews, Charles Boone

G3: Genes, Genomes, Genetics May 2017 7: 1539-1549;

DOI: https://doi.org/10.1534/g3.117.040220

Genotyping-by-Sequencing Facilitates a High-Density Consensus Linkage Map for Aegilops umbellulata, a Wild Relative of Cultivated Wheat

Erena A. Edae, Pablo D. Olivera, Yue Jin, Matthew N. Rouse

G3: Genes, Genomes, Genetics May 2017 7: 1551-1561;

DOI: https://doi.org/10.1534/g3.117.039966

From Pine Cones to Read Clouds: Rescaffolding the Megagenome of Sugar Pine (Pinus lambertiana)

Marc W. Crepeau, Charles H. Langley, Kristian A. Stevens

G3: Genes, Genomes, Genetics May 2017 7: 1563-1568;

DOI: https://doi.org/10.1534/g3.117.040055

asymptoticMK: A Web-Based Tool for the Asymptotic McDonald–Kreitman Test

Benjamin C. Haller, Philipp W. Messer

G3: Genes, Genomes, Genetics May 2017 7: 1569-1575;

DOI: https://doi.org/10.1534/g3.117.039693

Distinct Patterns of Gene Gain and Loss: Diverse Evolutionary Modes of NBS-Encoding Genes in Three Solanaceae Crop Species

Lan-Hua Qian, Guang-Can Zhou, Xiao-Qin Sun, Zhao Lei, Yan-Mei Zhang, Jia-Yu Xue, Yue-Yu Hang

G3: Genes, Genomes, Genetics May 2017 7: 1577-1585;

DOI: https://doi.org/10.1534/g3.117.040485

Identification of QTLs for 14 Agronomically Important Traits in Setaria italica Based on SNPs Generated from High-Throughput Sequencing

Kai Zhang, Guangyu Fan, Xinxin Zhang, Fang Zhao, Wei Wei, Guohua Du, Xiaolei Feng, Xiaoming Wang, Feng Wang, Guoliang Song, Hongfeng Zou, Xiaolei Zhang, Shuangdong Li, Xuemei Ni, Gengyun Zhang, Zhihai Zhao

G3: Genes, Genomes, Genetics May 2017 7: 1587-1594;

DOI: https://doi.org/10.1534/g3.117.041517

A Bayesian Poisson-lognormal Model for Count Data for Multiple-Trait Multiple-Environment Genomic-Enabled Prediction

Osval A. Montesinos-López, Abelardo Montesinos-López, José Crossa, Fernando H. Toledo, José C. Montesinos-López, Pawan Singh, Philomin Juliana, Josafhat Salinas-Ruiz

G3: Genes, Genomes, Genetics May 2017 7: 1595-1606;

DOI: https://doi.org/10.1534/g3.117.039974

How Changes in Anti-SD Sequences Would Affect SD Sequences in Escherichia coli and Bacillus subtilis

Akram Abolbaghaei, Jordan R. Silke, Xuhua Xia

G3: Genes, Genomes, Genetics May 2017 7: 1607-1615;

DOI: https://doi.org/10.1534/g3.117.039305

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