January 2017 Table of Contents

Investigations

• The CgHaa1-Regulon Mediates Response and Tolerance to Acetic Acid Stress in the Human Pathogen Candida glabrata

  Ruben T. Bernardo, Diana V. Cunha, Can Wang, Leonel Pereira, Sónia Silva, Sara B. Salazar, Markus S. Schröder, Michiyo Okamoto, Azusa Takahashi-Nakaguchi, Hiroji Chibana, Toshihiro Aoyama, Isabel Sá-Correia, Joana Azeredo, Geraldine Butler, Nuno Pereira Mira

  G3: Genes, Genomes, Genetics January 2017 7: 1-18; https://doi.org/10.1534/g3.116.034660
• Using Next-Generation Sequencing for DNA Barcoding: Capturing Allelic Variation in ITS2

  Jana Batovska, Noel O. I. Cogan, Stacey E. Lynch, Mark J. Blacket

  G3: Genes, Genomes, Genetics January 2017 7: 19-29; https://doi.org/10.1534/g3.116.036145
• Small RNA Sequencing in Cells and Exosomes Identifies eQTLs and 14q32 as a Region of Active Export

  Emily K. Tsang, Nathan S. Abell, Xin Li, Vanessa Anaya, Konrad J. Karczewski, David A. Knowles, Raymond G. Sierra, Kevin S. Smith, Stephen B. Montgomery

  G3: Genes, Genomes, Genetics January 2017 7: 31-39; https://doi.org/10.1534/g3.116.036137
• Bayesian Genomic Prediction with Genotype × Environment Interaction Kernel Models

  Jaime Cuevas, José Crossa, Osval A. Montesinos-López, Juan Burgueño, Paulino Pérez-Rodríguez, Gustavo de los Campos

  G3: Genes, Genomes, Genetics January 2017 7: 41-53; https://doi.org/10.1534/g3.116.035584
• Assortative Mating and Linkage Disequilibrium

  Philip W. Hedrick

  G3: Genes, Genomes, Genetics January 2017 7: 55-62; https://doi.org/10.1534/g3.116.034967
• The Phenotypic Plasticity of Duplicated Genes in Saccharomyces cerevisiae and the Origin of Adaptations

  Florian Mattenberger, Beatriz Sabater-Muñoz, Christina Toft, Mario A. Fares

  G3: Genes, Genomes, Genetics January 2017 7: 63-75; https://doi.org/10.1534/g3.116.035329
• Cytogenetic and Molecular Characterization of B-Genome Introgression Lines of Brassica napus L.

  Inderpreet Dhaliwal, Annaliese S. Mason, Shashi Banga, Sakshi Bharti, Beerpal Kaur, Allison Mary Gurung, Phillip Anthony Salisbury, Jacqueline Batley, Surinder Singh Banga

  G3: Genes, Genomes, Genetics January 2017 7: 77-86; https://doi.org/10.1534/g3.116.036442
• Efficient Screening of CRISPR/Cas9-Induced Events in Drosophila Using a Co-CRISPR Strategy

  Nanci S. Kane, Mehul Vora, Krishna J. Varre, Richard W. Padgett

  G3: Genes, Genomes, Genetics January 2017 7: 87-93; https://doi.org/10.1534/g3.116.036723
• Candida albicans Is Resistant to Polyglutamine Aggregation and Toxicity

  Michelle D. Leach, TaeHyung Kim, Sonja E. DiGregorio, Cathy Collins, Zhaolei Zhang, Martin L. Duennwald, Leah E. Cowen

  G3: Genes, Genomes, Genetics January 2017 7: 95-108; https://doi.org/10.1534/g3.116.035675
• A New Chicken Genome Assembly Provides Insight into Avian Genome Structure

  Wesley C. Warren, LaDeana W. Hillier, Chad Tomlinson, Patrick Minx, Milinn Kremitzki, Tina Graves, Chris Markovic, Nathan Bouk, Kim D. Pruitt, Francoise Thibaud-Nissen, Valerie Schneider, Tamer A. Mansour, C. Titus Brown, Aleksey Zimin, Rachel Hawken, Mitch Abrahamsen, Alexis B. Pyrkosz, Mireille Morisson, Valerie Fillon, Alain Vignal, William Chow, Kerstin Howe, Janet E. Fulton, Marcia M. Miller, Peter Lovell, Claudio V. Mello, Morgan Wirthlin, Andrew S. Mason, Richard Kuo, David W. Burt, Jerry B. Dodgson, Hans H. Cheng

  G3: Genes, Genomes, Genetics January 2017 7: 109-117; https://doi.org/10.1534/g3.116.035923
• Imputation-Based Fine-Mapping Suggests That Most QTL in an Outbred Chicken Advanced Intercross Body Weight Line Are Due to Multiple, Linked Loci

  Monika Brandt, Muhammad Ahsan, Christa F. Honaker, Paul B. Siegel, Örjan Carlborg

  G3: Genes, Genomes, Genetics January 2017 7: 119-128; https://doi.org/10.1534/g3.116.036012
• The Neurospora Transcription Factor ADV-1 Transduces Light Signals and Temporal Information to Control Rhythmic Expression of Genes Involved in Cell Fusion

  Rigzin Dekhang, Cheng Wu, Kristina M. Smith, Teresa M. Lamb, Matthew Peterson, Erin L. Bredeweg, Oneida Ibarra, Jillian M. Emerson, Nirmala Karunarathna, Anna Lyubetskaya, Elham Azizi, Jennifer M. Hurley, Jay C. Dunlap, James E. Galagan, Michael Freitag, Matthew S. Sachs, Deborah Bell-Pedersen

  G3: Genes, Genomes, Genetics January 2017 7: 129-142; https://doi.org/10.1534/g3.116.034298
• iSeq: A New Double-Barcode Method for Detecting Dynamic Genetic Interactions in Yeast

  Mia Jaffe, Gavin Sherlock, Sasha F. Levy

  G3: Genes, Genomes, Genetics January 2017 7: 143-153; https://doi.org/10.1534/g3.116.034207
• The Physical Genome Mapping of Anopheles albimanus Corrected Scaffold Misassemblies and Identified Interarm Rearrangements in Genus Anopheles

  Gleb N. Artemov, Ashley N. Peery, Xiaofang Jiang, Zhijian Tu, Vladimir N. Stegniy, Maria V. Sharakhova, Igor V. Sharakhov

  G3: Genes, Genomes, Genetics January 2017 7: 155-164; https://doi.org/10.1534/g3.116.034959
• Regulatory Architecture of Gene Expression Variation in the Threespine Stickleback Gasterosteus aculeatus

  Victoria L. Pritchard, Heidi M. Viitaniemi, R. J. Scott McCairns, Juha Merilä, Mikko Nikinmaa, Craig R. Primmer, Erica H. Leder

  G3: Genes, Genomes, Genetics January 2017 7: 165-178; https://doi.org/10.1534/g3.116.033241
• Cfs1p, a Novel Membrane Protein in the PQ-Loop Family, Is Involved in Phospholipid Flippase Functions in Yeast

  Takaharu Yamamoto, Konomi Fujimura-Kamada, Eno Shioji, Risa Suzuki, Kazuma Tanaka

  G3: Genes, Genomes, Genetics January 2017 7: 179-192; https://doi.org/10.1534/g3.116.035238
• CRISPR/Cas9-Induced Double-Strand Break Repair in Arabidopsis Nonhomologous End-Joining Mutants

  Hexi Shen, Gary D. Strunks, Bart J. P. M. Klemann, Paul J. J. Hooykaas, Sylvia de Pater

  G3: Genes, Genomes, Genetics January 2017 7: 193-202; https://doi.org/10.1534/g3.116.035204
• Analysis of Ribosome-Associated mRNAs in Rice Reveals the Importance of Transcript Size and GC Content in Translation

  Dongyan Zhao, John P. Hamilton, Michael Hardigan, Dongmei Yin, Tao He, Brieanne Vaillancourt, Mauricio Reynoso, Germain Pauluzzi, Scott Funkhouser, Yuehua Cui, Julia Bailey-Serres, Jiming Jiang, C. Robin Buell, Ning Jiang

  G3: Genes, Genomes, Genetics January 2017 7: 203-219; https://doi.org/10.1534/g3.116.036020
• Time-Course Analysis of Gene Expression During the Saccharomyces cerevisiae Hypoxic Response

  Nasrine Bendjilali, Samuel MacLeon, Gurmannat Kalra, Stephen D. Willis, A. K. M. Nawshad Hossian, Erica Avery, Olivia Wojtowicz, Mark J. Hickman

  G3: Genes, Genomes, Genetics January 2017 7: 221-231; https://doi.org/10.1534/g3.116.034991
• Dissecting Gene Expression Changes Accompanying a Ploidy-Based Phenotypic Switch

  Gareth A. Cromie, Zhihao Tan, Michelle Hays, Eric W. Jeffery, Aimée M. Dudley

  G3: Genes, Genomes, Genetics January 2017 7: 233-246; https://doi.org/10.1534/g3.116.036160
• Multiplex shRNA Screening of Germ Cell Development by in Vivo Transfection of Mouse Testis

  Nicholas R. Y. Ho, Abul R. Usmani, Yan Yin, Liang Ma, Donald F. Conrad

  G3: Genes, Genomes, Genetics January 2017 7: 247-255; https://doi.org/10.1534/g3.116.036087
• Caenorhabditis elegans DAF-2 as a Model for Human Insulin Receptoropathies

  David A. Bulger, Tetsunari Fukushige, Sijung Yun, Robert K. Semple, John A. Hanover, Michael W. Krause

  G3: Genes, Genomes, Genetics January 2017 7: 257-268; https://doi.org/10.1534/g3.116.037184
• First in Vivo Batrachochytrium dendrobatidis Transcriptomes Reveal Mechanisms of Host Exploitation, Host-Specific Gene Expression, and Expressed Genotype Shifts

  Amy R. Ellison, Graziella V. DiRenzo, Caitlin A. McDonald, Karen R. Lips, Kelly R. Zamudio

  G3: Genes, Genomes, Genetics January 2017 7: 269-278; https://doi.org/10.1534/g3.116.035873
• One-Cell Doubling Evaluation by Living Arrays of Yeast, ODELAY!

  Thurston Herricks, David J. Dilworth, Fred D. Mast, Song Li, Jennifer J. Smith, Alexander V. Ratushny, John D. Aitchison

  G3: Genes, Genomes, Genetics January 2017 7: 279-288; https://doi.org/10.1534/g3.116.037044
• Correlations of Genotype with Climate Parameters Suggest Caenorhabditis elegans Niche Adaptations

  Kathryn S. Evans, Yuehui Zhao, Shannon C. Brady, Lijiang Long, Patrick T. McGrath, Erik C. Andersen

  G3: Genes, Genomes, Genetics January 2017 7: 289-298; https://doi.org/10.1534/g3.116.035162
• Genotyping-by-Sequencing-Based Investigation of the Genetic Architecture Responsible for a ∼Sevenfold Increase in Soybean Seed Stearic Acid

  Crystal B. Heim, Jason D. Gillman

  G3: Genes, Genomes, Genetics January 2017 7: 299-308; https://doi.org/10.1534/g3.116.035741