Investigations

• Programmed Chromosome Deletion in the Ciliate Oxytricha trifallax

  Derek M. Clay, V. Talya Yerlici, Danylo J. Villano, Laura F. Landweber
• Transformation with Artificial Chromosomes in Oxytricha trifallax and Their Applications

  Derek M. Clay, Hoyon Kim, Laura F. Landweber
• QTG-Finder: A Machine-Learning Based Algorithm To Prioritize Causal Genes of Quantitative Trait Loci in Arabidopsis and Rice

  Fan Lin, Jue Fan, Seung Y. Rhee
• Genome-Wide Association and Gene Co-expression Network Analyses Reveal Complex Genetics of Resistance to Goss’s Wilt of Maize

  Amritpal Singh, Guangyong Li, Alex B. Brohammer, Diego Jarquin, Candice N. Hirsch, James R. Alfano, Aaron J. Lorenz
• Multi-trait Improvement by Predicting Genetic Correlations in Breeding Crosses

  Jeffrey L. Neyhart, Aaron J. Lorenz, Kevin P. Smith
• Genome Size Evolution Differs Between Drosophila Subgenera with Striking Differences in Male and Female Genome Size in Sophophora

  Carl E. Hjelmen, Heath Blackmon, V. Renee Holmes, Crystal G. Burrus, J. Spencer Johnston
• Elucidating Drought Stress Tolerance in European Oaks Through Cross-Species Transcriptomics

  Silvia Madritsch, Elisabeth Wischnitzki, Peter Kotrade, Ahmed Ashoub, Agnes Burg, Silvia Fluch, Wolfgang Brüggemann, Eva M. Sehr
• Positive Selection and Functional Divergence at Meiosis Genes That Mediate Crossing Over Across the Drosophila Phylogeny

  Cara L. Brand, Lori Wright, Daven C. Presgraves
• Fine Mapping Using Whole-Genome Sequencing Confirms Anti-Müllerian Hormone as a Major Gene for Sex Determination in Farmed Nile Tilapia (Oreochromis niloticus L.)

  Giovanna Cáceres, María E. López, María I. Cádiz, Grazyella M. Yoshida, Ana Jedlicki, Ricardo Palma-Véjares, Dante Travisany, Diego Díaz-Domínguez, Alejandro Maass, Jean P. Lhorente, Jose Soto, Diego Salas, José M. Yáñez
• Phylogenetic Reclassification of Vertebrate Melatonin Receptors To Include Mel1d

  Elsa Denker, Lars O. E. Ebbesson, David G. Hazlerigg, Daniel J. Macqueen
• Exclusion and Genomic Relatedness Methods for Assignment of Parentage Using Genotyping-by-Sequencing Data

  Ken G. Dodds, John C. McEwan, Rudiger Brauning, Tracey C. van Stijn, Suzanne J. Rowe, K. Mary McEwan, Shannon M. Clarke
• In Silico Karyotyping of Chromosomally Polymorphic Malaria Mosquitoes in the Anopheles gambiae Complex

  R. Rebecca Love, Seth N. Redmond, Marco Pombi, Beniamino Caputo, Vincenzo Petrarca, Alessandra della Torre, The Anopheles gambiae 1000 Genomes Consortium, Nora J. Besansky
• De Novo Genome Assembly and Comparative Genomics of the Barley Leaf Rust Pathogen Puccinia hordei Identifies Candidates for Three Avirulence Genes

  Jiapeng Chen, Jingqin Wu, Peng Zhang, Chongmei Dong, Narayana M. Upadhyaya, Qian Zhou, Peter Dodds, Robert F. Park
• IslandCafe: Compositional Anomaly and Feature Enrichment Assessment for Delineation of Genomic Islands

  Mehul Jani, Rajeev K. Azad
• Comparative Transcriptomic Analysis Reveals Molecular Profiles of Central Nervous System in Maternal Diapause Induction of Locusta migratoria

  Aftab Raza Jarwar, Kun Hao, Ellyn Valery Bitume, Hidayat Ullah, Dongnan Cui, Xiangqun Nong, Guangjun Wang, Xiongbing Tu, Zehua Zhang
• Linkage Analysis and Haplotype Phasing in Experimental Autopolyploid Populations with High Ploidy Level Using Hidden Markov Models

  Marcelo Mollinari, Antonio Augusto Franco Garcia
• Disease Resistance Genetics and Genomics in Octoploid Strawberry

  Christopher R. Barbey, Seonghee Lee, Sujeet Verma, Kevin A. Bird, Alan E. Yocca, Patrick P. Edger, Steven J. Knapp, Vance M. Whitaker, Kevin M. Folta
• Genomic Prediction Including SNP-Specific Variance Predictors

  Elena Flavia Mouresan, Maria Selle, Lars Rönnegård
• Alternative Lengthening of Telomeres in the Budding Yeast Naumovozyma castellii

  Marita Cohn, Ahu Karademir Andersson, Raquel Quintilla Mateo, Mirja Carlsson Möller
• Exon 3 of the NUMB Gene Emerged in the Chordate Lineage Coopting the NUMB Protein to the Regulation of MDM2

  Stefano Confalonieri, Ivan Nicola Colaluca, Andrea Basile, Salvatore Pece, Pier Paolo Di Fiore
• Predicting Longitudinal Traits Derived from High-Throughput Phenomics in Contrasting Environments Using Genomic Legendre Polynomials and B-Splines

  Mehdi Momen, Malachy T. Campbell, Harkamal Walia, Gota Morota
• A Bayesian Genomic Multi-output Regressor Stacking Model for Predicting Multi-trait Multi-environment Plant Breeding Data

  Osval A. Montesinos-López, Abelardo Montesinos-López, José Crossa, Jaime Cuevas, José C. Montesinos-López, Zitlalli Salas Gutiérrez, Morten Lillemo, Juliana Philomin, Ravi Singh
• Evolutionary Dynamics in Structured Populations Under Strong Population Genetic Forces

  Alison F. Feder, Pleuni S. Pennings, Joachim Hermisson, Dmitri A. Petrov
• Utilization of Tissue Ploidy Level Variation in de Novo Transcriptome Assembly of Pinus sylvestris

  Dario I. Ojeda, Tiina M. Mattila, Tom Ruttink, Sonja T. Kujala, Katri Kärkkäinen, Jukka-Pekka Verta, Tanja Pyhäjärvi
• Environmental Association Identifies Candidates for Tolerance to Low Temperature and Drought

  Li Lei, Ana M. Poets, Chaochih Liu, Skylar R. Wyant, Paul J. Hoffman, Corey K. Carter, Brian G. Shaw, Xin Li, Gary J. Muehlbauer, Fumiaki Katagiri, Peter L. Morrell
• Tissue-Specific Transcriptomes Reveal Gene Expression Trajectories in Two Maturing Skin Epithelial Layers in Zebrafish Embryos

  Shawn J. Cokus, Maricruz De La Torre, Eric F. Medina, Jeffrey P. Rasmussen, Joselyn Ramirez-Gutierrez, Alvaro Sagasti, Fang Wang
• Involvement of a G Protein Regulatory Circuit in Alternative Oxidase Production in Neurospora crassa

  Natasa Bosnjak, Kristina M. Smith, Iman Asaria, Adrian Lahola-Chomiak, Nishka Kishore, Andrea T. Todd, Michael Freitag, Frank E. Nargang
• Genomic Data Reveal Conserved Female Heterogamety in Giant Salamanders with Gigantic Nuclear Genomes

  Paul M. Hime, Jeffrey T. Briggler, Joshua S. Reece, David W. Weisrock
• Population Selection and Sequencing of Caenorhabditis elegans Wild Isolates Identifies a Region on Chromosome III Affecting Starvation Resistance

  Amy K. Webster, Anthony Hung, Brad T. Moore, Ryan Guzman, James M. Jordan, Rebecca E. W. Kaplan, Jonathan D. Hibshman, Robyn E. Tanny, Daniel E. Cook, Erik Andersen, L. Ryan Baugh
• Destabilization of the Tumor-Inducing Plasmid from an Octopine-Type Agrobacterium tumefaciens Lineage Drives a Large Deletion in the Co-resident At Megaplasmid

  Ian S. Barton, Thomas G. Platt, Douglas B. Rusch, Clay Fuqua
• Overexpression of BnaAOX1b Confers Tolerance to Osmotic and Salt Stress in Rapeseed

  Hongli Yang, Linbin Deng, Hongfang Liu, Shihang Fan, Wei Hua, Jing Liu