The Laboratory Domestication of Zebrafish: From Diverse Populations to Inbred Substrains

Selection, Linkage, and Population Structure Interact To Shape Genetic Variation Among Threespine Stickleback Genomes

(2019) Thomas C. Nelson et al.   GENETICS

FishNET: An automated relational database for zebrafish colony management

(2019) Abiud Cantu Gutierrez et al.   PLOS BIOLOGY

Thermal conditions and age structure determine the spawning regularities and condition of Baltic herring (Clupea harengus membras) in the NE of the Baltic Sea

(2019) Timo Arula et al.   PeerJ

Patterns of Geographical and Potential Adaptive Divergence in the Genome of the Common Carp (Cyprinus carpio)

(2019) Jian Xu et al.   Frontiers in Genetics

The identification of genes involved in the evolution of color patterns in fish

(2019) Uwe Irion et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Towards precision medicine: interrogating the human genome to identify drug pathways associated with potentially functional, population-differentiated polymorphisms

(2019) Maulana Bachtiar et al.   PHARMACOGENOMICS JOURNAL

Population genetic diversity in zebrafish lines

(2018) Michele Balik-Meisner et al.   MAMMALIAN GENOME

Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data

(2018) Lily C. Hughes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Combining Zebrafish and CRISPR/Cas9: Toward a More Efficient Drug Discovery Pipeline

(2018) Carles Cornet et al.   Frontiers in Pharmacology

Restriction site-associated DNA sequencing for SNP discovery and high-density genetic map construction in southern catfish ( Silurus meridionalis )

(2018) Mimi Xie et al.   Royal Society Open Science

Phylogenetic classification of extant genera of fishes of the order Cypriniformes (Teleostei: Ostariophysi)

(2018) MILTON TAN et al.   ZOOTAXA

Phylogenomics uncovers early hybridization and adaptive loci shaping the radiation of Lake Tanganyika cichlid fishes

(2018) Iker Irisarri et al.   Nature Communications

Repeatability and reliability of exploratory behavior in proactive and reactive zebrafish, Danio rerio

(2018) Matthew R. Baker et al.   Scientific Reports

An Interrogation of Shared and Unique Copy Number Variants Across Genetically Distinct Zebrafish Strains

(2018) Lindsay A. Holden et al.   Zebrafish

Workshop Report: Zebrafish and Other Fish Models—Description of Extrinsic Environmental Factors for Rigorous Experiments and Reproducible Results

(2018) Zoltan M. Varga et al.   Zebrafish

The Recombination Landscape in Wild House Mice Inferred Using Population Genomic Data

(2017) Tom R. Booker et al.   GENETICS

Rapid Evolution of Genes Involved in Learning and Energy Metabolism for Domestication of the Laboratory Rat

(2017) Lin Zeng et al.   MOLECULAR BIOLOGY AND EVOLUTION

Experimental test of genetic rescue in isolated populations of brook trout

(2017) Zachary L. Robinson et al.   MOLECULAR ECOLOGY

Deriving genotypes from RAD-seq short-read data using Stacks

(2017) Nicolas C Rochette et al.   Nature Protocols

BPAG1 in muscles: Structure and function in skeletal, cardiac and smooth muscle

(2017) Masao Horie et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

BPAG1, a distinctive role in skin and neurological diseases

(2017) Arshad Ali et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Genetic variation in human drug-related genes

(2017) Charlotta Pauline Irmgard Schärfe et al.   Genome Medicine

The Recombination Landscape in Wild House Mice Inferred Using Population Genomic Data

(2017) Tom R. Booker et al.   GENETICS

Genomic consequences of intensive inbreeding in an isolated wolf population

(2017) Marty Kardos et al.   Nature Ecology & Evolution

Genomic signatures of domestication on neurogenetic genes in Drosophila melanogaster

(2016) Craig E. Stanley et al.   BMC EVOLUTIONARY BIOLOGY

The Zebrafish Model Organism Database: new support for human disease models, mutation details, gene expression phenotypes and searching

(2016) Douglas G. Howe et al.   NUCLEIC ACIDS RESEARCH

Alternative haplotypes of antigen processing genes in zebrafish diverged early in vertebrate evolution

(2016) Sean C. McConnell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Zebrafish Social Behavior in the Wild

(2016) Piyumika S. Suriyampola et al.   Zebrafish

Biosecurity and Health Monitoring at the Zebrafish International Resource Center

(2016) Katrina N. Murray et al.   Zebrafish

Structure and evolutionary history of a large family of NLR proteins in the zebrafish

(2016) Kerstin Howe et al.   Open Biology

GC-biased gene conversion links the recombination landscape and demography to genomic base composition

(2015) Carina F. Mugal et al.   BIOESSAYS

Chitin Is Endogenously Produced in Vertebrates

(2015) W. Joyce Tang et al.   CURRENT BIOLOGY

RAD Capture (Rapture): Flexible and Efficient Sequence-Based Genotyping

(2015) O. A. Ali et al.   GENETICS

Quantification of GC-biased gene conversion in the human genome

(2015) Sylvain Glémin et al.   GENOME RESEARCH

Behavioral Plasticity in Response to Environmental Manipulation among Zebrafish (Danio rerio) Populations

(2015) Anuradha Bhat et al.   PLoS One

LEA: AnRpackage for landscape and ecological association studies

(2015) Eric Frichot et al.   Methods in Ecology and Evolution

Advancing biology through a deeper understanding of zebrafish ecology and evolution

(2015) David M Parichy   eLife

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Wild Sex in Zebrafish: Loss of the Natural Sex Determinant in Domesticated Strains

(2014) C. A. Wilson et al.   GENETICS

Phylogeny of Zebrafish, a “Model Species,” within Danio, a “Model Genus”

(2014) Braedan M. McCluskey et al.   MOLECULAR BIOLOGY AND EVOLUTION

Wild Mice As Bountiful Resources of Novel Genetic Variants for Quantitative Traits

(2013) Akira Ishikawa   CURRENT GENOMICS

Development and Validation of Single Nucleotide Polymorphisms (SNPs) Markers from Two Transcriptome 454-Runs of Turbot (Scophthalmus maximus) Using High-Throughput Genotyping

(2013) Manuel Vera et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Genetic changes during laboratory domestication of an olive fly SIT strain

(2013) N. E. Zygouridis et al.   JOURNAL OF APPLIED ENTOMOLOGY

Recombination in the threespine stickleback genome-patterns and consequences

(2013) Marius Roesti et al.   MOLECULAR ECOLOGY

The zebrafish reference genome sequence and its relationship to the human genome

(2013) Kerstin Howe et al.   NATURE

A Sequence-Based Variation Map of Zebrafish

(2013) Ashok Patowary et al.   Zebrafish

Differences in sexual development in inbred and outbred zebrafish (Danio rerio) and implications for chemical testing

(2012) A. Ross Brown et al.   AQUATIC TOXICOLOGY

The effect of close relatives on unsupervised Bayesian clustering algorithms in population genetic structure analysis

(2012) SILVIA T. RODRÍGUEZ-RAMILO et al.   Molecular Ecology Resources

Multiple Sex-Associated Regions and a Putative Sex Chromosome in Zebrafish Revealed by RAD Mapping and Population Genomics

(2012) Jennifer L. Anderson et al.   PLoS One

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

A New Twist on Behavioral Genetics by Incorporating Wild-Derived Mouse Strains

(2011) Tsuyoshi KOIDE et al.   EXPERIMENTAL ANIMALS

Substitution Patterns Are GC-Biased in Divergent Sequences across the Metazoans

(2011) John A. Capra et al.   Genome Biology and Evolution

Population genomics of wild and laboratory zebrafish (Danio rerio)

(2011) ANDREW R. WHITELEY et al.   MOLECULAR ECOLOGY

Extensive genetic diversity and substructuring among zebrafish strains revealed through copy number variant analysis

(2011) K. H. Brown et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Stacks : Building and Genotyping Loci De Novo From Short-Read Sequences

(2011) Julian M. Catchen et al.   G3-Genes Genomes Genetics

Whole Genome Sequencing Highlights Genetic Changes Associated with Laboratory Domestication of C. elegans

(2010) Katherine P. Weber et al.   PLoS One

Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes

(2009) Laurent Duret et al.   Annual Review of Genomics and Human Genetics

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Genetic Differences among C57BL/6 Substrains

(2009) Kazuyuki MEKADA et al.   EXPERIMENTAL ANIMALS

Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm

(2009) Prateek Kumar et al.   Nature Protocols

Genetic variation in strains of zebrafish (Danio rerio) and the implications for ecotoxicology studies

(2008) T. S. Coe et al.   ECOTOXICOLOGY