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Discovery of genomic variations by whole-genome resequencing of the North American Araucana chicken.
Noorai, Rooksana E; Shankar, Vijay; Freese, Nowlan H; Gregorski, Christopher M; Chapman, Susan C.
Afiliação
  • Noorai RE; Clemson University Genomics and Bioinformatics Facility, Clemson University, Clemson, South Carolina, United States of America.
  • Shankar V; Center for Human Genetics, Clemson University, Greenwood, South Carolina, United States of America.
  • Freese NH; Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, North Carolina, United States of America.
  • Gregorski CM; Department of Biological Sciences, College of Science, Clemson University, Clemson, South Carolina, United States of America.
  • Chapman SC; Department of Biological Sciences, College of Science, Clemson University, Clemson, South Carolina, United States of America.
PLoS One ; 14(12): e0225834, 2019.
Article em En | MEDLINE | ID: mdl-31821332
Gallus gallus (chicken) is phenotypically diverse, with over 60 recognized breeds, among the myriad species within the Aves lineage. Domestic chickens have been under artificial selection by humans for thousands of years for agricultural purposes. The North American Araucana (NAA) breed arose as a cross between the Chilean "Collonocas" that laid blue eggs and was rumpless and the "Quetros" that had unusual tufts but with tail. NAAs were introduced from South America in the 1940s and have been kept as show birds by enthusiasts since then due to several distinctive traits: laying eggs with blue eggshells, characteristic ear-tufts, a pea comb, and rumplessness. The population has maintained variants for clean-faced and tufted, as well as tailed and rumplessness traits making it advantageous for genetic studies. Genome resequencing of six NAA chickens with a mixture of these traits was done to 71-fold coverage using Illumina HiSeq 2000 paired-end reads. Trimmed and concordant reads were mapped to the Gallus_gallus-5.0 reference genome (galGal5), generated from a female Red Junglefowl (UCD001). To identify candidate genes that are associated with traits of the NAA, their genome was compared with the Korean Araucana, Korean Domestic and White Leghorn breeds. Genomic regions with significantly reduced levels of heterogeneity were detected on five different chromosomes in NAA. The sequence data generated confirm the identity of variants responsible for the blue eggshells, pea comb, and rumplessness traits of NAA and propose one for ear-tufts.
Assuntos

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Variação Genética / Galinhas / Genoma / Sequenciamento Completo do Genoma Tipo de estudo: Prognostic_studies Limite: Animals Idioma: En Ano de publicação: 2019 Tipo de documento: Article

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Variação Genética / Galinhas / Genoma / Sequenciamento Completo do Genoma Tipo de estudo: Prognostic_studies Limite: Animals Idioma: En Ano de publicação: 2019 Tipo de documento: Article