Multi-Platform Next-Generation Sequencing of the Domestic Turkey (Meleagris gallopavo): Genome Assembly and Analysis

• DOI: 10.1371/journal.pbio.1000475
• Publication Date: 2010-09-07T20:26:32Z
• Authors: Rami A. Dalloul; Julie A. Long; Aleksey V. Zimin; Luqman Aslam; Kathryn Beal; Le Ann Blomberg; Pascal Bouffard; David W. Burt; Oswald Crasta; Richard P. M. A. ...; Kristal Cooper; Roger A. Coulombe; Supriyo De; Mary E. Delany; Jerry B. Dodgson; Jennifer J. Dong; Clive Evans; Karin M. Frederic...; Paul Flicek; Liliana Florea; Otto Folkerts; Martien A. M. Gro...; Tim T. Harkins; Javier Herrero; Steve Hoffmann; Hendrik-Jan Megens; Andrew Jiang; Pieter de Jong; Pete Kaiser; Heebal Kim; Kyu-Won Kim; Sungwon Kim; David Langenberger; Mi-Kyung Lee; Taeheon Lee; Shrinivasrao Mane; Guillaume Marcais; Manja Marz; Audrey P. McElroy; Thero Modise; Mikhail Nefedov; Cédric Notredame; Ian R. Paton; William S. Payne; Geo Pertea; Dennis Prickett; Daniela Puiu; Dan Qioa; Emanuele Raineri; Magali Ruffier; Steven L. Salzberg; Michael C. Schatz; Chantel Scheuring; Carl J. Schmidt; Steven Schroeder; Stephen M. J. Searle; Edward J. Smith; Jacqueline Smith; Tad S. Sonstegard; Peter F. Stadler; Hakim Tafer; Zhijian (Jake) Tu; Curtis P. Van Tas...; Albert J. Vilella; Kelly P. Williams; James A. Yorke; Liqing Zhang; Hong-Bin Zhang; Xiaojun Zhang; Yang Zhang; Kent M. Reed
• Keywords: Meleagris gallopavo; Sequence assembly; Comparative Genomics

A synergistic combination of two next-generation sequencing platforms with a detailed comparative BAC physical contig map provided cost-effective assembly the genome sequence domestic turkey (Meleagris gallopavo). Heterozygosity sequenced source allowed discovery more than 600,000 high quality single nucleotide variants. Despite this heterozygosity, current (∼1.1 Gb) includes 917 Mb assigned to specific chromosomes. Annotation identified nearly 16,000 genes, 15,093 recognized as protein coding and 611 non-coding RNA genes. Comparative analysis turkey, chicken, zebra finch genomes, comparing avian mammalian species, supports characteristic stability genomes identifies genes unique lineage. Clear differences are seen in number variety immune system where expansions novel less frequent examples gene loss. The provides resources further understand evolution vertebrate genetic variation underlying economically important quantitative traits poultry. This integrated approach may be model for providing both chromosome level assemblies other species agricultural, ecological, evolutionary interest.