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

作者：Dalloul Rami A^*; Long Julie A; Zimin Aleksey V; Aslam Luqman; Beal Kathryn; Blomberg Le Ann; Bouffard Pascal; Burt David W; Crasta Oswald; Crooijmans Richard P M A; Cooper Kristal; Coulombe Roger A; De Supriyo; Delany Mary E; Dodgson Jerry B; Dong Jennifer J; Evans Clive; Frederickson Karin M; Flicek Paul; Florea Liliana; Folkerts Otto; Groenen Martien A M; Harkins Tim T; Herrero Javier; Hoffmann Steve; Megens Hendrik Jan; Jiang Andrew; de Jong Pieter

来源：PLOS BIOLOGY, 2010, 8(9): e1000475.

DOI：10.1371/journal.pbio.1000475

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

• 出版日期2010-9
• 单位Virginia Tech; 上海生物信息技术研究中心; 美国弗吉尼亚理工大学(Virginia Tech)