Premium
DomeTree: a canonical toolkit for mitochondrial DNA analyses in domesticated animals
Author(s) -
Peng MinSheng,
Fan Long,
Shi NiNi,
Ning Tiao,
Yao YongGang,
Murphy Robert W.,
Wang WenZhi,
Zhang YaPing
Publication year - 2015
Publication title -
molecular ecology resources
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.96
H-Index - 136
eISSN - 1755-0998
pISSN - 1755-098X
DOI - 10.1111/1755-0998.12386
Subject(s) - biology , haplogroup , mitochondrial dna , domestication , evolutionary biology , genome , human mitochondrial dna haplogroup , genetics , phylogenetics , dna sequencing , dna , ancient dna , computational biology , haplotype , gene , genotype , population , demography , sociology
Mitochondrial DNA (mtDNA) is widely used in various genetic studies of domesticated animals. Many applications require comprehensive knowledge about the phylogeny of mtDNA variants. Herein, we provide the most up-to-date mtDNA phylogeny (i.e. haplogroup tree or matrilineal genealogy) and a standardized hierarchical haplogroup nomenclature system for domesticated cattle, dogs, goats, horses, pigs, sheep, yaks and chickens. These high-resolution mtDNA haplogroup trees based on 1240 complete or near-complete mtDNA genome sequences are available in open resource DomeTree (http://www.dometree.org). In addition, we offer the software MitoToolPy (http://www.mitotool.org/mp.html) to facilitate the mtDNA data analyses. We will continuously and regularly update DomeTree and MitoToolPy.