Abstract: The complete sequence of mitochondrial DNA cytochrome b gene was amplified and sequenced from the 55 samples in 4 Guizhou goats population， and compared and analyzed with mtDNA cytochrome b gene of 8 goat breeds downloaded from GenBank . Sum to 11 variable sites were found in 55 individuals of Guizhou goats of which converted 10 times， T/G transversion 1 time. There were 7 kinds of haplotypes of 10 as a group of exclusive，and three kinds of haplotypes were shared by multiple groups. 4 goats breeds closer genetic relationship existed between both independent breed， during the same time， there were also genetic exchange. Guizhou Black goat was the closest to Guizhou Ma goat，next to Guizhou White goat，furthest to Guizhou Xiaoxiang goat. From NJ tree based on matrix dA among goat breees can know that 4 goat breeds had arisen from Capra aegagrus.

Key words: Guizhou goat; mtDNA; Cytb; phylogenetic; relationship