More than 1000 complete or near-complete mitochondrial DNA (mtDNA) sequences have been deposited in GenBank for eight common domestic animals (i.e. cattle, dog, goat, horse, pig, sheep, yak and chicken) and their close wild ancestors or relatives. Nevertheless, few efforts have been performed to evaluate the sequence data quality, which heavily impact the original conclusion. Herein, we conducted a phylogenetic survey of these complete or near-complete mtDNA sequences based on mtDNA haplogroup trees for the eight animals. We show that, errors due to artificial recombination, surplus of mutations, and phantom mutations, do exist in 14.5% (194/1342) of mtDNA sequences and shall be treated with wide caution. We propose some caveats for mtDNA studies of domestic animals in the future.
@article{arxiv.1407.4116,
title = {Mitochondrial Genomes of Domestic Animals Need Scrutiny},
author = {Ni-Ni Shi and Long Fan and Yong-Gang Yao and Min-Sheng Peng and Ya-Ping Zhang},
journal= {arXiv preprint arXiv:1407.4116},
year = {2014}
}
Comments
129 Pages, 1 figure, 3 tables, and 5 supplementary materials