State Key Laboratory of Animal Biotech Breeding, National Engineering Laboratory for Animal Breeding, Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.
Department of Animal Science, University of Minnesota, Saint Paul, MN 55108, USA.
Biomolecules. 2024 May 29;14(6):638. doi: 10.3390/biom14060638.
Sheep and goat may become carriers of some zoonotic diseases. They are important livestock and experimental model animals for human beings. The fast and accurate identification of genetic materials originating from sheep and goat can prevent and inhibit the spread of some zoonotic diseases, monitor market product quality, and maintain the stability of animal husbandry and food industries. This study proposed a methodology for identifying sheep and goat common specific sites from a genome-wide perspective. A total of 150 specific sites were selected from three data sources, including the coding sequences of single copy genes from nine species (sheep, goat, cow, pig, dog, horse, human, mouse, and chicken), the dbSNPs for these species, and human 100-way alignment data. These 150 sites exhibited low intraspecific heterogeneity in the resequencing data of 1450 samples from five species (sheep, goat, cow, pig, and chicken) and high interspecific divergence in the human 100-way alignment data after quality control. The results were proven to be reliable at the data level. Using the process proposed in this study, specific sites of other species can be screened, and genome-level species identification can be performed using the screened sites.
绵羊和山羊可能成为一些人畜共患病的携带者。它们是人类重要的家畜和实验模型动物。快速准确地鉴定源自绵羊和山羊的遗传物质可以预防和抑制一些人畜共患病的传播，监测市场产品质量，维护畜牧业和食品工业的稳定。本研究提出了一种从全基因组角度鉴定绵羊和山羊共有特定位点的方法。从三个数据源中选择了 150 个特定的位点，包括来自 9 个物种（绵羊、山羊、牛、猪、狗、马、人、鼠和鸡）的单拷贝基因编码序列、这些物种的 dbSNP 以及人类 100-way 比对数据。这些 150 个位点在来自 5 个物种（绵羊、山羊、牛、猪和鸡）的 1450 个样本的重测序数据中表现出较低的种内异质性，并且在经过质量控制后，在人类 100-way 比对数据中表现出较高的种间差异。结果在数据水平上被证明是可靠的。使用本研究中提出的方法，可以筛选其他物种的特定位点，并使用筛选出的位点进行基于基因组水平的物种鉴定。
