干旱区生态环境知识资源中心(Arid): Development of Genomic Resources and Identification of Genetic Diversity and Genetic Structure of the Domestic Bactrian Camel in China by RAD Sequencing

Arid

DOI	10.3389/fgene.2020.00797
	Development of Genomic Resources and Identification of Genetic Diversity and Genetic Structure of the Domestic Bactrian Camel in China by RAD Sequencing
	Liu, Chenmiao; Chen, Huiling; Ren, Zhanjun; Yang, Xuejiao; Zhang, Chengdong
通讯作者	Ren, ZJ
来源期刊	FRONTIERS IN GENETICS
EISSN	1664-8021
出版年	2020
卷号	11
英文摘要	The domestic Bactrian camel is indispensable to agricultural production in the desertification area of China owning to its endurance to hunger and thirst, cold resistance, drought resistance, and good long-distance transportation. Therefore, it is necessary to investigate the genetic diversity, genetic structure, and genes with important roles in the evolution of this species. In this study, 1,568,087 SNPs were identified in 47 domestic Bactrian camels inhabiting four regions of China, namely Inner Mongolia, Gansu, Qinghai, and Xinjiang, by restriction site associated DNA sequencing (RAD-seq). The SNP data were used for nucleotide diversity analysis (pi) and linkage disequilibrium (LD) attenuation analysis to elucidate the genetic diversity of the domestic Bactrian camel in the four regions studied. Results showed that Xinjiang camels had the highest nucleotide diversity and the fastest decay rate of the LD coefficient; therefore, Xinjiang camels had the highest genetic diversity. Structure analysis, principal component analysis (PCA), and phylogenetic tree construction by the neighbor-joining (NJ) method showed that Qinghai camels clustered separately, at a larger phylogenetic distance from camels in the other regions. Through analyses of selection signals, it was found that the number of selected genes shared by Inner Mongolia camels, Qinghai camels, Xinjiang camels, and Gansu camels was 7, 24, 25, and 113, respectively. The shared selected genes of the domestic Bactrian camel in the four regions were further analyzed, and three shared genes (GRIA3, XIAP, and THOC2) of the domestic Bactrian camel in China were identified. Gene Ontology (GO) classification and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis were performed on the shared selected genes of the domestic Bactrian camel in all four regions studied. Across all regions, genes involved in the cellular process were the most abundant subcategory under biological process. Cell and cell part represented the main proportion of genes under cellular component. Binding represented the main molecular function. In addition, the shared selected genes of the domestic Bactrian camel in the four regions of China were significantly enriched in the long-term depression pathway. The research should enable further study of the genetic resources of the domestic Bactrian camel, as well as the conservation of these resources.
英文关键词	RAD sequencing Bactrian camel single nucleotide polymorphisms genomic resource genetic analysis
类型	Article
语种	英语
开放获取类型	DOAJ Gold, Green Published
收录类别	SCI-E
WOS记录号	WOS:000561615900001
WOS关键词	LONG-TERM DEPRESSION ; INHIBITOR ; DISCOVERY ; PATHWAY ; IAP
WOS类目	Genetics & Heredity
WOS研究方向	Genetics & Heredity
来源机构	西北农林科技大学
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/325755
作者单位	[Liu, Chenmiao; Chen, Huiling; Ren, Zhanjun; Yang, Xuejiao; Zhang, Chengdong] Northwest A&F Univ, Coll Anim Sci & Technol, Xianyang, Peoples R China
推荐引用方式 GB/T 7714	Liu, Chenmiao,Chen, Huiling,Ren, Zhanjun,et al. Development of Genomic Resources and Identification of Genetic Diversity and Genetic Structure of the Domestic Bactrian Camel in China by RAD Sequencing[J]. 西北农林科技大学,2020,11.
APA	Liu, Chenmiao,Chen, Huiling,Ren, Zhanjun,Yang, Xuejiao,&Zhang, Chengdong.(2020).Development of Genomic Resources and Identification of Genetic Diversity and Genetic Structure of the Domestic Bactrian Camel in China by RAD Sequencing.FRONTIERS IN GENETICS,11.
MLA	Liu, Chenmiao,et al."Development of Genomic Resources and Identification of Genetic Diversity and Genetic Structure of the Domestic Bactrian Camel in China by RAD Sequencing".FRONTIERS IN GENETICS 11(2020).