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Genome-Wide Association Mapping and Gene Expression Analyses Reveal Genetic Mechanisms of Disease Resistance Variations in Cynoglossus semilaevis

文献类型： 外文期刊

作者： Zhou, Qian 1 ; Su, Zhencheng 4 ; Li, Yangzhen 1 ; Liu, Yang 1 ; Wang, Lei 1 ; Lu, Sheng 1 ; Wang, Shuanyan 1 ; Gan, Tian; 1 ;

作者机构： 1.Chinese Acad Fishery Sci, Minist Agr, Yellow Sea Fisheries Res Inst, Key Lab Sustainable Dev Marine Fisheries, Qingdao, Shandong, Peoples R China

2.Pilot Natl Lab Marine Sci & Technol, Lab Marine Fisheries Sci & Food Prod Proc, Qingdao, Shandong, Peoples R China

3.Key Lab Marine Fishery Biotechnol & Genet Breedin, Qingdao, Shandong, Peoples R China

4.Novogene Bioinformat Technol Co Ltd, Beijing, Peoples R China

关键词： genome re-sequencing; genome-wide association study; Fst and nucleotide diversity filtration; disease resistance; Cynoglossus semilaevis

期刊名称：FRONTIERS IN GENETICS （ 影响因子：4.599； 五年影响因子：4.888 ）

ISSN：

年卷期： 2019 年 10 卷

页码：

收录情况： SCI

摘要： The sustainable development of aquaculture has been impeded by infectious diseases worldwide. However, the genomic architecture and the genetic basis underlying the disease resistance remain poorly understood, which severely hampers both the understanding of the evolution of fish disease resistance traits and the prevention of these diseases in the aquaculture community. Cynoglossus semilaevis is a representative and commercially-important flatfish species. Here we combined genome-wide association study and Fst and nucleotide diversity filtration to identify loci important for the disease resistance. Based on 1,016,774 single-nucleotide polymorphisms (SNPs) identified from 650 Gb genome resequencing data of 505 individuals, we detected 33 SNPs significantly associated with disease resistance and 79 candidate regions after filtration steps. Both the allele frequencies and genotype frequencies of the associated loci were significantly different between the resistant and susceptible fish, suggesting a role in the genetic basis of disease resistance. The SNP with strongest association with disease resistance was located in Chr 17, at 145 bp upstream of fblx19 gene, and overlapped with the major quantitative trait locus previously identified. Several genes, such as plekha7, nucb2, and fgfr2, were also identified to potentially play roles in the disease resistance. Furthermore, the expression of some associating genes were likely under epigenetic regulations between the bacterial resistant and susceptible families. These results provide insights into the mechanism that enable variation of disease resistance to bacterial pathogen infection. The identified polymorphisms and genes are valuable targets and molecular resources for disease resistance and other traits, and for advanced breeding practice for superior germplasm in fish aquaculture.

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