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Genome-wide association analysis of nutrient traits in the oyster Crassostrea gigas: genetic effect and interaction network

文献类型：期刊论文

作者Meng, Jie2,3,6; Song, Kai2,3,6; Li, Chunyan1,3,6; Liu, Sheng1,3,6; Shi, Ruihui1,3,6; Li, Busu1,3,6; Wang, Ting1,3,6; Li, Ao1,3,6; Que, Huayong2,3,5,6; Li, Li2,3,4,6
刊名BMC GENOMICS
出版日期2019-07-31
卷号20期号:1页码:14
关键词Oyster Nutrient traits Genome resequencing Population structure Genome-wide association study Genetic network
ISSN号1471-2164
DOI10.1186/s12864-019-5971-z
通讯作者Li, Li(lili@qdio.ac.cn) ; Zhang, Guofan(gfzhang@qdio.ac.cn)
英文摘要Background: Oyster is rich in glycogen and free amino acids and is called "the milk of sea". To understand the main genetic effects of these traits and the genetic networks underlying their correlation, we have conducted the whole genome resequencing with 427 oysters collected from the world-wide scale. Results: After association analysis, 168 clustered significant single nucleotide polymorphism (SNP) loci were identified for glycogen content and 17 SNPs were verified with 288 oyster individuals in another wide populations. These were the most important candidate loci for oyster breeding. Among 24 genes in the 100-kb regions of the leading SNP loci, cytochrome P450 17A1 (CYP17A1) contained a non-synonymous SNP and displayed higher expressions in high glycogen content individuals. This might enhance the gluconeogenesis process by the transcriptionally regulating the expression of phosphoenolpyruvate carboxykinase (PEPCK) and glucose 6-phosphatase (G6Pase). Also, for amino acids content 417 clustered significant SNPs were identified. After genetic network analysis, three node SNP regions were identified to be associated with glycogen, protein, and Asp content, which might explain their significant correlation. Conclusion: Overall, this study provides insights into the genetic correlation among complex traits, which will facilitate future oyster functional studies and breeding through molecular design.
资助项目National Natural Science Foundation of China[31530079] ; Earmarked Fund for Modern Agro-industry Technology Research System[CARS-49] ; Qingdao National Laboratory for Marine Science and Technology[2015ASKJ02-03] ; Qingdao National Laboratory for Marine Science and Technology[2017-2B07] ; Shandong Provincial Natural Science Foundation of China[ZR2016DQ13] ; Laboratory for Marine Fisheries Science and Food Production Processes
WOS研究方向Biotechnology & Applied Microbiology ; Genetics & Heredity
语种英语
WOS记录号WOS:000482318400004
出版者BMC
源URL[http://ir.qdio.ac.cn/handle/337002/162756]  
专题海洋研究所_实验海洋生物学重点实验室
通讯作者Li, Li; Zhang, Guofan
作者单位1.Univ Chinese Acad Sci, Beijing 100039, Peoples R China
2.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Shandong, Peoples R China
3.Natl & Local Joint Engn Lab Ecol Mariculture, Qingdao 266071, Shandong, Peoples R China
4.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Fisheries & Aquaculture, Qingdao 266071, Shandong, Peoples R China
5.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Biol & Biotechnol, Qingdao 266071, Shandong, Peoples R China
6.Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Shandong, Peoples R China
推荐引用方式
GB/T 7714		 Meng, Jie,Song, Kai,Li, Chunyan,et al. Genome-wide association analysis of nutrient traits in the oyster Crassostrea gigas: genetic effect and interaction network[J]. BMC GENOMICS,2019,20(1):14.
APA Meng, Jie.,Song, Kai.,Li, Chunyan.,Liu, Sheng.,Shi, Ruihui.,...&Zhang, Guofan.(2019).Genome-wide association analysis of nutrient traits in the oyster Crassostrea gigas: genetic effect and interaction network.BMC GENOMICS,20(1),14.
MLA Meng, Jie,et al."Genome-wide association analysis of nutrient traits in the oyster Crassostrea gigas: genetic effect and interaction network".BMC GENOMICS 20.1(2019):14.

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来源：海洋研究所

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