SNP Identification by Transcriptome Sequencing and Candidate Gene-Based Association Analysis for Heat Tolerance in the Bay Scallop Argopecten irradians

doi:10.1371/journal.pone.0104960

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	SNP Identification by Transcriptome Sequencing and Candidate Gene-Based Association Analysis for Heat Tolerance in the Bay Scallop Argopecten irradians
	Du, Xuedi1,2 ; Li, Li 1; Zhang, Shoudu 1; Meng, Fei 3; Zhang, Guofan 1; Zhang GF(张国范)
	2014-08-14
发表期刊	PLOS ONE
卷号	9 期号:8 页码:e104960
文章类型	Article
摘要	The northern bay scallop Argopecten irradians irradians (Lamarck) and the southern bay scallop Argopecten irradians concentricus (Say) were introduced into China in the 1980s and 1990s, and are now major aquaculture molluscs in China. Here, we report the transcriptome sequencing of the two subspecies and the subsequent association analysis on candidate gene on the trait of heat tolerance. In total, RNA from six tissues of 67 and 42 individuals of northern and southern bay scallops, respectively, were used and 55.5 and 34.9 million raw reads were generated, respectively. There were 82,267 unigenes produced in total, of which 32,595 were annotated. Altogether, 32,206 and 23,312 high-quality SNPs were identified for northern and southern bay scallops, respectively. For case-control analysis, two intercrossed populations were heat stress treated, and both heat-susceptible and heat-resistant individuals were collected. According to annotation and SNP allele frequency analysis, 476 unigenes were selected, and 399 pairs of primers were designed. Genotyping was conducted using the high-resolution melting method, and Fisher's exact test was performed for allele frequency comparison between the heat-susceptible and heat-resistant groups. SNP all-53308-760 T/C showed a significant difference in allele frequency between the heat-susceptible and heat-resistant groups. Notably, considerable difference in allele frequency at this locus was also observed between the sequenced natural populations. These results suggest that SNP all-53308- 760 T/C may be related to the heat tolerance of the bay scallop. Moreover, quantitative expression analysis revealed that the expression level of all-53308 was negatively correlated with heat tolerance of the bay scallop.
学科领域	海洋生物学 ; 海洋生物技术
DOI	10.1371/journal.pone.0104960
收录类别	SCI
语种	英语
WOS记录号	WOS:000341017000079
引用统计	被引频次：20[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/22792
专题	海洋生物技术研发中心
通讯作者	Zhang GF(张国范)
作者单位	1.Chinese Acad Sci, Inst Oceanol, Natl & Local Joint Engn Lab Ecol Mariculture, Qingdao, Shandong, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Biomarker Technol Corp, Dept Informat Anal, Beijing, Peoples R China
第一作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Du, Xuedi,Li, Li,Zhang, Shoudu,et al. SNP Identification by Transcriptome Sequencing and Candidate Gene-Based Association Analysis for Heat Tolerance in the Bay Scallop Argopecten irradians[J]. PLOS ONE,2014,9(8):e104960.
APA	Du, Xuedi,Li, Li,Zhang, Shoudu,Meng, Fei,Zhang, Guofan,&张国范.(2014).SNP Identification by Transcriptome Sequencing and Candidate Gene-Based Association Analysis for Heat Tolerance in the Bay Scallop Argopecten irradians.PLOS ONE,9(8),e104960.
MLA	Du, Xuedi,et al."SNP Identification by Transcriptome Sequencing and Candidate Gene-Based Association Analysis for Heat Tolerance in the Bay Scallop Argopecten irradians".PLOS ONE 9.8(2014):e104960.

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