Development of SNP markers in Crassostrea hongkongensis based on the next-generation sequencing and high resolution melting analysis
Huang, JM; Zhang, Y; Li, J; Yu, ZN; carlzyu@scsio.ac.cn
2014
发表期刊CONSERVATION GENETICS RESOURCES
ISSN1877-7252
卷号6期号:3页码:559-562
摘要Novel single nucleotide polymorphisms (SNPs) were screened using next generation sequencing in Hong Kong oyster, Crassostrea hongkongensis. A total of 91,980 putative SNPs were identified through de novo assembly of the 454 transcriptome database, and 83 of these were selected to validate polymorphism. Using high resolution melting analysis, 17 SNP markers were developed successfully with 48 individuals from two wild populations from Shantou and Zhuhai, China. The observed heterozygosities ranged from 0.125 to 0.667 and 0 to 0.708 in the two populations, respectively, while the expected ones ranged from 0.311 to 0.511 and 0.120 to 0.511 in the two samples, respectively. Fifteen SNPs have been confirmed to fit Hardy-Weinberg Equilibrium after Bonferroni correction (p < 0.003) in both populations. To our knowledge, this is the first set of SNP markers developed in C. hongkongensis, which would provide valuable information in facilitating genetics and breeding studies in the future.
部门归属[Huang, Jiaomei ; Zhang, Yang ; Li, Jun ; Yu, Ziniu] Chinese Acad Sci, South China Sea Inst Oceanol, Key Lab Trop Marine Bioresources & Ecol, Guangzhou 510301, Guangdong, Peoples R China ; [Huang, Jiaomei] Chinese Acad Sci, Grad Sch, Beijing 100049, Peoples R China
关键词C. Hongkongensis Snp Markers Transcriptome Sequencing High Resolution Melting
学科领域Biodiversity & Conservation ; Genetics & Heredity
资助者National High-Tech Research and Development Program of China [2012AA10A405-3] ; National High-Tech Research and Development Program of China [2012AA10A405-3] ; National High-Tech Research and Development Program of China [2012AA10A405-3] ; National High-Tech Research and Development Program of China [2012AA10A405-3]
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收录类别sci
资助项目LTO
资助者National High-Tech Research and Development Program of China [2012AA10A405-3] ; National High-Tech Research and Development Program of China [2012AA10A405-3] ; National High-Tech Research and Development Program of China [2012AA10A405-3] ; National High-Tech Research and Development Program of China [2012AA10A405-3]
WOS记录号WOS:000340404900016
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文献类型期刊论文
条目标识符http://ir.scsio.ac.cn/handle/344004/10511
专题热带海洋环境国家重点实验室(LTO)
通讯作者carlzyu@scsio.ac.cn
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Huang, JM,Zhang, Y,Li, J,et al. Development of SNP markers in Crassostrea hongkongensis based on the next-generation sequencing and high resolution melting analysis[J]. CONSERVATION GENETICS RESOURCES,2014,6(3):559-562.
APA Huang, JM,Zhang, Y,Li, J,Yu, ZN,&carlzyu@scsio.ac.cn.(2014).Development of SNP markers in Crassostrea hongkongensis based on the next-generation sequencing and high resolution melting analysis.CONSERVATION GENETICS RESOURCES,6(3),559-562.
MLA Huang, JM,et al."Development of SNP markers in Crassostrea hongkongensis based on the next-generation sequencing and high resolution melting analysis".CONSERVATION GENETICS RESOURCES 6.3(2014):559-562.
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