基于高分辨率熔解曲线分析（HRM）的菲律宾蛤仔88个单核苷酸多态性标记的特征分析
Characterization of Eighty-Eight Single-Nucleotide Polymorphism Markers in the Manila Clam Based on High-Resolution Melting (HRM) Analysis.
作者信息
Zheng Sichen, Chen Yancui, Wu Biao, Zhou Liqing, Liu Zhihong, Zhang Tianshi, Sun Xiujun
机构信息
State Key Laboratory of Mariculture Biobreeding and Sustainable Goods, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China.
Laboratory for Marine Fisheries Science and Food Production Processes, Laoshan Laboratory, Qingdao 266237, China.
出版信息
Animals (Basel). 2024 Feb 6;14(4):542. doi: 10.3390/ani14040542.
Single-nucleotide polymorphisms (SNPs) are the most commonly used DNA markers in population genetic studies. We used the Illumina HiSeq4000 platform to develop single-nucleotide polymorphism (SNP) markers for Manila clam using restriction site-associated DNA sequencing (RAD-seq) genotyping. Eighty-eight SNP markers were successfully developed by using high-resolution melting (HRM) analysis, with a success rate of 44%. SNP markers were analyzed for genetic diversity in two clam populations. The observed heterozygosity per locus ranged from 0 to 0.9515, while the expected heterozygosity per locus ranged from 0.0629 to 0.4997. The value of F was estimated to be from -0.9643 to 1.0000. The global F value was 0.1248 ( < 0.001). After Bonferroni correction, 15 loci deviated significantly from the Hardy-Weinberg equilibrium ( < 0.0006). These SNP markers provide a valuable resource for population and conservation genetics studies in this commercially important species.
单核苷酸多态性（SNPs）是群体遗传学研究中最常用的DNA标记。我们使用Illumina HiSeq4000平台，通过限制性位点相关DNA测序（RAD-seq）基因分型技术开发菲律宾蛤仔的单核苷酸多态性（SNP）标记。利用高分辨率熔解曲线分析（HRM）成功开发了88个SNP标记，成功率为44%。对两个蛤仔群体的SNP标记进行了遗传多样性分析。每个位点观察到的杂合度范围为0至0.9515，而每个位点预期的杂合度范围为0.0629至0.4997。F值估计为-0.9643至1.0000。全局F值为0.1248（<0.001）。经Bonferroni校正后，15个位点显著偏离哈迪-温伯格平衡（<0.0006）。这些SNP标记为这个具有重要商业价值的物种的群体和保护遗传学研究提供了宝贵资源。
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