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Identification of a large dataset of SNPs in Larimichthys polyactis using high‐throughput 2b‐RAD sequencing
Animal Genetics ( IF 2.4 ) Pub Date : 2020-09-29 , DOI: 10.1111/age.13000
Y. Chen 1, 2 , J. Mao 1 , W. Senanan 2 , W. Wang 1, 3
Affiliation  

The small yellow croaker (Larimichthys polyactis) is one of the most commercially exploited marine fishes along the coast of the Yellow‐Bohai Sea and the East China Sea. In this study, we used next‐generation high‐throughput 2b‐RAD‐seq technology to identify novel SNPs in L. polyactis. We scored a total of 1 374 008 putative SNPs genome‐wide. Further filtration yielded a final dataset of 6457 high‐quality SNPs. These SNP markers presented sufficient power in detecting genetic distinction between two wild samples from the Yellow‐Bohai Sea and one captive sample from the East China Sea, and inbreeding reflected by strong heterozygote deficiency within the samples; some of the genetic polymorphisms are diagnostic among the samples and related to biological functions. The panel of SNPs could be used as powerful tools in further population genetic and stock assessment research in L. polyactis as it has relatively scarce genomic resources. The findings from this study will advance our understanding of population and functional genomics for facilitating fishery resource management and developing desirable characteristics for the benefit of culture and farming of L. polyactis.

中文翻译:

使用高通量2b‐RAD测序鉴定多头鱼的SNP大型数据集

小型黄花鱼(Larimichthys polyactis)是黄渤海和东海沿岸最商业化利用的海洋鱼类之一。在这项研究中,我们使用了下一代高通量2b‐RAD‐seq技术来鉴定多菌乳杆菌中的新型SNP 。我们在全基因组中共计1 374 008个推定的SNP。进一步过滤产生了最终的6457个高质量SNP数据集。这些SNP标记在检测黄渤海的两个野生样品与东海的一个圈养样品之间的遗传区分以及样品中强杂合子缺乏所反映的近交方面具有足够的能力。一些遗传多态性可在样本中进行诊断,并与生物学功能有关。SNPs专家组可以用作进一步研究多act.L.的种群遗传和种群评估的有力工具因为它具有相对稀缺的基因组资源。这项研究的结果将增进我们对种群和功能基因组学的理解,以促进渔业资源管理和发展有益的特性,从而有利于多乳杆菌的培养和养殖。
更新日期:2020-11-04
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