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首页> 外文期刊>Journal of genetics >Development and characterization of genic SSR markers from low depth genome sequence of Clarias batrachus (magur)
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Development and characterization of genic SSR markers from low depth genome sequence of Clarias batrachus (magur)

机译：鼠尾草低等基因组序列的基因SSR标记的开发和鉴定

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摘要

Indian magur (Clarias batrachus) is an important freshwater catfish, which is listed as endangered under A3cde+4acde ver. 3.1 categories by the IUCN (2015) due to decreasing population trend. Microsatellites or short sequence repeats (SSRs) tagged to genes have been utilized as gene marker. In the present study, 31,814 SSRs of C. batrachus (magur) were identified using microsatellite identification tool programme from the next generation sequencing data generated on Roche 454 and Ion Torrent platforms. A bioinformatics pipeline, with stringent criteria resulted in selection of 1672 microsatellite loci falling in the genic region. Initially, a total of 30 loci were selected for primer development; and of these 14 were successfully amplified and five were found to be polymorphic in 30 individuals of C. batrachus (magur). The observed as well as expected heterozygosity ranged from 0.038 to 0.526 and 0.434 to 0.784, respectively, and the number of observed alleles ranged from three to five. The study reported the application of next generation sequencing technologies for rapid development of microsatellite loci in Indian catfish species, C. batrachus (magur).
机译：印度magur（Clarias batrachus）是一种重要的淡水cat鱼，在A3cde + 4acde ver。中被列为濒危物种。 3.1由于人口趋势减少，自然保护联盟（2015年）将其分类。标记基因的微卫星或短序列重复序列（SSR）已被用作基因标记。在本研究中，使用微卫星识别工具程序，从在Roche 454和Ion Torrent平台上生成的下一代测序数据中鉴定了31,814个斑节梭菌（magur）SSR。具有严格标准的生物信息学渠道导致选择了1672个微卫星基因座落入该基因区。最初，总共选择了30个基因座用于引物开发。并成功扩增了这14个中的5个，并在30个巴氏梭菌中发现了5个多态性。观察到的和预期的杂合度分别为0.038至0.526和0.434至0.784，观察到的等位基因数目为3至5。这项研究报告了下一代测序技术在印度cat鱼C. batrachus（magur）中快速发展微卫星基因座的应用。

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