鉴定和验证单核苷酸多态性作为检测淡水魟鱼杂交和种群结构的工具。
Identification and validation of single nucleotide polymorphisms as tools to detect hybridization and population structure in freshwater stingrays.
机构信息
Laboratório de Biologia e Genética de Peixes, Instituto de Biociências de Botucatu, UNESP, Botucatu, SP, 18618-970, Brazil.
Laboratori d'Ictiologia Genètica, Department of Biology, Faculty of Sciences, University of Girona, Campus de Montilivi, Girona, 17071, Spain.
出版信息
Mol Ecol Resour. 2017 May;17(3):550-556. doi: 10.1111/1755-0998.12564. Epub 2016 Jul 28.
Single nucleotide polymorphism (SNP) markers were identified and validated for two stingrays species, Potamotrygon motoro and Potamotrygon falkneri, using double digest restriction-site associated DNA (ddRAD) reads using 454-Roche technology. A total of 226 774 reads (65.5 Mb) were obtained (mean read length 289 ± 183 bp) detecting a total of 5399 contigs (mean contig length: 396 ± 91 bp). Mining this data set, a panel of 143 in silico SNPs was selected. Eighty-two of these SNPs were successfully validated and 61 were polymorphic: 14 in P. falkneri, 21 in P. motoro, 3 in both species and 26 fixed for alternative variants in both species, thus being useful for population analyses and hybrid detection.
使用 454-Roche 技术的双酶切限制位点相关 DNA（ddRAD）读取，为 Potamotrygon motoro 和 Potamotrygon falkneri 两种黄貂鱼物种鉴定和验证了单核苷酸多态性（SNP）标记。共获得 226774 条读取（65.5 Mb）（平均读取长度为 289±183 bp），共检测到 5399 个连续序列（平均连续序列长度为 396±91 bp）。挖掘这个数据集，选择了 143 个基于计算机的 SNP。其中 82 个 SNP 成功验证，61 个多态性：14 个在 P. falkneri，21 个在 P. motoro，3 个在两个物种中，26 个在两个物种中固定为替代变体，因此可用于种群分析和杂种检测。
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