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A Comparison of Stock and Individual Identification for Chinook Salmon in British Columbia Provided by Microsatellites and Single-Nucleotide Polymorphisms

机译:微卫星和单核苷酸多态性提供的不列颠哥伦比亚省奇努克鲑鱼种群和个体识别的比较

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The following questions were addressed in this study: (1) If a suite of 12–15 microsatellites were used in the genetic stock identification (GSI) of Chinook salmon Oncorhynchus tshawytscha, which microsatellites should be in the suite? (2) How many microsatellites are required to provide stock identification resolution equivalent to that of 72 single-nucleotide polymorphisms (SNPs)? (3) How many SNPs are required to replace the current microsatellite baselines used in GSI applications? (4) If additional GSI power is required for microsatellite baselines, what is the incremental increase provided by SNPs and microsatellites? The variation at 29 microsatellite loci and 73 SNP loci was surveyed in 60 populations of Chinook salmon in 16 regions in British Columbia. Microsatellites with more observed alleles provided more accurate estimates of stock composition than those with fewer alleles. The options available for improving the accuracy and precision of stock composition estimates for a 12-locus Fisheries and Oceans Canada (DFO) microsatellite suite range include adding either 4 microsatellites or 25 SNPs to the existing suite to achieve an overall population-specific accuracy of 86% across 60 populations. For the 13-locus Genetic Analysis of Pacific Salmon (GAPS) microsatellites, either 2 microsatellites or 20–25 SNPs can be added to the existing suite to achieve approximately 86% population-specific accuracy in estimated stock composition. The enhanced DFO (16 loci) and GAPS (15 loci) microsatellite baselines were projected to require 179 and 166 SNPs, respectively, for equivalent precision of the population-specific estimates. The level of regional accuracy of individual assignment available from the enhanced DFO and GAPS suites of microsatellites was projected to require 90 and 82 SNPs, respectively. The level of individual assignment to specific populations available from the enhanced DFO and GAPS suites of microsatellites was projected to require 137 and 121 SNPs, respectively.
机译:在这项研究中解决了以下问题:(1)如果将一整套12–15个微卫星用于Chinook鲑Oncorhynchus tshawytscha的遗传种群鉴定(GSI),则该套件中应包含哪些微卫星? (2)需要多少微卫星才能提供等同于72个单核苷酸多态性(SNP)的种群识别分辨率? (3)需要多少个SNP才能替换GSI应用中使用的当前微卫星基线? (4)如果微卫星基线需要额外的GSI功率,那么SNP和微卫星所提供的增量是多少?调查了不列颠哥伦比亚省16个地区的60支奇努克鲑鱼种群中29个微卫星基因座和73个SNP基因座的变异。与等位基因较少的那些相比,观察到的等位基因更多的微卫星提供了更准确的种群组成估算。用于提高12个场所的加拿大渔业和海洋部(DFO)微卫星套件范围的种群组成估计值的准确性和精确度的可用选项包括在现有套件中添加4个微卫星或25个SNP,以实现特定于种群的整体精度为86在60个人口中所占的百分比。对于太平洋鲑鱼(GAPS)的13个位点的遗传分析,可以在现有套件中添加2个微卫星或20–25个SNP,以达到估计种群组成中特定种群准确度的86%。预计增强的DFO(16个基因座)和GAPS(15个基因座)微卫星基线分别需要179个和166个SNP,才能达到特定于人群的估计值的精确度。增强型DFO和GAPS微卫星套件可提供的单个指配区域精度水平预计分别需要90和82个SNP。从增强的DFO和GAPS微卫星套件中可获得的特定人群的个体分配水平预计分别需要137和121个SNP。

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