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首页> 美国卫生研究院文献>PLoS Clinical Trials >Evaluating sampling strategy for DNA barcoding study of coastal and inland halo-tolerant Poaceae and Chenopodiaceae: A case study for increased sample size
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Evaluating sampling strategy for DNA barcoding study of coastal and inland halo-tolerant Poaceae and Chenopodiaceae: A case study for increased sample size

机译：沿海和内陆耐盐禾本科和藜科的DNA条形码研究的评估采样策略：增加样本量的案例研究

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Environmental conditions in coastal salt marsh habitats have led to the development of specialist genetic adaptations. We evaluated six DNA barcode loci of the 53 species of Poaceae and 15 species of Chenopodiaceae from China's coastal salt marsh area and inland area. Our results indicate that the optimum DNA barcode was ITS for coastal salt-tolerant Poaceae and matK for the Chenopodiaceae. Sampling strategies for ten common species of Poaceae and Chenopodiaceae were analyzed according to optimum barcode. We found that by increasing the number of samples collected from the coastal salt marsh area on the basis of inland samples, the number of haplotypes of Arundinella hirta, Digitaria ciliaris, Eleusine indica, Imperata cylindrica, Setaria viridis, and Chenopodium glaucum increased, with a principal coordinate plot clearly showing increased distribution points. The results of a Mann-Whitney test showed that for Digitaria ciliaris, Eleusine indica, Imperata cylindrica, and Setaria viridis, the distribution of intraspecific genetic distances was significantly different when samples from the coastal salt marsh area were included (P < 0.01). These results suggest that increasing the sample size in specialist habitats can improve measurements of intraspecific genetic diversity, and will have a positive effect on the application of the DNA barcodes in widely distributed species. The results of random sampling showed that when sample size reached 11 for Chloris virgata, Chenopodium glaucum, and Dysphania ambrosioides, 13 for Setaria viridis, and 15 for Eleusine indica, Imperata cylindrica and Chenopodium album, average intraspecific distance tended to reach stability. These results indicate that the sample size for DNA barcode of globally distributed species should be increased to 11–15.
机译：沿海盐沼栖息地的环境条件导致了专门的遗传适应的发展。我们评估了来自中国沿海盐沼地区和内陆地区的禾本科53种和藜科15种的6个DNA条码位点。我们的结果表明，对于沿海耐盐禾本科，最佳DNA条形码是ITS，而对于藜科，最佳DNA条形码是matK。根据最佳条形码，分析了十种常见禾本科和藜科的采样策略。我们发现，在内陆采样的基础上，通过增加从沿海盐沼地区收集的采样数量，可增加平邑香气单胞菌，Digitaria ciliaris，Eleusine indica，Imperata cylindrica，Setaria viridis和Chenopodium glaucum的单倍型。主坐标图清楚地显示了分布点的增加。 Mann-Whitney试验的结果表明，对于Digitaria ciliaris，Eleusine indica，Imperata cylindrica和Setaria viridis，当包括沿海盐沼地区的样品时，种内遗传距离的分布差异显着（P <0.01）。这些结果表明，增加专业生境中的样本量可以改善种内遗传多样性的测量，并将对广泛分布物种中DNA条形码的应用产生积极影响。随机抽样的结果表明，当虎尾草，青藜和臭参中的样本量达到11时，印度Set毛虫为13例，E实为13例，E叶伊丽莎白的样本量达到15时， I（Imperata cylindrica）和 Chenopodium album < / em>，平均种内距离趋于达到稳定。这些结果表明，全球分布物种的DNA条码的样本大小应增加到11-15。

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