DNA barcoding: error rates based on comprehensive sampling.
DNA barcoding: error rates based on comprehensive sampling.
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DNA 条形码：基于全面采样的错误率。
DOI：
10.1371/journal.pbio.0030422
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发表时间：
2005-12
期刊：
影响因子：
9.8
通讯作者：
Paulay G
中科院分区：
文献类型：
--
作者：
Meyer CP;Paulay G
DNA条形码已经引起了人们的注意，有望帮助物种识别和发现;然而，很少有采样良好的数据集可用于测试其性能。我们提供了第一次检查的条形码性能在一个全面的采样，不同的组（cypraeid海洋腹足类，或宝螺）。我们利用以前的方法测试性能，并采用一种新的系统发育方法来计算种内变异和种间分歧。错误率估计为（1）识别样本对一个良好的特点，和（2）协助物种发现部分已知的群体。我们发现，物种识别的最低总体误差为4%。相比之下，条形码在不完全采样的组中表现不佳。在这里，物种划分依赖于阈值的使用，设置区分种内变异和种间分歧。尽管支持者设想两者之间存在“条形码差距”，但我们发现了大量重叠，导致贝壳的错误率最低为~17%。此外，如果只分析传统识别的物种，错误率会增加一倍。因此，DNA条形码有望在分类学上得到充分理解和彻底采样的进化枝中进行识别。然而，阈值的使用并不预示着在分类学研究不足的群体中划定密切相关的物种。只有在坚实的分类学基础上，条形码的前景才能实现。使用海洋腹足类动物的全面样品的条形码的功效的检查表明，该方法表现不佳，用于识别在分类学上未充分研究的组中的密切相关的物种。
DNA barcoding has attracted attention with promises to aid in species identification and discovery; however, few well-sampled datasets are available to test its performance. We provide the first examination of barcoding performance in a comprehensively sampled, diverse group (cypraeid marine gastropods, or cowries). We utilize previous methods for testing performance and employ a novel phylogenetic approach to calculate intraspecific variation and interspecific divergence. Error rates are estimated for (1) identifying samples against a well-characterized phylogeny, and (2) assisting in species discovery for partially known groups. We find that the lowest overall error for species identification is 4%. In contrast, barcoding performs poorly in incompletely sampled groups. Here, species delineation relies on the use of thresholds, set to differentiate between intraspecific variation and interspecific divergence. Whereas proponents envision a “barcoding gap” between the two, we find substantial overlap, leading to minimal error rates of ~17% in cowries. Moreover, error rates double if only traditionally recognized species are analyzed. Thus, DNA barcoding holds promise for identification in taxonomically well-understood and thoroughly sampled clades. However, the use of thresholds does not bode well for delineating closely related species in taxonomically understudied groups. The promise of barcoding will be realized only if based on solid taxonomic foundations. An examination of the efficacy of barcoding using a comprehensive sample of marine gastropods reveals that the method performs poorly for identifying closely related species in taxonomically understudied groups.
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DOI：
10.1098/rsbl.2003.0025
发表时间：
2003-08-07
影响因子：
4.7
作者：
Hebert, PDN;Ratnasingham, S;deWaard, JR
通讯作者：
deWaard, JR
影响因子：
9.8
作者：
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通讯作者：
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DOI：
10.1098/rstb.2005.1728
发表时间：
2005-10-29
影响因子：
6.3
作者：
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通讯作者：
Nielsen, R
影响因子：
16.8
作者：
Lipscomb, D;Platnick, N;Wheeler, Q
通讯作者：
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影响因子：
16.8
作者：
Mallet, J;Willmott, K
通讯作者：
Willmott, K