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一些密切相关的狭义叶螨属物种(蜱螨目:叶螨科)在公共 DNA 序列数据库中的批判性评价。

A critical review on some closely related species of Tetranychus sensu stricto (Acari: Tetranychidae) in the public DNA sequences databases.

机构信息

Plant Quarantine, Embrapa Recusrsos Genéticos e Biotecnologia, Parque Estação Biológica, Norte Final W5, Caixa Postal 02372, Brasília, DF 70770-917, Brazil.

出版信息

Exp Appl Acarol. 2011 Sep;55(1):1-23. doi: 10.1007/s10493-011-9453-5. Epub 2011 Apr 6.

Abstract

Taxonomic misidentification of the specimens used to obtain DNA sequences is a growing problem reported for different groups of organisms, which threatens the utility of the deposited sequences in public DNA databases. This paper provides new evidence of misidentifications in molecular DNA public databases in phytophagous mites of the Tetranychidae family belonging to the group Tetranychus (Tetranychus). Several species in this group are of economic and quarantine importance in agriculture and among them Tetranychus urticae, a highly polyphagous mite causing outbreaks in many crops worldwide, is certainly the most studied. We analyzed and evaluated the identity of 105 GenBank accessions of ITS2 rDNA and 138 COI mtDNA sequences which were deposited as T. urticae and those of 14 other taxa morphologically closely related to Tetranychus sensu stricto. In addition, ITS2 and COI sequences of 18 T. urticae samples collected for this study and identified by morphological criteria, were generated and included in the analyzed dataset. Among the deposited sequences in the GenBank database, numerous cases of apparently mistaken identities were identified in the group Tetranychus s. str., especially between T. urticae, T. cinnabarinus, T. kanzawai and T. truncatus. Unreliable sequences (misidentified or dubious) were estimated at nearly 30%. In particular the analysis supports the invalidity of the controversial species status of T. cinnabarinus. More generally, it highlights the need of using combined morphological and molecular approaches to guarantee solid species diagnostics for reliable sequence accessions in public databases.

摘要

用于获取 DNA 序列的标本的分类错误是一个在不同生物群中不断被报道的问题,这威胁到公共 DNA 数据库中已储存序列的使用。本文提供了有关植食性螨类 Tetranychidae 家族 Tetranychus(Tetranychus)组分子 DNA 公共数据库中鉴定错误的新证据。该组中的几个物种在农业和检疫方面具有经济重要性,其中 T. urticae 是一种高度多食性螨,在全球许多作物中引发爆发,无疑是研究最多的。我们分析和评估了 105 个 GenBank 访问号 ITS2 rDNA 和 138 个 COI mtDNA 序列的身份,这些序列被储存为 T. urticae,以及与 Tetranychus sensu stricto 形态上密切相关的 14 个其他分类单元。此外,还生成并包含在分析数据集中了为这项研究而收集并通过形态学标准鉴定为 T. urticae 的 18 个样本的 ITS2 和 COI 序列。在 GenBank 数据库中储存的序列中,在 Tetranychus s. str. 组中发现了许多明显的错误身份,特别是在 T. urticae、T. cinnabarinus、T. kanzawai 和 T. truncatus 之间。不可靠的序列(鉴定错误或可疑)估计接近 30%。特别是,该分析支持了有争议的 T. cinnabarinus 物种地位的无效性。更普遍地,它强调需要使用形态学和分子学结合的方法,以确保在公共数据库中可靠的序列访问中进行可靠的物种诊断。

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