Development of a rational nomenclature for naming peptide and protein toxins from sea anemones
Development of a rational nomenclature for naming peptide and protein toxins from sea anemones
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DOI：
10.1016/j.toxicon.2012.05.020
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发表时间：
2012-09-15
期刊：
影响因子：
2.8
通讯作者：
King, Glenn F.
中科院分区：
文献类型：
--
作者：
Oliveira, Joacir Stolarz;Fuentes-Silva, Deyanira;King, Glenn F.
海葵毒素主要是多肽和蛋白质，主要作用于钠和钾通道，以及各种引起裂解的靶细胞。近年来，由于DNA测序技术和蛋白质组学方法的发展，提交给数据库的海葵多肽毒素以及细胞溶解孔道形成蛋白和磷脂酶A(2)序列的数量迅速增加。然而，缺乏系统的命名法导致同一毒素被赋予多个名称，来自不相关物种的毒素被指定为相同的名称，并且名称指定不明确。因此，在这项工作中，我们提出了一个系统的命名法，其中我们采用了特定的标准，基于发现的顺序和系统发育分析，以避免重复的海葵毒素名称。这里提出的命名法的实施不仅使我们能够毫无含糊地重新命名已发表的191种海葵毒素，而且它还可以用来明确地命名新发现的毒素，无论它们是否与先前发表的海葵序列有关。在新的命名法中，每个毒素名称都包含有关毒素的生物活性、来源和与已知亚型的关系的信息。DNA测序速度的不断提高将显著增加文献中海葵毒素序列的数量。这对它们的明确识别和逻辑分类将是一项持续的挑战，可以使用拟议的命名法加以解决。(C)2012爱思唯尔有限公司。保留所有权利。
Sea anemone toxins are predominantly peptide and proteins that act mainly on sodium and potassium channels, as well as in a variety of target cells causing lysis. Over recent years, the number of sea anemone peptide toxins as well as cytolytic pore-forming proteins and phospholipase A(2) sequences submitted to databases has been rapidly increasing due to the developments in DNA sequencing technology and proteomic approaches. However, the lack of a systematic nomenclature has resulted in multiple names being assigned to the same toxins, toxins from unrelated species being designated by the same name, and ambiguous name designations. Therefore, in this work we propose a systematic nomenclature in which we adopted specific criteria, based on order of discovery and phylogenetic analysis, in order to avoid redundant sea anemone toxin names. Implementation of the nomenclature proposed here not only allowed us to rename the already published 191 anemone toxins without ambiguities, but it can be used to unambiguously name newly discovered toxins whether or not they are related to previously published sea anemone sequences. In the new nomenclature each toxin name contains information about the toxin's biological activity, origin and relationship to known isoforms. Ongoing increases in the speed of DNA sequencing will raise significantly the number of sea anemone toxin sequences in the literature. This will represent a constant challenge in their clear identification and logical classification, which could be solved using the proposed nomenclature. (c) 2012 Elsevier Ltd. All rights reserved.