European Centre for Environment and Human Health, The University of Exeter Medical School, University of Exeter, Truro, United Kingdom.
PLoS One. 2013 May 6;8(5):e62447. doi: 10.1371/journal.pone.0062447. Print 2013.
Quantifying patterns of adaptive divergence between taxa is a major goal in the comparative and evolutionary study of prokaryote genomes. When applied appropriately, the McDonald-Kreitman (MK) test is a powerful test of selection based on the relative frequency of non-synonymous and synonymous substitutions between species compared to non-synonymous and synonymous polymorphisms within species. The webserver ODoSE (Ortholog Direction of Selection Engine) allows the calculation of a novel extension of the MK test, the Direction of Selection (DoS) statistic, as well as the calculation of a weighted-average Neutrality Index (NI) statistic for the entire core genome, allowing for systematic analysis of the evolutionary forces shaping core genome divergence in prokaryotes. ODoSE is hosted in a Galaxy environment, which makes it easy to use and amenable to customization and is freely available at www.odose.nl.
量化分类群之间适应性分歧的模式是原核生物基因组比较和进化研究的主要目标。当适当地应用时，基于物种之间非同义替换和同义替换的相对频率与物种内非同义多态性和同义多态性的 McDonald-Kreitman（MK）检验是一种强大的选择检验方法。网络服务器 ODoSE（同源定向选择引擎）允许计算 MK 检验的一个新扩展，即定向选择（DoS）统计量，以及整个核心基因组加权平均中性指数（NI）统计量的计算，从而可以系统地分析塑造原核生物核心基因组分歧的进化力量。ODoSE 托管在 Galaxy 环境中，这使得它易于使用和适应定制，并可在 www.odose.nl 上免费获得。
