Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA.
Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA.
复制标题
线粒体 DNA 中取代率的逐位估计和速率相关性。
DOI：
10.1093/sysbio/46.2.346
复制
发表时间：
1997
影响因子：
6.5
通讯作者：
Nielsen,R
中科院分区：
文献类型：
--
作者：
Nielsen,R
提出了一种独立估计不同核苷酸位点相对取代率的最大似然方法。使用这种方法，可以分析DNA序列的进化，而不需要假设位点之间的特定分布速率。为了研究位点之间的相关模式，该方法应用于由10种脊椎动物线粒体基因组的蛋白质编码区组成的数据集。在相隔40个密码子的距离上，速率似乎有很强的相关性。此外，距离约75个密码子的位点似乎存在一些高阶相关性。逐点估计替代率的方法也可用于检查沿DNA序列的速率变化的其他方面，并评估沿序列的树的支配力的差异。
A maximum likelihood method for independently estimating the relative rate of substitution at different nucleotide sites is presented. With this method, the evolution of DNA sequences can be analyzed without assuming a specific distribution of rates among sites. To investigate the pattern of correlation of rates among sites, the method was applied to a data set consisting of the protein-coding regions of the mitochondrial genome from 10 vertebrate species. Rates appear to be strongly correlated at distances up to 40 codons apart. Furthermore, there appears to be some higher order correlation of sites approximately 75 codons apart. The method of site-by-site estimation of the rate of substitution may also be applied to examine other aspects of rate variation along a DNA sequence and to assess the difference in the support of a tree along the sequence.