Resolution of phylogenetic relationships among recently evolved species as a function of amount of DNA sequence:: An empirical study based on woodpeckers (Aves: Picidae)
Resolution of phylogenetic relationships among recently evolved species as a function of amount of DNA sequence:: An empirical study based on woodpeckers (Aves: Picidae)
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DOI：
10.1006/mpev.2000.0780
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发表时间：
2000-07-01
影响因子：
4.1
通讯作者：
Moore, WS
中科院分区：
文献类型：
--
作者：
DeFilippis, VR;Moore, WS
在13个线粒体编码的蛋白质基因中的同义替换形成了一个大的字符池，应该接近独立和相同分布的系统发育分析的理想。从多个线粒体蛋白质编码基因的汇集序列，应导致在统计上更强大的物种之间的关系，分歧足够最近，大多数核苷酸取代是同义的，细胞色素氧化酶I（COI）的啄木鸟物种的细胞色素B（cyt B）序列进行测序。配对设计试验基于正态分布的结果表明，当比较所有核苷酸时，cyt B比COI进化得更快，但它们的速率对于同义替换是相等的。通过自举比例测量的关系的统计支持随着核苷酸数量从1047（cyt B）增加到1512（COI）再到2559个核苷酸（聚合数据集）而增加。伪自举重复显示出相同的趋势，并且将超过2559个核苷酸的实际长度的序列的量增加到5120（2x）导致更强的自举支持，即使系统发育信息的量是相同的。然而，解析节间所需的序列量取决于节间的长度及其深度，参见Genesis，（C）2000 Academic Press。
Synonymous substitutions in the 13 mitochondrial encoded protein genes form a large pool of characters that should approach the ideal for phylogenetic analysis of being independently and identically distributed. Pooling sequences from multiple mitochondrial protein-coding genes should result in statistically more powerful estimates of relationships among species that diverged sufficiently recently that most nucleotide substitutions are synonymous, Cytochrome oxidase I (COI) was sequenced for woodpecker species for which cytochrome b (cyt b) sequences were available. A pairing-design test; based on the normal distribution indicated that cyt b evolves more rapidly than COI when all nucleotides are compared but their rates are equal for synonymous substitutions, Nearly all of the phylogenetically informative substitutions among woodpeckers are synonymous. Statistical support for relationships, as measured by bootstrap proportions, increased as the number of nucleotides increased from 1047 (cyt b) to 1512 (COI) to 2559 nucleotides (aggregate data set). Pseudo-bootstrap replicates showed the same trend and increasing the amount of sequence beyond the actual length of 2559 nucleotides to 5120 (2x) resulted in stronger bootstrap support, even though the amount of phylogenetic information was the same. However, the amount of sequence required to resolve an internode depends on the length of the internode and its depth in the phylogeny, (C) 2000 Academic Press.