Phylogeographic analysis of the cornsnake (Elaphe guttata) complex as inferred from maximum likelihood and Bayesian analyses
Phylogeographic analysis of the cornsnake (Elaphe guttata) complex as inferred from maximum likelihood and Bayesian analyses
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DOI：
10.1016/s1055-7903(02)00306-8
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发表时间：
2002-12-01
影响因子：
4.1
通讯作者：
Burbrink, FT
中科院分区：
文献类型：
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作者：
Burbrink, FT
大多数地理学研究使用最大似然法或最大简约法来推断遗传学，并使用自助分析来评估对树木的支持。最近，贝叶斯方法使用Marlov链蒙特卡罗搜索树空间，同时估计树的支持度已经变得流行，由于其快速的搜索速度和创建感兴趣的参数的后验分布的能力。在这里，我提出了一项研究，利用贝叶斯方法推断系统发育关系的玉米蛇（锦蛇）复杂的细胞色素B序列。检验后验概率分布证实了三个地理谱系的存在。此外，没有证据支持E.点滴结果表明，这三个地理谱系部分符合以前定义的亚种的范围，虽然Shimodaira-Hasegawa测试表明，亚种约束树产生显着较差的可能性估计比最有可能的树反映了三个地理组合的演变。基于分子生物学的支持，这三个地理组合被认为是种的进化标准：E。guttata，Elaphe slowinskii和Elaphe emoryi [1]地理的，最大似然，最大简约，自举，贝叶斯，马尔可夫链蒙特卡罗，玉米蛇，细胞色素B，地理谱系，E. guttta，E. slowinskii和E. emoryi]。(C)2002 Elsevier Science（美国）。All rights reserved.
Most phylogeographic studies have used maximum likelihood or maximum parsimony to infer phylogeny and bootstrap analysis to evaluate support for trees. Recently, Bayesian methods using Marlov chain Monte Carlo to search tree space and simultaneously estimate tree support have become popular due to its fast search speed and ability to create a posterior distribution of parameters of interest. Here, I present a study that utilizes Bayesian methods to infer phylogenetic relationships of the cornsnake (Elaphe guttata) complex using cytochrome b sequences. Examination of the posterior probability distributions confirms the existence of three geographic lineages. Additionally, there is no support for the monophyly of the subspecies of E. guttata. Results suggest the three geographic lineages partially conform to the ranges of previously defined subspecies, although Shimodaira-Hasegawa tests suggest that subspecies-con strained trees produce significantly poorer likelihood estimates than the most likely trees reflecting the evolution of three geographic assemblages. Based on molecular support, these three geographic assemblages are recognized as species using evolutionary species criteria: E. guttata, Elaphe slowinskii, and Elaphe emoryi [phylogeographic, maximum likelihood, maximum parsimony, bootstrap, Bayesian, Markov chain Monte Carlo, cornsnake, Cytochrome b, geographic lineages, E. guttta, E. slowinskii, and E. emoryi]. (C) 2002 Elsevier Science (USA). All rights reserved.