Applications of Multiple Nuclear Genes to the Molecular Phylogeny, Population Genetics and Hybrid Identification in the Mangrove Genus Rhizophora.
Applications of Multiple Nuclear Genes to the Molecular Phylogeny, Population Genetics and Hybrid Identification in the Mangrove Genus Rhizophora.
复制标题
多核基因在红树属红树属分子系统发育、群体遗传学和杂种鉴定中的应用。
DOI：
10.1371/journal.pone.0145058
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发表时间：
2015
期刊：
影响因子：
3.7
通讯作者：
Shi S
中科院分区：
文献类型：
--
作者：
Chen Y;Hou Y;Guo Z;Wang W;Zhong C;Zhou R;Shi S
红树植物是红树林的重要组成部分。该系统是研究红树植物地理学、分子进化、种群遗传学、杂交和保护遗传学的理想系统。然而，没有足够的分子标记来解决这些问题。在这里，我们开发了77对核基因引物，这些引物在所有五种Rhizophora物种中均成功进行了PCR扩增，并在R.有尖的。在这里，我们提出了三个试探性的应用程序，使用一个子集的发达的核基因（I）重建的遗传，（II）检查的遗传结构和（III）确定自然杂交Rhizophora。系统发育分析支持的假设，Rhizophora已经消失在南极东太平洋（AEP）地区，并从IWP地区重新殖民约12.7 Mya。对四个自然居群的群体遗传学进行了分析。apiculata的遗传多样性极低，种群分化强烈，混合性较强，表明更新世冰期，特别是末次盛冰期，对该属的种群动态有重要影响。apiculata在海南。我们还证实了一个形态学上介于R. apiculata和R.海南的红海榄。根据5个核基因和1个叶绿体基因间隔区的序列分析，该个体可能是一个F1杂种，与R. stylosa作为其母本。在这项研究中开发的核基因标记应该是非常有价值的特性的杂交和渐渗模式在其他情况下，本属和测试的作用，自然选择使用人口基因组学方法。
The genus Rhizophora is one of the most important components of mangrove forests. It is an ideal system for studying biogeography, molecular evolution, population genetics, hybridization and conservation genetics of mangroves. However, there are no sufficient molecular markers to address these topics. Here, we developed 77 pairs of nuclear gene primers, which showed successful PCR amplifications across all five Rhizophora species and sequencing in R. apiculata. Here, we present three tentative applications using a subset of the developed nuclear genes to (I) reconstruct the phylogeny, (II) examine the genetic structure and (III) identify natural hybridization in Rhizophora. Phylogenetic analyses support the hypothesis that Rhizophora had disappeared in the Atlantic-East Pacific (AEP) region and was re-colonized from the IWP region approximately 12.7 Mya. Population genetics analyses in four natural populations of R. apiculata in Hainan, China, revealed extremely low genetic diversity, strong population differentiation and extensive admixture, suggesting that the Pleistocene glaciations, particularly the last glacial maximum, greatly influenced the population dynamics of R. apiculata in Hainan. We also verified the hybrid status of a morphologically intermediate individual between R. apiculata and R. stylosa in Hainan. Based on the sequences of five nuclear genes and one chloroplast intergenic spacer, this individual is likely to be an F1 hybrid, with R. stylosa as its maternal parent. The nuclear gene markers developed in this study should be of great value for characterizing the hybridization and introgression patterns in other cases of this genus and testing the role of natural selection using population genomics approaches.