Frequent chloroplast capture among Isodon (Lamiaceae) species in Japan revealed by phylogenies based on variation in chloroplast and nuclear DNA
Frequent chloroplast capture among Isodon (Lamiaceae) species in Japan revealed by phylogenies based on variation in chloroplast and nuclear DNA
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DOI：
10.1111/1442-1984.12239
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发表时间：
2019-07
影响因子：
1.4
通讯作者：
Miho Ogishima;Sachikio Horie;Takuma Kimura;T. Yamashiro;Ikumi Dohzono;Lina Kawaguchi;A. Nagano;M. Maki
中科院分区：
文献类型：
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作者：
Miho Ogishima;Sachikio Horie;Takuma Kimura;T. Yamashiro;Ikumi Dohzono;Lina Kawaguchi;A. Nagano;M. Maki
最近一项仅基于叶绿体DNA（cpDNA）变异的系统发育研究表明，一个香茶菜属物种的种群经常嵌入其他香茶菜属物种的并系。物种分类学和分子系统学之间的这种系统发育差异被认为是由于叶绿体DNA捕获和/或不完整的谱系分选。为了阐明这些因素中的哪一个主要负责观察到的系统发育模式，我们使用cpDNA变异，三个单拷贝核基因和双酶切限制性位点相关DNA测序（ddRAD‐seq）对日本的香茶菜属物种的多个种群进行了系统发育分析。尽管一个物种经常与其他物种共享叶绿体，但我们基于三个单拷贝核基因变异和ddRAD-seq数据的系统发育分析表明，属于同一物种的大多数种群在物种水平上都是单系的，这表明叶绿体捕获可能经常发生在香茶菜属物种之间。一些种群的种内类群嵌入并系内的物种，无论核DNA中的系统发育信息的大量，这种不一致可能是由于不完整的谱系排序。
A recent phylogenetic study based only on chloroplast DNA (cpDNA) variation revealed that populations of an Isodon species are frequently embedded paraphyletically among other Isodon species. This phylogenetic discrepancy between species taxonomy and molecular phylogeny was considered to have resulted from chloroplast DNA captures and/or incomplete lineage sorting. To elucidate which of these factors was mainly responsible for the observed phylogenetic pattern, we performed phylogenetic analyses of multiple populations of Isodon species in Japan using cpDNA variation, three single‐copy nuclear genes, and double‐digest restriction‐site‐associated DNA sequencing (ddRAD‐seq). Although a species often shared chlorotypes with other species, our phylogenetical analyses based on variation in the three single‐copy nuclear genes and the ddRAD‐seq data showed that most populations belonging to the same species were monophyletic at the species level, suggesting that chloroplast capture may have frequently occurred between Isodon species. Some populations of an intraspecific taxon were embedded paraphyletically within the species, regardless of the large amount of phylogenetic information in nuclear DNA; this incongruity may have resulted from incomplete lineage sorting.