Wang Baohua, Zhang Yan, Wei Peipei, Sun Miao, Ma Xiaofei, Zhu Xinyu
School of Life Sciences, Nantong University, Nantong 226019, China.
Genome. 2014 Oct;57(10):547-54. doi: 10.1139/gen-2014-0138.
By far, the interordinal relationships in rosids remain poorly resolved. Previous studies based on chloroplast, mitochondrial, and nuclear DNA has produced conflicting phylogenetic resolutions that has become a widely concerned problem in recent phylogenetic studies. Here, a total of 96 single-copy nuclear gene loci were identified from the KOG (eukaryotic orthologous groups) database, most of which were first used for phylogenetic analysis of angiosperms. The orthologous sequence datasets from completely sequenced genomes of rosids were assembled for the resolution of the position of the COM (Celastrales-Oxalidales-Malpighiales) clade in rosids. Our analysis revealed strong and consistent support for CM topology (the COM clade as sister to the malvids). Our results will contribute to further exploring the underlying cause of conflict between chloroplast, mitochondrial, and nuclear data. In addition, our study identified a few novel nuclear molecular markers with potential to investigate the deep phylogenetic relationship of plants or other eukaryotic taxonomical groups.
到目前为止，蔷薇类植物目间的关系仍未得到很好的解决。以往基于叶绿体、线粒体和核DNA的研究产生了相互矛盾的系统发育解析结果，这已成为近期系统发育研究中一个广泛关注的问题。在此，从真核直系同源群（KOG）数据库中鉴定出总共96个单拷贝核基因座，其中大部分首次用于被子植物的系统发育分析。组装了蔷薇类植物完全测序基因组的直系同源序列数据集，以解析COM（卫矛目-酢浆草目-金虎尾目）分支在蔷薇类植物中的位置。我们的分析揭示了对CM拓扑结构（COM分支作为锦葵类的姐妹分支）的有力且一致的支持。我们的结果将有助于进一步探究叶绿体、线粒体和核数据之间冲突的潜在原因。此外,我们的研究鉴定出了一些新的核分子标记，它们有可能用于研究植物或其他真核生物分类群的深层次系统发育关系。
