Different processes shape the patterns of divergence in the nuclear and chloroplast genomes of a relict tree species in East Asia
Different processes shape the patterns of divergence in the nuclear and chloroplast genomes of a relict tree species in East Asia
复制标题
不同的过程塑造了东亚孑遗树种的核和叶绿体基因组的分化模式
DOI：
10.1002/ece3.6200
复制
发表时间：
2020-03
影响因子：
2.6
通讯作者：
Wang Hong-Fang
中科院分区：
文献类型：
--
作者：
Tian Xiang-Yu;Ye Jun-Wei;Wang Tian-Ming;Bao Lei;Wang Hong-Fang
摘要空间距离隔离（IBD）、环境隔离（IBE）和历史气候不稳定性隔离（IBI）是地理学和景观遗传学研究中常见的三个过程。然而，这三个过程的空间遗传格局的相对贡献很少被比较。此外，相对贡献是否在不同地区或使用不同的遗传标记进行评估时有所不同，很少有报道。圆裂山胡椒（Lindera obtusiloba）有叶绿体（cpDNA）和核微卫星（nSSR）两个姐妹遗传分支，这两个分支在东亚北方和南方的分布都不连续。在这项研究中，我们使用Mantel检验和多重矩阵回归随机化（MMRR）来确定IBD、IBE和IBI对L的相对贡献。obtusiloba populations.对两个遗传数据集（cpDNA和nSSR）和不同区域（整个物种范围以及范围的北方和南方亚区）进行了独立的Mantel检验和MMRR计算。我们发现一个显着的IBI模式在nSSR分歧的所有评估区域，而没有明确的IBI模式检测到相对于叶绿体DNA。与此相反，显着（或边缘）不同IBD模式检测到的叶绿体DNA在所有地区，而虽然一个显着的IBE是明显的整体范围，效果没有检测到在两个亚区。nSSR和cpDNA群体分化的差异可能与标记的遗传和倍性差异有关。与南部地区相比，北方地区表现出较不显著的相关模式，这可能与种群历史较短，种群范围有限有关。这项研究的结果有助于说明，标记或区域之间的比较可以有助于更好地了解不同基因组或物种范围内不同区域的种群历史。
Abstract Isolation by spatial distance (IBD), environment (IBE), and historical climatic instability (IBI) are three common processes assessed in phylogeographic and/or landscape genetic studies. However, the relative contributions of these three processes with respect to spatial genetic patterns have seldom been compared. Moreover, whether the relative contribution differs in different regions or when assessed using different genetic markers has rarely been reported. Lindera obtusiloba has been found to have two sister genetic clades of chloroplast (cpDNA) and nuclear microsatellite (nSSR), both of which show discontinuous distribution in northern and southern East Asia. In this study, we used the Mantel test and multiple matrix regression with randomization (MMRR) to determine the relative contributions of IBD, IBE, and IBI with respect to L. obtusiloba populations. Independent Mantel tests and MMRR calculations were conducted for two genetic data sets (cpDNA and nSSR) and for different regions (the overall species range, and northern and southern subregions of the range). We found a significant IBI pattern in nSSR divergence for all assessed regions, whereas no clear IBI pattern was detected with respect to cpDNA. In contrast, significant (or marginal) divergent IBD patterns were detected for cpDNA in all regions, whereas although a significant IBE was apparent with respect to the overall range, the effect was not detected in the two subregions. The differences identified in nSSR and cpDNA population divergence may be related to differences in the heredity and ploidy of the markers. Compared with the southern region, the northern region showed less significant correlation patterns, which may be related to the shorter population history and restricted population range. The findings of this study serve to illustrate that comparing between markers or regions can contribute to gaining a better understanding the population histories of different genomes or within different regions of a species' range.
登录
查看更多内容
影响因子：
3.4
作者：
Dong F;Hung CM;Li XL;Gao JY;Zhang Q;Wu F;Lei FM;Li SH;Yang XJ
通讯作者：
Yang XJ
历史和当代地理和环境因素对第三纪孑遗物种香果树（茜草科）系统发育地理学结构的贡献
影响因子：
4.6
作者：
Zhang YH;Wang IJ;Comes HP;Peng H;Qiu YX
通讯作者：
Qiu YX
DOI：
10.1073/pnas.1601073113
发表时间：
2016-07
期刊：
Proceedings of the National Academy of Sciences
影响因子：
--
作者：
L. Rissler
通讯作者：
L. Rissler
影响因子：
5.9
作者：
Phillips, Steven J.;Dudik, Miroslav
通讯作者：
Dudik, Miroslav
影响因子：
4.9
作者：
C. Shields;D. Bailey;G. Danabasoglu;M. Jochum;J. Kiehl;S. Levis;Sungsu Park
通讯作者：
C. Shields;D. Bailey;G. Danabasoglu;M. Jochum;J. Kiehl;S. Levis;Sungsu Park