Founder effects shape linkage disequilibrium and genomic diversity of a partially clonal invader
Founder effects shape linkage disequilibrium and genomic diversity of a partially clonal invader
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DOI：
10.1111/mec.15854
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发表时间：
2021-04-09
影响因子：
4.9
通讯作者：
Sotka, Erik E.
中科院分区：
文献类型：
--
作者：
Flanagan, Ben A.;Krueger-Hadfield, Stacy A.;Sotka, Erik E.
入侵物种的基因组变异可能受到入侵过程中复杂的人口统计学历史和进化变化的影响。在这里，我们描述的瓶颈，克隆性，和人口扩张的相对影响，在确定广泛的红色macrophylocarphyton vermiculophyllum的基因组变异。它从日本大陆引进到北美和欧洲的河口，与从主要的有性繁殖到部分克隆繁殖和快速适应性进化的转变相吻合。来自35个群体的351个个体的62，285个SNP的调查，与24个染色体长度支架对齐，表明连锁不平衡（LD），观察到的杂合性（H-o），田岛D和核苷酸多样性（Pi）在非本地人群中比本地人群更大。进化模拟表明，LD和田岛的D是一致的严重的人口瓶颈。此外，在非本地范围内的克隆繁殖率的增加本身不能产生所观察到的模式，但可能放大了LD的瓶颈效应。在遗传源种群中标记多样性的升高可能导致了在非本地范围内观察到的H-O和Pi的增加。我们改进了以前的入侵源区，以类似的50公里的一段东北本州岛。离群值检测方法未能揭示任何一贯分化的位点之间共享入侵的地区，可能是因为复杂的A。虫叶类的历史。我们的研究结果加强了人口统计学历史的重要性，特别是创始人的影响，在驱动入侵种群的基因组变异，即使在本地化的适应性进化和生殖系统的变化被观察到。
The genomic variation of an invasive species may be affected by complex demographic histories and evolutionary changes during the invasion. Here, we describe the relative influence of bottlenecks, clonality, and population expansion in determining genomic variability of the widespread red macroalga Agarophyton vermiculophyllum. Its introduction from mainland Japan to the estuaries of North America and Europe coincided with shifts from predominantly sexual to partially clonal reproduction and rapid adaptive evolution. A survey of 62,285 SNPs for 351 individuals from 35 populations, aligned to 24 chromosome-length scaffolds indicate that linkage disequilibrium (LD), observed heterozygosity (H-o), Tajima's D, and nucleotide diversity (Pi) were greater among non-native than native populations. Evolutionary simulations indicate LD and Tajima's D were consistent with a severe population bottleneck. Also, the increased rate of clonal reproduction in the non-native range could not have produced the observed patterns by itself but may have magnified the bottleneck effect on LD. Elevated marker diversity in the genetic source populations could have contributed to the increased H-o and Pi observed in the non-native range. We refined the previous invasion source region to a similar to 50 km section of northeastern Honshu Island. Outlier detection methods failed to reveal any consistently differentiated loci shared among invaded regions, probably because of the complex A. vermiculophyllum demographic history. Our results reinforce the importance of demographic history, specifically founder effects, in driving genomic variation of invasive populations, even when localized adaptive evolution and reproductive system shifts are observed.