Patterns of genetic variation in a prairie wildflower, Silphium integrifolium , suggest a non‐prairie origin and locally adaptive variation
Patterns of genetic variation in a prairie wildflower, Silphium integrifolium , suggest a non‐prairie origin and locally adaptive variation
复制标题
草原野花 Silphium integrifolium 的遗传变异模式表明其非草原起源和局部适应性变异
DOI：
10.1002/ajb2.1603
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发表时间：
2021
影响因子：
3
通讯作者：
Brandvain, Yaniv
中科院分区：
文献类型：
--
作者：
Raduski, Andrew R.;Herman, Adam;Pogoda, Cloe;Dorn, Kevin M.;Van Tassel, David L.;Kane, Nolan;Brandvain, Yaniv
前言：了解遗传结构和地理之间的关系可以提供有关物种历史的信息，并可用于育种和保护目标。北美大草原之所以有趣，是因为它最近的起源和随后的分裂。全叶香是美国草原上标志性的多年生野花，经过几代人的改良后，成为驯化的目标。我们首次应用种群遗传学数据来解决以下目标：(1)通过表征遗传结构来改进育种；(2)确定物种的地理起源以及在范围扩大期间选择的潜在目标和驱动因素。方法我们开发了一个参考转录组，作为整个物种范围内样本的基因分型参考。群体遗传分析被用来描述遗传变异的模式，人口模型被用来描述形成变异的潜在过程。选择的异常值扫描和与环境变量的关联被用来识别与假设的选择目标和驱动因素相关联的基因座。结果遗传变异将样本划分为三个地理簇。变异模式和人口模型表明，该物种起源于美国东南部。育种计划材料来自观察到的遗传变异最小的地区。结论草原物种不是起源于草原。通过包括来自种质创建区以外的材料，可以改进育种。地理结构和确定的适应目标和驱动因素可以指导对具有有益农艺性状的种群的收集工作。
PREMISEUnderstanding the relationship between genetic structure and geography provides information about a species’ history and can be used for breeding and conservation goals. The North American prairie is interesting because of its recent origin and subsequent fragmentation.Silphium integrifolium, an iconic perennial American prairie wildflower, is targeted for domestication, having undergone a few generations of improvement. We present the first application of population genetic data in this species to address the following goals: (1) improve breeding by characterizing genetic structure and (2) identify the species geographic origin and potential targets and drivers of selection during range expansion.METHODSWe developed a reference transcriptome as a genotyping reference for samples from throughout the species range. Population genetic analyses were used to describe patterns of genetic variation, and demographic modeling was used to characterize potential processes that shaped variation. Outlier scans for selection and associations with environmental variables were used to identify loci linked to putative targets and drivers of selection.RESULTSGenetic variation partitioned samples into three geographic clusters. Patterns of variation and demographic modeling suggest that the species origin is in the American Southeast. Breeding program accessions are from the region with lowest observed genetic variation.CONCLUSIONSThis prairie species did not originate within the prairie. Breeding may be improved by including accessions from outside of the germplasm founding region. The geographic structuring and the identified targets and drivers of adaptation can guide collecting efforts toward populations with beneficial agronomic traits.