Genomic assessment of local adaptation in dwarf birch to inform assisted gene flow
Genomic assessment of local adaptation in dwarf birch to inform assisted gene flow
复制标题
矮桦局部适应的基因组评估以告知辅助基因流
DOI：
10.1101/727156
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发表时间：
2019
期刊：
影响因子：
--
通讯作者：
Borrell J
中科院分区：
文献类型：
--
作者：
Borrell J
当一个稀有物种的种群数量很小，孤立，并在气候变化下下降时，一些种群可能会变得不适应当地环境。检测这种适应不良可能允许有效的快速保护干预措施，即使是基于不完整的知识。群体适应不良可以通过在当地物种范围内发现等位基因频率和环境变量之间的基因组-环境关联（GEA），并确定等位基因频率不符合这些趋势的群体来估计。然后，我们可以为不适应的种群设计辅助基因流策略，以调整其等位基因频率，比无方向的保护行动需要更低水平的干预。在这里，我们调查这一战略在苏格兰人口的山地植物矮桦（矮桦）。在全基因组限制性位点相关单核苷酸多态性（SNP）数据中，我们发现了267个SNP位点与环境变量之间的显著关联。我们根据适应不良对种群进行了排名，这些适应不良是使用等位基因频率偏离这些位点的总体趋势来估计的;这与Shapely指数相比，为保护行动提供了不同的优先级，Shapely指数旨在保护罕见的中性变异。估计不适应的人群在与年平均温度相关的基因座的等位基因频率被发现有减少柔荑花序生产。使用环境生态位建模（ENM）的方法，我们发现年平均温度（35%），平均昼夜变化（15%），是重要的预测的矮桦分布。有趣的是，与GEA中每个环境变量相关的基因座数量与ENM中该变量的重要性之间存在显着相关性。总之，这些结果表明，相同的环境变量决定了适应性遗传变异和物种范围在苏格兰矮桦。我们提出了一个辅助基因流策略，旨在最大限度地提高当地适应矮桦种群在气候变化下的等位基因频率匹配当前和未来的环境。
When populations of a rare species are small, isolated and declining under climate change, some populations may become locally maladapted. Detecting this maladaptation may allow effective rapid conservation interventions, even if based on incomplete knowledge. Population maladaptation may be estimated by finding genome–environment associations (GEA) between allele frequencies and environmental variables across a local species range, and identifying populations whose allele frequencies do not fit with these trends. We can then design assisted gene flow strategies for maladapted populations, to adjust their allele frequencies, entailing lower levels of intervention than with undirected conservation action. Here, we investigate this strategy in Scottish populations of the montane plant dwarf birch (Betula nana). In genome‐wide restriction site‐associated single nucleotide polymorphism (SNP) data, we found 267 significant associations between SNP loci and environmental variables. We ranked populations by maladaptation estimated using allele frequency deviation from the general trends at these loci; this gave a different prioritization for conservation action than the Shapely Index, which seeks to preserve rare neutral variation. Populations estimated to be maladapted in their allele frequencies at loci associated with annual mean temperature were found to have reduced catkin production. Using an environmental niche modelling (ENM) approach, we found annual mean temperature (35%), and mean diurnal range (15%), to be important predictors of the dwarf birch distribution. Intriguingly, there was a significant correlation between the number of loci associated with each environmental variable in the GEA and the importance of that variable in the ENM. Together, these results suggest that the same environmental variables determine both adaptive genetic variation and species range in Scottish dwarf birch. We suggest an assisted gene flow strategy that aims to maximize the local adaptation of dwarf birch populations under climate change by matching allele frequencies to current and future environments.
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影响因子：
4.1
作者：
Eizaguirre C;Baltazar-Soares M
通讯作者：
Baltazar-Soares M
影响因子：
4.1
作者：
Harrisson KA;Pavlova A;Telonis-Scott M;Sunnucks P
通讯作者：
Sunnucks P
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
适应变暖的世界：生态恢复、气候变化和基因组学。
DOI：
--
发表时间：
2016
期刊：
American-Eurasian journal of botany
影响因子：
--
作者：
K. Hodgins;Joslin L. Moore
通讯作者：
Joslin L. Moore
影响因子：
4.9
作者：
Frankham, Richard
通讯作者：
Frankham, Richard