Assessments of fine-scale spatial patterns of SNPs in an old-growth beech forest
Assessments of fine-scale spatial patterns of SNPs in an old-growth beech forest
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古老山毛榉林中 SNP 精细尺度空间格局的评估
DOI：
10.1038/s41437-020-0334-8
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发表时间：
2020
期刊：
影响因子：
3.8
通讯作者：
Takeshi Torimaru
中科院分区：
文献类型：
--
作者：
Masashi Tsukamoto;Shinji Akada;Shuichi Matsuda;Hitomi Jouyu;Hiromitsu Kisanuki;Nobuhiro Tomaru;Takeshi Torimaru
非中性的遗传变异的空间格局在精细的空间尺度和它们可能与微环境的关联还没有得到很好的记录树木种群。基于25-32个SNP标记，我们研究了FcMYB 1603中是否可以检测到非中性SNP及其与微环境的关联，FcMYB 1603是一个与拟南芥干旱胁迫诱导的蛋白质编码基因同源的基因，用于在1公顷的圆叶水青冈成熟种群中的166棵成年树。在一个年轻的队列的树冠下的树木的83个人，在locusFcMYB1603_684的非同义SNP表现出空间签名代表偏离预期的中性遗传变异的空间模式。对该位点的非中性评估对于由于SNP位点的数量少、次要等位基因频率的低标准集以及对树的空间结构的任何边缘效应而导致的假阳性的潜在风险是稳健的。一个较老的队列表现出没有信号的存在非中性的遗传变异，这表明在森林地面上的微环境条件的时间波动可能会暴露不同的队列不同幅度的选择压力。虽然基因型的位点表现出空间关联的微环境变量可能与土壤水分，本研究受到限制，由于一般低的多态性的非同义位点内的单一地块，这表明它将是重要的复制研究设计，以进行精细尺度的非中性遗传变异的研究。
The spatial patterns of non-neutral genetic variations at fine spatial scales and their possible associations with microenvironments have not been well-documented for tree populations. Based on 25–32 SNP markers, we examine whether non-neutral SNPs and their associations with microenvironments can be detected inFcMYB1603, a gene homologous to that encoding a protein induced by drought stress inArabidopsis thalianafor the 166 adult trees in a 1-ha plot in a mature population ofFagus crenata. In the 83 individuals of a younger cohort of below canopy trees, the nonsynonymous SNP at locusFcMYB1603_684exhibited a spatial signature representing a departure from the expected spatial patterns of neutral genetic variation. Evaluations of non-neutrality for this locus were robust against the potential risks of false positives due to the low number of SNP loci, a low criterion set for minor allele frequency, and any edge effect on the trees’ spatial structure. An older cohort exhibited no signal of the existence of non-neutral genetic variation, suggesting that temporal fluctuation in the microenvironmental conditions on the forest floor may have exposed different cohorts to different magnitudes of selection pressure. Although genotypes of the locus showed a spatial association with a microenvironmental variable potentially related to soil moisture, the present study was subject to a limitation due to the generally low polymorphism of nonsynonymous loci within the single plot, which suggests that it will be important to replicate the study design in order to carry out research on fine-scale non-neutral genetic variations.
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5.6
作者：
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通讯作者：
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DOI：
--
发表时间：
2005
期刊：
Plant Ecology 178
影响因子：
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作者：
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影响因子：
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作者：
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通讯作者：
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