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首页> 外文期刊>Genetic Resources and Crop Evolution >Genetic diversity of Danthonia spicata (L.) Beauv. based on genomic simple sequence repeat markers
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Genetic diversity of Danthonia spicata (L.) Beauv. based on genomic simple sequence repeat markers

机译：Danthonia Spicata（L.）Beauv的遗传多样性。 基于基因组简单序列重复标记

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Danthonia spicata (L.) Beauv., commonly known as poverty oatgrass, is a perennial bunch-type grass native to North America. D. spicata is often found in low input turfgrass areas on the East Coast of the United States and has potential for development as a new native low input turfgrass species. Roche 454 sequenced randomly sheared genomic DNA reads of D. spicata were mined for SSR markers using the MIcroSAtellite identification tool. A total of 66,553 singlet sequences (approximately 37.5 Mbp) were examined, and 3454 SSR markers were identified. Trinucleotide motifs with greater than six repeats and possessing unique PCR priming sites within the genome, as determined by Primer-BLAST, were evaluated visually for heterozygosity and mutation consistent with stepwise evolution using CLC Genomics software. Sixty-three candidate markers were selected for testing from the trinucleotide SSR marker sites meeting these in silico criteria. Ten primer pairs that amplified polymorphic loci in preliminary experiments were used to screen 91 individual plants composed of at least 3-5 plants from each of 23 different locations. The primer pairs amplified 54 alleles ranging in size from 71 to 246 bp. Minimum and maximum numbers of alleles per locus were two and 12, respectively, with an average of 5.4. A dendrogram generated by unweighted pair group method with arithmetic mean cluster analysis using the Jaccard's similarity coefficient was in agreement with the grouping obtained by Structure v2.3. The analyses were dominated by clonal groupings and lack evidence for gene flow with some alleles present in a single plant from a single location. Fourteen multilocus genotype groups were observed providing strong evidence for asexual reproduction in the studied D. spicata populations.
机译：Danthonia Spicata（L.）Beauv。，通常被称为贫困燕麦草，是一种天然的北美洲群束型草。 D. Spicata经常在美国东海岸的低投入草坪草地区发现，并具有发展成为新的天然低输入草坪种类。 Roche 454测序随机剪切的基因组DNA读取的D. SPICATA用于使用微卫星识别工具进行SSR标记。共检查总共66,553个单次序列（约37.5Mbp），并确定了3454个SSR标记。通过引物 - 爆炸的基因组中具有大于六个重复并具有独特的PCR引发位点的三核苷酸基序在目测中评估与使用CLC基因组学软件的逐步演变一致的杂合性和突变。选择六十三个候选标记物用于从硅标准中遇到这些结核的三核苷酸SSR标记位点进行测试。在初步实验中扩增多态基因座的10个引物对用于筛选由来自23个不同位置的至少3-5个植物组成的91个单独的植物。引物对放大54个等位基因，范围为71至246bp。每个基因座的最小和最大等位基因分别为2和12，平均为5.4。通过使用Jaccard的相似系数的算术平均聚类分析的未加权对组方法产生的树形图与结构V2.3获得的分组一致。分析由克隆分组支配，缺乏基因流动的证据，其中一些等位基因来自单个地点的单个植物。观察到十四个多点基因型组，为研究D. Spicata群体中的无形繁殖提供了强有力的证据。

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