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首页> 外文会议>European Association for Research on Plant Breeding General Congress >Selection of a core set of informative gene-derived SSR and SNP markers for assaying the genetic variation in germplasm collections of barley for abiotic stress tolerance
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Selection of a core set of informative gene-derived SSR and SNP markers for assaying the genetic variation in germplasm collections of barley for abiotic stress tolerance

机译：选择核心信息基因衍生的SSR和SNP标记的核心集，用于测定大麦种质收集的遗传变异以进行非生物胁迫耐受性

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A core set of informative gene (EST)-derived SSR (simple sequence repeat or microsatellite) and SNP (single nucleotide polymorphism) markers was selected for the analysis of the genetic background and to make inferences about population structure of aset of >220 barley lines comprising landraces, accessions, cultivars, etc. In this direction, a total of 50 SSR and 50 SNP markers from the transcript map of barley were used with a set of 6 highly diverse barley accessions by employing fluorescence-based fragment analysis (for SSR) and allele-specific sequencing (for SNP) techniques. Finally, a core set of 28 SSR and 28 SNP markers was identified on the basis of the following criteria: (i) randomly distributed markers (2 markers per chromosome arms),(ii) high PIC (polymorphic information content) value, and (iii) producing good quality peaks. Details on different features like PIC, number of alleles or SNPs detected per marker, the haplotypes, and the calculated nucleotide diversity index (jt value)for selected SSR and SNP markers are discussed. With the help of SNP2CAPS tool (http://pgrc.ipk-gatersleben.de/snp2caps/), putative restriction enzymes were identified for 20 of 28 targeted SNPs; therefore, they can be assayed on agarose gel by using CAPS marker assay. Furthermore, comparison of SSR and SNP marker data for cladistic analysis suggest that both marker types yield similar groupings.
机译：选择了一种核心信息基因（EST）的SSR（简单序列重复或微卫星）和SNP（单核苷酸多态性）标记物用于分析遗传背景，并对ASET的群体结构推断出来> 220大米在这种方向上，包括实体，加入，栽培品种等，通过采用基于荧光的片段分析（对于SSR），共使用来自大麦的转录物图的50个SSR和50个SNP标记与一组6个高度多样化的大麦加入物（用于SSR）和等位基因特异性测序（用于SNP）技术。最后，在以下标准的基础上确定了28SSR和28个SNP标记的核心组：（i）随机分布标记（每条染色体臂2个标记），（ii）高PIC（多态信息含量）值，和（ iii）生产良好的峰。讨论了关于PIC的不同特征的细节，每个标记检测到的每个标记，单倍型和所选择的SSR和SNP标记的单位和计算的核苷酸分集指数（JT值）的等位基因或SNP。在SNP2CAPS工具的帮助下（http://pgrc.ipk-gatersleben.de/snp2caps/），鉴定推定的限制酶，其中20个靶向snps中的20个;因此，通过使用帽标记测定，可以在琼脂糖凝胶上测定它们。此外，SSR和SNP标记数据的比较用于层压分析表明，标记类型都产生了类似的分组。

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