Six new PCR-based markers for the Pc39 crown rust resistance gene in Avena sativa L. were developed. Pc39 was mapped to Mrg11 of the oat consensus map using BLASTn analysis. The aim of this study was the identification of molecular markers for the Pc39 gene in cultivated oat (Avena sativa L.). Pc39 is a major race-specific crown rust resistance gene originally found in an Israeli accession of the wild hexaploid Avena sterilis. The effectiveness of this gene in Europe has decreased in recent years, but is still relatively high and breeding programs would benefit from the availability of molecular markers to aid in its mapping and deployment. The complexity of the oat genome poses a significant obstacle to genetic research. No oat rust resistance genes have yet been cloned, and even the number of relevant molecular markers is very limited. Here, genotyping of a segregating population derived from a cross 'Celer' (Pc39)/STH9210 (susceptible) was conducted using RAPD- and SRAP-PCR-based methods, as well as microarray-based DArT™ and next-generation sequencing DArTseq™ techniques. Markers associated with Pc39 were placed on the hexaploid oat consensus linkage group Mrg11 at 3.7-6.7 cM. Six new PCR-based markers were developed to allow identification of the resistant Pc39 allele. These tightly linked markers will be useful in marker-assisted selection, with the closest, SCAR_3456624, being within 0.37 cM of Pc39. The newly developed markers could find applications in the fine mapping or positional cloning of this gene. Moreover, easy-to-use PCR-based markers linked to Pc39 could facilitate the utilization of this gene in oat breeding programs, especially as a component of crown rust resistance gene pyramids.

中文翻译：

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鉴定赋予燕麦抗冠锈病的Pc39基因的分子标记。

开发了六种新的基于 PCR 的标记，用于燕麦中的 Pc39 抗冠锈病基因。使用 BLASTn 分析将 Pc39 映射到燕麦共有图谱的 Mrg11。本研究的目的是鉴定栽培燕麦 (Avena sativa L.) 中 Pc39 基因的分子标记。Pc39 是一种主要的种族特异性抗冠锈病基因，最初是在以色列加入的野生六倍体不育燕麦中发现的。近年来，该基因在欧洲的有效性有所下降，但仍然相对较高，育种计划将受益于分子标记的可用性，以帮助其定位和部署。燕麦基因组的复杂性对基因研究构成了重大障碍。目前尚未克隆出抗燕麦锈病基因，甚至相关分子标记的数量也非常有限。这里，使用基于 RAPD 和 SRAP-PCR 的方法以及基于微阵列的 DArT™ 和下一代测序 DArTseq™ 技术对源自交叉“Celer”（Pc39）/STH9210（易感）的分离群体进行基因分型。与 Pc39 相关的标记被放置在 3.7-6.7 cM 的六倍体燕麦共有连锁群 Mrg11 上。开发了六种新的基于 PCR 的标记，以允许鉴定抗性 Pc39 等位基因。这些紧密连锁的标记将在标记辅助选择中很有用，最接近的 SCAR_3456624 在 Pc39 的 0.37 cM 范围内。新开发的标记可以在该基因的精细定位或定位克隆中找到应用。此外，与 Pc39 相关的易于使用的基于 PCR 的标记可以促进该基因在燕麦育种计划中的利用，