Department of Plant Sciences, University of Zambia, Lusaka, Zambia.
USDA-ARS, Sugarbeet and Bean Research Unit, Bogue St., East Lansing, MI, United States of America.
PLoS One. 2023 Nov 10;18(11):e0293291. doi: 10.1371/journal.pone.0293291. eCollection 2023.
Anthracnose caused by Colletotrichum lindemuthianum is a major disease of common bean (Phaseolus vulgaris) worldwide. Yellow beans are a major market class of common bean especially in eastern and southern Africa. The Yellow Bean Collection (YBC), which is comprised of 255 genotypes, and has not been used previously in genetic studies on anthracnose, is an excellent genetic resource for understanding the extent of anthracnose resistance and its genetic architecture in the yellow bean market class. The objectives of this study were i) evaluate the YBC for resistance to races 5, 19, 39, 51, 81, 183, 1050 and 1105 of C. lindemuthianum. and ii) conduct genome-wide association analysis to identify genomic regions and candidate genes associated with resistance to C. lindemuthianum. The YBC was genotyped with 72,866 SNPs, and genome-wide association analysis was conducted using Mixed Linear Model in TASSEL. Andean and Middle American genotypes with superior levels of resistance to the eight races were identified. YBC278 was the only one among 255 genotypes that was highly resistant to all eight races. Resistance to anthracnose in the YBC was controlled by major-effect loci on chromosomes Pv01, Pv03, Pv04, Pv05 and Pv07. The genomic region on Pv01, which overlapped with the Andean locus Co-1 provided resistance to races 81, 1050 and 1105. Significant SNPs for resistance to race 39 were identified on Pv02. The genomic region on Pv04, which overlapped with known major-effect loci Co-3, Co-15, Co-16, Co-y and Co-z, provided resistance to races 5, 19, 51 and 183. Novel genomic regions for resistance to race 39 were identified on Pv05 and Pv07. Plant resistance genes (R genes) with NB-ARC and LRR domains, which occurred in clusters, were identified as positional candidate genes for genomic regions on Pv02 and Pv04.
炭疽病由胶孢炭疽菌引起，是全世界普通豆（Phaseolus vulgaris）的主要病害。黄豆是普通豆的一个主要市场类别，特别是在东非和南非。黄豆收集（YBC）由 255 个基因型组成，以前没有用于炭疽病的遗传研究，是了解黄豆市场类别炭疽病抗性程度及其遗传结构的极好遗传资源。本研究的目的是 i）评估 YBC 对胶孢炭疽菌的 5、19、39、51、81、183、1050 和 1105 种的抗性。ii）进行全基因组关联分析，以鉴定与胶孢炭疽菌抗性相关的基因组区域和候选基因。使用 72866 个 SNP 对 YBC 进行了基因分型，并在 TASSEL 中使用混合线性模型进行了全基因组关联分析。确定了对 8 个品种具有较高抗性的安第斯和中美洲基因型。在 255 个基因型中，只有 YBC278 对所有 8 个品种均具有高度抗性。YBC 对炭疽病的抗性由 Pv01、Pv03、Pv04、Pv05 和 Pv07 染色体上的主效位点控制。与安第斯基因座 Co-1 重叠的 Pv01 基因组区域为品种 81、1050 和 1105 提供了抗性。在 Pv02 上鉴定到与品种 39 抗性相关的显著 SNP。与已知的主效基因座 Co-3、Co-15、Co-16、Co-y 和 Co-z 重叠的 Pv04 基因组区域为品种 5、19、51 和 183 提供了抗性。在 Pv05 和 Pv07 上鉴定到与品种 39 抗性相关的新的基因组区域。含有 NB-ARC 和 LRR 结构域的植物抗性基因（R 基因）在聚类中发生，被鉴定为 Pv02 和 Pv04 基因组区域的定位候选基因。
