A large-scale genomic association analysis identifies the candidate causal genes conferring stripe rust resistance under multiple field environments.
A large-scale genomic association analysis identifies the candidate causal genes conferring stripe rust resistance under multiple field environments.
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大规模基因组关联分析确定了多种田间环境下赋予条锈病抗性的候选致病基因
DOI：
10.1111/pbi.13452
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发表时间：
2021-01
影响因子：
13.8
通讯作者：
Zeng Q
中科院分区：
文献类型：
--
作者：
Wu J;Yu R;Wang H;Zhou C;Huang S;Jiao H;Yu S;Nie X;Wang Q;Liu S;Weining S;Singh RP;Bhavani S;Kang Z;Han D;Zeng Q
将抗病基因导入小麦品种是防治条锈病或条锈病的理想策略。为了寻找新的抗病基因，我们使用高密度660 K单核苷酸多态性（SNP）阵列进行了大规模的基因组关联分析，以确定411个春小麦品系中YR抗性的遗传组成。在质量控制之后，筛选了371 972个SNP，覆盖了超过50%的高置信度注释基因空间。包含292个显著SNP的19个稳定基因组区域与9种环境中的成株YR抗性相关。其中，14个SNP位于育种中广泛使用的已知基因座附近。在一定的置信区间内确定了明显的候选SNP变体，例如克隆基因Yr 18和染色体2BL上的主要位点，尽管存在很大程度的连锁不平衡。使用独立的验证小组并考虑每个核苷酸多态性的估计功能重要性来细化因果SNP变体的数量。有趣的是，四个自然的多态性导致编码丝氨酸/苏氨酸蛋白激酶（STPK）的基因TraesCS 2B 01 G513100的氨基酸变化显着参与YR反应。基因表达和突变分析证实STPK在YR抗性中起重要作用。开发PCR标记以鉴定用于标记辅助育种的有利TraesCS 2B 01 G513100单倍型。这些结果表明，基于高分辨率SNP的GWAS能够快速鉴定推定的抗性基因，并可用于提高小麦抗病育种中标记辅助选择的效率。
The incorporation of resistance genes into wheat commercial varieties is the ideal strategy to combat stripe or yellow rust (YR). In a search for novel resistance genes, we performed a large‐scale genomic association analysis with high‐density 660K single nucleotide polymorphism (SNP) arrays to determine the genetic components of YR resistance in 411 spring wheat lines. Following quality control, 371 972 SNPs were screened, covering over 50% of the high‐confidence annotated gene space. Nineteen stable genomic regions harbouring 292 significant SNPs were associated with adult‐plant YR resistance across nine environments. Of these, 14 SNPs were localized in the proximity of known loci widely used in breeding. Obvious candidate SNP variants were identified in certain confidence intervals, such as the cloned gene Yr18 and the major locus on chromosome 2BL, despite a large extent of linkage disequilibrium. The number of causal SNP variants was refined using an independent validation panel and consideration of the estimated functional importance of each nucleotide polymorphism. Interestingly, four natural polymorphisms causing amino acid changes in the gene TraesCS2B01G513100 that encodes a serine/threonine protein kinase (STPK) were significantly involved in YR responses. Gene expression and mutation analysis confirmed that STPK played an important role in YR resistance. PCR markers were developed to identify the favourable TraesCS2B01G513100 haplotype for marker‐assisted breeding. These results demonstrate that high‐resolution SNP‐based GWAS enables the rapid identification of putative resistance genes and can be used to improve the efficiency of marker‐assisted selection in wheat disease resistance breeding.
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影响因子：
5.3
作者：
Li MX;Yeung JM;Cherny SS;Sham PC
通讯作者：
Sham PC
利用 Wheat660K SNP 阵列衍生的高密度遗传图谱对籽粒数量的主要 QTL 进行高分辨率定位
影响因子：
4.6
作者：
Cui F;Zhang N;Fan XL;Zhang W;Zhao CH;Yang LJ;Pan RQ;Chen M;Han J;Zhao XQ;Ji J;Tong YP;Zhang HX;Jia JZ;Zhao GY;Li JM
通讯作者：
Li JM
DOI：
10.1073/pnas.1016981108
发表时间：
2011-05-10
影响因子：
11.1
作者：
Cao, Aizhong;Xing, Liping;Chen, Peidu
通讯作者：
Chen, Peidu
影响因子：
56.9
作者：
Krattinger, Simon G.;Lagudah, Evans S.;Keller, Beat
通讯作者：
Keller, Beat
影响因子：
5.4
作者：
Krattinger, Simon G.;Jordan, David R.;Lagudah, Evans S.
通讯作者：
Lagudah, Evans S.