Genome-wide association study discovered candidate genes of Verticillium wilt resistance in upland cotton (Gossypium hirsutum L.).
Genome-wide association study discovered candidate genes of Verticillium wilt resistance in upland cotton (Gossypium hirsutum L.).
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DOI：
10.1111/pbi.12734
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发表时间：
2017-12
影响因子：
13.8
通讯作者：
Dai X
中科院分区：
文献类型：
--
作者：
Li T;Ma X;Li N;Zhou L;Liu Z;Han H;Gui Y;Bao Y;Chen J;Dai X
由大丽轮枝菌（Verticillium dahliae）感染引起的黄萎病（Verticillium wilt，VW）被认为是棉花中最限制产量的病害之一。为了研究棉花VW抗性的遗传结构，我们使用一组299份材料和85630个单核苷酸多态性（SNP）进行了全基因组关联研究（GWAS），这些单核苷酸多态性是使用特定位点扩增片段测序（SLAF-seq）方法检测的。性状-SNP关联分析共检测到17个显著SNP，P <1.17 × 10 - 5（P = 1/85 630，-log10 P = 4.93）; A10上与大众抗性相关的SNP峰值在三个环境（RDIG 2015、RDIF 2015和RDIF 2016）中连续且常见。基于A10_99672586，单倍型块结构分析预测了22个VW抗性候选基因，具有最小P值（-log10 P = 6.21）。其中一个基因（CG02）位于372 kb单倍型块中的显著SNP A10_99672586（0.26 Mb）附近，其拟南芥AT3G25510同源物含有可能参与抗病反应的TIR-NBS-LRR结构域。真实的实时定量PCR和病毒诱导的基因沉默（VIGS）分析表明，CG02在抗性（R）基因型中植棉2号（ZZM2）中特异性上调，且沉默植株对大丽轮枝菌更敏感。这些结果表明，CG02可能是棉花抗黄萎病的候选基因。该位点或基因可能作为棉花抗VW基因工程和选择的一个有希望的目标。
Verticillium wilt (VW), caused by infection by Verticillium dahliae, is considered one of the most yield‐limiting diseases in cotton. To examine the genetic architecture of cotton VW resistance, we performed a genome‐wide association study (GWAS) using a panel of 299 accessions and 85 630 single nucleotide polymorphisms (SNPs) detected using the specific‐locus amplified fragment sequencing (SLAF‐seq) approach. Trait–SNP association analysis detected a total of 17 significant SNPs at P < 1.17 × 10–5 (P = 1/85 630, –log10 P = 4.93); the peaks of SNPs associated with VW resistance on A10 were continuous and common in three environments (RDIG2015, RDIF2015 and RDIF2016). Haplotype block structure analysis predicted 22 candidate genes for VW resistance based on A10_99672586 with a minimum P‐value (–log10 P = 6.21). One of these genes (CG02) was near the significant SNP A10_99672586 (0.26 Mb), located in a 372‐kb haplotype block, and its Arabidopsis AT3G25510 homologues contain TIR‐NBS‐LRR domains that may be involved in disease resistance response. Real‐time quantitative PCR and virus‐induced gene silencing (VIGS) analysis showed that CG02 was specific to up‐regulation in the resistant (R) genotype Zhongzhimian2 (ZZM2) and that silenced plants were more susceptible to V. dahliae. These results indicate that CG02 is likely the candidate gene for resistance against V. dahliae in cotton. The identified locus or gene may serve as a promising target for genetic engineering and selection for improving resistance to VW in cotton.
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