Identification of blast-resistance loci through genome-wide association analysis in foxtail millet (Setaria italica (L.) Beauv.)

doi:10.1016/S2095-3119(20)63196-3

Journal of Integrative Agriculture ›› 2021, Vol. 20 ›› Issue (8): 2056-2064.DOI: 10.1016/S2095-3119(20)63196-3

收稿日期:2020-02-04 出版日期:2021-08-01 发布日期:2021-07-20

Identification of blast-resistance loci through genome-wide association analysis in foxtail millet (Setaria italica (L.) Beauv.)

LI Zhi-jiang^{1, 2*}, JIA Guan-qing^3*, LI Xiang-yu², LI Yi-chu4, ZHI Hui³, TANG Sha³, MA Jin-feng², ZHANG Shuo³, LI Yan-dong², SHANG Zhong-lin¹, DIAO Xian-min^{1, 3}

¹ College of Life Sciences, Hebei Normal University, Shijiazhuang 050024, P.R.China
² Institute of Crop Breeding, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, P.R.China
³ Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, P.R.China
⁴ Institute of Plant Protection, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, P.R.China

Received:2020-02-04 Online:2021-08-01 Published:2021-07-20
Contact: Correspondence DIAO Xian-min, Tel/Fax: +86-10-62126889, E-mail: diaoxianmin@caas.cn
About author:* These authors contributed equally to this study.
Supported by:
This research was supported by the National Key R&D Program of China (2018YFD1000706 and 2018YFD1000700), the National Natural Science Foundation of China (31871630 and 31771807), the earmarked fund for China Agriculture Research System of MOF and MARA (CARS-06-13.5), the Agricultural Science and Technology Innovation Program of the Chinese Academy of Agricultural Sciences, and the Heilongjiang Academy of Agricultural Sciences Research Program, China (2018JJPY005).

摘要/Abstract

摘要：

由瘟病菌引起的瘟病造成世界上多种粮食作物严重减产，但是到目前为止，在禾本科作物中，对抗瘟病基因的遗传研究仍然有限。本研究利用888份谷子核心种质资源，在苗期接种谷瘟病菌株HN-1，通过GWAS方法，寻找抗谷瘟病位点。表型鉴定结果表明，谷子种质资源中高抗资源不到1.6%，中抗资源占35.25%，中感资源占57.09%，高感资源占6.08%。通过表型鉴定发现，在地理分布上，谷子生长季降雨量较高的地区高抗资源比例相对较高。利用覆盖谷子全基因组的720 000个SNP标记进行全基因组关联分析，在第2和第9条染色体上找到了2个显著的谷瘟病抗性相关位点，对这2个位点的分析找到了8个可能的抗病候选基因。这些结果为抗谷瘟病遗传育种和相关基因的克隆奠定了基础，也为其他作物抗瘟病育种和相关基础研究提供了指导信息。

Abstract:

Blast disease caused by the fungus Magnaporthe grisea results in significant yield losses of cereal crops across the world. To date, very few regulatory genes contributing to blast resistance in grass species have been identified and the genetic basis of blast resistance in cereals remains elusive. Here, a core collection of foxtail millet (Setaria italica) containing 888 accessions was evaluated through inoculation with the blast strain HN-1 and a genome-wide association study (GWAS) was performed to detect regulators responsible for blast disease resistance in foxtail millet. The phenotypic variation of foxtail millet accessions inoculated with the blast strain HN-1 indicated that less than 1.60% of the samples were highly resistant, 35.25% were moderately resistant, 57.09% were moderately susceptible, and 6.08% were highly susceptible. The geographical pattern of blast-resistant samples revealed that a high proportion of resistant accessions were located in lower latitude regions where the foxtail millet growing season has higher rain precipitation. Using 720 000 SNP markers covering the Setaria genome, GWAS showed that two genomic loci from chromosomes 2 and 9 were significantly associated with blast disease resistance in foxtail millet. Finally, eight putative genes were identified using rice blast-related transcriptomic data. The results of this work lay a foundation for the foxtail millet blast resistance biology and provide guidance for breeding practices in this promising crop species and other cereals.

Key words: foxtail millet , blast resistance , core collection , GWAS

. [J]. Journal of Integrative Agriculture, 2021, 20(8): 2056-2064.

LI Zhi-jiang, JIA Guan-qing, LI Xiang-yu, LI Yi-chu, ZHI Hui, TANG Sha, MA Jin-feng, ZHANG Shuo, LI Yan-dong, SHANG Zhong-lin, DIAO Xian-min. Identification of blast-resistance loci through genome-wide association analysis in foxtail millet (Setaria italica (L.) Beauv.)[J]. Journal of Integrative Agriculture, 2021, 20(8): 2056-2064.

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Identification of blast-resistance loci through genome-wide association analysis in foxtail millet (Setaria italica (L.) Beauv.)

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