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| Genome-wide association study and metabolic pathway prediction of barrenness in maize as a response to high planting density |
| ZHANG Xu-huan1*, LIU Hao1*, MA Xu-hui1, ZHOU Gu-yi1, RUAN Hong-qiang1, CUI Hong-wei1, PANG Jun-ling1, SIFFAT Ullah Khan1, ZONG Na1, WANG Ren-zhong2, LENG Peng-fei1, ZHAO Jun1 |
1 Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, P.R. China
2 State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chines Academy of Sciences, Beijing 100093, P.R. China |
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摘要
增加种植密度是提高玉米产量的一种有效途径。然而，高种植密度严重影响玉米生长发育，空秆则是限制粮食产量的重要因素之一。本研究中，我们对280份玉米自交系开展了多年田间耐密性鉴定，调查了正常密度（67500株/公顷）和高密度（120000株/公顷）种植条件下的空杆率。基于控制群体结构和相对亲缘关系（Q+K）的混合线性模型，利用776254个SNP标记进行全基因组关联分析（GWAS）。结果发现，共有20个SNP与正常密度和高密度下的空秆率相关，落于9个基因内，其中4个SNP在正常密度和高密度下均可被关联到；13个与空秆率比值（高密度/正常密度）相关的SNP，位于7个基因内。此外，代谢通路预测结果显示，谷氨酸和精氨酸等氨基酸代谢通路和MAPK信号通路可能在玉米密植中发挥重要作用。本研究结果为高密度种植下玉米耐受性的遗传基础提供了新的见解，有助于促进高产玉米育种。
Abstract
Increasing the planting density is one way to enhance grain production in maize. However, high planting density brings about growth and developmental defects such as barrenness, which is the major factor limiting grain yield. In this study, the barrenness was characterized in an association panel comprising 280 inbred lines under normal (67 500 plants ha–1, ND) and high (120 000 plants ha–1, HD) planting densities in 2017 and 2018. The population was genotyped using 776 254 single nucleotide polymorphism (SNP) markers with criteria of minor allele frequency >5% and <20% missing data. A genome-wide association study (GWAS) was conducted for barrenness under ND and HD, as well as the barrenness ratio (HD/ND), by applying a Mixed Linear Model that controls both population structure and relative kinship (Q+K). In total, 20 SNPs located in nine genes were significantly (P<6.44×10–8) associated with barrenness under the different planting densities. Among them, seven SNPs for barrenness at ND and HD were located in two genes, four of which were common under both ND and HD. In addition, 13 SNPs for the barrenness ratio were located in seven genes. A complementary pathway analysis indicated that the metabolic pathways of amino acids, such as glutamate and arginine, and the mitogen-activated protein kinase (MAPK) signaling pathway might play important roles in tolerance to high planting density. These results provide insights into the genetic basis of high planting density tolerance and will facilitate high yield maize breeding.
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Received: 08 May 2021
Accepted: 04 August 2021
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| Fund: This research was supported by the 2020 Research Program of Sanya Yazhou Bay Science and Technology City (Grant No. SKJC-2020-02-005) and The Agricultural Science and Technology Innovation Program (ASTIP) of Chinese Academy of Agricultural Sciences. |
| About author: ZHANG Xu-huan, E-mail: zhangxuhuan01@163.com; LIU Hao, E-mail: lhaclove@126.com; Correspondence LENG Peng-fei, Tel: +86-10-82106139, E-mail: lengpengfei@caas.cn; ZHAO Jun, Tel: +86-10-82105320, E-mail: zhaojun01@caas.cn
* These authors contributed equally to this study. |
Cite this article:
ZHANG Xu-huan, LIU Hao, MA Xu-hui, ZHOU Gu-yi, RUAN Hong-qiang, CUI Hong-wei, PANG Jun-ling, SIFFAT Ullah Khan, ZONG Na, WANG Ren-zhong, LENG Peng-fei, ZHAO Jun.
2022.
Genome-wide association study and metabolic pathway prediction of barrenness in maize as a response to high planting density. Journal of Integrative Agriculture, 21(12): 3514-3523.
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