Linkage and association mapping in multi-parental populations reveal the genetic basis of carotenoid variation in maize kernels
文献类型： 外文期刊
作者： Yin, Pengfei 1 ; Fu, Xiuyi 1 ; Feng, Haiying 1 ; Yang, Yanyan 1 ; Xu, Jing 1 ; Zhang, Xuan 1 ; Wang, Min 1 ; Ji, Shenghui 1 ; Zhao, Binghao 1 ; Fang, Hui 1 ; Du, Xiaoxia 1 ; Li, Yaru 1 ; Hu, Shuting 1 ; Li, Kun 1 ; Xu, Shutu 1 ; Li, Zhigang 1 ; Liu, Fang 4 ; Xiao, Yingni 5 ; Wang, Yuandong 3 ; Li, Jiansheng 1 ; Yang, Xiaohong 1 ;
作者机构： 1.China Agr Univ, State Key Lab Plant Environm Resilience, Beijing, Peoples R China
2.China Agr Univ, Natl Maize Improvement Ctr China, Beijing, Peoples R China
3.Beijing Acad Agr & Forestry Sci BAAFS, Maize Res Inst, Beijing Key Lab Maize DNA Fingerprinting & Mol Bre, Beijing, Peoples R China
4.China Agr Univ, Ctr Crop Funct Genom & Mol Breeding, Beijing, Peoples R China
5.Guangdong Acad Agr Sci, Crops Res Inst, Guangdong Prov Key Lab Crop Genet Improvement, Guangzhou, Guangdong, Peoples R China
6.China Agr Univ, Frontiers Sci Ctr Mol Design Breeding, Beijing, Peoples R China
关键词： Carotenoids; Linkage analysis; Association mapping; Plastid terminal oxidase
期刊名称：PLANT BIOTECHNOLOGY JOURNAL （ 影响因子：13.8； 五年影响因子：13.2 ）
ISSN： 1467-7644
年卷期： 2024 年
页码：
收录情况： SCI
摘要： Carotenoids are indispensable to plants and critical components of the human diet. The carotenoid metabolic pathway is conserved across plant species, but our understanding of the genetic basis of carotenoid variation remains limited for the seeds of most cereal crops. To address this issue, we systematically performed linkage and association mapping for eight carotenoid traits using six recombinant inbred line (RIL) populations. Single linkage mapping (SLM) and joint linkage mapping (JLM) identified 77 unique additive QTLs and 104 pairs of epistatic QTLs. Among these QTLs, we identified 22 overlapping hotspots of additive and epistatic loci, highlighting the important contributions of some QTLs to carotenoid levels through additive or epistatic mechanisms. A genome-wide association study based on all RILs detected 244 candidate genes significantly associated with carotenoid traits, 23 of which were annotated as carotenoid pathway genes. Effect comparisons suggested that a small number of loci linked to pathway genes have substantial effects on carotenoid variation in our tested populations, but many loci not associated with pathway genes also make important contributions to carotenoid variation. We identified ZmPTOX as the causal gene for a QTL hotspot (Q10/JLM10/GWAS019); this gene encodes a putative plastid terminal oxidase that produces plastoquinone-9 used by two enzymes in the carotenoid pathway. Natural variants in the promoter and second exon of ZmPTOX were found to alter carotenoid levels. This comprehensive assessment of the genetic mechanisms underlying carotenoid variation establishes a foundation for rewiring carotenoid metabolism and accumulation for efficient carotenoid biofortification.
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