QTG-Miner aids rapid dissection of the genetic base of tassel branch number in maize

Xi Wang, Juan Li, Linqian Han, Chengyong Liang, Jiaxin Li, Xiaoyang Shang, Xinxin Miao, Zi Luo, Wanchao Zhu, Zhao Li, Tianhuan Li, Yongwen Qi, Huihui Li, Xiaoduo Lu and Lin Li ()
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Xi Wang: Huazhong Agricultural University
Juan Li: Huazhong Agricultural University
Linqian Han: Huazhong Agricultural University
Chengyong Liang: Huazhong Agricultural University
Jiaxin Li: Huazhong Agricultural University
Xiaoyang Shang: Huazhong Agricultural University
Xinxin Miao: Huazhong Agricultural University
Zi Luo: Huazhong Agricultural University
Wanchao Zhu: Huazhong Agricultural University
Zhao Li: Huazhong Agricultural University
Tianhuan Li: Huazhong Agricultural University
Yongwen Qi: Zhongkai University of Agriculture and Engineering
Huihui Li: Chinese Academy of Agricultural Sciences
Xiaoduo Lu: Qilu Normal University
Lin Li: Huazhong Agricultural University

Nature Communications, 2023, vol. 14, issue 1, 1-13

Abstract: Abstract Genetic dissection of agronomic traits is important for crop improvement and global food security. Phenotypic variation of tassel branch number (TBN), a major breeding target, is controlled by many quantitative trait loci (QTLs). The lack of large-scale QTL cloning methodology constrains the systematic dissection of TBN, which hinders modern maize breeding. Here, we devise QTG-Miner, a multi-omics data-based technique for large-scale and rapid cloning of quantitative trait genes (QTGs) in maize. Using QTG-Miner, we clone and verify seven genes underlying seven TBN QTLs. Compared to conventional methods, QTG-Miner performs well for both major- and minor-effect TBN QTLs. Selection analysis indicates that a substantial number of genes and network modules have been subjected to selection during maize improvement. Selection signatures are significantly enriched in multiple biological pathways between female heterotic groups and male heterotic groups. In summary, QTG-Miner provides a large-scale approach for rapid cloning of QTGs in crops and dissects the genetic base of TBN for further maize breeding.

Date: 2023
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DOI: 10.1038/s41467-023-41022-1

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