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Fine mapping and characterization of a major QTL for plant height on chromosome 5A in wheat

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Abstract

Key message

We precisely mapped QPH.caas-5AL for plant height in wheat, predicted candidate genes and confirmed genetic effects in a panel of wheat cultivars.

Abstract

Plant height is an important agronomic trait, and appropriately reduced height can improve yield potential and stability in wheat, usually combined with sufficient water and fertilizer. We previously detected a stable major-effect quantitative trait locus QPH.caas-5AL for plant height on chromosome 5A in a recombinant inbred line population of the cross ‘Doumai × Shi 4185’ using the wheat 90 K SNP assay. Here , QPH.caas-5AL was confirmed using new phenotypic data in additional environment and new-developed markers. We identified nine heterozygous recombinant plants for fine mapping of QPH.caas-5AL and developed 14 breeder-friendly kompetitive allele-specific PCR markers in the region of QPH.caas-5AL based on the genome re-sequencing data of parents. Phenotyping and genotyping analyses of secondary populations derived from the self-pollinated heterozygous recombinant plants delimited QPH.caas-5AL into an approximate 3.0 Mb physical region (521.0–524.0 Mb) according to the Chinese Spring reference genome. This region contains 45 annotated genes, and six of them were predicted as the candidates of QPH.caas-5AL based on genome and transcriptome sequencing analyses. We further validated that QPH.caas-5AL has significant effects on plant height but not yield component traits in a diverse panel of wheat cultivars; its dwarfing allele is frequently used in modern wheat cultivars. These findings lay a solid foundation for the map-based cloning of QPH.caas-5AL and also provide a breeding-applicable tool for its marker-assisted selection. Keymessage We precisely mapped QPH.caas-5AL for plant height in wheat, predicted candidate genes and confirmed genetic effects in a panel of wheat cultivars.

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Data availability

The datasets generated during the current study are available from the corresponding author on reasonable request.

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Funding

This work was supported by National Key Research and Development Program of China (2022YFF1002904), the National Natural Science Foundation of China (32101733) and the Science and Technology Innovation Program of Chinese Academy of Agricultural Sciences (CAAS).

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Authors and Affiliations

  1. Institute of Crop Sciences, National Wheat Improvement Center, Chinese Academy of Agricultural Sciences (CAAS), 12 Zhongguancun South Street, Beijing, 100081, China

    Lingli Li, Yingjie Bian, Bingyan Liu, Jianqi Zeng, Lina Xie, Siyang Liu, Xiuling Tian, Jindong Liu, Xianchun Xia, Zhonghu He, Yan Zhang, Yong Zhang & Shuanghe Cao

  2. Shandong Provincial Key Laboratory of Dryland Farming Technology, College of Agronomy, Qingdao Agricultural University, Qingdao, 266109, Shandong, China

    Dengan Xu

  3. International Maize and Wheat Improvement Center (CIMMYT) China Office, c/o CAAS, 12 Zhongguancun South Street, Beijing, 100081, China

    Zhonghu He

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  1. Lingli Li
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Contributions

LLL and SHC wrote the draft manuscript; LLL performed the experiments; DAX, YJB, BYL, JQZ, LNX, SYL and XLT participated in field trials; SHC designed the experiments; XCX, JDL, YZ and ZHH assisted in writing the paper.

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Correspondence to Yong Zhang or Shuanghe Cao.

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We declare no conflicts of interest in regard to this manuscript.

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These experiments complied with the ethical standards in China.

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Communicated by Lee Hickey.

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Li, L., Xu, D., Bian, Y. et al. Fine mapping and characterization of a major QTL for plant height on chromosome 5A in wheat. Theor Appl Genet 136, 167 (2023). https://doi.org/10.1007/s00122-023-04416-9

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