Fine mapping and candidate gene analysis of a major QTL for grain length on chromosome 5BS in bread wheat

doi:10.1016/j.jia.2024.04.033

Journal of Integrative Agriculture

2025, Vol. 24

Issue (7): 2465-2474 DOI: 10.1016/j.jia.2024.04.033

Crop Science

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Fine mapping and candidate gene analysis of a major QTL for grain length on chromosome 5BS in bread wheat

Jianqi Zeng^{1, 2*}, Dehui Zhao^{1, 3*}, Li Yang^{1, 4}, Yufeng Yang⁵, Dan Liu¹, Yubing Tian^{1, 2}, Fengju Wang¹, Shuanghe Cao¹, Xianchun Xia¹, Zhonghu He^{1, 6}, Yong Zhang^{1, 2, 7#}

¹State Key Laboratory of Crop Gene Resource and Breeding/National Wheat Improvement Centre/Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China

²Zhongyuan Research Center, CAAS, Xinxiang 453519, China

³College of Agronomy/Tree Peony, Henan University of Science and Technology, Luoyang 471000, China

⁴Luoyang Academy of Agriculture and Forestry Sciences, Luoyang 471022, China

⁵ College of Life Sciences, Hebei Normal University, Shijiazhuang 050024, China

⁶CIMMYT-China Office, c/o CAAS, Beijing 100081, China

⁷The Suihuang Laboratory, Henan Province, Shangqiu 476000, China

Highlights
● QGl.caas-5BS was delimited into an interval of approximately 2.2 Mb by phenotyping and genotyping a secondary mapping populations.
● Five genes were predicted as candidates of QGl.caas-5BS based on sequence polymorphism and differential expression analyses, with TraesCS5B02G026800 as the causal gene.
● A gene-specific marker Kasp_5B_Gl for TraesCS5B02G026800 were validated in a panel of 166 cultivars.

Abstract
References

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摘要

大籽粒小麦品种的库容较大，有助于进一步提高产量潜力。前期在中麦871和其姊妹系中麦895重组自交系群体中定位到一个稳定的粒长QTL QGl.caas-5BS，本研究在此基础上，从ZM871/ZM895//ZM871重组自交系BC₁F₆中筛选到一个剩余杂合系，对其自交后代BC₁F₇群体中的6株杂合重组单株及其自交衍生次生群体进行了基因型和表型分析，将QGl.caas-5BS位点进一步定位到Kasp_5B33和Kasp_5B2 (25.3 Mb ~ 27.5 Mb)标记间的2.2Mb物理区间内。序列多态性和差异表达分析在该区间预测到6个候选基因。突变体表型数据进一步分析表明，TraesCS5B02G026800可能是QGl.caas-5BS位点的候选基因。进一步开发了TraesCS5B02G026800基因的高通量特异性KASP标记Kasp_5B_Gl，并在166份自然群体中对其遗传效应进行了验证。本研究结果为QGl.caas-5BS基因的图位克隆和粒长分子标记辅助选择高产育种工作奠定了良好的基础。

Abstract

Large grain is a favorable trait for appearance quality and a large sink potential in wheat breeding. The stable QTL QGl.caas-5BS for grain length was previously identified in a recombinant inbred line population from the cross of Zhongmai 871 (ZM871) and its sister line Zhongmai 895 (ZM895). Here, a BC₁F₆ residual heterozygous line was selected from the cross of a ZM871/ZM895//ZM871 population, and six heterozygous recombinant plants were identified in the BC₁F₇population from self-pollination of the heterozygous line. QGl.caas-5BS was delimited into an interval of approximately 2.2 Mb flanked by markers Kasp_5B33 and Kasp_5B2 (25.3–27.5 Mb) by phenotyping and genotyping the secondary mapping populations derived from these heterozygous recombinant plants. Five genes were predicted as candidates of QGl.caas-5BS based on sequence polymorphism and differential expression analyses. Further mutation analysis showed that TraesCS5B02G026800 is likely the causal gene of QGl.caas-5BS. The gene-specific marker Kasp_5B_Gl for TraesCS5B02G026800 was developed, and a significant genetic effect of QGl.caas-5BS on grain length was identified in a validation population of 166 cultivars using this marker. These findings lay a good foundation for map-based cloning of QGl.caas-5BS and provide a breeding-applicable marker for the improvement of grain length in wheat.

Keywords: breeding-friendly marker candidate gene prediction fine mapping grain length Triticum aestivum L.

Received: 28 August 2023 Online: 30 April 2024 Accepted: 24 October 2023

Fund:

This work was funded by the National Natural Science Foundation of China (31961143007), the Key Research and Development Program of Xinjiang Uygur Autonomous Region, China (2023B02006), the Core Research Budget of the Non-profit Governmental Research Institutions, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (S2021ZD04 and S2022ZD04) and the Natural Science Foundation of Hebei Province, China (C2021205013).

About author: #Correspondence Yong Zhang, Tel: +86-10-82108745, E-mail: zhangyong05@caas.cn * These authors contributed equally to this study.

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Jianqi Zeng, Dehui Zhao, Li Yang, Yufeng Yang, Dan Liu, Yubing Tian, Fengju Wang, Shuanghe Cao, Xianchun Xia, Zhonghu He, Yong Zhang. 2025. Fine mapping and candidate gene analysis of a major QTL for grain length on chromosome 5BS in bread wheat. Journal of Integrative Agriculture, 24(7): 2465-2474.

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