基于高密度遗传图谱的粳稻苗期耐冷QTL分析
收稿日期: 2024-01-29
修回日期: 2024-04-20
网络出版日期: 2025-01-14
基金资助
黑龙江省农业科技创新跨越工程重大需求科技创新攻关计划资助项目(CX23ZD01);黑龙江省自然基金杰出青年基金资助项目(JQ2023C009);国家自然科学基金资助项目(32071889)
Analysis of QTL Controlling Cold Tolerance at Seedling Stage by Using a High-Density SNP Linkage Map in japonica Rice
Received date: 2024-01-29
Revised date: 2024-04-20
Online published: 2025-01-14
【目的】低温冷害是影响水稻生长发育，进而造成不同程度减产的主要气象灾害之一。挖掘鉴定耐冷基因，选育耐冷品种，是解决水稻低温冷害最简单、直接和有效的手段之一。【方法】利用丽江新团黑谷/沈农265衍生的包含144个株系的重组自交系群体，通过人工气候室进行苗期耐冷性鉴定。结合全基因组重测序构建的包含2828个bin标记的高密度遗传图谱，进行苗期耐冷性QTL定位和互作分析。【结果】利用完备区间作图法共检测到4个苗期耐冷QTL，分别定位于水稻的1、8、10和12号染色体上，单个QTL的表型贡献率为5.33%~19.86%。其中，qCTS1、qCTS10和qCTS12的增效等位基因来源于强耐冷亲本丽江新团黑谷，qCTS8的增效等位基因来源于沈农265。主效QTL qCTS12定位在12号染色体的15.98 Mb－16.37 Mb之间，物理图谱区间为396.67 Kb。qCTS1定位在1号染色体的9.20 Mb－9.50 Mb间，物理图谱区间为299.85 kb。qCTS8定位在8号染色体的26.09 Mb－26.15 Mb之间，物理图谱区间为55.05 Kb。qCTS10定位在10号染色体的11.13 Mb－11.21 Mb间，物理图谱区间为85.82 kb。进一步分析发现，除qCTS1-qCTS8之间存在负向互作外，其余QTL间的互作表现为加性效应。【结论】利用丽江新团黑谷和沈农265的重组自交系群体，结合包含2818个bin标记的遗传图谱，共检测到4个苗期耐冷QTL，其中3个QTL的增效等位基因来自强耐冷地方品种丽江新团黑谷。可为耐冷分子设计育种提供有用的基因资源，同时为阐明水稻苗期耐冷的遗传和分子机制提供参考。
杨传铭, 王立志, 张喜娟, 杨贤莉, 王洋洋, 侯本福, 崔士泽, 李青超, 刘凯, 马瑞, 冯延江, 来永才, 李红宇, 姜树坤 . 基于高密度遗传图谱的粳稻苗期耐冷QTL分析[J]. 中国水稻科学, 2025 , 39(1) : 82 -91 . DOI: 10.16819/j.1001-7216.2025.240111
【Objective】Low temperature is a primary abiotic stress that inhibits rice development and growth, ultimately reducing its yield. Identifying and utilizing cold tolerance genes to breed cold tolerant cultivars is a simple and effective way to address this issue.【Method】A recombinant inbred line (RIL) population consisting of 144 lines derived from the cross between ‘Lijiang Xintuan Heigu’ (LTH) and ‘Shennong 265’ (SN265) was used to evaluate cold tolerance at the seedling stage in a phytotron. Quantitative trait loci (QTL) for cold tolerance at the seedling stage were detected using a high-density linkage map comprising 2818 markers.【Result】A total of four cold tolerance QTLs at the seedling stage were identified on chromosomes 1, 8, 10, and 12 using the composite interval mapping (CIM) method. The phenotypic variations of these QTL ranged from 5.33% to 19.86%. Among them, the cold tolerance alleles of qCTS1, qCTS10, and qCTS12 were derived from the cold-tolerant parent LTH, while the cold tolerance allele of qCTS8 was from SN265. The major QTL, qCTS12, was located in a 396.67 kb interval from 15.98 Mb to 16.37 Mb on chromosome 12. The qCTS1 was located in a 299.85 kb interval from 9.20 Mb to 9.50 Mb on chromosome 1. The qCTS8 was located in a 55.05 kb interval from 26.09 Mb to 26.15 Mb on chromosome 8. The qCTS10 was located in an 85.82 kb interval from 11.13 Mb to 11.21 Mb on chromosome 10. Further analysis indicated that most interactions between QTLs are additive, except for the negative interaction between qCTS1 and qCTS8. 【Conclusion】Four cold tolerance QTLs were identified using the LTH/SN265 RIL population and its linkage map of 2818 markers at the seedling stage. Three cold tolerance alleles were derived from the cold-tolerant parent LTH. These results not only provide valuable genetic resources for breeding cold-tolerant rice but also offer references for elucidating the genetic and molecular mechanisms of cold tolerance in rice seedlings.
Key words： japonica rice; high-density linkage map; cold tolerance; seedling stage; QTL
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