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QTL mapping and validation of a segment responsible for early-seedling cold tolerance in rice

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Abstract

Cold stress at the early-seedling stage is one of the major determinants of uniform seedling establishment. In this work, a recombinant inbred line (RIL) population consisting of 172 lines derived from a cross between Xiang743 (highly cold-tolerant) and Katy (moderately cold-sensitive) was used to map quantitative trait locus (QTL) for early-seedling cold tolerance (ESCT). A total of six QTLs were detected that were distributed on six chromosomes, and explained a total phenotypic variance of 36.8%. All alleles from Xiang743 increased ESCT. Among them, the QTL qESCT-3 was detected in the interval RM520–RM85 on chromosome 3, which was also identified in the same interval in an F2 population derived from the same parents in a previous study. To determine the effect of qESCT-3, two residual heterozygous lines (RHLs) segregating in the target segment were selected from the RILs to develop two secondary populations. The presence of QTL qESCT-3 was confirmed in the interval RM520–RM85 in the two populations, and the qESCT-3 from Xiang743 increased ESCT. The study shows that the qESCT-3 segment is responsible for cold tolerance at the early-seedling stage and provides RHL materials for fine mapping of qESCT-3. The markers flanking qESCT-3 will be useful in the improvement of ESCT in rice breeding programs.

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Acknowledgements

This work was supported by the National Natural Science Foundation of China (Grant Number 31600998), Hunan Academy of Agricultural Sciences Scientific and Technological Innovation Project (Grant Number 2017XC10) and the earmarked fund for China Agriculture Research System (Grant Number CARS-01-14).

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Authors and Affiliations

  1. Hunan Rice Research Institute, Hunan Academy of Agricultural Sciences, Changsha, 410125, China

    Wenqiang Liu, Xiaowu Pan, Haibo Xiong, Fenglin Huang, Yonghong Duan, Yongchao Li, Jun Min, Sanxiong Liu, Licheng Liu, Xiucai Wei, Wenjin Zhao & Xiaoxiang Li

  2. Key Laboratory of Indica Rice Genetics and Breeding in the Middle and Lower Reaches of Yangtze River Valley, Ministry of Agriculture, Changsha, 410125, China

    Wenqiang Liu, Xiaowu Pan, Haibo Xiong, Fenglin Huang, Yonghong Duan, Yongchao Li, Jun Min, Sanxiong Liu, Licheng Liu, Xiucai Wei, Wenjin Zhao & Xiaoxiang Li

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  1. Wenqiang Liu
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  2. Xiaowu Pan
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  3. Haibo Xiong
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  11. Wenjin Zhao
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Correspondence to Xiaoxiang Li.

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Supplementary Figure 1

Genetic linkage map of 12 chromosomes of the RIL population derived from the cross between Xiang743 and Katy described in Liu et al. (2015) (EPS 1888 kb)

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Liu, W., Pan, X., Xiong, H. et al. QTL mapping and validation of a segment responsible for early-seedling cold tolerance in rice. Euphytica 216, 7 (2020). https://doi.org/10.1007/s10681-019-2524-0

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