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ORIGINAL RESEARCH article

Front. Plant Sci.
Sec. Plant Abiotic Stress
Volume 15 - 2024 | doi: 10.3389/fpls.2024.1508333
This article is part of the Research Topic Advanced Breeding for Abiotic Stress Tolerance in Crops, Volume II View all 10 articles

Analysis of Quantitative Trait Loci and Candidate Gene Exploration Associated with Cold Tolerance in Rice (Oryza sativa L.) during the Seedling Stage

Provisionally accepted
Sumin Jo Sumin Jo 1Seong-Gyu Jang Seong-Gyu Jang 1Sais-Beul Lee Sais-Beul Lee 1Ji-Yoon Lee Ji-Yoon Lee 2Jun-Hyeon Cho Jun-Hyeon Cho 1Ju-Won Kang Ju-Won Kang 1Youngho Kwon Youngho Kwon 1So-Myeong Lee So-Myeong Lee 1Dong-Soo Park Dong-Soo Park 1SoonWook Kwon SoonWook Kwon 3*Jong-Hee Lee Jong-Hee Lee 1*
  • 1 Department of Southern Area Crop Science, National Institute of Crop science, Miryang, Republic of Korea
  • 2 Planning and Coordination Division, National Institute of Crop Science, Jeonju, Republic of Korea
  • 3 Department of Plant Bioscience, Pusan National University, Miryang, Republic of Korea

The final, formatted version of the article will be published soon.

    Cold stress during the seedling stage significantly threatens rice (Oryza sativa L.) production, specifically in temperate climates. This study aimed to identify quantitative trait loci (QTL) associated with cold tolerance at the seedling stage. The QTL analysis was conducted on a doubled haploid (DH) population derived from a cross between the cold-sensitive indica cultivar 93-11 and the cold-tolerant japonica cultivar Milyang352. Phenotypic analysis was conducted over two years (2022–2023) under cold water treatment (13 °C) at the Chuncheon Substation, South Korea. Cold tolerance scores were used to classify the DH populations and parental lines. In 2022, three QTLs were identified on chromosomes 3, 10, and 11; in 2023, a single QTL was identified on chromosome 10. The QTL qCTS1022/23 on chromosome 10 was consistently observed across both years, explaining up to 16.06% and 40.55% of the phenotypic variance, respectively. Fine-mapping of qCTS1022/23 narrowed the candidate region to a 300 kb interval containing 44 polymorphic single nucleotide polymorphisms. Among the candidate genes, Os10g0409400 was significantly expressed in the cold-tolerant japonica parent Milyang352 under cold stress, indicating its role in conferring cold tolerance. These findings offer valuable insights into the genetic mechanisms of cold tolerance and highlight qCTS1022/23 as a potential target for marker-assisted selection in rice breeding programs to enhance cold tolerance.

    Keywords: cold tolerance, Doubled haploid, Quantitative Trait Loci, rice, Seedling stage

    Received: 09 Oct 2024; Accepted: 10 Dec 2024.

    Copyright: © 2024 Jo, Jang, Lee, Lee, Cho, Kang, Kwon, Lee, Park, Kwon and Lee. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

    * Correspondence:
    SoonWook Kwon, Department of Plant Bioscience, Pusan National University, Miryang, Republic of Korea
    Jong-Hee Lee, Department of Southern Area Crop Science, National Institute of Crop science, Miryang, Republic of Korea

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