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Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq

Author

Listed:
  • Khairul Yusuf Nasution

    (Research Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, Indonesia)

  • Dani Satyawan

    (Research Center for Genetic Engineering, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Bogor, West Java, Indonesia)

  • Muhamad Yunus

    (Research Center for Applied Botany, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Indonesia, Bogor, West Java, Indonesia)

  • Azri Kusuma Dewi

    (Research Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, Indonesia)

  • Puput Melati

    (Directorate of Laboratory Management, Research Facilities, and Science and Technology Area, Deputy for Infrastructure Research and Innovation, National Research and Innovation Agency, South Tangerang, Banten, Indonesia)

  • Marina Yuniawati Maryono

    (Research Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, Indonesia)

  • Ita Dwimahyani

    (Research Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, Indonesia)

  • Wening Enggarini

    (Research Center for Genetic Engineering, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Bogor, West Java, Indonesia)

  • Sobrizal

Abstract

This study investigated the genetic basis of days to heading (DTH) in tropical japonica rice using F2 populations derived from late-maturing Rojolele and early-maturing Rojolele Srinuk varieties. Phenotypic analysis of DTH showed continuous distribution and positive skewness. Whole genome sequencing (WGS) derived single nucleotide polymorphism (SNP) from early and late-heading bulks were used to identify three candidate regions with strong association to DTH: qDTH3.1 and qDTH3.2 on chromosome 3, and qDTH7.1 on chromosome 7, with the latter linked to the Oryza sativa Pseudo-Response Regulator 37 (OsPRR37) gene. InDel markers validated qDTH7.1's significant linkage to DTH, particularly marker ID14, which is effective for marker-assisted selection of early DTH in Rojolele background.

Suggested Citation

  • Khairul Yusuf Nasution & Dani Satyawan & Muhamad Yunus & Azri Kusuma Dewi & Puput Melati & Marina Yuniawati Maryono & Ita Dwimahyani & Wening Enggarini & Sobrizal, 2025. "Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq," Czech Journal of Genetics and Plant Breeding, Czech Academy of Agricultural Sciences, vol. 61(1), pages 23-30.
    • Handle: RePEc:caa:jnlcjg:v:61:y:2025:i:1:id:66-2024-cjgpb
    DOI: 10.17221/66/2024-CJGPB
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