Czech J. Genet. Plant Breed., 2025, 61(1):23-30 | DOI: 10.17221/66/2024-CJGPB

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

Khairul Yusuf Nasution1, Dani Satyawan2, Muhamad Yunus3, Azri Kusuma Dewi1, Puput Melati4, Marina Yuniawati Maryono1, Ita Dwimahyani1, Wening Enggarini2, Sobrizal ORCID...1*
1 Research Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, Indonesia
2 Research Center for Genetic Engineering, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Bogor, West Java, Indonesia
3 Research Center for Applied Botany, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Indonesia, Bogor, West Java, Indonesia
4 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

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.

Keywords: bulked segregant analysis; flowering time; genetic regulation; Oryza sativa; whole genome sequencing

Received: June 13, 2024; Revised: October 29, 2024; Accepted: November 7, 2024; Prepublished online: December 11, 2024; Published: January 14, 2025  Show citation

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Nasution KY, Satyawan D, Yunus M, Dewi AK, Melati P, Maryono MY, et al.. Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq. Czech J. Genet. Plant Breed. 2025;61(1):23-30. doi: 10.17221/66/2024-CJGPB.
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