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

Khairul Yusuf Nasution, Dani Satyawan, Muhamad Yunus, Azri Kusuma Dewi, Puput Melati, Marina Yuniawati Maryono, Ita Dwimahyani, Wening Enggarini and Sobrizal
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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

Czech Journal of Genetics and Plant Breeding, 2025, vol. 61, issue 1, 23-30

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.

Keywords: bulked segregant analysis; flowering time; genetic regulation; Oryza sativa; whole genome sequencing (search for similar items in EconPapers)
Date: 2025
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Persistent link: https://EconPapers.repec.org/RePEc:caa:jnlcjg:v:61:y:2025:i:1:id:66-2024-cjgpb

DOI: 10.17221/66/2024-CJGPB

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