Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq
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...
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| Language: | English |
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Czech Academy of Agricultural Sciences
2025-01-01
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| Series: | Czech Journal of Genetics and Plant Breeding |
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| Online Access: | https://cjgpb.agriculturejournals.cz/artkey/cjg-202501-0002_detection-of-genomic-loci-associated-with-days-to-heading-in-tropical-japonica-rice-through-qtl-seq.php |
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| author | Khairul Yusuf Nasution Dani Satyawan Muhamad Yunus Azri Kusuma Dewi Puput Melati Marina Yuniawati Maryono Ita Dwimahyani Wening Enggarini Sobrizal |
| author_facet | Khairul Yusuf Nasution Dani Satyawan Muhamad Yunus Azri Kusuma Dewi Puput Melati Marina Yuniawati Maryono Ita Dwimahyani Wening Enggarini Sobrizal |
| author_sort | Khairul Yusuf Nasution |
| collection | DOAJ |
| description | 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. |
| format | Article |
| id | doaj-art-33542c8c3bbc4a1d9f20581a7a6455cf |
| institution | Kabale University |
| issn | 1212-1975 1805-9325 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Czech Academy of Agricultural Sciences |
| record_format | Article |
| series | Czech Journal of Genetics and Plant Breeding |
| spelling | doaj-art-33542c8c3bbc4a1d9f20581a7a6455cf2025-01-14T12:46:40ZengCzech Academy of Agricultural SciencesCzech Journal of Genetics and Plant Breeding1212-19751805-93252025-01-01611233010.17221/66/2024-CJGPBcjg-202501-0002Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seqKhairul Yusuf Nasution0Dani Satyawan1Muhamad Yunus2Azri Kusuma Dewi3Puput Melati4Marina Yuniawati Maryono5Ita Dwimahyani6Wening Enggarini7Sobrizal8Research Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, IndonesiaResearch Center for Genetic Engineering, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Bogor, West Java, IndonesiaResearch Center for Applied Botany, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Indonesia, Bogor, West Java, IndonesiaResearch Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, IndonesiaDirectorate of Laboratory Management, Research Facilities, and Science and Technology Area, Deputy for Infrastructure Research and Innovation, National Research and Innovation Agency, South Tangerang, Banten, IndonesiaResearch Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, IndonesiaResearch Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, IndonesiaResearch Center for Genetic Engineering, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Bogor, West Java, IndonesiaResearch Center for Food Crops, Research Organization for Agriculture and Food, National Research and Innovation Agency, Bogor, West Java, IndonesiaThis 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.https://cjgpb.agriculturejournals.cz/artkey/cjg-202501-0002_detection-of-genomic-loci-associated-with-days-to-heading-in-tropical-japonica-rice-through-qtl-seq.phpbulked segregant analysisflowering timegenetic regulationoryza sativawhole genome sequencing |
| spellingShingle | Khairul Yusuf Nasution Dani Satyawan Muhamad Yunus Azri Kusuma Dewi Puput Melati Marina Yuniawati Maryono Ita Dwimahyani Wening Enggarini Sobrizal Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq Czech Journal of Genetics and Plant Breeding bulked segregant analysis flowering time genetic regulation oryza sativa whole genome sequencing |
| title | Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq |
| title_full | Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq |
| title_fullStr | Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq |
| title_full_unstemmed | Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq |
| title_short | Detection of genomic loci associated with days to heading in tropical japonica rice through QTL-seq |
| title_sort | detection of genomic loci associated with days to heading in tropical japonica rice through qtl seq |
| topic | bulked segregant analysis flowering time genetic regulation oryza sativa whole genome sequencing |
| url | https://cjgpb.agriculturejournals.cz/artkey/cjg-202501-0002_detection-of-genomic-loci-associated-with-days-to-heading-in-tropical-japonica-rice-through-qtl-seq.php |
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