Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population
Identification of Quantitative Trait Loci (QTL) has been a challenge for complex traits due to the use of populations with narrow genetic base. Most of QTL mapping studies were carried out from crosses made within the subspecies, either indica × indica or japonica × japonica. In this study we report...
| Autores principales: | , , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2019
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| Acceso en línea: | https://hdl.handle.net/10568/164586 |
| _version_ | 1855516041223864320 |
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| author | Zaw, Hein Raghavan, Chitra Pocsedio, Arnel Swamy, B.P. Mallikarjuna Jubay, Mona Liza Singh, Rakesh Kumar Bonifacio, Justine Mauleon, Ramil Hernandez, Jose E. Mendioro, Merlyn S. Gregorio, Glenn B. Leung, Hei |
| author_browse | Bonifacio, Justine Gregorio, Glenn B. Hernandez, Jose E. Jubay, Mona Liza Leung, Hei Mauleon, Ramil Mendioro, Merlyn S. Pocsedio, Arnel Raghavan, Chitra Singh, Rakesh Kumar Swamy, B.P. Mallikarjuna Zaw, Hein |
| author_facet | Zaw, Hein Raghavan, Chitra Pocsedio, Arnel Swamy, B.P. Mallikarjuna Jubay, Mona Liza Singh, Rakesh Kumar Bonifacio, Justine Mauleon, Ramil Hernandez, Jose E. Mendioro, Merlyn S. Gregorio, Glenn B. Leung, Hei |
| author_sort | Zaw, Hein |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Identification of Quantitative Trait Loci (QTL) has been a challenge for complex traits due to the use of populations with narrow genetic base. Most of QTL mapping studies were carried out from crosses made within the subspecies, either indica × indica or japonica × japonica. In this study we report advantages of using Multi-parent Advanced Generation Inter-Crosses global population, derived from a combination of eight indica and eight japonica elite parents, in QTL discovery for yield and grain quality traits. Genome-wide association study and interval mapping identified 38 and 34 QTLs whereas Bayesian networking detected 60 QTLs with 22 marker-marker associations, 32 trait-trait associations and 65 marker-trait associations. Notably, nine known QTLs/genes qPH1/OsGA20ox2, qDF3/OsMADS50, PL, QDg1, qGW-5b, grb7-2, qGL3/GS3, Amy6/Wx gene and OsNAS3 were consistently identified by all approaches for nine traits whereas qDF3/OsMADS50 was co-located for both yield and days-to-flowering traits on chromosome 3. Moreover, we identified a number of candidate QTLs in either one or two analyses but further validations will be needed. The results indicate that this new population has enabled identifications of significant QTLs and interactions for 16 traits through multiple approaches. Pyramided recombinant inbred lines provide a valuable source for integration into future breeding programs. |
| format | Journal Article |
| id | CGSpace164586 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2019 |
| publishDateRange | 2019 |
| publishDateSort | 2019 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1645862025-05-14T10:23:52Z Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population Zaw, Hein Raghavan, Chitra Pocsedio, Arnel Swamy, B.P. Mallikarjuna Jubay, Mona Liza Singh, Rakesh Kumar Bonifacio, Justine Mauleon, Ramil Hernandez, Jose E. Mendioro, Merlyn S. Gregorio, Glenn B. Leung, Hei Identification of Quantitative Trait Loci (QTL) has been a challenge for complex traits due to the use of populations with narrow genetic base. Most of QTL mapping studies were carried out from crosses made within the subspecies, either indica × indica or japonica × japonica. In this study we report advantages of using Multi-parent Advanced Generation Inter-Crosses global population, derived from a combination of eight indica and eight japonica elite parents, in QTL discovery for yield and grain quality traits. Genome-wide association study and interval mapping identified 38 and 34 QTLs whereas Bayesian networking detected 60 QTLs with 22 marker-marker associations, 32 trait-trait associations and 65 marker-trait associations. Notably, nine known QTLs/genes qPH1/OsGA20ox2, qDF3/OsMADS50, PL, QDg1, qGW-5b, grb7-2, qGL3/GS3, Amy6/Wx gene and OsNAS3 were consistently identified by all approaches for nine traits whereas qDF3/OsMADS50 was co-located for both yield and days-to-flowering traits on chromosome 3. Moreover, we identified a number of candidate QTLs in either one or two analyses but further validations will be needed. The results indicate that this new population has enabled identifications of significant QTLs and interactions for 16 traits through multiple approaches. Pyramided recombinant inbred lines provide a valuable source for integration into future breeding programs. 2019-12-20 2024-12-19T12:54:05Z 2024-12-19T12:54:05Z Journal Article https://hdl.handle.net/10568/164586 en Open Access Springer Zaw, Hein; Raghavan, Chitra; Pocsedio, Arnel; Swamy, B. P. Mallikarjuna; Jubay, Mona Liza; Singh, Rakesh Kumar; Bonifacio, Justine; Mauleon, Ramil; Hernandez, Jose E.; Mendioro, Merlyn S.; Gregorio, Glenn B. and Leung, Hei. 2019. Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population. Sci Rep, Volume 9, no. 1 |
| spellingShingle | Zaw, Hein Raghavan, Chitra Pocsedio, Arnel Swamy, B.P. Mallikarjuna Jubay, Mona Liza Singh, Rakesh Kumar Bonifacio, Justine Mauleon, Ramil Hernandez, Jose E. Mendioro, Merlyn S. Gregorio, Glenn B. Leung, Hei Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population |
| title | Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population |
| title_full | Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population |
| title_fullStr | Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population |
| title_full_unstemmed | Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population |
| title_short | Exploring genetic architecture of grain yield and quality traits in a 16-way indica by japonica rice MAGIC global population |
| title_sort | exploring genetic architecture of grain yield and quality traits in a 16 way indica by japonica rice magic global population |
| url | https://hdl.handle.net/10568/164586 |
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