Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits
Breeding staple crops with increased micronutrient concentration is a sustainable approach to address micronutrient malnutrition. We carried out Multi-Cross QTL analysis and Inclusive Composite Interval Mapping for 11 agronomic, yield and biofortification traits using four connected RILs populations...
| Autores principales: | , , , , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Frontiers Media
2023
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| Acceso en línea: | https://hdl.handle.net/10568/132726 |
| _version_ | 1855521643357536256 |
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| author | Palanog, Alvin D. Chau, Thanh Nha Descalsota-Empleo, Gwen Iris L. Swe, Zin Mar Amparado, Amery Inabangan-Asilo, Mary Ann Hernandez, Jose E. Sta. Cruz, Pompe C. Borromeo, Teresita H. Mauleon, Ramil Lalusin, Antonio G. McNally, Kenneth L. Swamy, B. P. Mallikarjuna Calayugan, Mark Ian |
| author_browse | Amparado, Amery Borromeo, Teresita H. Calayugan, Mark Ian Chau, Thanh Nha Descalsota-Empleo, Gwen Iris L. Hernandez, Jose E. Inabangan-Asilo, Mary Ann Lalusin, Antonio G. Mauleon, Ramil McNally, Kenneth L. Palanog, Alvin D. Sta. Cruz, Pompe C. Swamy, B. P. Mallikarjuna Swe, Zin Mar |
| author_facet | Palanog, Alvin D. Chau, Thanh Nha Descalsota-Empleo, Gwen Iris L. Swe, Zin Mar Amparado, Amery Inabangan-Asilo, Mary Ann Hernandez, Jose E. Sta. Cruz, Pompe C. Borromeo, Teresita H. Mauleon, Ramil Lalusin, Antonio G. McNally, Kenneth L. Swamy, B. P. Mallikarjuna Calayugan, Mark Ian |
| author_sort | Palanog, Alvin D. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Breeding staple crops with increased micronutrient concentration is a sustainable approach to address micronutrient malnutrition. We carried out Multi-Cross QTL analysis and Inclusive Composite Interval Mapping for 11 agronomic, yield and biofortification traits using four connected RILs populations of rice. Overall, MC-156 QTLs were detected for agronomic (115) and biofortification (41) traits, which were higher in number but smaller in effects compared to single population analysis. The MC-QTL analysis was able to detect important QTLs viz: qZn5.2, qFe7.1, qGY10.1, qDF7.1, qPH1.1, qNT4.1, qPT4.1, qPL1.2, qTGW5.1, qGL3.1, and qGW6.1, which can be used in rice genomics assisted breeding. A major QTL (qZn5.2) for grain Zn concentration has been detected on chromosome 5 that accounted for 13% of R2. In all, 26 QTL clusters were identified on different chromosomes. qPH6.1 epistatically interacted with qZn5.1 and qGY6.2. Most of QTLs were co-located with functionally related candidate genes indicating the accuracy of QTL mapping. The genomic region of qZn5.2 was co-located with putative genes such as OsZIP5, OsZIP9, and LOC_OS05G40490 that are involved in Zn uptake. These genes included polymorphic functional SNPs, and their promoter regions were enriched with cis-regulatory elements involved in plant growth and development, and biotic and abiotic stress tolerance. Major effect QTL identified for biofortification and agronomic traits can be utilized in breeding for Zn biofortified rice varieties. |
| format | Journal Article |
| id | CGSpace132726 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2023 |
| publishDateRange | 2023 |
| publishDateSort | 2023 |
| publisher | Frontiers Media |
| publisherStr | Frontiers Media |
| record_format | dspace |
| spelling | CGSpace1327262025-12-08T10:29:22Z Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits Palanog, Alvin D. Chau, Thanh Nha Descalsota-Empleo, Gwen Iris L. Swe, Zin Mar Amparado, Amery Inabangan-Asilo, Mary Ann Hernandez, Jose E. Sta. Cruz, Pompe C. Borromeo, Teresita H. Mauleon, Ramil Lalusin, Antonio G. McNally, Kenneth L. Swamy, B. P. Mallikarjuna Calayugan, Mark Ian rice biofortification micronutrients zinc quantitative trait loci gene pools population factors Breeding staple crops with increased micronutrient concentration is a sustainable approach to address micronutrient malnutrition. We carried out Multi-Cross QTL analysis and Inclusive Composite Interval Mapping for 11 agronomic, yield and biofortification traits using four connected RILs populations of rice. Overall, MC-156 QTLs were detected for agronomic (115) and biofortification (41) traits, which were higher in number but smaller in effects compared to single population analysis. The MC-QTL analysis was able to detect important QTLs viz: qZn5.2, qFe7.1, qGY10.1, qDF7.1, qPH1.1, qNT4.1, qPT4.1, qPL1.2, qTGW5.1, qGL3.1, and qGW6.1, which can be used in rice genomics assisted breeding. A major QTL (qZn5.2) for grain Zn concentration has been detected on chromosome 5 that accounted for 13% of R2. In all, 26 QTL clusters were identified on different chromosomes. qPH6.1 epistatically interacted with qZn5.1 and qGY6.2. Most of QTLs were co-located with functionally related candidate genes indicating the accuracy of QTL mapping. The genomic region of qZn5.2 was co-located with putative genes such as OsZIP5, OsZIP9, and LOC_OS05G40490 that are involved in Zn uptake. These genes included polymorphic functional SNPs, and their promoter regions were enriched with cis-regulatory elements involved in plant growth and development, and biotic and abiotic stress tolerance. Major effect QTL identified for biofortification and agronomic traits can be utilized in breeding for Zn biofortified rice varieties. 2023-03-22 2023-11-04T13:46:41Z 2023-11-04T13:46:41Z Journal Article https://hdl.handle.net/10568/132726 en Open Access application/pdf Frontiers Media Palanog, Alvin D., Chau Thanh Nha, Gwen Iris L. Descalsota-Empleo, Mark Ian Calayugan, Zin Mar Swe, Amery Amparado, Mary Ann Inabangan-Asilo et al. "Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits." Frontiers in plant science 14 (2023): 1157507. |
| spellingShingle | rice biofortification micronutrients zinc quantitative trait loci gene pools population factors Palanog, Alvin D. Chau, Thanh Nha Descalsota-Empleo, Gwen Iris L. Swe, Zin Mar Amparado, Amery Inabangan-Asilo, Mary Ann Hernandez, Jose E. Sta. Cruz, Pompe C. Borromeo, Teresita H. Mauleon, Ramil Lalusin, Antonio G. McNally, Kenneth L. Swamy, B. P. Mallikarjuna Calayugan, Mark Ian Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits |
| title | Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits |
| title_full | Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits |
| title_fullStr | Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits |
| title_full_unstemmed | Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits |
| title_short | Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits |
| title_sort | molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits |
| topic | rice biofortification micronutrients zinc quantitative trait loci gene pools population factors |
| url | https://hdl.handle.net/10568/132726 |
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