Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice
Elucidation of the genetic control of rice seedling vigour is now paramount with global shifts towards direct seeding of rice and the consequent demand for early vigour traits in breeding programmes. In a genome‐wide association study using an indica‐predominant diversity panel, we identified quanti...
| Autores principales: | , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Wiley
2018
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/164821 |
| _version_ | 1855541507044409344 |
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| author | Wang, Fanmiao Longkumer, Toshisangba Catausan, Sheryl C. Calumpang, Carla Lenore F. Tarun, Jeshurun A. Cattin-Ortola, Jerome Ishizaki, Takuma Pariasca Tanaka, Juan Rose, Terry Wissuwa, Matthias Kretzschmar, Tobias |
| author_browse | Calumpang, Carla Lenore F. Catausan, Sheryl C. Cattin-Ortola, Jerome Ishizaki, Takuma Kretzschmar, Tobias Longkumer, Toshisangba Pariasca Tanaka, Juan Rose, Terry Tarun, Jeshurun A. Wang, Fanmiao Wissuwa, Matthias |
| author_facet | Wang, Fanmiao Longkumer, Toshisangba Catausan, Sheryl C. Calumpang, Carla Lenore F. Tarun, Jeshurun A. Cattin-Ortola, Jerome Ishizaki, Takuma Pariasca Tanaka, Juan Rose, Terry Wissuwa, Matthias Kretzschmar, Tobias |
| author_sort | Wang, Fanmiao |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Elucidation of the genetic control of rice seedling vigour is now paramount with global shifts towards direct seeding of rice and the consequent demand for early vigour traits in breeding programmes. In a genome‐wide association study using an indica‐predominant diversity panel, we identified quantitative trait loci (QTLs) for root length and root number in rice seedlings. Among the identified QTLs, one QTL for lateral root number on chromosome 11, qTIPS‐11, was associated with a 32.4% increase in lateral root number. The locus was validated in independent backgrounds, and a predicted glycosyl hydrolase, TIPS‐11‐9, was identified as the causal gene for observed phenotypic differences. TIPS‐11‐9 was differentially expressed in emerging lateral roots of contrasting qTIPS‐11 haplotypes, which was likely due to differences in cis‐regulatory elements and auxin responsiveness. Abolishment of Tips‐11‐9 function through T‐DNA insertion in a qTIPS‐11‐positive background resulted in a reduction of lateral root number, which negatively affected biomass accumulation, particularly under phosphorous‐limiting conditions.Marker‐assisted introgression of qTIPS‐11 into modern indica varieties will aid in the generation of varieties adapted to direct seeding and thus facilitate the adoption of direct seeding practices in tropical Asia. |
| format | Journal Article |
| id | CGSpace164821 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2018 |
| publishDateRange | 2018 |
| publishDateSort | 2018 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | CGSpace1648212025-05-14T10:24:31Z Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice Wang, Fanmiao Longkumer, Toshisangba Catausan, Sheryl C. Calumpang, Carla Lenore F. Tarun, Jeshurun A. Cattin-Ortola, Jerome Ishizaki, Takuma Pariasca Tanaka, Juan Rose, Terry Wissuwa, Matthias Kretzschmar, Tobias breeding chromosomes direct sowing genes genomes quantitative trait loci roots varieties Elucidation of the genetic control of rice seedling vigour is now paramount with global shifts towards direct seeding of rice and the consequent demand for early vigour traits in breeding programmes. In a genome‐wide association study using an indica‐predominant diversity panel, we identified quantitative trait loci (QTLs) for root length and root number in rice seedlings. Among the identified QTLs, one QTL for lateral root number on chromosome 11, qTIPS‐11, was associated with a 32.4% increase in lateral root number. The locus was validated in independent backgrounds, and a predicted glycosyl hydrolase, TIPS‐11‐9, was identified as the causal gene for observed phenotypic differences. TIPS‐11‐9 was differentially expressed in emerging lateral roots of contrasting qTIPS‐11 haplotypes, which was likely due to differences in cis‐regulatory elements and auxin responsiveness. Abolishment of Tips‐11‐9 function through T‐DNA insertion in a qTIPS‐11‐positive background resulted in a reduction of lateral root number, which negatively affected biomass accumulation, particularly under phosphorous‐limiting conditions.Marker‐assisted introgression of qTIPS‐11 into modern indica varieties will aid in the generation of varieties adapted to direct seeding and thus facilitate the adoption of direct seeding practices in tropical Asia. 2018-12 2024-12-19T12:54:20Z 2024-12-19T12:54:20Z Journal Article https://hdl.handle.net/10568/164821 en Wiley Wang, Fanmiao; Longkumer, Toshisangba; Catausan, Sheryl C.; Calumpang, Carla Lenore F.; Tarun, Jeshurun A.; Cattin‐Ortola, Jerome; Ishizaki, Takuma; Pariasca Tanaka, Juan; Rose, Terry; Wissuwa, Matthias and Kretzschmar, Tobias. 2018. Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice. Plant Cell and Environment, Volume 41 no. 12 p. 2731-2743 |
| spellingShingle | breeding chromosomes direct sowing genes genomes quantitative trait loci roots varieties Wang, Fanmiao Longkumer, Toshisangba Catausan, Sheryl C. Calumpang, Carla Lenore F. Tarun, Jeshurun A. Cattin-Ortola, Jerome Ishizaki, Takuma Pariasca Tanaka, Juan Rose, Terry Wissuwa, Matthias Kretzschmar, Tobias Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice |
| title | Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice |
| title_full | Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice |
| title_fullStr | Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice |
| title_full_unstemmed | Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice |
| title_short | Genome-wide association and gene validation studies for early root vigour to improve direct seeding of rice |
| title_sort | genome wide association and gene validation studies for early root vigour to improve direct seeding of rice |
| topic | breeding chromosomes direct sowing genes genomes quantitative trait loci roots varieties |
| url | https://hdl.handle.net/10568/164821 |
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