Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters
Rice panicle architecture is a key target of selection when breeding for yield and grain quality. However, panicle phenotypes are difficult to measure and susceptible to confounding during genetic mapping due to correlation with flowering and subpopulation structure. Here we quantify 49 panicle phen...
| Main Authors: | , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Springer
2016
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| Online Access: | https://hdl.handle.net/10568/165299 |
| _version_ | 1855526068710014976 |
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| author | Crowell, Samuel Korniliev, Pavel Falcão, Alexandre Ismail, Abdelbagi Gregorio, Glenn Mezey, Jason McCouch, Susan |
| author_browse | Crowell, Samuel Falcão, Alexandre Gregorio, Glenn Ismail, Abdelbagi Korniliev, Pavel McCouch, Susan Mezey, Jason |
| author_facet | Crowell, Samuel Korniliev, Pavel Falcão, Alexandre Ismail, Abdelbagi Gregorio, Glenn Mezey, Jason McCouch, Susan |
| author_sort | Crowell, Samuel |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Rice panicle architecture is a key target of selection when breeding for yield and grain quality. However, panicle phenotypes are difficult to measure and susceptible to confounding during genetic mapping due to correlation with flowering and subpopulation structure. Here we quantify 49 panicle phenotypes in 242 tropical rice accessions with the imaging platform PANorama. Using flowering as a covariate, we conduct a genome-wide association study (GWAS), detect numerous subpopulation-specific associations, and dissect multi-trait peaks using panicle phenotype covariates. Ten candidate genes in pathways known to regulate plant architecture fall under GWAS peaks, half of which overlap with quantitative trait loci identified in an experimental population. This is the first study to assess inflorescence phenotypes of field-grown material using a high-resolution phenotyping platform. Herein, we establish a panicle morphocline for domesticated rice, propose a genetic model underlying complex panicle traits, and demonstrate subtle links between panicle size and yield performance. |
| format | Journal Article |
| id | CGSpace165299 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2016 |
| publishDateRange | 2016 |
| publishDateSort | 2016 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1652992024-12-19T14:12:39Z Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters Crowell, Samuel Korniliev, Pavel Falcão, Alexandre Ismail, Abdelbagi Gregorio, Glenn Mezey, Jason McCouch, Susan Rice panicle architecture is a key target of selection when breeding for yield and grain quality. However, panicle phenotypes are difficult to measure and susceptible to confounding during genetic mapping due to correlation with flowering and subpopulation structure. Here we quantify 49 panicle phenotypes in 242 tropical rice accessions with the imaging platform PANorama. Using flowering as a covariate, we conduct a genome-wide association study (GWAS), detect numerous subpopulation-specific associations, and dissect multi-trait peaks using panicle phenotype covariates. Ten candidate genes in pathways known to regulate plant architecture fall under GWAS peaks, half of which overlap with quantitative trait loci identified in an experimental population. This is the first study to assess inflorescence phenotypes of field-grown material using a high-resolution phenotyping platform. Herein, we establish a panicle morphocline for domesticated rice, propose a genetic model underlying complex panicle traits, and demonstrate subtle links between panicle size and yield performance. 2016-02-04 2024-12-19T12:54:55Z 2024-12-19T12:54:55Z Journal Article https://hdl.handle.net/10568/165299 en Open Access Springer Crowell, Samuel; Korniliev, Pavel; Falcão, Alexandre; Ismail, Abdelbagi; Gregorio, Glenn; Mezey, Jason and McCouch, Susan. 2016. Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters. Nat Commun, Volume 7, no. 1 |
| spellingShingle | Crowell, Samuel Korniliev, Pavel Falcão, Alexandre Ismail, Abdelbagi Gregorio, Glenn Mezey, Jason McCouch, Susan Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters |
| title | Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters |
| title_full | Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters |
| title_fullStr | Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters |
| title_full_unstemmed | Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters |
| title_short | Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters |
| title_sort | genome wide association and high resolution phenotyping link oryza sativa panicle traits to numerous trait specific qtl clusters |
| url | https://hdl.handle.net/10568/165299 |
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