Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean
Rice (Oryza sativa L.) grain quality is a set of complex interrelated traits that include grain milling, appearance, cooking, and edible properties. As consumer preferences in Latin America and the Caribbean evolve, determining what traits best capture regional grain quality preferences is fundament...
| Main Authors: | , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Wiley
2021
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/114976 |
| _version_ | 1855542632598470656 |
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| author | Cruz, Maribel Arbeláez Vélez, Juan D. Loaiza, Katherine Cuásquer, Juan B. Rosas, Juan Graterol Matute, Eduardo Jose |
| author_browse | Arbeláez Vélez, Juan D. Cruz, Maribel Cuásquer, Juan B. Graterol Matute, Eduardo Jose Loaiza, Katherine Rosas, Juan |
| author_facet | Cruz, Maribel Arbeláez Vélez, Juan D. Loaiza, Katherine Cuásquer, Juan B. Rosas, Juan Graterol Matute, Eduardo Jose |
| author_sort | Cruz, Maribel |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Rice (Oryza sativa L.) grain quality is a set of complex interrelated traits that include grain milling, appearance, cooking, and edible properties. As consumer preferences in Latin America and the Caribbean evolve, determining what traits best capture regional grain quality preferences is fundamental for breeding and cultivar release. In this study, a genome-wide association study (GWAS), marker-assisted selection (MAS), and genomic selection (GS) were evaluated to help guide the development of new breeding strategies for rice grain quality improvement. For this purpose, 284 rice lines representing over 20 yr of breeding in Latin America and the Caribbean were genotyped and phenotyped for 10 different traits including grain milling, appearance, cooking, and edible quality traits. Genetic correlations among the 10 traits ranged from −0.83 to 0.85. A GWAS identified 19 significant marker/trait combinations associated with eight grain quality traits. Four functional markers, three located in the Waxy and one in the starch synthase IIa genes, were significantly associated with six grain-quality traits. These markers individually explained 51–75% of the phenotypic variance depending on the trait, clearly indicating their potential utility for MAS. Cross-validation studies to evaluate predictive abilities of four different GS models for each of the 10 quality traits were conducted and predictive abilities ranged from 0.3 to 0.72. Overall, the machine learning model random forest had the highest predictive abilities and was especially effective for traits where large effect quantitative trait loci were identified. This study provides the foundation for deploying effective molecular breeding strategies for grain quality in Latin American rice breeding programs. |
| format | Journal Article |
| id | CGSpace114976 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2021 |
| publishDateRange | 2021 |
| publishDateSort | 2021 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | CGSpace1149762025-11-11T19:09:19Z Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean Cruz, Maribel Arbeláez Vélez, Juan D. Loaiza, Katherine Cuásquer, Juan B. Rosas, Juan Graterol Matute, Eduardo Jose genetic parameters phenotypic variation genetic correlation research evaluation genetic markers variación fenotípica parámetros genéticos correlación genética Rice (Oryza sativa L.) grain quality is a set of complex interrelated traits that include grain milling, appearance, cooking, and edible properties. As consumer preferences in Latin America and the Caribbean evolve, determining what traits best capture regional grain quality preferences is fundamental for breeding and cultivar release. In this study, a genome-wide association study (GWAS), marker-assisted selection (MAS), and genomic selection (GS) were evaluated to help guide the development of new breeding strategies for rice grain quality improvement. For this purpose, 284 rice lines representing over 20 yr of breeding in Latin America and the Caribbean were genotyped and phenotyped for 10 different traits including grain milling, appearance, cooking, and edible quality traits. Genetic correlations among the 10 traits ranged from −0.83 to 0.85. A GWAS identified 19 significant marker/trait combinations associated with eight grain quality traits. Four functional markers, three located in the Waxy and one in the starch synthase IIa genes, were significantly associated with six grain-quality traits. These markers individually explained 51–75% of the phenotypic variance depending on the trait, clearly indicating their potential utility for MAS. Cross-validation studies to evaluate predictive abilities of four different GS models for each of the 10 quality traits were conducted and predictive abilities ranged from 0.3 to 0.72. Overall, the machine learning model random forest had the highest predictive abilities and was especially effective for traits where large effect quantitative trait loci were identified. This study provides the foundation for deploying effective molecular breeding strategies for grain quality in Latin American rice breeding programs. 2021-11 2021-09-15T07:36:05Z 2021-09-15T07:36:05Z Journal Article https://hdl.handle.net/10568/114976 en Open Access application/pdf Wiley Cruz, M.; Arbeláez, J.D.; Loaiza, K.; Cuasquer, Juan; Rosas, J.; Graterol, E. (2021) Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean. Plant Genome e20134 On-line First Paper (12 September 2021) 20 p. ISSN: 1940-3372 |
| spellingShingle | genetic parameters phenotypic variation genetic correlation research evaluation genetic markers variación fenotípica parámetros genéticos correlación genética Cruz, Maribel Arbeláez Vélez, Juan D. Loaiza, Katherine Cuásquer, Juan B. Rosas, Juan Graterol Matute, Eduardo Jose Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean |
| title | Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean |
| title_full | Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean |
| title_fullStr | Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean |
| title_full_unstemmed | Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean |
| title_short | Genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling, appearance, and cooking qualities in Latin America and the Caribbean |
| title_sort | genetic and phenotypic characterization of rice grain quality traits to define research strategies for improving rice milling appearance and cooking qualities in latin america and the caribbean |
| topic | genetic parameters phenotypic variation genetic correlation research evaluation genetic markers variación fenotípica parámetros genéticos correlación genética |
| url | https://hdl.handle.net/10568/114976 |
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