New allelic variants found in key rice salt-tolerance genes: an association study
Salt stress is a complex physiological trait affecting plants by limiting growth and productivity. Rice, one of the most important food crops, is rated as salt‐sensitive. High‐throughput screening methods are required to exploit novel sources of genetic variation in rice and further improve salinity...
| Autores principales: | , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Wiley
2013
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/165723 |
| _version_ | 1855521989318410240 |
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| author | Negrão, Sónia Cecília Almadanim, M. Pires, Inês S. Abreu, Isabel A. Maroco, João Courtois, Brigitte Gregorio, Glenn B. McNally, Kenneth L. Margarida Oliveira, M. |
| author_browse | Abreu, Isabel A. Cecília Almadanim, M. Courtois, Brigitte Gregorio, Glenn B. Margarida Oliveira, M. Maroco, João McNally, Kenneth L. Negrão, Sónia Pires, Inês S. |
| author_facet | Negrão, Sónia Cecília Almadanim, M. Pires, Inês S. Abreu, Isabel A. Maroco, João Courtois, Brigitte Gregorio, Glenn B. McNally, Kenneth L. Margarida Oliveira, M. |
| author_sort | Negrão, Sónia |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Salt stress is a complex physiological trait affecting plants by limiting growth and productivity. Rice, one of the most important food crops, is rated as salt‐sensitive. High‐throughput screening methods are required to exploit novel sources of genetic variation in rice and further improve salinity tolerance in breeding programmes. To search for genotypic differences related to salt stress, we genotyped 392 rice accessions by EcoTILLING. We targeted five key salt‐related genes involved in mechanisms such as Na+/K+ ratio equilibrium, signalling cascade and stress protection, and we found 40 new allelic variants in coding sequences. By performing association analyses using both general and mixed linear models, we identified 11 significant SNPs related to salinity. We further evaluated the putative consequences of these SNPs at the protein level using bioinformatic tools. Amongst the five nonsynonymous SNPs significantly associated with salt‐stress traits, we found a T67K mutation that may cause the destabilization of one transmembrane domain in OsHKT1;5, and a P140A alteration that significantly increases the probability of OsHKT1;5 phosphorylation. The K24E mutation can putatively affect SalT interaction with other proteins thus impacting its function. Our results have uncovered allelic variants affecting salinity tolerance that may be important in breeding. |
| format | Journal Article |
| id | CGSpace165723 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2013 |
| publishDateRange | 2013 |
| publishDateSort | 2013 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | CGSpace1657232025-12-08T09:54:28Z New allelic variants found in key rice salt-tolerance genes: an association study Negrão, Sónia Cecília Almadanim, M. Pires, Inês S. Abreu, Isabel A. Maroco, João Courtois, Brigitte Gregorio, Glenn B. McNally, Kenneth L. Margarida Oliveira, M. genetic variation growth mutations plant breeding productivity resistance genes salinity salt tolerance screening single nucleotide polymorphism varieties Salt stress is a complex physiological trait affecting plants by limiting growth and productivity. Rice, one of the most important food crops, is rated as salt‐sensitive. High‐throughput screening methods are required to exploit novel sources of genetic variation in rice and further improve salinity tolerance in breeding programmes. To search for genotypic differences related to salt stress, we genotyped 392 rice accessions by EcoTILLING. We targeted five key salt‐related genes involved in mechanisms such as Na+/K+ ratio equilibrium, signalling cascade and stress protection, and we found 40 new allelic variants in coding sequences. By performing association analyses using both general and mixed linear models, we identified 11 significant SNPs related to salinity. We further evaluated the putative consequences of these SNPs at the protein level using bioinformatic tools. Amongst the five nonsynonymous SNPs significantly associated with salt‐stress traits, we found a T67K mutation that may cause the destabilization of one transmembrane domain in OsHKT1;5, and a P140A alteration that significantly increases the probability of OsHKT1;5 phosphorylation. The K24E mutation can putatively affect SalT interaction with other proteins thus impacting its function. Our results have uncovered allelic variants affecting salinity tolerance that may be important in breeding. 2013-01 2024-12-19T12:55:23Z 2024-12-19T12:55:23Z Journal Article https://hdl.handle.net/10568/165723 en Wiley Negrão, Sónia; Cecília Almadanim, M.; Pires, Inês S.; Abreu, Isabel A.; Maroco, João; Courtois, Brigitte; Gregorio, Glenn B.; McNally, Kenneth L. and Margarida Oliveira, M. 2013. New allelic variants found in key rice salt-tolerance genes: an association study. Plant Biotechnology Journal, Volume 11 no. 1 p. 87-100 |
| spellingShingle | genetic variation growth mutations plant breeding productivity resistance genes salinity salt tolerance screening single nucleotide polymorphism varieties Negrão, Sónia Cecília Almadanim, M. Pires, Inês S. Abreu, Isabel A. Maroco, João Courtois, Brigitte Gregorio, Glenn B. McNally, Kenneth L. Margarida Oliveira, M. New allelic variants found in key rice salt-tolerance genes: an association study |
| title | New allelic variants found in key rice salt-tolerance genes: an association study |
| title_full | New allelic variants found in key rice salt-tolerance genes: an association study |
| title_fullStr | New allelic variants found in key rice salt-tolerance genes: an association study |
| title_full_unstemmed | New allelic variants found in key rice salt-tolerance genes: an association study |
| title_short | New allelic variants found in key rice salt-tolerance genes: an association study |
| title_sort | new allelic variants found in key rice salt tolerance genes an association study |
| topic | genetic variation growth mutations plant breeding productivity resistance genes salinity salt tolerance screening single nucleotide polymorphism varieties |
| url | https://hdl.handle.net/10568/165723 |
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