Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice
Studies aimed at determining gene function or identity are greatly facilitated by introgression lines and phenotyping tools. However, developing introgression lines can take six to eight generations to reach the desired level of background purity and homozygosity. The objective of this study was to...
| Autores principales: | , , , , , , , |
|---|---|
| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Wiley
2011
|
| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/165869 |
| _version_ | 1855535367340425216 |
|---|---|
| author | Boualaphanh, Chanthakhone Daygon, Venea D. Calingacion, Mariafe N. Sanitchon, Jarawit Jothityangkoon, Darunee Mumm, Roland Hall, Robert D. Fitzgerald, Melissa A. |
| author_browse | Boualaphanh, Chanthakhone Calingacion, Mariafe N. Daygon, Venea D. Fitzgerald, Melissa A. Hall, Robert D. Jothityangkoon, Darunee Mumm, Roland Sanitchon, Jarawit |
| author_facet | Boualaphanh, Chanthakhone Daygon, Venea D. Calingacion, Mariafe N. Sanitchon, Jarawit Jothityangkoon, Darunee Mumm, Roland Hall, Robert D. Fitzgerald, Melissa A. |
| author_sort | Boualaphanh, Chanthakhone |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Studies aimed at determining gene function or identity are greatly facilitated by introgression lines and phenotyping tools. However, developing introgression lines can take six to eight generations to reach the desired level of background purity and homozygosity. The objective of this study was to use new generation genome‐wide single nucleotide polymorphism (SNP) genotyping, along with a molecular marker for the allele of interest, and a relevant phenotyping tool, to develop research populations with just four generations of backcrossing. Two populations were created for future research on aroma in rice (Oryza sativa L.): one derived from two indica parents and the other from one indica and one tropical japonica parent. The same recurrent parent was used for both populations. Single nucleotide polymorphism genotyping of BC4F2 progeny selected previously on the basis of either a marker for fragrance or the presence of the fragrant compound and on the basis of morphological similarity to the recurrent parent showed that donor introgression ranged from <0.1% up to 35%. Single nucleotide polymorphism genotyping allowed the selection of a set of fragrant lines with minimal additional donor introgression after four generations. Metabolite profiling of the volatile blend in grains from parents and selected introgression lines showed that selected lines clustered with the recurrent parent. These new genotyping and phenotyping techniques enabled valuable genetic stocks to be developed in a short time for use in biochemical and genetic projects on fragrance in rice. |
| format | Journal Article |
| id | CGSpace165869 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2011 |
| publishDateRange | 2011 |
| publishDateSort | 2011 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | CGSpace1658692024-12-22T05:44:59Z Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice Boualaphanh, Chanthakhone Daygon, Venea D. Calingacion, Mariafe N. Sanitchon, Jarawit Jothityangkoon, Darunee Mumm, Roland Hall, Robert D. Fitzgerald, Melissa A. genetic markers genotypes metabolites single nucleotide polymorphism Studies aimed at determining gene function or identity are greatly facilitated by introgression lines and phenotyping tools. However, developing introgression lines can take six to eight generations to reach the desired level of background purity and homozygosity. The objective of this study was to use new generation genome‐wide single nucleotide polymorphism (SNP) genotyping, along with a molecular marker for the allele of interest, and a relevant phenotyping tool, to develop research populations with just four generations of backcrossing. Two populations were created for future research on aroma in rice (Oryza sativa L.): one derived from two indica parents and the other from one indica and one tropical japonica parent. The same recurrent parent was used for both populations. Single nucleotide polymorphism genotyping of BC4F2 progeny selected previously on the basis of either a marker for fragrance or the presence of the fragrant compound and on the basis of morphological similarity to the recurrent parent showed that donor introgression ranged from <0.1% up to 35%. Single nucleotide polymorphism genotyping allowed the selection of a set of fragrant lines with minimal additional donor introgression after four generations. Metabolite profiling of the volatile blend in grains from parents and selected introgression lines showed that selected lines clustered with the recurrent parent. These new genotyping and phenotyping techniques enabled valuable genetic stocks to be developed in a short time for use in biochemical and genetic projects on fragrance in rice. 2011-09 2024-12-19T12:55:33Z 2024-12-19T12:55:33Z Journal Article https://hdl.handle.net/10568/165869 en Wiley Boualaphanh, Chanthakhone; Daygon, Venea D.; Calingacion, Mariafe N.; Sanitchon, Jarawit; Jothityangkoon, Darunee; Mumm, Roland; Hall, Robert D. and Fitzgerald, Melissa A. 2011. Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice. Crop Science, Volume 51 no. 5 p. 2067-2073 |
| spellingShingle | genetic markers genotypes metabolites single nucleotide polymorphism Boualaphanh, Chanthakhone Daygon, Venea D. Calingacion, Mariafe N. Sanitchon, Jarawit Jothityangkoon, Darunee Mumm, Roland Hall, Robert D. Fitzgerald, Melissa A. Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice |
| title | Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice |
| title_full | Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice |
| title_fullStr | Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice |
| title_full_unstemmed | Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice |
| title_short | Use of new generation single nucleotide polymorphism genotyping for rapid development of near-isogenic lines in rice |
| title_sort | use of new generation single nucleotide polymorphism genotyping for rapid development of near isogenic lines in rice |
| topic | genetic markers genotypes metabolites single nucleotide polymorphism |
| url | https://hdl.handle.net/10568/165869 |
| work_keys_str_mv | AT boualaphanhchanthakhone useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice AT daygonvenead useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice AT calingacionmariafen useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice AT sanitchonjarawit useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice AT jothityangkoondarunee useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice AT mummroland useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice AT hallrobertd useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice AT fitzgeraldmelissaa useofnewgenerationsinglenucleotidepolymorphismgenotypingforrapiddevelopmentofnearisogeniclinesinrice |