The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers
MRQ74, a popular aromatic Malaysian landrace, allows for charging considerably higher prices than non-aromatic landraces. Thus, breeding this profitable trait has become a priority for Malaysian rice breeding. Despite many studies on aroma genetics, ambiguities considering its genetic basis remain....
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| Format: | Article |
| Language: | English |
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Elsevier
2015
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| Online Access: | http://psasir.upm.edu.my/id/eprint/46598/1/The%20genetic%20and%20molecular%20origin%20of%20natural%20variation%20for%20the%20fragrance%20trait%20in%20an%20elite%20Malaysian%20aromatic%20rice%20through%20quantitative%20trait%20loci%20mapping%20using%20SSR%20and%20gene-based%20markers.pdf |
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| author | Hashemi, Farahnaz Sadat Golestan Y., Mohd Rafii Ismail, Mohd Razi Tengku Muda Mohamed, Mahmud Harun, A. Rahim Abdul Latif, Mohammad Aslani, Farzad |
| author_facet | Hashemi, Farahnaz Sadat Golestan Y., Mohd Rafii Ismail, Mohd Razi Tengku Muda Mohamed, Mahmud Harun, A. Rahim Abdul Latif, Mohammad Aslani, Farzad |
| author_sort | Hashemi, Farahnaz Sadat Golestan |
| collection | UPM |
| description | MRQ74, a popular aromatic Malaysian landrace, allows for charging considerably higher prices than non-aromatic landraces. Thus, breeding this profitable trait has become a priority for Malaysian rice breeding. Despite many studies on aroma genetics, ambiguities considering its genetic basis remain. It has been observed that identifying quantitative trait loci (QTLs) based on anchor markers, particularly candidate genes controlling a trait of interest, can increase the power of QTL detection. Hence, this study aimed to locate QTLs that influence natural variations in rice scent using microsatellites and candidate gene-based sequence polymorphisms. For this purpose, an F2 mapping population including 189 individual plants was developed by MRQ74 crosses with ‘MR84’, a non-scented Malaysian accession. Additionally, qualitative and quantitative approaches were applied to obtain a phenotype data framework. Consequently, we identified two QTLs on chromosomes 4 and 8. These QTLs explained from 3.2% to 39.3% of the total fragrance phenotypic variance. In addition, we could resolve linkage group 8 by adding six gene-based primers in the interval harboring the most robust QTL. Hence, we could locate a putative fgr allele in the QTL found on chromosome 8 in the interval RM223–SCU015RM (1.63 cM). The identified QTLs represent an important step toward recognition of the rice flavor genetic control mechanism. In addition, this identification will likely accelerate the progress of the use of molecular markers for gene isolation, gene-based cloning, and marker-assisted selection breeding programs aimed at improving rice cultivars. |
| first_indexed | 2024-03-06T09:00:46Z |
| format | Article |
| id | upm.eprints-46598 |
| institution | Universiti Putra Malaysia |
| language | English |
| last_indexed | 2024-03-06T09:00:46Z |
| publishDate | 2015 |
| publisher | Elsevier |
| record_format | dspace |
| spelling | upm.eprints-465982018-02-26T01:52:59Z http://psasir.upm.edu.my/id/eprint/46598/ The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers Hashemi, Farahnaz Sadat Golestan Y., Mohd Rafii Ismail, Mohd Razi Tengku Muda Mohamed, Mahmud Harun, A. Rahim Abdul Latif, Mohammad Aslani, Farzad MRQ74, a popular aromatic Malaysian landrace, allows for charging considerably higher prices than non-aromatic landraces. Thus, breeding this profitable trait has become a priority for Malaysian rice breeding. Despite many studies on aroma genetics, ambiguities considering its genetic basis remain. It has been observed that identifying quantitative trait loci (QTLs) based on anchor markers, particularly candidate genes controlling a trait of interest, can increase the power of QTL detection. Hence, this study aimed to locate QTLs that influence natural variations in rice scent using microsatellites and candidate gene-based sequence polymorphisms. For this purpose, an F2 mapping population including 189 individual plants was developed by MRQ74 crosses with ‘MR84’, a non-scented Malaysian accession. Additionally, qualitative and quantitative approaches were applied to obtain a phenotype data framework. Consequently, we identified two QTLs on chromosomes 4 and 8. These QTLs explained from 3.2% to 39.3% of the total fragrance phenotypic variance. In addition, we could resolve linkage group 8 by adding six gene-based primers in the interval harboring the most robust QTL. Hence, we could locate a putative fgr allele in the QTL found on chromosome 8 in the interval RM223–SCU015RM (1.63 cM). The identified QTLs represent an important step toward recognition of the rice flavor genetic control mechanism. In addition, this identification will likely accelerate the progress of the use of molecular markers for gene isolation, gene-based cloning, and marker-assisted selection breeding programs aimed at improving rice cultivars. Elsevier 2015-01 Article PeerReviewed text en http://psasir.upm.edu.my/id/eprint/46598/1/The%20genetic%20and%20molecular%20origin%20of%20natural%20variation%20for%20the%20fragrance%20trait%20in%20an%20elite%20Malaysian%20aromatic%20rice%20through%20quantitative%20trait%20loci%20mapping%20using%20SSR%20and%20gene-based%20markers.pdf Hashemi, Farahnaz Sadat Golestan and Y., Mohd Rafii and Ismail, Mohd Razi and Tengku Muda Mohamed, Mahmud and Harun, A. Rahim and Abdul Latif, Mohammad and Aslani, Farzad (2015) The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers. Gene, 555 (2). pp. 101-107. ISSN 0378-1119; ESSN: 1879-0038 10.1016/j.gene.2014.10.048 |
| spellingShingle | Hashemi, Farahnaz Sadat Golestan Y., Mohd Rafii Ismail, Mohd Razi Tengku Muda Mohamed, Mahmud Harun, A. Rahim Abdul Latif, Mohammad Aslani, Farzad The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers |
| title | The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers |
| title_full | The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers |
| title_fullStr | The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers |
| title_full_unstemmed | The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers |
| title_short | The genetic and molecular origin of natural variation for the fragrance trait in an elite Malaysian aromatic rice through quantitative trait loci mapping using SSR and gene-based markers |
| title_sort | genetic and molecular origin of natural variation for the fragrance trait in an elite malaysian aromatic rice through quantitative trait loci mapping using ssr and gene based markers |
| url | http://psasir.upm.edu.my/id/eprint/46598/1/The%20genetic%20and%20molecular%20origin%20of%20natural%20variation%20for%20the%20fragrance%20trait%20in%20an%20elite%20Malaysian%20aromatic%20rice%20through%20quantitative%20trait%20loci%20mapping%20using%20SSR%20and%20gene-based%20markers.pdf |
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