Genomic sequence derived simple sequence repeat markers: case study with Medicago spp
Simple sequence repeats (SSR) or micro-satellites are becoming standard DNA markers for plant genome analysis and are being used as markers in marker assisted breeding. De novo generation of micro-satellite markers through laboratory-based screening of SSR-enriched genomic libraries is highly time c...
| Autores principales: | , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Elsevier
2002
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/92745 |
| _version_ | 1855529638610075648 |
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| author | Mahalakshmi, V. Aparana, P. Ramadevi, S. Ortíz, R. |
| author_browse | Aparana, P. Mahalakshmi, V. Ortíz, R. Ramadevi, S. |
| author_facet | Mahalakshmi, V. Aparana, P. Ramadevi, S. Ortíz, R. |
| author_sort | Mahalakshmi, V. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Simple sequence repeats (SSR) or micro-satellites are becoming standard DNA markers for plant genome analysis and are being used as markers in marker assisted breeding. De novo generation of micro-satellite markers through laboratory-based screening of SSR-enriched genomic libraries is highly time consuming and expensive. An alternative is to screen the public databases of related model species where abundant sequence data is already available. All the genomic sequences of Medicago from the public domain database were searched and analysed of di, tri, and tetra nucleotide repeats. Of the total of about 156,000 sequences which were searched, 7325 sequences were found to contain repeat motif and may yield SSR which will yield product sizes of around 200 bp. Of these the most abundantly found repeats were the tri-nucleotide (5210) group. Except for a very small proportion (436), these link to the gene annotation database at TIGR (http://www.tigr.org). |
| format | Journal Article |
| id | CGSpace92745 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2002 |
| publishDateRange | 2002 |
| publishDateSort | 2002 |
| publisher | Elsevier |
| publisherStr | Elsevier |
| record_format | dspace |
| spelling | CGSpace927452025-11-12T05:34:21Z Genomic sequence derived simple sequence repeat markers: case study with Medicago spp Mahalakshmi, V. Aparana, P. Ramadevi, S. Ortíz, R. bioinformatics genetic markers repeat motifs simple sequence repeats ssr Simple sequence repeats (SSR) or micro-satellites are becoming standard DNA markers for plant genome analysis and are being used as markers in marker assisted breeding. De novo generation of micro-satellite markers through laboratory-based screening of SSR-enriched genomic libraries is highly time consuming and expensive. An alternative is to screen the public databases of related model species where abundant sequence data is already available. All the genomic sequences of Medicago from the public domain database were searched and analysed of di, tri, and tetra nucleotide repeats. Of the total of about 156,000 sequences which were searched, 7325 sequences were found to contain repeat motif and may yield SSR which will yield product sizes of around 200 bp. Of these the most abundantly found repeats were the tri-nucleotide (5210) group. Except for a very small proportion (436), these link to the gene annotation database at TIGR (http://www.tigr.org). 2002 2018-05-17T09:03:22Z 2018-05-17T09:03:22Z Journal Article https://hdl.handle.net/10568/92745 en Open Access application/pdf Elsevier Mahalakshmi, V., Aparna, P., Ramadevi, S. & Ortiz, R. (2002). Genomic sequence derived simple sequence repeats markers a case study with Medicago spp. Electronic Journal of Biotechnology, 5(3), 13-14. |
| spellingShingle | bioinformatics genetic markers repeat motifs simple sequence repeats ssr Mahalakshmi, V. Aparana, P. Ramadevi, S. Ortíz, R. Genomic sequence derived simple sequence repeat markers: case study with Medicago spp |
| title | Genomic sequence derived simple sequence repeat markers: case study with Medicago spp |
| title_full | Genomic sequence derived simple sequence repeat markers: case study with Medicago spp |
| title_fullStr | Genomic sequence derived simple sequence repeat markers: case study with Medicago spp |
| title_full_unstemmed | Genomic sequence derived simple sequence repeat markers: case study with Medicago spp |
| title_short | Genomic sequence derived simple sequence repeat markers: case study with Medicago spp |
| title_sort | genomic sequence derived simple sequence repeat markers case study with medicago spp |
| topic | bioinformatics genetic markers repeat motifs simple sequence repeats ssr |
| url | https://hdl.handle.net/10568/92745 |
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