SSR Locator: A Tool for Discovering Simple Sequence Repeats in Plants
Author Information
Author(s): Luciano Carlos da Maia, Dario Abel Palmieri, Velci Queiroz de Souza, Mauricio Marini Kopp, Fernando Irajá Félix de Carvalho, Antonio Costa de Oliveira
Primary Institution: Federal University of Pelotas
Conclusion
The SSR Locator software effectively integrates SSR discovery, primer design, and PCR simulation, providing valuable tools for plant genetics and breeding.
Supporting Evidence
- SSRs were detected in 13.22% of the analyzed cDNA sequences.
- The software identified 3907 micro- and minisatellites in the rice cDNA database.
- SSRs are widely used in plant genetics due to their reproducibility and abundance.
- The tool is publicly available for use by researchers.
- 932 primers amplified more than one gene sequence, indicating potential redundancy.
Takeaway
The SSR Locator helps scientists find specific DNA patterns in plants, making it easier to study and breed them.
Methodology
The study developed a software tool that integrates SSR detection, primer design, and PCR simulation using algorithms written in Perl and Delphi.
Limitations
The results may vary due to different databases and algorithm configurations used in the analysis.
Digital Object Identifier (DOI)
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