PolySSR: A Tool for Identifying Polymorphic Microsatellites
Author Information
Author(s): Tang Jifeng, Baldwin Samantha J, Jacobs Jeanne ME, Linden C Gerard van der, Voorrips Roeland E, Leunissen Jack AM, van Eck Herman, Vosman Ben
Primary Institution: Wageningen UR Plant Breeding
Hypothesis
Can an in silico approach effectively identify polymorphic microsatellites from expressed sequence tags?
Conclusion
PolySSR is an effective tool for identifying polymorphic SSRs, significantly improving marker development efficiency.
Supporting Evidence
- PolySSR identified several hundred putative markers from various species including potato and tomato.
- Validation experiments showed that almost all markers indicated as polymorphic were indeed polymorphic.
- Short SSRs were found to be more frequently polymorphic than long SSRs across all species studied.
Takeaway
PolySSR helps scientists find useful genetic markers in plants by looking for specific patterns in their DNA sequences.
Methodology
The study developed a pipeline called PolySSR to identify polymorphic SSRs from public EST databases and designed PCR primers for them.
Limitations
The study relies on the availability of sufficient sequence information from different genotypes.
Digital Object Identifier (DOI)
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