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MICdb: database of prokaryotic microsatellites.
Vattipally B Sreenu1, Vishwanath Alevoor, Javaregowda Nagaraju
1Laboratory of Computational Biology and Bioinformaitcs Facility, ECIL Road, Nacharam, Hyderabad 500 076, India.
Nucleic Acids Research
|January 10, 2003
Summary
The Microsatellites Database (MICdb) offers a centralized resource for microsatellite data from prokaryotic genomes. It links to MICAS for analysis and primer design, aiding genomic research.
Area of Science:
- Genomics
- Bioinformatics
Background:
- Microsatellites are repetitive DNA sequences found throughout prokaryotic genomes.
- Efficient analysis of microsatellites requires curated databases and user-friendly tools.
Purpose of the Study:
- To introduce MICdb, a comprehensive database of microsatellites from prokaryotic genomes.
- To present MICAS, a web server for analyzing microsatellite data and designing primers.
Main Methods:
- Compilation of non-redundant microsatellites from 83 fully sequenced prokaryotic genomes.
- Development of MICAS, a web-based Microstatellite Analysis Server.
- Integration of MICAS with Autoprimer for automated primer design.
Main Results:
- MICdb version 1.0 contains microsatellite data from diverse phylogenetic groups.
- MICAS provides detailed information on microsatellite regions, frequencies, size, motif number, and sequences.
- Automated primer design for microsatellite loci is available through MICAS.
Conclusions:
- MICdb and MICAS offer a valuable, integrated platform for microsatellite research in prokaryotes.
- The tools facilitate systematic data extraction and analysis, supporting genomic studies.