pSATdb 2.0: a database of organellar common, polymorphic, and unique microsatellites

Area of Science:

• Genomics
• Bioinformatics
• Molecular Biology

Background:

• Microsatellites (simple sequence repeats, SSRs) are repetitive DNA sequences found in nearly all genomes.
• These highly polymorphic sequences are valuable molecular markers in biological research.
• Comprehensive data on microsatellite length variation in organellar genomes is currently lacking.

Purpose of the Study:

• To develop a comprehensive resource for microsatellite information in organellar genomes.
• To explore and provide data on the variability in microsatellite lengths across diverse species.
• To create pSATdb 2.0, an upgraded database for polymorphic microsatellites.

Main Methods:

• Identification and analysis of 348,894 microsatellites from organellar genomes of 15,681 organisms.
• Data compilation from Metazoa and Viridiplantae across 3252 genera.
• Development of database functionalities including Advanced Search, BLAST, and JBrowse.

Main Results:

• pSATdb 2.0 provides extensive data on microsatellite frequency and distribution in organellar genomes.
• The database uniquely offers information on common, polymorphic, and genus-specific microsatellites.
• Includes access to 348,894 microsatellites from diverse species.

Conclusions:

• pSATdb 2.0 serves as a valuable, comprehensive resource for microsatellite data in organellar genomes.
• The database facilitates research in genetic diversity, mapping, and population studies.
• Unrestricted access and advanced tools enhance its utility for the scientific community.