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The Sulfolobus database.

Kim Brügger1

  • 1Institute of Molecular Biology, University of Copenhagen, Sølvgade 83H, DK1307 Copenhagen K, Denmark. brugger@mermaid.molbio.ku.dk

Nucleic Acids Research
|November 8, 2006
PubMed
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The Sulfolobus database provides a centralized resource for all available Sulfolobus chromosome and extrachromosomal element sequences and annotations. This integrated database aids researchers studying Archaea by offering easy access to comprehensive genomic information.

Area of Science:

  • Microbiology
  • Bioinformatics
  • Genomics

Background:

  • Sulfolobus is a model organism for studying the Archaea kingdom, specifically Crenarchaeota.
  • A growing international research community requires accessible genomic data for Sulfolobus.
  • Existing genomic information for Sulfolobus was fragmented across various sources.

Purpose of the Study:

  • To create a comprehensive, integrated database of Sulfolobus chromosome and extrachromosomal element sequences.
  • To provide up-to-date annotations and gene information for Sulfolobus.
  • To facilitate easy access and analysis of Sulfolobus genomic data for researchers.

Main Methods:

  • Integration of all available Sulfolobus chromosome and extrachromosomal element sequences.
  • Inclusion of all genomes and annotations from GenBank.

Related Experiment Videos

  • Application of a genefinder to identify all potential genes.
  • Monthly updates through searches against external databases for new gene information and annotations.

    • Main Results:

    • The Sulfolobus database (http://www.sulfolobus.org) is the first to integrate all current Sulfolobus chromosome sequences with annotations.
    • Includes sequence data for extrachromosomal elements capable of propagating in Sulfolobus.
    • Ensures comprehensive gene identification and accessibility through a user-friendly web interface.
    • Received over 46,000 accesses in its first year, indicating high utility.

    Conclusions:

    • The Sulfolobus database serves as a valuable asset for the international research community studying Archaea.
    • Provides researchers with convenient access to sequence and gene information, including BLAST searches and genome browsing.
    • The database is regularly updated and will continue to expand with new genomic information.