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The European database on small subunit ribosomal RNA
Jan Wuyts1, Yves Van de Peer, Tina Winkelmans
1Departement Biochemie, Universiteit Antwerpen (UIA), Universiteitsplein 1, B-2610 Antwerpen, Belgium.
Nucleic Acids Research
|December 26, 2001
Summary
The European SSU rRNA database offers aligned ribosomal RNA sequences and associated data. It aids researchers by providing comprehensive sequence information and analysis tools online.
Area of Science:
- Molecular Biology
- Bioinformatics
- Genomics
Background:
- Small subunit ribosomal RNA (SSU rRNA) is crucial for phylogenetic studies.
- A centralized, curated database is needed for efficient access to SSU rRNA sequences.
- Existing sequence data requires alignment and annotation for effective use.
Purpose of the Study:
- To establish and provide access to a comprehensive European database of SSU rRNA sequences.
- To offer aligned sequences incorporating secondary structure information.
- To integrate diverse biological data, including taxonomy and literature references.
Main Methods:
- Compilation of complete and nearly complete SSU rRNA sequences.
- Alignment of sequences using comparative sequence analysis and secondary structure information.
- Development of a World Wide Web interface for database access.
Main Results:
- A publicly accessible database at http://rrna.uia.ac.be/ssu/ containing aligned SSU rRNA sequences.
- Inclusion of secondary structure models and nucleotide variability maps.
- Provision of literature references and taxonomic information for each sequence.
Conclusions:
- The database serves as a valuable resource for molecular biologists and bioinformaticians.
- Facilitates comparative analysis and research in microbial diversity and evolution.
- Enhances the study of SSU rRNA through integrated data and advanced alignment.