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Volume 146, Issue 10

An interactive web-based genome database: discovery of new genes, pathways and structures Free

Abstract

Using the complete genome sequence of PAO1, sequenced by the Genome Project (ftp://ftp.pseudomonas.com/data/pacontigs.121599), a genome database (http://pseudomonas.bit.uq.edu.au/) has been developed containing information on more than 95% of all ORFs in . The database is searchable by a variety of means, including gene name, position, keyword, sequence similarity and Pfam domain. Automated and manual annotation, nucleotide and peptide sequences, Pfam and SMART domains (where available), Medline and GenBank links and a scrollable, graphical representation of the surrounding genomic landscape are available for each ORF. Using the database has revealed, among other things, that contains four chemotaxis systems, two novel general secretion pathways, at least three loci encoding F17-like thin fimbriae, six novel filamentous haemagglutinin-like genes, a number of unusual composite genetic loci related to / elements in , a number of -like genes encoding a micro-oxic respiration system, novel biosynthetic pathways and 38 genes containing domains of unknown function (DUF1/DUF2). It is anticipated that this database will be a useful bioinformatic tool for the community that will continue to evolve.

  • Received:
  • Accepted:
  • Revised:
  • Published Online:
Keyword(s): FHA, filamentous haemagglutinin , gene families , MCP, methyl-accepting chemotaxis protein , proteome , regulators, adhesins and type II secretion
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2000-10-01
2024-04-20
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An interactive web-based Pseudomonas aeruginosa genome database: discovery of new genes, pathways and structures
Microbiology 146, 2351 (2000); https://doi.org/10.1099/00221287-146-10-2351
/content/journal/micro/10.1099/00221287-146-10-2351
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