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International Immunology Advance Access published online on October 27, 2007
International Immunology, doi:10.1093/intimm/dxm109
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© The Japanese Society for Immunology. 2007. All rights reserved. For permissions, please e-mail: journals.permissions@oxfordjournals.org

Immunity genes and their orthologs: a multi-species database

Kathryn Rannikko1, Csaba Ortutay1 and Mauno Vihinen1,2

1 Bioinformatics Research Group, Institute of Medical Technology, FI-33014 University of Tampere, Finland
2 Research Unit, Tampere University Hospital, FI-33520 Tampere, Finland

Correspondence to: Correspondence to: M. Vihinen; E-mail: mauno.vihinen{at}uta.fi

Metazoan species, from sponges to insects and mammals, possess successful defence systems against their pathogens and parasites. The evolutionary origins of these diverse systems are beginning to be more comprehensively investigated and mapped out. We have collected 1811 metazoan immunity genes from literature and gene ontology annotations. Tentative orthologs of these genes were identified using reciprocal protein–protein Blast searches against proteins from the GenBank and RefSeq databases. We have defined different levels or classes of ortholog group according to the order of reciprocal ortholog pairs among the seed immunity genes. The genes were clustered into these different ortholog groups. Initial phylogenetic analysis of these ortholog groups suggests that by this approach, we can collect a spectrum of immunity genes representing well the taxa in which they appear. All the immunity genes and their evidence of immune function, orthologs and ortholog groups have been combined into an open access database—ImmunomeBase, which is publicly available from http://bioinf.uta.fi/ImmunomeBase.

Keywords: bioinformatics, human immune system, immunome, ImmunomeBase

Transmitting editor: A. Falus

Received 19 June 2007, accepted 29 September 2007.


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