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Immunity genes and their orthologs: a multi-species database.

Rannikko, Kathryn; Ortutay, Csaba and Vihinen, Mauno LU (2007) In International Immunology 19(12). p.1361-1370
Abstract
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... (More)
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). (Less)
Please use this url to cite or link to this publication:
author
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Immunity: genetics
in
International Immunology
volume
19
issue
12
pages
1361 - 1370
publisher
Oxford University Press
external identifiers
  • pmid:17965450
  • scopus:36248952693
ISSN
1460-2377
DOI
10.1093/intimm/dxm109
language
English
LU publication?
no
id
c50a3633-b7e8-45f6-b905-92b0fe057083 (old id 3635217)
alternative location
http://www.ncbi.nlm.nih.gov/pubmed/17965450?dopt=Abstract
date added to LUP
2013-06-12 16:28:36
date last changed
2017-01-01 07:36:44
@article{c50a3633-b7e8-45f6-b905-92b0fe057083,
  abstract     = {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).},
  author       = {Rannikko, Kathryn and Ortutay, Csaba and Vihinen, Mauno},
  issn         = {1460-2377},
  keyword      = {Immunity: genetics},
  language     = {eng},
  number       = {12},
  pages        = {1361--1370},
  publisher    = {Oxford University Press},
  series       = {International Immunology},
  title        = {Immunity genes and their orthologs: a multi-species database.},
  url          = {http://dx.doi.org/10.1093/intimm/dxm109},
  volume       = {19},
  year         = {2007},
}