Immunome database for marsupials and monotremes
- Author(s)
- Wong, ESW; Papenfuss, AT; Belov, K;
- Journal Title
- BMC IMMUNOLOGY
- Publication Type
- Journal Article
- Abstract
- Background: To understand the evolutionary origins of our own immune system, we need to characterise the immune system of our distant relatives, the marsupials and monotremes. The recent sequencing of the genomes of two marsupials (opossum and tammar wallaby) and a monotreme (platypus) provides an opportunity to characterise the immune gene repertoires of these model organisms. This was required as many genes involved in immunity evolve rapidly and fail to be detected by automated gene annotation pipelines. Description: We have developed a database of immune genes from the tammar wallaby, red-necked wallaby, northern brown bandicoot, brush-tail possum, opossum, echidna and platypus. The resource contains 2,235 newly identified sequences and 3,197 sequences which had been described previously. This comprehensive dataset was built from a variety of sources, including EST projects and expert-curated gene predictions generated through a variety of methods including chained-BLAST and sensitive HMMER searches. To facilitate systems-based research we have grouped sequences based on broad Gene Ontology categories as well as by specific functional immune groups. Sequences can be extracted by keyword, gene name, protein domain and organism name. Users can also search the database using BLAST. Conclusion: The Immunome Database for Marsupials and Monotremes (IDMM) is a comprehensive database of all known marsupial and monotreme immune genes. It provides a single point of reference for genomic and transcriptomic datasets. Data from other marsupial and monotreme species will be added to the database as it become available. This resource will be utilized by marsupial and monotreme immunologists as well as researchers interested in the evolution of mammalian immunity.
- Publisher
- BIOMED CENTRAL LTD
- Keywords
- WALLABY MACROPUS-EUGENII; OPOSSUM MONODELPHIS-DOMESTICA; MAJOR HISTOCOMPATIBILITY COMPLEX; SHORT-TAILED OPOSSUM; POSSUM TRICHOSURUS-VULPECULA; SHORT-BEAKED ECHIDNA; CLASS-I GENES; MHC CLASS-I; TAMMAR WALLABY; BRUSHTAIL POSSUM
- Research Division(s)
- Bioinformatics
- Publisher's Version
- https://doi.org/10.1186/1471-2172-12-48
- Open Access at Publisher's Site
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3173380/- Terms of Use/Rights Notice
- © 2011 Wong et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Creation Date: 2011-08-19 12:00:00