Comprehensive analysis of MHC class I genes from the U-, S-, and Z-lineages in Atlantic salmon

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dc.contributor.authorLukacs, Morten F.
dc.contributor.authorHarstad, Havard
dc.contributor.authorBakke, Hege G.
dc.contributor.authorBeetz-Sargent, Marianne
dc.contributor.authorMcKinnel, Linda
dc.contributor.authorLubieniecki, Krysztof P.
dc.contributor.authorKoop, Benjamin F.
dc.contributor.authorGrimholt, Unni
dc.date.accessioned2014-08-08T18:22:20Z
dc.date.available2014-08-08T18:22:20Z
dc.date.copyright2010en_US
dc.date.issued2010-03-05
dc.descriptionBioMed Centralen_US
dc.description.abstractBackground: We have previously sequenced more than 500 kb of the duplicated MHC class I regions in Atlantic salmon. In the IA region we identified the loci for the MHC class I gene Sasa-UBA in addition to a soluble MHC class I molecule, Sasa-ULA. A pseudolocus for Sasa-UCA was identified in the nonclassical IB region. Both regions contained genes for antigen presentation, as wells as orthologues to other genes residing in the human MHC region. Results: The genomic localisation of two MHC class I lineages (Z and S) has been resolved. 7 BACs were sequenced using a combination of standard Sanger and 454 sequencing. The new sequence data extended the IA region with 150 kb identifying the location of one Z-lineage locus, ZAA. The IB region was extended with 350 kb including three new Z-lineage loci, ZBA, ZCA and ZDA in addition to a UGA locus. An allelic version of the IB region contained a functional UDA locus in addition to the UCA pseudolocus. Additionally a BAC harbouring two MHC class I genes (UHA) was placed on linkage group 14, while a BAC containing the S-lineage locus SAA (previously known as UAA) was placed on LG10. Gene expression studies showed limited expression range for all class I genes with exception of UBA being dominantly expressed in gut, spleen and gills, and ZAA with high expression in blood. Conclusion: Here we describe the genomic organization of MHC class I loci from the U-, Z-, and S-lineages in Atlantic salmon. Nine of the described class I genes are located in the extension of the duplicated IA and IB regions, while three class I genes are found on two separate linkage groups. The gene organization of the two regions indicates that the IB region is evolving at a different pace than the IA region. Expression profiling, polymorphic content, peptide binding properties and phylogenetic relationship show that Atlantic salmon has only one MHC class Ia gene (UBA), in addition to a multitude of nonclassical MHC class I genes from the U-, S- and Z-lineages.en_US
dc.description.reviewstatusRevieweden_US
dc.description.scholarlevelFacultyen_US
dc.description.sponsorshipThe present study was supported by The National Programme for Research in Functional Genomics in Norway (FUGE), The Research Council of Norway, and by NSERC, Genome Canada and Genome BC.en_US
dc.identifier.citationLukacs et al.: Comprehensive analysis of MHC class I genes from the U-, S-, and Z-lineages in Atlantic salmon. BMC Genomics 2010 11:154.en_US
dc.identifier.urihttp://www.biomedcentral.com/1471-2164/11/154
dc.identifier.urihttp://dx.doi.org/10.1186/1471-2164-11-154
dc.identifier.urihttp://hdl.handle.net/1828/5534
dc.language.isoenen_US
dc.publisherBioMed Centralen_US
dc.subject.departmentDepartment of Biology
dc.titleComprehensive analysis of MHC class I genes from the U-, S-, and Z-lineages in Atlantic salmonen_US
dc.typeArticleen_US

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