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Full-length sequence analysis of the HLA-DRB1 locus suggests a recent origin of alleles
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Genetics and Pathology.
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Genetics and Pathology.
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Genetics and Pathology. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, The Linnaeus Centre for Bioinformatics.
2007 (English)In: Immunogenetics, ISSN 0093-7711, E-ISSN 1432-1211, Vol. 59, no 4, 261-271 p.Article in journal (Refereed) Published
Abstract [en]

The HLA region harbors some of the most polymorphic loci in the human genome. Among them is the class II locus HLA-DRB1, with more than 400 known alleles. The age of the polymorphism and the rate at which new alleles are generated at HLA loci has caused much controversy over the years. Previous studies have mostly been restricted to the 270 base pairs that constitute the second exon and represent the most variable part of the gene. Here, we investigate the evolutionary history of the HLA-DRB1 locus on the basis of an analysis of 15 genomic full-length alleles (10–15 kb). In addition, the variation in 49 complete coding sequences and 322 exon 2 sequences were analyzed. When excluding exon 2 from the analysis, the diversity at the synonymous sites was found to be similar to the intron diversity. The overall diversity in noncoding region was also similar to the genome average. The DRB1*03 lineage has been found in human, chimpanzee, bonobo, gorilla, and orangutan. An ancestral “proto HLA-DRB1*03 lineage” appeared to have diverged in the last 5 million years into the human-specific lineages *08, *11, *13, and *14. With exception to exon 2, both the coding- and the noncoding diversity suggests a recent origin (<1 million years ago) for most of the alleles at the HLA-DRB1 locus. Sites encoding for amino acids involved in antigen binding [antigen recognizing sites (ARS)] appear to have a more ancient origin. Taken together, the recent origin of most alleles, the high diversity between allelic lineages, and the ancient origin of sequence motifs in exon 2, is consistent with a relatively rapid generation of novel alleles by gene conversion like events.

Place, publisher, year, edition, pages
2007. Vol. 59, no 4, 261-271 p.
Keyword [en]
HLA, MHC, DRB1, Intron, Evolution, Polymorphisms
National Category
Medical and Health Sciences Biological Sciences
Identifiers
URN: urn:nbn:se:uu:diva-10257DOI: 10.1007/s00251-007-0196-8ISI: 000244786700002OAI: oai:DiVA.org:uu-10257DiVA: diva2:38025
Note
Published on-line (doi:10.1007/s00251-007-0196-8) on Friday, February 16, 2007.Available from: 2007-03-07 Created: 2007-03-07 Last updated: 2017-12-11Bibliographically approved

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Publisher's full texthttp://www.springerlink.com/content/5w865k6142h36208/?p=21e726150f9c4fddb520f86f69ee85c9&pi=5

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von Salomé, JennyGyllensten, UlfBergström, Tomas F.

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