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Conserved extended haplotypes of the major histocompatibility complex: further characterization

Cited 0 time in webofscience Cited 47 time in scopus
Authors
Dorak, M T; Shao, W; Machulla, H K G; Lobashevsky, E S; Tang, J; Park, M H; Kaslow, R A
Issue Date
2006
Publisher
Nature Publishing Group
Citation
Genes Immun 2006; 7: 450-467
Keywords
3' Untranslated RegionsCell LineDNA-Binding Proteins/geneticsHLA-B Antigens/geneticsHLA-DQ Antigens/geneticsHSP70 Heat-Shock Proteins/genetics*HaplotypesHistocompatibility Antigens Class I/geneticsHistocompatibility Antigens Class II/geneticsLymphotoxin-alpha/geneticsMajor Histocompatibility Complex/*geneticsNatural Cytotoxicity Triggering Receptor 3*Polymorphism, GeneticPolymorphism, Single NucleotideProto-Oncogene Proteins/geneticsReceptors, Immunologic/geneticsReceptors, Notch/geneticsTandem Repeat SequencesTumor Necrosis Factor-alpha/genetics
Abstract
Since the complete sequencing of a human major histocompatibility complex (MHC) haplotype, interest in non-human leucocyte antigen (HLA) genes encoded in the MHC has been growing. Non-HLA genes, which outnumber the HLA genes, may contribute to or account for HLA and disease associations. Most information on non-HLA genes has been obtained in separate studies of individual loci. To comprehensively address polymorphisms of relevant non-HLA genes in 'conserved extended haplotypes' (CEH), we investigated 101 International Histocompatibility Workshop reference cell lines and nine additional anonymous samples representing all 37 unambiguously characterized CEHs at MICA, NFKBIL1, LTA, NCR3, AIF1, HSPA1A, HSPA1B, BF, NOTCH4 and a single nucleotide polymorphism (SNP) at HLA-DQA1 as well as MICA, NOTCH4, HSPA1B and all five tumour necrosis factor short tandem repeat (STR) polymorphisms. This work (1) provides an extensive catalogue of MHC polymorphisms in all CEHs, (2) unravels interrelationships between HLA and non-HLA haplotypical lineages, (3) resolves reported typing ambiguities and (4) describes haplospecific markers for a number of CEHs. Analysis also identified a DQA1 SNP and segments containing MHC class III polymorphisms that corresponded with class II (DRB3 and DRB4) lineages. These results portray the MHC where lineages containing non-HLA and HLA variants in linkage disequilibrium may operate in concert and can guide more thorough design and interpretation of HLA-disease relationships.
ISSN
1466-4879 (Print)
Language
English
URI
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16791278

http://hdl.handle.net/10371/11869
DOI
https://doi.org/10.1038/sj.gene.6364315
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College of Medicine/School of Medicine (의과대학/대학원)Laboratory Medicine (검사의학전공)Journal Papers (저널논문_검사의학전공)
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