title: Characterization and specification of microsatellite markers in the HLA-DRB1 gene region: a revision to major histocompatibility complex database.
abstract: Association between HLA-DRB1 and a large number of diseases such as multiple sclerosis, type I diabetes and rheumatoid arthritis has been demonstrated. In the present study, we attempted to identify and characterize potential microsatellites in the HLA-DRB1 gene region to find specific markers for genotyping and linkage analysis of this gene. The microsatellites including M2_3_22, M2_2_36, D6S2878, D6S2805, D6S2879 and D6S2880 were selected from microsatellite resource in the Major Histocompatibility Complex database (dbMHC). In silico analysis showed that only M2_3_22 was specific for HLA-DRB1. Moreover, our findings revealed some more accurate characteristics of the other investigated microsatellites. M2_3_22 existed as a single copy in all the MHC haplotype sequences and was located next to HLA-DRB1. Therefore, a new set of primers compatible with all the last published MHC haplotype sequences were designed and used to amplify M2_3_22 in 164 DNA samples obtained from unrelated Iranian individuals. M2_3_22 was successfully amplified in all DNA samples and three different alleles were identified. This locus was found in the Hardy-Weinberg equilibrium (P>0.05) in the studied population. Together, the findings suggested that M2_3_22 could be introduced as a specific locus in the HLA-DRB1 gene region for linkage analysis and disease association studies.
authors.affiliation: Division of Genetics, Department of Biology, Faculty of Science, University of Isfahan, Isfahan, Iran. persicarose@yahoo.com
authors.forename: Maryam Shaykholeslam
authors.initials: MS
authors.lastname: Esfahani
authors.forename: Sadeq
authors.initials: S
authors.lastname: Vallian
mesh_terms: D019295:Computational Biology; D030561:Databases, Nucleic Acid; D005838:Genotype; D059811:HLA-DRB1 Chains / Q000235:genetics*; D006239:Haplotypes; D006801:Humans; D008285:Major Histocompatibility Complex / Q000235:genetics*; D018895:Microsatellite Repeats
chemical_list: D059811:HLA-DRB1 Chains