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Do major histocompatibility complex tag single nucleotide polymorphisms accurately identify HLA ‐B27 in the Turkish population?
Author(s) -
Akar Servet,
Igci Yusuf Z.,
Sari Ismail,
Pala Elif,
Geyik Esra,
Tas Mehmet N.,
Solmaz Dilek,
Çetin Pinar,
Akkoc Nurullah
Publication year - 2017
Publication title -
international journal of rheumatic diseases
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.795
H-Index - 41
eISSN - 1756-185X
pISSN - 1756-1841
DOI - 10.1111/1756-185x.12719
Subject(s) - single nucleotide polymorphism , restriction fragment length polymorphism , genetics , polymerase chain reaction , primer (cosmetics) , turkish population , snp , human leukocyte antigen , hla b27 , population , restriction enzyme , microbiology and biotechnology , biology , medicine , genotype , antigen , dna , gene , chemistry , environmental health , organic chemistry
Objective To evaluate the performance of human leukocyte antigen ( HLA )‐B27 tag single nucleotide polymorphisms ( SNP s) by polymerase chain reaction – restriction fragment length polymorphism ( PCR – RFLP ). Methods We genotyped three SNP s (rs116488202, rs13202464 and rs4349859). The primers were designed using Primer3 algorithm via primer‐ BLAST interface. PCR products were digested by using Nla III , BmrI and Taq α I enzymes. Quality control was performed by DNA sequence analysis. Results In total, 207 patients with ankylosing spondylitis and 32 healthy controls were included in the study. The sensitivity and specificity of SNP s rs116488202 and rs4349859 in identifying HLA ‐B27 were identical and adequate at 0.946 and 1.000, respectively. On the other hand, the sensitivity and specificity for rs13202464 was 0.878 and 0.934, respectively. The presence of another SNP (rs141774149) in close proximity to rs116488202 complicated the analysis for RFLP and required that we sequence all the T allele carrying samples. Conclusion The SNP s rs116488202 and rs4349859 may have a place in the identification of HLA ‐B27 in the Turkish population; however, methods other than PCR – RFLP should be considered.