title: Comparing techniques for the identification of the MTHFR A1298C polymorphism.
abstract: The restriction fragment length polymorphism (RFLP) technique with the MboII enzyme is used by a number of researchers as a methodology for the identification of the genetic polymorphism MTHFR A1298C. However, the reliability of this enzyme for genotyping this polymorphism has been questioned, since the silent polymorphism T1317C, located close to the polymorphic region A1298C on gene MTHFR, also has a recognition site for MboII. Thus, the fragments formed by the digestion of MboII present similar sizes, making it difficult to differentiate the allele MTHFR 1298A in the presence of the allele MTHFR 1317C. Hence, we investigated the A1298C polymorphism in a Brazilian population of renal transplant patients, using the RFLP technique with digestion by Mbo II and using sequencing, in order to examine the concordance between the two techniques. Our results showed an 8.6% difference in genotyping between RFLP and sequencing, but the statistical concordance test presented a kappa coefficient equal to 0.81 (CI 95% 0.74-88), which indicates a virtually perfect concordance, according to the criterion of Landis and Koch. Therefore, we concluded that the RFLP technique is concordant with automated sequencing in the detection of polymorphism A1298C under our laboratory conditions.
authors.affiliation: Research Unit in Genetics and Molecular Biology (UPGEM) of Molecular Biology Department, São José do Rio Preto School of Medicine, São José do Rio Preto, SP, Brazil. mpaula@famerp.br
authors.forename: Maria Paula Sanches
authors.initials: MP
authors.lastname: de Alvarenga
authors.forename: Erika Cristina
authors.initials: EC
authors.lastname: Pavarino-Bertelli
authors.forename: Eny Maria
authors.initials: EM
authors.lastname: Goloni-Bertollo
mesh_terms: D000483:Alleles; D019943:Amino Acid Substitution; D001483:Base Sequence; D001709:Biotechnology; D001938:Brazil; D017931:DNA Primers / Q000235:genetics; D015252:Deoxyribonucleases, Type II Site-Specific; D005091:Exons; D006801:Humans; D016030:Kidney Transplantation; D042965:Methylenetetrahydrofolate Reductase (NADPH2) / Q000235:genetics*; D012150:Polymorphism, Restriction Fragment Length; D020641:Polymorphism, Single Nucleotide; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D017931:DNA Primers; D042965:Methylenetetrahydrofolate Reductase (NADPH2); C024413:endodeoxyribonuclease MboII; D015252:Deoxyribonucleases, Type II Site-Specific