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Genotyping of the reduced folate carrier-1 c.80G>A polymorphism by pyrosequencing technology: importance of PCR and pre-PCR optimization
Örebro University, School of Health and Medical Sciences.
2008 (English)In: Scandinavian Journal of Clinical and Laboratory Investigation, ISSN 0036-5513, E-ISSN 1502-7686, Vol. 68, no 2, p. 166-170Article in journal (Refereed) Published
Abstract [en]

When developing a genotyping assay by Pyrosequencing technology for the RFC1 (SLC19A1) c.80G>A polymorphism (rs1051266), unequal peak heights in the pyrograms were observed, probably due to unequal amplification of the mutated and wild-type alleles. This rarely occurring problem could potentially render assignment of heterozygous genotypes uncertain. When the PCR conditions were studied, it was found that substitution of the dGTP nucleotide in the master mix by dGTP and dITP in proportion 1:1 largely overcame this problem. Heat denaturation of the DNA at 95°C before PCR also counteracted the problem. A combination of these two modifications of the standard pyrosequencing PCR protocol gave the best results. We conclude that, with these modifications, the RFC1 c.80G>A SNP can be reliably assayed by pyrosequencing.

Place, publisher, year, edition, pages
Oslo: Taylor & Francis , 2008. Vol. 68, no 2, p. 166-170
Keywords [en]
Aged, Base Sequence, DNA Primers, Female, Genotype, Humans, Male, Membrane Transport Proteins/*genetics, Nucleic Acid Denaturation, Polymerase Chain Reaction/*methods, Polymorphism; Genetic
National Category
Medical and Health Sciences Medical Genetics Pharmacology and Toxicology
Research subject
Medicine
Identifiers
URN: urn:nbn:se:oru:diva-3507DOI: 10.1080/00365510701570118PubMedID: 17852831OAI: oai:DiVA.org:oru-3507DiVA, id: diva2:137804
Available from: 2008-12-08 Created: 2008-12-08 Last updated: 2018-01-13Bibliographically approved

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Nilsson, Torbjörn K.Böttiger, A. K.

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CiteExportLink to record
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