Genotyping with TaqMAMA.
TaqMAMA combines the quantitative strengths of TaqMan with the allele-specific PCR of MAMA. In this article we develop TaqMAMA as a technique for screening human DNA samples for known genetic polymorphisms. In the first set of experiments, plasmids that model all types of genetic polymorphisms were used to understand the relationship between TaqMAMA primer/template mismatches and their strength of allelic discrimination. These data can be used to improve allelic discrimination of other primer extension genotyping methodologies through directed use of nucleotide mismatches. We used the data to derive a guide for TaqMAMA primer design and DNA strand selection for TaqMAMA genotyping assays. The guide was then used to develop assays for 11 known and novel human genetic polymorphisms. Genotypes were assigned quickly and accurately in all cases. TaqMAMA genotyping assays require minimal development time, have a high probability of success, produce reliable data that are straightforward to analyze, and are very cost-competitive.
Li
Baohui
B
Department of Lead Optimization Toxicology, A Division of Eli Lilly and Company, 2001 West Main Street, Greenfield, IN 46140, USA.
Kadura
Ibrahim
I
Fu
Dong-Jing
DJ
Watson
David E
DE
D000483:Alleles; D020137:Base Pair Mismatch; D001483:Base Sequence; D004252:DNA Mutational Analysis / Q000379:methods*; D017931:DNA Primers; D005820:Genetic Testing / Q000379:methods*; D023281:Genomics / Q000379:methods; D005838:Genotype; D006801:Humans; D007202:Indicators and Reagents; D016133:Polymerase Chain Reaction; D011110:Polymorphism, Genetic; D019914:Taq Polymerase
D017931:DNA Primers; D007202:Indicators and Reagents; D019914:Taq Polymerase