title: Direct detection of single-nucleotide polymorphisms in bacterial DNA by SNPtrap.
abstract: A major challenge with single-nucleotide polymorphism (SNP) fingerprinting of bacteria and higher organisms is the combination of genome-wide screenings with the potential of multiplexing and accurate SNP detection. Single-nucleotide extension by the minisequencing principle represents a technology that both is highly accurate and enables multiplexing. A current bottleneck for direct genome analyses by minisequencing, however, is the sensitivity, since minisequencing relies on linear signal amplification. Here, we present SNPtrap, which is a novel approach that combines the specificity and possibility of multiplexing by minisequencing with the sensitivity obtained by logarithmic signal amplification by polymerase chain reaction (PCR). We show a SNPtrap proof of principle in a model system for two polymorphic SNP sites in the Salmonella tetrathionate reductase gene (ttrC).
authors: National Food Institute, Danish Technical University, Lyngby, Denmark.
authors: Hugo
authors: H
authors: Grønlund
authors: Birgitte
authors: B
authors: Moen
authors: Jeffrey
authors: J
authors: Hoorfar
authors: Peter
authors: P
authors: Radstrøm
authors: Burkhard
authors: B
authors: Malorny
authors: Knut
authors: K
authors: Rudi
mesh_terms: D017931:DNA Primers / Q000235:genetics / Q000378:metabolism; D004269:DNA, Bacterial / Q000737:chemistry*; D005798:Genes, Bacterial; D015335:Molecular Probes / Q000032:analysis* / Q000235:genetics; D009711:Nucleotides / Q000235:genetics / Q000378:metabolism; D010088:Oxidoreductases / Q000737:chemistry*; D016133:Polymerase Chain Reaction / Q000379:methods*; D020641:Polymorphism, Single Nucleotide; D012475:Salmonella / Q000737:chemistry; D012680:Sensitivity and Specificity; D017422:Sequence Analysis, DNA
chemical_list: D017931:DNA Primers; D004269:DNA, Bacterial; D015335:Molecular Probes; D009711:Nucleotides; D010088:Oxidoreductases; C022727:tetrathionate reductase