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).
Grønlund, H. A., Moen, B., Hoorfar, J., Rådstrøm, P., Malorny, B., & Rudi, K. (2011). Direct detection of single-nucleotide polymorphisms in bacterial DNA by SNPtrap. Preparative Biochemistry and Biotechnology, 41(2), 166-174. https://doi.org/10.1080/10826068.2011.547366