Cost-effective interrogation of single nucleotide polymorphisms using the mismatch amplification mutation assay and capillary electrophoresis

Erin P. Price, Molly A. Matthews, Jodi A. Beaudry, Jonathan L. Allred, James M. Schupp, Dawn N. Birdsell, Talima R Pearson, Paul S Keim

Research output: Contribution to journalArticle

15 Scopus citations

Abstract

The ability to characterize SNPs is an important aspect of many clinical diagnostic, genetic and evolutionary studies. Here, we designed a multiplexed SNP genotyping method to survey a large number of phylogenetically informative SNPs within the genome of the bacterium Bacillus anthracis. This novel method, CE universal tail mismatch amplification mutation assay (CUMA), allows for PCR multiplexing and automatic scoring of SNP genotypes, thus providing a rapid, economical and higher throughput alternative to more expensive SNP genotyping techniques. CUMA delivered accurate B. anthracis SNP genotyping results and, when multiplexed, saved reagent costs by more than 80% compared with TaqMan real-time PCR. When real-time PCR technology and instrumentation is unavailable or the reagents are cost-prohibitive, CUMA is a powerful alternative for SNP genotyping.

Original languageEnglish (US)
Pages (from-to)3881-3888
Number of pages8
JournalElectrophoresis
Volume31
Issue number23-24
DOIs
StatePublished - Dec 2010

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Keywords

  • Bacillus anthracis
  • CE
  • CE universal tail mismatch amplification mutation assay
  • Genotyping
  • SNP

ASJC Scopus subject areas

  • Biochemistry
  • Clinical Biochemistry

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