Software for optimization of SNP and PCR-RFLP genotyping to discriminate many genomes with the fewest assays.

ABSTRACT:

Background

Microbial forensics is important in tracking the source of a pathogen, whether the disease is a naturally occurring outbreak or part of a criminal investigation.

Results

A method and SPR Opt (SNP and PCR-RFLP Optimization) software to perform a comprehensive, whole-genome analysis to forensically discriminate multiple sequences is presented. Tools for the optimization of forensic typing using Single Nucleotide Polymorphism (SNP) and PCR-Restriction Fragment Length Polymorphism (PCR-RFLP) analyses across multiple isolate sequences of a species are described. The PCR-RFLP analysis includes prediction and selection of optimal primers and restriction enzymes to enable maximum isolate discrimination based on sequence information. SPR Opt calculates all SNP or PCR-RFLP

SUBMITTER: Gardner SN 

PROVIDER: S-EPMC1156889 | biostudies-literature | 2005 May

REPOSITORIES: biostudies-literature