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ARS Home » Plains Area » Bushland, Texas » Conservation and Production Research Laboratory » Livestock Nutrient Management Research » Research » Publications at this Location » Publication #159329
Title: Evaluation of genome-derived amplicon length polymorphism PCR primers for the genetic evaluation of related strains of salmonella

Author
item Rice, William

Submitted to: Letters in Applied Microbiology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 4/16/2008
Publication Date: 9/1/2008
Citation: Rice, W.C. 2008. Evaluation of genome-derived amplicon length polymorphism PCR primers for the genetic evaluation of related strains of salmonella. Letters in Applied Microbiology. 47:158-166.

Interpretive Summary: A DNA based detection method using the polymerase chain reaction was developed which allowed for the rapid detection of various Salmonella species. The method described has been defined as amplicon length polymorphism (ALP-PCR) analysis. Genome based ALP-PCR uses DNA markers design to detect genomic difference present within various Salmonella genomes. This study defines a useful collection of DNA markers that are broadly distributed along the Salmonella genome that can detect and differentiate various Salmonella serovars. Thus, genome based ALP-PCR provides a useful and powerful analytical method to evaluate evolutionary relationships within a group of Salmonella serovars that is independent of other approaches.

Technical Abstract: Aims: The intent of this study is to exploit both the genetic diversity and conservation demonstrated between the Salmonella enterica subsp. enterica serovar Typhi CT18 and Salmonella enterica subsp. enterica serovar Typhimurium LT2 genomes by utilizing amplicon length polymorphism to detect and differentiate various Salmonella strains. Methods and Results: Methods of amplicon length polymorphism (ALP-PCR) analysis were developed based on identifying DNA sequence deletions within highly homologous regions of the S. Typhi CT18 and S. Typhimurium LT2 genomes. This study describes the application of genome based ALP-PCR using primer pairs designed to detect genomic differences present within both Salmonella genomes and evaluated against a reference set of Salmonella strains. Conclusions: This study defines a collection of primer sequences broadly distributed along the Salmonella genome that can differentiate various Salmonella strains. Significance and Impact of Study: Genome based ALP-PCR provides a useful and powerful analytical method to evaluate variability within a group of Salmonella strains independent of serological, phenotypic or other molecular approaches.