Single-nucleotide polymorphism typing analysis for molecular subtyping of Salmonella Tennessee isolates associated with the 2007 nationwide peanut butter outbreak in the United States
| Autor: | A. Mahdi Saeed, Jim Gibson, Seongbeom Cho, Francis Downe, Hee Jin Dong, Matt Erdman, Judith Lovchik, Shelly C. Rankin, David Boxrud |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Veterinary medicine Peanut butter 030106 microbiology Single-nucleotide polymorphism Microbiology Nucleotide diversity 03 medical and health sciences Virology Medicine Typing Peanut butter outbreak lcsh:RC799-869 Genotyping Genetics business.industry Gastroenterology Outbreak Subtyping Variable number tandem repeat SNP typing Infectious Diseases Parasitology lcsh:Diseases of the digestive system. Gastroenterology business S. Tennessee |
| Zdroj: | Gut Pathogens, Vol 9, Iss 1, Pp 1-12 (2017) |
| ISSN: | 1757-4749 |
| DOI: | 10.1186/s13099-017-0176-y |
| Popis: | Background In 2007, a nationwide Salmonella Tennessee outbreak occurred via contaminated peanut butter. Here, we developed a single-nucleotide polymorphism (SNP)-typing method for S. Tennessee to determine the clonal subtypes of S. Tennessee that were associated with the peanut butter outbreak. Methods and results One seventy-six S. Tennessee isolates from various sources, including humans, animals, food, and the environment, were analyzed by using the SNP technique. Eighty-four representative SNP markers were selected by comparing the sequences of three representative S. Tennessee strains with different multi-locus sequence typing and variable number tandem repeats from our collection. The set of eighty-four SNP markers showed 100% typeability for the 176 strains, with the nucleotide diversity ranging from 0.011 to 0.107 (mean = 0.049 ± 0.018, median = 0.044) for each marker. Among the four clades and nine subtypes generated by the SNP typing, subtype 1, which comprised 142 S. Tennessee strains, was the most predominant. The dominance of single-strain clones in subtype 1 revealed that S. Tennessee is highly clonal regardless of outbreak-association, source, or period of isolation, suggesting the presence of an S. Tennessee strain prototype. Notably, a minimum 18 SNP set was able to determine clonal S. Tennessee strains with similar discrimination power, potentially allowing more rapid and economic strain genotyping for both outbreaks and sporadic cases. Conclusions The SNP-typing method described here might aid the investigation of the epidemiology and microevolution of pathogenic bacteria by discriminating between outbreak-related and sporadic clinical cases. In addition, this approach enables us to understand the population structure of the bacterial subtypes involved in the outbreak. |
| Databáze: | OpenAIRE |
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