Population structures in the SARA and SARB reference collections of Salmonella enterica according to MLST, MLEE and microarray hybridization
File(s)
Published version
Author(s)
Achtman, M
Hale, J
Murphy, RA
Boyd, EF
Porwollik, S
Type
Journal Article
Abstract
In the 1980's and 1990's, population genetic analyses based on Multilocus Enzyme Electrophoresis (MLEE) provided an initial overview of the genetic diversity of multiple bacterial species, including Salmonella enterica. The genetic diversity within S. enterica subspecies enterica according to MLEE is represented by the SARA and SARB reference collections, each consisting of 72 isolates, which have been extensively used for comparative analyses. MLEE has subsequently been replaced by Multilocus Sequence Typing (MLST). Our initial MLST results indicated that some strains within the SARB collection differed from their published descriptions. We therefore performed MLST on four versions of the SARB collection from different sources and one collection of SARA, and found that multiple isolates in SARB and SARA differ in serovar from their original description, and other SARB isolates differed between different sources. Comparisons with a global MLST database allowed a plausible reconstruction of the serovars of the original collection. MLEE, MLST and microarrays were largely concordant at recognizing closely related strains. MLST was particularly effective at recognizing discrete population genetic groupings while the two other methods provided hints of higher order relationships. However, quantitative pair-wise phylogenetic distances differed considerably between all three methods. Our results provide a translation dictionary from MLEE to MLST for the extant SARA and SARB collections which can facilitate genomic comparisons based on archival insights from MLEE.
Date Issued
2013-03-16
Date Acceptance
2013-03-05
Citation
Infection, Genetics and Evolution, 2013, 16, pp.314-325
ISSN
1567-7257
Publisher
Elsevier
Start Page
314
End Page
325
Journal / Book Title
Infection, Genetics and Evolution
Volume
16
Copyright Statement
© 2013 Elsevier B.V. Open access under CC BY-NC-ND license.
Subjects
Animals
DNA, Bacterial
Databases, Genetic
Genetic Variation
Humans
Hybridization, Genetic
Linear Models
Multilocus Sequence Typing
Oligonucleotide Array Sequence Analysis
Phylogeny
Reference Standards
Salmonella Infections
Salmonella Infections, Animal
Salmonella enterica
Microbiology
0604 Genetics
Publication Status
Published