scholarly journals Multilocus Sequence Typing System for Campylobacter jejuni

2001 ◽  
Vol 39 (1) ◽  
pp. 14-23 ◽  
Author(s):  
K. E. Dingle ◽  
F. M. Colles ◽  
D. R. A. Wareing ◽  
R. Ure ◽  
A. J. Fox ◽  
...  
Keyword(s):  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
Typing System

scholarly journals Population Genetics and Characterization ofCampylobacter jejuniIsolates from Western Jackdaws and Game Birds in Finland

2018 ◽  
Vol 85 (4) ◽  
Author(s):  
Sara Kovanen ◽  
Mirko Rossi ◽  
Mari Pohja-Mykrä ◽  
Timo Nieminen ◽  
Mirja Raunio-Saarnisto ◽  
...  
Keyword(s):  
Host Specificity ◽  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
Wild Birds ◽  
Whole Genome ◽  
Mallard Duck ◽  
Content Type ◽  
Game Birds ◽  
Hygienic Measures ◽  
Sequence Types

ABSTRACTPoultry are considered a major reservoir and source of human campylobacteriosis, but the roles of environmental reservoirs, including wild birds, have not been assessed in depth. In this study, we isolated and characterizedCampylobacter jejunifrom western jackdaws (n= 91, 43%), mallard ducks (n= 82, 76%), and pheasants (n= 9, 9%). Most of the western jackdaw and mallard duckC. jejuniisolates represented multilocus sequence typing (MLST) sequence types (STs) that diverged from those previously isolated from human patients and various animal species, whereas all pheasant isolates represented ST-19, a common ST among human patients and other hosts worldwide. Whole-genome MLST revealed that mallard duck ST-2314 and pheasant ST-19 isolates represented bacterial clones that were genetically highly similar to human isolates detected previously. Further analyses revealed that in addition to a divergent ClonalFrame genealogy, certain genomic characteristics of the western jackdawC. jejuniisolates, e.g., a novelcdtABCgene cluster and the type VI secretion system (T6SS), may affect their host specificity and virulence. Game birds may thus pose a risk for acquiring campylobacteriosis; therefore, hygienic measures during slaughter and meat handling warrant special attention.IMPORTANCEThe roles of environmental reservoirs, including wild birds, in the molecular epidemiology ofCampylobacter jejunihave not been assessed in depth. Our results showed that game birds may pose a risk for acquiring campylobacteriosis, because they hadC. jejunigenomotypes highly similar to human isolates detected previously. Therefore, hygienic measures during slaughter and meat handling warrant special attention. On the contrary, a unique phylogeny was revealed for the western jackdaw isolates, and certain genomic characteristics identified among these isolates are hypothesized to affect their host specificity and virulence. Comparative genomics within sequence types (STs), using whole-genome multilocus sequence typing (wgMLST), and phylogenomics are efficient methods to analyze the genomic relationships ofC. jejuniisolates.

scholarly journals Evidence for Phenotypic Plasticity among Multihost Campylobacter jejuni and C. coli Lineages, Obtained Using Ribosomal Multilocus Sequence Typing and Raman Spectroscopy

2012 ◽  
Vol 79 (3) ◽  
pp. 965-973 ◽  
Author(s):  
Daniel S. Read ◽  
Dan J. Woodcock ◽  
Norval J. C. Strachan ◽  
Kenneth J. Forbes ◽  
Frances M. Colles ◽  
...  
Keyword(s):  
Raman Spectroscopy ◽  
Raman Spectra ◽  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
Clonal Complex ◽  
Phenotypic Characterization ◽  
Spectrometric Analysis ◽  
Content Type ◽  
Automatic Relevance Determination ◽  
Clonal Origin

ABSTRACTClosely related bacterial isolates can display divergent phenotypes. This can limit the usefulness of phylogenetic studies for understanding bacterial ecology and evolution. Here, we compare phenotyping based on Raman spectrometric analysis of cellular composition to phylogenetic classification by ribosomal multilocus sequence typing (rMLST) in 108 isolates of the zoonotic pathogensCampylobacter jejuniandC. coli. Automatic relevance determination (ARD) was used to identify informative peaks in the Raman spectra that could be used to distinguish strains in taxonomic and host source groups (species, clade, clonal complex, and isolate source/host). Phenotypic characterization based on Raman spectra showed a degree of agreement with genotypic classification using rMLST, with segregation accuracy between species (83.95%), clade (inC. coli, 98.41%), and, to some extent, clonal complex (86.89%C. jejuniST-21 and ST-45 complexes) being achieved. This confirmed the utility of Raman spectroscopy for lineage classification and the correlation between genotypic and phenotypic classification. In parallel analysis, relatively distantly related isolates (different clonal complexes) were assigned the correct host origin irrespective of the clonal origin (74.07 to 96.97% accuracy) based upon different Raman peaks. This suggests that the phenotypic characteristics, from which the phenotypic signal is derived, are not fixed by clonal descent but are influenced by the host environment and change as strains move between hosts.

scholarly journals Multilocus sequence typing of Campylobacter jejuni and Campylobacter coli to identify potential sources of colonization in commercial turkey farms

2018 ◽  
Vol 47 (5) ◽  
pp. 455-466
Author(s):  
Alessandra Piccirillo ◽  
Martina Giacomelli ◽  
Giulia Niero ◽  
Carlotta De Luca ◽  
Lisa Carraro ◽  
...  
Keyword(s):  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
Campylobacter Coli ◽  
Potential Sources ◽  
Commercial Turkey

scholarly journals Comparison of Molecular Subtyping and Antimicrobial Resistance Detection Methods Used in a Large Multistate Outbreak of Extensively Drug-Resistant Campylobacter jejuni Infections Linked to Pet Store Puppies

2020 ◽  
Vol 58 (10) ◽  
Author(s):  
Lavin A. Joseph ◽  
Louise K. Francois Watkins ◽  
Jessica Chen ◽  
Kaitlin A. Tagg ◽  
Christy Bennett ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
The United States ◽  
Sequence Type ◽  
Outbreak Detection ◽  
Detection Methods ◽  
Drug Resistant ◽  
Molecular Subtyping ◽  
Content Type

ABSTRACT Campylobacter jejuni is a leading cause of enteric bacterial illness in the United States. Traditional molecular subtyping methods, such as pulsed-field gel electrophoresis (PFGE) and 7-gene multilocus sequence typing (MLST), provided limited resolution to adequately identify C. jejuni outbreaks and separate out sporadic isolates during outbreak investigations. Whole-genome sequencing (WGS) has emerged as a powerful tool for C. jejuni outbreak detection. In this investigation, 45 human and 11 puppy isolates obtained during a 2016–2018 outbreak linked to pet store puppies were sequenced. Core genome multilocus sequence typing (cgMLST) and high-quality single nucleotide polymorphism (hqSNP) analysis of the sequence data separated the isolates into the same two clades containing minor within-clade differences; however, cgMLST analysis does not require selection of an appropriate reference genome, making the method preferable to hqSNP analysis for Campylobacter surveillance and cluster detection. The isolates were classified as sequence type 2109 (ST2109)—a rarely seen MLST sequence type. PFGE was performed on 38 human and 10 puppy isolates; PFGE patterns did not reliably predict clustering by cgMLST analysis. Genetic detection of antimicrobial resistance determinants predicted that all outbreak-associated isolates would be resistant to six drug classes. Traditional antimicrobial susceptibility testing (AST) confirmed a high correlation between genotypic and phenotypic antimicrobial resistance determinations. WGS analysis linked C. jejuni isolates in humans and pet store puppies even when canine exposure information was unknown, aiding the epidemiological investigation during the outbreak. WGS data were also used to quickly identify the highly drug-resistant profile of these outbreak-associated C. jejuni isolates.

scholarly journals Genetic Diversity and Quinolone Resistance in Campylobacter jejuni Isolates from Poultry in Senegal

2006 ◽  
Vol 72 (5) ◽  
pp. 3309-3313 ◽  
Author(s):  
Alfred Dieudonn� Kinana ◽  
Eric Cardinale ◽  
Fatou Tall ◽  
Ibrahim Bahsoun ◽  
Jean-Marie Sire ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Campylobacter Jejuni ◽  
Human Disease ◽  
Multilocus Sequence Typing ◽  
Sequence Type ◽  
Quinolone Resistance ◽  
Resistance Phenotype ◽  
Mechanism Of Resistance ◽  
Unique Clone

ABSTRACT We used the multilocus sequence typing (MLST) method to evaluate the genetic diversity of 46 Campylobacter jejuni isolates from chickens and to determine the link between quinolone resistance and sequence type (ST). There were a total of 16 ST genotypes, and the majority of them belonged to seven clonal complexes previously identified by using isolates from human disease. The ST-353 complex was the most common complex, whereas the ST-21, ST-42, ST-52, and ST-257 complexes were less well represented. The resistance phenotype varied for each ST, and the Thr-86-Ile substitution in the GyrA protein was the predominant mechanism of resistance to quinolone. Nine of the 14 isolates having the Thr-86-Ile substitution belonged to the ST-353 complex. MLST showed that the emergence of quinolone resistance is not related to the diffusion of a unique clone and that there is no link between ST genotype and quinolone resistance. Based on silent mutations, different variants of the gyrA gene were shown to exist for the same ST. These data provide useful information for understanding the epidemiology of C. jejuni in Senegal.

scholarly journals Multilocus sequence typing of Campylobacter jejuni isolates from New South Wales, Australia

2007 ◽  
Vol 102 (1) ◽  
pp. 144-152 ◽  
Author(s):  
L. Mickan ◽  
R. Doyle ◽  
M. Valcanis ◽  
K.E. Dingle ◽  
L. Unicomb ◽  
...  
Keyword(s):  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
New South ◽  
New South Wales ◽  
South Wales

scholarly journals Temporal Variation and Host Association in the Campylobacter Population in a Longitudinal Ruminant Farm Study

2011 ◽  
Vol 77 (18) ◽  
pp. 6579-6586 ◽  
Author(s):  
Emma L. Sproston ◽  
Iain D. Ogden ◽  
Marion MacRae ◽  
John F. Dallas ◽  
Samuel K. Sheppard ◽  
...  
Keyword(s):  
Temporal Variation ◽  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
Host Association ◽  
Fecal Samples ◽  
Content Type ◽  
Sheep Farm ◽  
Sequence Types ◽  
Over Time ◽  
Cattle And Sheep

ABSTRACTCampylobacter jejuniandC. coliwere quantified and typed, using multilocus sequence typing (MLST), from fecal samples collected from a mixed cattle and sheep farm during summer. Cattle had a significantly higher prevalence than sheep (21.9% [74/338] and 14.0% [30/214], respectively), but both decreased over time. There were no differences in the averageCampylobacterconcentrations shed by cattle (600 CFU g−1) and sheep (820 CFU g−1), although sheep did show a significant temporal reduction in the number ofCampylobacterorganisms shed in their feces. A total of 21 different sequence types (STs) (97.7%C. jejuni, 2.3%C. coli) were isolated from cattle, and 9 different STs were isolated from sheep (40.6%C. jejuni, 59.4%C. coli). TheCampylobacterpopulation in cattle was relatively stable, and the frequencies of genotypes isolated showed little temporal variation. However, the composition of subtypes isolated from sheep did show significant temporal differences. The cattle and sheep consistently showed significant differences in their carriage ofCampylobacterspecies, STs, and CCs despite the fact that both were exposed to the same farming environment. This work has highlighted the patterns of aCampylobacterpopulation on a ruminant farm by identifying the existence of both temporal and between-host variations.

Variation in Campylobacter Multilocus Sequence Typing Subtypes from Chickens as Detected on Three Plating Media

2016 ◽  
Vol 79 (11) ◽  
pp. 1986-1989 ◽  
Author(s):  
M. E. BERRANG ◽  
S. R. LADELY ◽  
R. J. MEINERSMANN ◽  
J. E. LINE ◽  
B. B OAKLEY ◽  
...  
Keyword(s):  
Campylobacter Jejuni ◽  
Multilocus Sequence Typing ◽  
Clonal Complex ◽  
Sequence Type ◽  
Campylobacter Coli ◽  
Processing Plant ◽  
Full Genome Sequencing ◽  
Multiple Sequence ◽  
Commercial Broiler ◽  
Sequence Types

ABSTRACT The objective of this study was to compare subtypes of Campylobacter jejuni and Campylobacter coli detected on three selective Campylobacter plating media to determine whether each medium selected for different subtypes. Fifty ceca and 50 carcasses (representing 50 flocks) were collected from the evisceration line in a commercial broiler processing plant. Campylobacter was cultured and isolated from cecal contents and carcass rinses on Campy-Cefex, Campy Line, and RF Campylobacter jejuni/coli agars. When a positive result was obtained with all three media, one colony of the most prevalent morphology on each medium was selected for further analysis by full genome sequencing and multilocus sequence typing. Sequence types were assigned according to PubMLST. A total of 49 samples were positive for Campylobacter on all three media. Forty samples contained only C. jejuni, three had only C. coli, and both species were detected in six samples. From 71% of samples, Campylobacter isolates of the same sequence type were recovered on all three media. From 81.6% of samples, isolates were all from the same clonal complex. From significantly fewer samples (26%, P < 0.01), one medium recovered an isolate with a sequence type different from the type recovered on the other two media. When multiple sequence types were detected, six times the medium with the odd sequence type was Campy-Cefex, four times it was Campy-Line, and six times it was RF Campylobacter jejuni/coli. From one sample, three sequence types were detected. In most cases, all three plating media allowed detection of the same type of Campylobacter from complex naturally contaminated chicken samples.

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