The characterization of mobile colistin resistance (mcr) genes among 33 000 Salmonella enterica genomes from routine public health surveillance in England
0301 basic medicine
Drug Resistance
Animal/epidemiology
Salmonella enterica/classification
Microbial Sensitivity Tests
03 medical and health sciences
Bacterial Proteins
Salmonella
Drug Resistance, Bacterial
Environmental Microbiology
Animals
Humans
Public Health Surveillance
England/epidemiology
Phylogeny
MCR and WGS
Plasmids/genetics
Salmonella Infections, Animal
0303 health sciences
Genome
Bacterial Proteins/genetics
Colistin
Anti-Bacterial Agents/metabolism
Bacterial
Salmonella Infections/epidemiology
Salmonella enterica
Colistin/pharmacology
Anti-Bacterial Agents
3. Good health
England
Salmonella Infections
Food Microbiology
Genome, Bacterial
Research Article
Plasmids
DOI:
10.1099/mgen.0.000331
Publication Date:
2020-01-31T16:13:25Z
AUTHORS (13)
ABSTRACT
To establish the prevalence of mobile colistin resistance (mcr) genes amongst
Salmonella enterica
isolates obtained through public health surveillance in England (April 2014 to September 2017), 33 205
S
.
enterica
genome sequences obtained from human, food, animal and environmental isolates were screened for the presence of mcr variants 1 to 8. The mcr-positive genomes were assembled, annotated and characterized according to plasmid type. Nanopore sequencing was performed on six selected isolates with putative novel plasmids, and phylogenetic analysis was used to provide an evolutionary context for the most commonly isolated clones. Fifty-two mcr-positive isolates were identified, of which 32 were positive for mcr-1, 19 for mcr-3 and 1 for mcr-5. The combination of Illumina and Nanopore sequencing identified three novel mcr-3 plasmids and one novel mcr-5 plasmid, as well as the presence of chromosomally integrated mcr-1 and mcr-3. Monophasic
S. enterica
serovar Typhimurium accounted for 27/52 (52 %) of the mcr-positive isolates, with the majority clustering in clades associated with travel to Southeast Asia. Isolates in these clades were associated with a specific plasmid range and an additional extended-spectrum beta-lactamase genotype. Routine whole-genome sequencing for public health surveillance provides an effective screen for novel and emerging antimicrobial determinants, including mcr. Complementary long-read technologies elucidated the genomic context of resistance determinants, offering insights into plasmid dissemination and linkage to other resistance genes.
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CITATIONS (16)
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