Applied and Environmental Microbiology · 2019 · 30 citations · 33 references
Veterinary MedicineInfectious DiseasesVeterinary MicrobiologyAntimicrobial Resistance EpidemiologyInfection PreventionMedical MicrobiologyAnimal Infectious DiseasesBacterial InfectionsLivestock Infectious DiseasesSwine EpidemiologySwine GenomicsSwine HealthAnimal Disease Risk AssessmentLivestock-associated Methicillin-resistant Staphylococcus AureusPig Genome SequencingPorcine Infectious DiseasesPreventive Control MeasuresPublic Health ProtectionSwine Infectious Disease EpidemiologyWhole-genome Sequencing Analysis
MRSA is an important human pathogen; thus, its increasing prevalence in livestock over the last decade has a potentially large impact on public health. Farmers and veterinarians are especially at risk due to their close contact with animals. Our work demonstrates a dramatic increase in MRSA prevalence in Swiss pigs, from 2% in 2009 to 44% in 2017. Whole-genome sequencing allowed us to show a close association between farmer and pig strains as well as veterinarian and horse strains, indicating that the respective animals are a likely source of human colonization. Furthermore, we could demonstrate that pig spa t011 strains cluster separately and are probably less likely to colonize humans than are pig spa t034 strains. This research may provide a basis for a more substantiated risk assessment and preventive measures.
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The Sequence Alignment/Map format and SAMtools
Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li, Richard Durbin · Bioinformatics · 2009 · 62.8K citations · Full text