Whole genome sequencing reveals high-resolution epidemiological links between clinical and environmental Klebsiella pneumoniae

• DOI: 10.1186/s13073-017-0397-1
• Publication Date: 2017-01-24T11:55:12Z
• Authors: Chakkaphan Runcha...; Danesh Moradigara...; Beth Blane; Suporn Paksanont; Jeeranan Thammachote; Suthatip Anun; Julian Parkhill; Narisara Chantratita; Sharon J. Peacock
• Keywords: Clade; antibiotic resistance; Genotype; Virulence Factors; Population; FOS: Basic medicine; genomic epidemiology; Microbiology; Gene; beta-Lactam Resistance; Global Challenge of Antibiotic Resistance in Bacteria; 03 medical and health sciences; Endocrinology; Biochemistry, Genetics and Molecular Biology; Outbreak of Cronobacter sakazakii Infections; Genetics; Escherichia coli; Genetics(clinical); Molecular Biology; Biology; Phylogeny; Dynamics and Pathogenesis of Cholera Bacteria; whole genome sequencing; 0303 health sciences; Virulence; Research; Genetic Variation; Life Sciences; Sequence Analysis, DNA; Thailand; Bacterial Pathogens; 3. Good health; klebsiella pneumoniae; Klebsiella pneumoniae; Environmental health; FOS: Biological sciences; Molecular Medicine; Medicine; Genome, Bacterial; Phylogenetic tree

Klebsiella pneumoniae is a gram-negative bacterial species capable of occupying broad range environmental and clinical habitats. Known as an opportunistic pathogen, it has recently become major causative agent infections worldwide. Despite growing knowledge about the highly diverse population K. pneumoniae, evolution significance well relationship between are poorly defined. We isolated sequenced from in-patients in single hospital Thailand, sewage, surrounding canals farms within 20-km radius. Phylogenetic analysis 77 (48 29 non-clinical isolates) demonstrated that two groups were intermixed throughout tree some cases resided same clade, suggesting recent divergence common ancestor. comparison Thai genomes with 286 global collection showed isolates closely related to sub-population collection, indicating belonged globally circulating lineages. Dating four clades indicated they emerged 50 150 years ago. their phylogenetic relatedness, virulence factors β-lactamase resistance genes more numerous than isolates. Our results indicate related, but hospitals may select for resistant virulent genotype. These findings highlight relevance