van Aartsen, JJ;
Moore, CE;
Parry, CM;
Turner, P;
Phot, N;
Mao, S;
Suy, K;
Davies, T;
Giess, A;
Sheppard, AE;
et al.
van Aartsen, JJ; Moore, CE; Parry, CM; Turner, P; Phot, N; Mao, S; Suy, K; Davies, T; Giess, A; Sheppard, AE; Peto, TEA; Day, NPJ; Crook, DW; Walker, AS; Stoesser, N
(2019)
Epidemiology of paediatric gastrointestinal colonisation by extended spectrum cephalosporin-resistant Escherichia coli and Klebsiella pneumoniae isolates in north-west Cambodia.
BMC Microbiol, 19 (1).
p. 59.
ISSN 1471-2180
https://doi.org/10.1186/s12866-019-1431-9
SGUL Authors: Moore, Catrin Elisabeth
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Abstract
BACKGROUND: Extended-spectrum cephalosporin resistance (ESC-R) in Escherichia coli and Klebsiella pneumoniae is a healthcare threat; high gastrointestinal carriage rates are reported from South-east Asia. Colonisation prevalence data in Cambodia are lacking. The aim of this study was to determine gastrointestinal colonisation prevalence of ESC-resistant E. coli (ESC-R-EC) and K. pneumoniae (ESC-R-KP) in Cambodian children/adolescents and associated socio-demographic risk factors; and to characterise relevant resistance genes, their genetic contexts, and the genetic relatedness of ESC-R strains using whole genome sequencing (WGS). RESULTS: Faeces and questionnaire data were obtained from individuals < 16 years in north-western Cambodia, 2012. WGS of cultured ESC-R-EC/KP was performed (Illumina). Maximum likelihood phylogenies were used to characterise relatedness of isolates; ESC-R-associated resistance genes and their genetic contexts were identified from de novo assemblies using BLASTn and automated/manual annotation. 82/148 (55%) of children/adolescents were ESC-R-EC/KP colonised; 12/148 (8%) were co-colonised with both species. Independent risk factors for colonisation were hospitalisation (OR: 3.12, 95% CI [1.52-6.38]) and intestinal parasites (OR: 3.11 [1.29-7.51]); school attendance conferred decreased risk (OR: 0.44 [0.21-0.92]. ESC-R strains were diverse; the commonest ESC-R mechanisms were blaCTX-M 1 and 9 sub-family variants. Structures flanking these genes were highly variable, and for blaCTX-M-15, - 55 and - 27 frequently involved IS26. Chromosomal blaCTX-M integration was common in E. coli. CONCLUSIONS: Gastrointestinal ESC-R-EC/KP colonisation is widespread in Cambodian children/adolescents; hospital admission and intestinal parasites are independent risk factors. The genetic contexts of blaCTX-M are highly mosaic, consistent with rapid horizontal exchange. Chromosomal integration of blaCTX-M may result in stable propagation in these community-associated pathogens.
Item Type: | Article | ||||||
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Additional Information: | © The Author(s). 2019 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. | ||||||
Keywords: | Cambodia, Carriage, ESBL, Paediatric, Adolescent, Anti-Bacterial Agents, Cambodia, Carrier State, Cephalosporins, Child, Child, Preschool, Drug Resistance, Bacterial, Escherichia coli, Escherichia coli Infections, Female, Gastrointestinal Tract, Hospitalization, Humans, Klebsiella Infections, Klebsiella pneumoniae, Male, Parasitic Diseases, Prevalence, Risk Factors, Surveys and Questionnaires, Whole Genome Sequencing, Gastrointestinal Tract, Humans, Escherichia coli, Klebsiella pneumoniae, Escherichia coli Infections, Klebsiella Infections, Parasitic Diseases, Cephalosporins, Anti-Bacterial Agents, Hospitalization, Prevalence, Risk Factors, Carrier State, Drug Resistance, Bacterial, Adolescent, Child, Child, Preschool, Cambodia, Female, Male, Surveys and Questionnaires, Whole Genome Sequencing, Paediatric, ESBL, Carriage, Cambodia, 06 Biological Sciences, 07 Agricultural and Veterinary Sciences, 11 Medical and Health Sciences, Microbiology | ||||||
SGUL Research Institute / Research Centre: | Academic Structure > Infection and Immunity Research Institute (INII) | ||||||
Journal or Publication Title: | BMC Microbiol | ||||||
ISSN: | 1471-2180 | ||||||
Language: | eng | ||||||
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Publisher License: | Creative Commons: Attribution 4.0 | ||||||
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PubMed ID: | 30866820 | ||||||
Web of Science ID: | WOS:000461380800001 | ||||||
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URI: | https://openaccess.sgul.ac.uk/id/eprint/114462 | ||||||
Publisher's version: | https://doi.org/10.1186/s12866-019-1431-9 |
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