RT Journal Article
T1 Spatiotemporal and genomic analysis of carbapenem resistance elements in Enterobacterales from hospital inpatients and natural water ecosystems of an Irish city
A1 Maguire, Mark
A1 Serna Bernaldo, Carlos
A1 Montero Serra, Natalia
A1 Kovarova, Aneta
A1 O’Connor, Louise
A1 Cahill, Niamh
A1 Hooban, Brigid
A1 DeLappe, Niall
A1 Brennan, Wendy
A1 Devane, Genevieve
A1 Cormican, Martin
A1 Morris, Dearbháile
A1 Coughlan, Simone C.
A1 Miliotis, Georgios
A1 González Zorn, Bruno
A1 Burke, Liam P.
AB Carbapenemase-producing Enterobacterales (CPE) is a diverse group ofoften multidrug-resistant organisms. Surveillance and control of infections are complicated due to the inter-species spread of carbapenemase-encoding genes (CEGs) onmobile genetic elements (MGEs), including plasmids and transposons. Due to wastewater discharges, urban water ecosystems represent a known reservoir of CPE. However,the dynamics of carbapenemase-bearing MGE dissemination between Enterobacteralesin humans and environmental waters are poorly understood. We carried out whole-genome sequencing, combining short- and long-sequencing reads to enable completecharacterization of CPE isolated from patients, wastewaters, and natural waters between2018 and 2020 in Galway, Ireland. Isolates were selected based on their carriage ofClass A blaKPC-2 (n = 6), Class B blaNDM-5 (n = 12), and Class D blaOXA-48 (n = 21) CEGs.CEGs were plasmid-borne in all but two isolates. OXA-48 dissemination was associatedwith a 64 kb IncL plasmid (62%), in a broad range of Enterobacterales isolates fromboth niches. Conversely, blaKPC-2 and blaNDM-5 genes were usually carried on larger andmore variable multireplicon IncF plasmids in Klebsiella pneumoniae and Escherichia coli,respectively. In every isolate, each CEG was surrounded by a gene-specific commongenetic environment which constituted part, or all, of a transposable element thatwas present in both plasmids and the bacterial chromosome. Transposons Tn1999 andTn4401 were associated with blaOXA-48 and blaKPC-2, respectively, while blaNDM-5 wasassociated with variable IS26 bound composite transposons, usually containing a class 1 integron.
AB Importance:Since 2018, the Irish National Carbapenemase-Producing Enterobacterales (CPE) Reference Laboratory Service at University Hospital Galway has performed whole-genome sequencing on suspected and confirmed CPE from clinical specimens as well as patient and environmental screening isolates. Understanding the dynamics of CPE and carbapenemase-encoding gene encoding mobile genetic element (MGE) flux between human and environmental reservoirs is important for One Health surveillance of these priority organisms. We employed hybrid assembly approaches for improved resolution of CPE genomic surveillance, typing, and plasmid characterization. We analyzed a diverse collection of human (n = 17) and environmental isolates (n = 22) and found common MGE across multiple species and in different ecological niches. The conjugation ability and frequency of a subset of these plasmids were demonstrated to be affected by the presence or absence of necessary conjugation genes and by plasmid size. We characterize several MGE at play in the local dissemination of carbapenemase genes. This may facilitate their future detection in the clinical laboratory.
PB American Society for Microbiology
SN 2165-0497
YR 2024
FD 2024-11-27
LK https://hdl.handle.net/20.500.14352/116304
UL https://hdl.handle.net/20.500.14352/116304
LA eng
NO Maguire M, Serna C, Montero Serra N, Kovarova A, O’Connor L, Cahill N, Hooban B, DeLappe N, Brennan W, Devane G, Cormican M, Morris D, Coughlan SC, Miliotis G, Gonzalez-Zorn B, Burke LP. 2025. Spatiotemporal and genomic analysis of carbapenem resistance elements in Enterobacterales from hospital inpatients and natural water ecosystems of an Irish city. Microbiol Spectr 13:e00904-24. https://doi.org/10.1128/spectrum.00904-24
NO European Commission
NO Science Foundation Ireland
NO Environmental Protection Agency
NO Health Service Executive
DS Docta Complutense
RD 24 abr 2025