Dissemination Routes of Carbapenem and Pan-Aminoglycoside Resistance Mechanisms in Hospital and Urban Wastewater Canalizations of Ghana

Delgado-Blas, Jose F; Agüi, Cecilia Valenzuela; Rodriguez, Elena Marin; Quiteria, José Antonio Ruiz Santa; Montero, Natalia; Saba, Courage Kosi Setsoafia; González‐Zorn, Bruno

doi:10.1128/msystems.01019-21

Cited by 14 publications

(10 citation statements)

References 58 publications

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“…The IS Vsa3-rmtE4 -IS Pst7 -like structure was identical in all rmt4 -carrying isolates and, therefore, it was exclusively associated with members of the genus Klebsiella from the region of Colombia and Venezuela (Microreact link: https://microreact.org/project/233bak1YcBTBCS7ePEtBiN-rmtevariantsgeneticenvironmentworldwide ), where this structure was integrated in a particular IncL type plasmid in almost all the cases. The rmtE4 -carrying Klebsiella isolates from Venezuela were confined to wastewater samples, an ecological niche where diverse genetic and bacterial elements converge and lead to novel gene–MGE–bacterium associations, especially in low- and middle-income countries (LMICs) [ 70 ]. The STs of the Colombian rmtE4 -carrying K. pneumoniae isolates were different to those identified in the Venezuelan ones (ST37, ST258, ST280 and ST307), uncovering the international dissemination of rmtE4 in multiple K. pneumoniae clones.…”

Section: Resultsmentioning

confidence: 99%

Global scenario of the RmtE pan-aminoglycoside-resistance mechanism: emergence of the rmtE4 gene in South America associated with a hospital-related IncL plasmid

Delgado-Blas

Ovejero

David³

et al. 2023

Microbial Genomics

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Antimicrobial resistance (AMR) mechanisms, especially those conferring resistance to critically important antibiotics, are a great concern for public health. 16S rRNA methyltransferases (16S-RMTases) abolish the effectiveness of most clinically used aminoglycosides, but some of them are considered sporadic, such as RmtE. The main goals of this work were the genomic analysis of bacteria producing 16S-RMTases from a ‘One Health’ perspective in Venezuela, and the study of the epidemiological and evolutionary scenario of RmtE variants and their related mobile genetic elements (MGEs) worldwide. A total of 21 samples were collected in 2014 from different animal and environmental sources in the Cumaná region (Venezuela). Highly aminoglycoside-resistant Enterobacteriaceae isolates were selected, identified and screened for 16S-RMTase genes. Illumina and Nanopore whole-genome sequencing data were combined to obtain hybrid assemblies and analyse their sequence type, resistome, plasmidome and pan-genome. Genomic collections of rmtE variants and their associated MGEs were generated to perform epidemiological and phylogenetic analyses. A single 16S-RMTase, the novel RmtE4, was identified in five Klebsiella isolates from wastewater samples of Cumaná. This variant possessed three amino acid modifications with respect to RmtE1–3 (Asn152Asp, Val216Ile and Lys267Ile), representing the most genetic distant among all known and novel variants described in this work, and the second most prevalent. rmtE variants were globally spread, and their geographical distribution was determined by the associated MGEs and the carrying bacterial species. Thus, rmtE4 was found to be confined to Klebsiella isolates from South America, where it was closely related to ISVsa3 and an uncommon IncL plasmid related with hospital environments. This work uncovered the global scenario of RmtE and the existence of RmtE4, which could potentially emerge from South America. Surveillance and control measures should be developed based on these findings in order to prevent the dissemination of this AMR mechanism and preserve public health worldwide.

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Section: Resultsmentioning

confidence: 99%

Global scenario of the RmtE pan-aminoglycoside-resistance mechanism: emergence of the rmtE4 gene in South America associated with a hospital-related IncL plasmid

Delgado-Blas

Ovejero

David³

et al. 2023

Microbial Genomics

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“…The importance of coordinated surveillance of human and animal isolates was recognized immediately. Over the following years, the presence of ArmA methylase was reported in Salmonella enterica isolates from food [ 9 ], in K. pneumoniae isolates from companion animals [ 10 ] and in members of the Enterobacteriaceae family from aquatic environments (wastewater treatment plants) [ 11 ]. A real concern is that most of these methylases are often part of mobile genetic elements (MGEs) such as plasmid-mediated transposons, increasing the possibility of horizontal transfer of these elements and their dissemination between bacterial species, genera and families, usually associated with genes encoding resistance to other classes of antibiotics.…”

Section: Antibiotic-resistant Pathogens: a Critical One Health Issuementioning

confidence: 99%

“…These active molecules, together with the bacteria and mobile genetic elements flow then into the wastewater, mix, and eventually are shared between bacteria, including environmental bacteria. Thus, we can find antimicrobial resistant genes in clinically important bacteria when we analyze the hosts, but within environmental bacteria when we analyze wastewater and environmental reservoirs [ 11 ]. Identifying and characterizing the sources of AMR emissions to the environment is crucial and, for this reason, a great emphasis has been placed in recent years on this issue.…”

Section: Amr and Aquatic Environmentsmentioning

confidence: 99%

“…This situation is especially notorious in wastewater treatment plants (WWTPs) since they collect residual waters from diverse origins and populations where distinct anthropogenic activities occur and where processes often do not sufficiently neutralize antibiotic resistant bacteria and genes. A recent work demonstrated that wastewater environments promoted the expansion of conserved E. coli sequence types (STs), bacteria that share a specific allelic profile, and resistance gene flow through highly disseminated plasmids, leading to specific associations between plasmids and STs [ 11 ]. WWTPs allowed the exchange of a diverse genetic repertoire, and therefore, continued close monitoring of these hotspots is needed.…”

Section: Amr and Aquatic Environmentsmentioning

confidence: 99%

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Antimicrobial resistance and One Health

Quiteria¹,

González‐Zorn²

2022

Rev Esp Quimioter

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Antimicrobial resistance is one of the major health problems we face in the 21st century. Nowadays we cannot understand global health without the interdependence between the human, animal and environmental dimensions. It is therefore logical to adopt a “One Health” approach to address this problem. In this review we show why a collaboration of all sectors and all professions is necessary in order to achieve optimal health for people, animals, plants and our environment.

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“…Conjugation is a conserved and major driver of the rapid evolution and adaptation of bacterial genomes ( Grohmann et al, 2003 ) in a wide range of environments ( Virolle et al, 2020 ; Groussin et al, 2021 ; Delgado-Blas et al, 2022 ). Conjugation is known to occur in soil ( Koraki and Karagouni, 2000 ; Mafiz et al, 2021 ), and seems to be stimulated in niches where bacterial communities can reach high densities such as biofilms ( Lopes et al, 2016 ; Luo et al, 2021 ) and plant associated niches including rhizosphere ( Bañuelos-Vazquez et al, 2020a , b ), phylloplane ( Normander et al, 1998 ) and spermosphere ( Sørensen and Jensen, 1998 ).…”

Section: Introductionmentioning

confidence: 99%

Prevalence and mobility of integrative and conjugative elements within a Streptomyces natural population

et al. 2022

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Horizontal Gene Transfer (HGT) is a powerful force generating genomic diversity in bacterial populations. HGT in Streptomyces is in large part driven by conjugation thanks to plasmids, Integrative and Conjugative elements (ICEs) and Actinomycete ICEs (AICEs). To investigate the impact of ICE and AICE conjugation on Streptomyces genome evolution, we used in silico and experimental approaches on a set of 11 very closely related strains isolated from a millimeter scale rhizosphere population. Through bioinformatic searches of canonical conjugation proteins, we showed that AICEs are the most frequent integrative conjugative elements, with the central chromosome region being a hotspot for integrative element insertion. Strains exhibited great variation in AICE composition consistent with frequent HGT and/or gene loss. We found that single insertion sites can be home to different elements in different strains (accretion) and conversely, elements belonging to the same family can be found at different insertion sites. A wide variety of cargo genes was present in the AICEs with the potential to mediate strain-specific adaptation (e.g., DNA metabolism and resistance genes to antibiotic and phages). However, a large proportion of AICE cargo genes showed hallmarks of pseudogenization, consistent with deleterious effects of cargo genes on fitness. Pock assays enabled the direct visualization of conjugal AICE transfer and demonstrated the transfer of AICEs between some, but not all, of the isolates. Multiple AICEs were shown to be able to transfer during a single mating event. Although we did not obtain experimental evidence for transfer of the sole chromosomal ICE in this population, genotoxic stress mediated its excision from the chromosome, suggesting its functionality. Our results indicate that AICE-mediated HGT in Streptomyces populations is highly dynamic, with likely impact on strain fitness and the ability to adapt to environmental change.

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Dissemination Routes of Carbapenem and Pan-Aminoglycoside Resistance Mechanisms in Hospital and Urban Wastewater Canalizations of Ghana

Cited by 14 publications

References 58 publications

Global scenario of the RmtE pan-aminoglycoside-resistance mechanism: emergence of the rmtE4 gene in South America associated with a hospital-related IncL plasmid

Global scenario of the RmtE pan-aminoglycoside-resistance mechanism: emergence of the rmtE4 gene in South America associated with a hospital-related IncL plasmid

Antimicrobial resistance and One Health

Prevalence and mobility of integrative and conjugative elements within a Streptomyces natural population

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