Meat and Fish as Sources of Extended-Spectrum β-Lactamase–Producing <i>Escherichia coli</i>, Cambodia

Nadimpalli, Maya; Vuthy, Yith; Lauzanne, Agathe de; Fabre, Laëtitia; Criscuolo, Alexis; Gouali, Malika; Huynh, Bich-Tram; Naas, Thierry; Phe, Thong; Borand, Laurence; Jacobs, Jan; Kerléguer, Alexandra; Piola, Patrice; Guillemot, Didier; Hello, Simon Le; Delarocque-Astagneau, Elisabeth

doi:10.3201/eid2501.180534

Cited by 30 publications

(35 citation statements)

References 14 publications

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“…It enables phylogenetic trees to be quickly reconstructed from a large number of genomes without the burden of multiple sequence alignments (see e.g. 2,29, [44][45][46][47][48][49][50][51][52]. This report confirms this view by showing that proper evolutionary distances can be easily derived from MH p-distance estimates, therefore enabling accurate phylogenetic inferences.…”

Section: Discussionsupporting

confidence: 63%

On the transformation of MinHash-based uncorrected distances into proper evolutionary distances for phylogenetic inference

Criscuolo

2020

F1000Res

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Recently developed MinHash-based techniques were proven successful in quickly estimating the level of similarity between large nucleotide sequences. This article discusses their usage and limitations in practice to approximating uncorrected distances between genomes, and transforming these pairwise dissimilarities into proper evolutionary distances. It is notably shown that complex distance measures can be easily approximated using simple transformation formulae based on few parameters. MinHash-based techniques can therefore be very useful for implementing fast yet accurate alignment-free phylogenetic reconstruction procedures from large sets of genomes. This last point of view is assessed with a simulation study using a dedicated bioinformatics tool.

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Section: Discussionsupporting

confidence: 63%

On the transformation of MinHash-based uncorrected distances into proper evolutionary distances for phylogenetic inference

Criscuolo

2020

F1000Res

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“…Sellera and colleagues [ 40 ] reported isolation of ESBL (CTX-M)-producing E. coli from wild fishes of a polluted area in the South Atlantic coast of Brazil. ESBL-producing E. coli of identical genotypes have been reported from fish, chicken and infected patients in Cambodia [ 41 ].…”

Section: Resultsmentioning

confidence: 99%

High Prevalence of Multiple Antibiotic-Resistant, Extended-Spectrum β-Lactamase (ESBL)-Producing Escherichia coli in Fresh Seafood Sold in Retail Markets of Mumbai, India

Singh

Nayak

Kumar

2020

Veterinary Sciences

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In this study, fresh seafood in retail markets was investigated for the antibiotic susceptibility patterns of the faecal indicator Escherichia coli and distribution of important β-lactamase encoding genes. E. coli were isolated from 50 (37 fish and 13 shellfish) fresh seafood samples and studied with respect to the phenotypic and genotypic characters of antibiotic resistance. Of 475 E. coli isolates from fresh seafood, 71.58% exhibited extended-spectrum β-lactamase (ESBL)-positive phenotypes. A high percentage of isolates were resistant to indicator cephalosporins cefotaxime (95%), cefpodoxime (90.88%) and ceftazidime (90.29%). Relatively higher susceptibilities were recorded against imipenem (74.41%), cefoxitin (66.76%) and meropenem (51.18%). The multiple antibiotic resistance (MAR) index of 97.35% of the isolates was above 0.18. The ESBL genes blaCTX-M, blaSHV and blaTEM were detected in 62.37%, 23.35% and 2.6% of E. coli isolates, respectively. The ESBL-producing isolates also harboured the metallo-β-lactamase-encoding genes blaOXA (7.06%), blaNDM (4.42%) and blaVIM (0.88%). This study highlights the risk of dissemination of multidrug resistant E. coli in seafood consumer communities and also the need to improve the hygiene of the coastal waters, landing centres and the retail markets.

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“…In Phnom Penh, among fish, pork, and chicken samples, bacterial plasmids carrying CTX-M type ESBL genes also carry resistance genes for multiple other classes of antibiotic, including aminoglycosides, fluoroquinolones, and co-trimoxazole (Nadimpalli et al, 2019a). Furthermore, a link has been made between CTX-M type ESBL producing E. coli isolated from fish, pork, and chicken in markets from Phnom Penh, and isolates colonising humans (Nadimpalli et al, 2019b). A subsequent concern is that injudicious use of any of these classes of antibiotic will co-select for resistance genotypes against the others.…”

Section: Discussionmentioning

confidence: 99%

“…The mcr-1 gene has been reported in human isolates collected in Cambodia in as early as 2012 (Stoesser et al, 2016) and has also been identified in Salmonella spp. and E. coli isolated from market food in Phnom Penh (Nadimpalli et al, 2019a;Nadimpalli et al, 2019b). The transmission pathways have not yet been clarified, but the role of food and food animals in the human acquisition of mcr-1 carrying Enterobacteriaceae is believed to be significant, and raises fears for the future of one of our "last-resort" antibiotics (Nhung et al, 2016).…”

Section: Discussionmentioning

confidence: 99%

Antimicrobial resistance in Cambodia: a review

Reed

Krang

Miliya

et al. 2019

International Journal of Infectious Diseases

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Objectives: Following the launch of the Global Antimicrobial Resistance Surveillance System (GLASS), antimicrobial resistance (AMR) rates in many countries remain poorly described. This review provides an overview of published AMR data from Cambodia in the context of recently initiated national human and food-animal surveillance. Methods: PubMed and the Cochrane Database of Systematic Reviews were searched for articles published from 2000 to 2018, which reported antimicrobial susceptibility testing (AST) data for GLASS specific organisms isolated from Cambodia. Articles were screened using strict inclusion/exclusion criteria. AST data was extracted, with medians and ranges of resistance rates calculated for specific bug-drug combinations. Results: Twenty-four papers were included for final analysis, with 20 describing isolates from human populations. Escherichia coli was the most commonly described organism, with median resistance rates from human isolates of 92.8% (n = 6 articles), 46.4% (n = 4), 55.4% (n = 8), and 46.4% (n = 5) to ampicillin, 3 rd generation cephalosporins, fluoroquinolones, and gentamicin respectively. Conclusions: Whilst resistance rates are high for several GLASS organisms, there were insufficient data to draw robust conclusions about the AMR situation in Cambodia. The recently implemented national AMR surveillance systems will begin to address this data gap.

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Meat and Fish as Sources of Extended-Spectrum β-Lactamase–Producing Escherichia coli, Cambodia

Cited by 30 publications

References 14 publications

On the transformation of MinHash-based uncorrected distances into proper evolutionary distances for phylogenetic inference

On the transformation of MinHash-based uncorrected distances into proper evolutionary distances for phylogenetic inference

High Prevalence of Multiple Antibiotic-Resistant, Extended-Spectrum β-Lactamase (ESBL)-Producing Escherichia coli in Fresh Seafood Sold in Retail Markets of Mumbai, India

Antimicrobial resistance in Cambodia: a review

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