Rapid and improved identification of drinking water bacteria using the Drinking Water Library, a dedicated MALDI-TOF MS database

Pinar-Méndez, Anna; Fernández, Sonia María Cabrera; Baquero, David; Vilaró, Carles; Galofré, Belén; González, Susana; Rodrigo-Torres, Lidia; Arahal, David R.; Macián, M. Carmen; Ruvira, María A.; Aznar, Rosa; Caudet-Segarra, Laia; Sala-Comorera, Laura; Lucena, F.; Blanch, Anicet R.; García-Aljaro, Cristina

doi:10.1016/j.watres.2021.117543

Cited by 19 publications

(9 citation statements)

References 38 publications

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“…Meanwhile, the statistical methods for isolate selection for MALDI-TOF need to be improved. Previous study has concluded that single isolate selection in MALDI-TOF may generate biased results if missed to identify the diversity among isolates ( Pinar-Méndez et al, 2021 ). Considering the variation among isolates, the MALDI-TOF result from one isolate for each patient is not representative enough as the input data for susceptibility prediction.…”

Section: Discussionmentioning

confidence: 99%

Rapid Antibiotic Resistance Serial Prediction in Staphylococcus aureus Based on Large-Scale MALDI-TOF Data by Applying XGBoost in Multi-Label Learning

Zhang

Wang

et al. 2022

Front. Microbiol.

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Multidrug resistance has become a phenotype that commonly exists among Staphylococcus aureus and is a serious concern for infection treatment. Nowadays, to detect the antibiotic susceptibility, antibiotic testing is generated based on the level of genomic for cure decision consuming huge of time and labor, while matrix-assisted laser desorption-ionization (MALDI) time-of-flight mass spectrometry (TOF/MS) shows its possibility in high-speed and effective detection on the level of proteomic. In this study, on the basis of MALDI-TOF spectra data of discovery cohort with 26,852 samples and replication cohort with 4,963 samples from Taiwan area and their corresponding susceptibilities to oxacillin and clindamycin, a multi-label prediction model against double resistance using Lowest Power set ensemble with XGBoost is constructed for rapid susceptibility prediction. With the output of serial susceptibility prediction, the model performance can realize 77% of accuracy for the serial prediction, the area under the receiver characteristic curve of 0.93 for oxacillin susceptibility prediction, and the area under the receiver characteristic curve of 0.89 for clindamycin susceptibility prediction. The generated multi-label prediction model provides serial antibiotic resistance, such as the susceptibilities of oxacillin and clindamycin in this study, for S. aureus-infected patients based on MALDI-TOF, which will provide guidance in antibiotic usage during the treatment taking the advantage of speed and efficiency.

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Section: Discussionmentioning

confidence: 99%

Rapid Antibiotic Resistance Serial Prediction in Staphylococcus aureus Based on Large-Scale MALDI-TOF Data by Applying XGBoost in Multi-Label Learning

Zhang

Wang

et al. 2022

Front. Microbiol.

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“…It is known that a rapid, cost-effective, and accurate method for the classification of these microbials, such as mass spectrometry (MALDI-TOF MS), would improve our understanding of the microorganisms living in various environments and how to facilitate water use safely. Pinar-Méndez et al. (2021) created a database and defined a MALDI-TOF MS drinking water library.…”

Section: Discussionmentioning

confidence: 99%

Plasmid-Mediated Fluoroquinolone Resistance Genes in Quinolone-Susceptible Aeromonas spp. Phenotypes Isolated From Recreational Surface Freshwater Reservoir

Kosikowska

Stec

Andrzejczuk

et al. 2022

Front. Cell. Infect. Microbiol.

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Aeromonas spp. are recognized as opportunistic pathogens causing diseases. Infections in humans can result mainly in gastrointestinal and wound diseases with or without progression to septicemia. Although Aeromonas spp. are not known uropathogens and they rarely cause urinary tract infection, we hypothesize that the presence of these bacteria in the water and the contact during, e.g., recreational and bathing activity can create the conditions for the colonization of the human body and may result to diseases in various locations, including the urinary tract. Our study presents the occurrence of aeromonad fluoroquinolone-susceptible phenotypes with the presence of plasmid-mediated fluoroquinolone resistance (PMQR) genes in a natural freshwater reservoir occasionally used for recreational activities. Sixty-nine isolates collected during the bathing period were identified by mass spectrometry and screened for the presence of fluoroquinolone-resistant phenotypes and genotypes. Fluoroquinolone susceptibility was determined as minimal inhibitory concentration values. PMQR qnr genes were detected by PCR. Isolates comprising eight species, namely, mainly Aeromonas veronii (50.7% isolates) and Aeromonas media (24.6% isolates) and rarely Aeromonas eucrenophila, Aeromonas caviae, Aeromonas bestiarum, Aeromonas ichthiosmia, and Aeromonas hydrophila, were selected. All isolates were phenotypically susceptible either to ciprofloxacin or levofloxacin. Unexpectedly, at least one to three of the PMQR genes were detected in 42.0% of the fluoroquinolone-susceptible Aeromonas spp. phenotypes. Mainly the qnrS (34.8% isolates) and qnrA (14.5% isolates) determinants were detected. In conclusion, the freshwater reservoir occasionally used for bathing was tainted with aeromonads, with a high occurrence of opportunistic pathogens such as A. veronii and A. media. MALDI‐TOF MS is a powerful technique for aeromonad identification. Our data reveals the mismatch phenomenon between fluoroquinolone-susceptible aeromonad phenotypes and the presence of plasmid-mediated qnr resistance genes. It suggests that phenotypically susceptible bacteria might be a potential source for the storage and transmission of these genes. The exposure during, e.g., a recreational activity may create the potential risk for causing infections, both diagnostically and therapeutically difficult, after expressing the resistance genes and quinolone-resistant strain selection.

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“…Phenylobacterium and Novosphingobium were reproducibly selected from SW cultures of November and December Pseudoxanthomonas was the major culturable bacteria in SW cultures of November and December, demonstrating resistance to CTX, TC, EM, and SMX. This genus was cultured in a chlorinated water distribution network in Spain [35], and as detected in biofilms on showerheads [36]. In addition, some Pseudoxanthomonas spp.…”

Section: Enrichment Of Bacterial Communities In Fw and Sw Containing ...mentioning

confidence: 99%

Antimicrobial Resistance Profiles of Bacterial Community in Premise Plumbing before and after Water Stagnation

Nguyen

Kurisu

Furumai

et al. 2023

J. of Wat. & Envir. Tech.

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Drinking water stagnation in premise plumbing leads to regrowth of microorganisms, including opportunistic pathogens. Although many studies have evaluated the changes in bacterial community structure, little data are available on the impact of water stagnation on antimicrobial resistance of bacterial communities. In this study, we collected drinking water samples before and after stagnation in premise plumbing in a building. After 24 h of stagnation, an increase in total cell count was observed with a simultaneous decrease in free chlorine residual. Bacterial communities before and after stagnation were incubated with serial dilutions of individual antimicrobial agents (ampicillin, cefotaxime, streptomycin, tetracycline, erythromycin, sulfamethoxazole, chloramphenicol, and ciprofloxacin) in R2A broth for three days to evaluate the antimicrobial resistance profiles. The minimal inhibitory concentrations of the antimicrobial agents against the bacterial communities increased after water stagnation. Community structure analysis revealed that Methylobacterium and Pseudoxanthomonas were dominant in enriched cultures with most antimicrobial agents before and after water stagnation, respectively. These results demonstrate that water stagnation in premise plumbing can affect the antimicrobial resistance profiles of bacterial communities.

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Rapid and improved identification of drinking water bacteria using the Drinking Water Library, a dedicated MALDI-TOF MS database

Cited by 19 publications

References 38 publications

Rapid Antibiotic Resistance Serial Prediction in Staphylococcus aureus Based on Large-Scale MALDI-TOF Data by Applying XGBoost in Multi-Label Learning

Rapid Antibiotic Resistance Serial Prediction in Staphylococcus aureus Based on Large-Scale MALDI-TOF Data by Applying XGBoost in Multi-Label Learning

Plasmid-Mediated Fluoroquinolone Resistance Genes in Quinolone-Susceptible Aeromonas spp. Phenotypes Isolated From Recreational Surface Freshwater Reservoir

Antimicrobial Resistance Profiles of Bacterial Community in Premise Plumbing before and after Water Stagnation

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