Resistome Diversity and Dissemination of WHO Priority Antibiotic Resistant Pathogens in Lebanese Estuaries

Hobeika, Wadad; Gaschet, Margaux; Ploy, Marie-Cécile; Buelow, Elena; Sarkis, Dolla Karam; Dagot, Christophe

doi:10.3390/antibiotics11030306

Cited by 4 publications

(2 citation statements)

References 54 publications

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“…Indeed, recent hepatitis A and ongoing cholera outbreaks have been associated with contaminated water. Furthermore, most rivers and surface water resources were found to be contaminated with fecal microorganisms [38,45,46,[49][50][51][52][53][54], which facilitates the transmission of enteric pathogens in the Lebanese community via water (recreational or domestic) and the food production chain (irrigation water). This information adds urgency to address fecal pollution and improve the quality of water in Lebanon through provisions of access to safe water, sanitation, and sustained hygiene practices.…”

Section: Plos Onementioning

confidence: 99%

The indelible toll of enteric pathogens: Prevalence, clinical characterization, and seasonal trends in patients with acute community-acquired diarrhea in disenfranchised communities

et al. 2023

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Background There is little information on the epidemiology of enteric pathogens in Lebanon, a low- and middle-income country that suffers from a myriad of public health challenges. To address this knowledge gap, we aimed to assess the prevalence of enteric pathogens, identify risk factors and seasonal variations, and describe associations between pathogens among diarrheic patients in the Lebanese community. Methodology and principal findings A multicenter cross-sectional community-based study was conducted in the north of Lebanon. Stool samples were collected from 360 outpatients suffering from acute diarrhea. Based on fecal examination using the BioFire® FilmArray® Gastrointestinal Panel assay, the overall prevalence of enteric infections was 86.1%. Enteroaggregative Escherichia coli (EAEC) was the most frequently identified (41.7%), followed by enteropathogenic E. coli (EPEC) (40.8%) and rotavirus A (27.5%). Notably, two cases of Vibrio cholerae were identified, while Cryptosporidium spp. (6.9%) was the most common parasitic agent. Overall, 27.7% (86/310) of the cases were single infections, and the majority, 73.3% (224/310), were mixed infections. Multivariable logistic regression models showed that enterotoxigenic E. coli (ETEC) and rotavirus A infections were significantly more likely to occur in the fall and winter compared to the summer. Rotavirus A infections significantly decreased with age but increased in patients living in rural areas or suffering from vomiting. We identified strong associations in the co-occurrence of EAEC, EPEC, and ETEC infections and a higher percentage of rotavirus A and norovirus GI/GII infections among EAEC-positive cases. Conclusions Several of the enteric pathogens reported in this study are not routinely tested in Lebanese clinical laboratories. However, anecdotal evidence suggests that diarrheal diseases are on the rise due to widespread pollution and the deterioration of the economy. Therefore, this study is of paramount importance to identify circulating etiologic agents and prioritize dwindling resources to control them and limit outbreaks in the future.

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Section: Plos Onementioning

confidence: 99%

The indelible toll of enteric pathogens: Prevalence, clinical characterization, and seasonal trends in patients with acute community-acquired diarrhea in disenfranchised communities

et al. 2023

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“…The "One Health" surveillance approach takes into consideration the interrelated link among people, non-human animals, and the environment [2]. The substantial role of the latter in AMR spread can be noted in the soil's capacity to serve as a resistance gene reservoir, facilitating the spread of ARGs found in mobile genetic elements (MGEs), such as plasmids, integrons, and transposons, among different bacterial species, speeding the development of multidrug-resistant (MDR) pathogens [11]. According to Gosh et al (2021) [12], MDR pathogens are thought to be responsible for up to 10 million cases of fatalities annually worldwide, with a mortality rate of 392,000 in Latin America.…”

Section: Introductionmentioning

confidence: 99%

Metagenomic insights for antimicrobial resistance surveillance in soils with different land uses in Brazil

Ordine

Souza

Tamasco³

et al. 2022

Preprint

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Anthropization in terrestrial environments commonly leads to land use transformation, changing soil properties and their microbial communities. This, combined with the exacerbated use of antibiotics in human and animal health promotes the expansion of the soil resistome. Considering the urgent need for surveillance of antimicrobial resistance (AMR), we aimed to evaluate how different land practices (urban, farming and forest) can affect the soil resistome and the dynamics of their bacterial communities. We collected eight soil samples from different locations in the countryside of Sao Paulo (Brazil), assessed the community profiles based on 16S rRNA sequencing and analyzed the soil metagenomes based on shotgun sequencing. Our results highlight differences in the communities' structure and their dynamics which were correlated with land practices. Additionally, differences were observed in the abundance and diversity of antibiotic resistance genes (ARGs) and virulence factors (VFs) across studied soils, where a higher presence and homogeneity of vanRO, mtrA and rbpA genes were detected in livestock soils. We observed that Staphylococcus and Bacillus are positively correlated with each other and are markers for agricultural communities. Moreover, the abundance and diversity of ARGs and VFs observed in farming soils raises concerns regarding the potential spread of these genes in the environment. Together, our findings reinforce the importance and urgency of AMR surveillance in the environment, especially in soils undergoing deep land use transformations due to anthropic activity.

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Estimating taxonomic and functional structure along a tropical estuary: linking metabolic traits and aspects of ecosystem functioning

Levipan,

Opazo,

Arenas-Uribe

et al. 2024

Microbiol Spectr

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Microbial life forms are among the most ubiquitous on Earth, yet many remain understudied in Caribbean estuaries. We report on the prokaryote community composition of the Urabá Estuary in the Colombian Caribbean using 16S rRNA gene-transcript sequencing. We also assessed potential functional diversity through 38 metabolic traits inferred from 16S rRNA gene data. Water samples were collected from six sampling stations at two depths with contrasting light-penetration conditions along an approximately 100 km transect in the Gulf of Urabá in December 2019. Non-metric multidimensional scaling analysis grouped the samples into two distinct clusters along the transect and between depths. The primary variables influencing the prokaryote community composition were the sampling station, depth, salinity, and dissolved oxygen levels. Twenty percent of genera (i.e., 58 out 285) account for 95% of the differences between groups along the transect and among depths. All of the 38 metabolic traits studied showed some significant relationship with the tested environmental variables, especially salinity and except with temperature. Another non-metric multidimensional scaling analysis, based on community-weighted mean of traits, also grouped the samples in two clusters along the transect and over depth. Biodiversity facets, such as richness, evenness, and redundancy, indicated that environmental variations—stemming from river discharges—introduce an imbalance in functional diversity between surface prokaryote communities closer to the estuary’s head and bottom communities closer to the ocean. Our research broadens the use of 16S rRNA gene transcripts beyond mere taxonomic assignments, furthering the field of trait-based prokaryote community ecology in transitional aquatic ecosystems. IMPORTANCE The resilience of a dynamic ecosystem is directly tied to the ability of its microbes to navigate environmental gradients. This study delves into the changes in prokaryote community composition and functional diversity within the Urabá Estuary (Colombian Caribbean) for the first time. We integrate data from 16S rRNA gene transcripts (taxonomic and functional) with environmental variability to gain an understanding of this under-researched ecosystem using a multi-faceted macroecological framework. We found that significant shifts in prokaryote composition and in primary changes in functional diversity were influenced by physical-chemical fluctuations across the estuary’s environmental gradient. Furthermore, we identified a potential disparity in functional diversity. Near-surface communities closer to the estuary’s head exhibited differences compared to deeper communities situated farther away. Our research serves as a roadmap for posing new inquiries about the potential functional diversity of prokaryote communities in highly dynamic ecosystems, pushing forward the domain of multi-trait-based prokaryote community ecology.

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Resistome Diversity and Dissemination of WHO Priority Antibiotic Resistant Pathogens in Lebanese Estuaries

Cited by 4 publications

References 54 publications

The indelible toll of enteric pathogens: Prevalence, clinical characterization, and seasonal trends in patients with acute community-acquired diarrhea in disenfranchised communities

The indelible toll of enteric pathogens: Prevalence, clinical characterization, and seasonal trends in patients with acute community-acquired diarrhea in disenfranchised communities

Metagenomic insights for antimicrobial resistance surveillance in soils with different land uses in Brazil

Estimating taxonomic and functional structure along a tropical estuary: linking metabolic traits and aspects of ecosystem functioning

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