A clinically important, plasmid-borne antibiotic resistance gene (β-lactamase TEM-116) present in desert soils

Naidoo, Yashini; Valverde, Ángel; Cason, Errol D.; Pierneef, Rian; Cowan, Don A.

doi:10.1016/j.scitotenv.2020.137497

Cited by 16 publications

(12 citation statements)

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“…Plasmid origin is a common feature of ESBL genes such as TEM-116 according to several publications and is often referred to as a feature to facilitate their quick spread. [74][75][76] In the E. coli isolate sample s15, one contig had the marA and marR genes. These widespread multiple antibiotic resistance genes had been identified on plasmids before.…”

Section: Discussionmentioning

confidence: 99%

Mobile antimicrobial resistance genes in probiotics

Tóth

Csabai

Judge

et al. 2021

Preprint

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Even though people around the world tend to consume probiotic products for their beneficial health effects on a daily basis, recently, concerns were outlined regarding the uptake and potential intestinal colonisation of the bacteria that they transfer. These bacteria are capable of executing horizontal gene transfer (HGT) which facilitates the movement of various genes, including antimicrobial resistance genes (ARGs), among the donor and recipient bacterial populations. Within our study, 47 shotgun sequencing datasets deriving from various probiotic samples (isolated strains and metagenomes) were bioinformatically analysed. We detected more than 70 ARGs, out of which rpoB, tet(W/N/W) and potentially extended-spectrum beta-lactamase (ESBL) coding TEM-116 were the most common. Numerous ARGs were associated with integrated mobile genetic elements, plasmids or phages promoting the HGT. Our findings raise clinical and public health concerns as the consumption of probiotic products may lead to the transfer of ARGs to human gut bacteria.

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Section: Discussionmentioning

confidence: 99%

Mobile antimicrobial resistance genes in probiotics

Tóth

Csabai

Judge

et al. 2021

Preprint

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“…Resistomes and ARGs dispersion from hot spots such as wastewater plants or hospitals to downstream aquatic environments have been extensively studied and characterized [19][20][21]. Although the presence of ARGs in environments with low or scarce human intervention has been explored [22,23], to the best of our knowledge, it has never been explored whether common ARGs from HMP datasets are present in autochthonous bacteria from different pristine environments.…”

Section: Detection Of Human Microbiome Project Args In Pristine Environmentsmentioning

confidence: 99%

A Roadmap of The Human Body Resistome

Maestre‐Carballa

Navarro

Martínez‐García

2021

Preprint

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BackgroundIn response to the global antibiotic resistance crisis, efforts have been focused on gaining a better understanding of resistomes (sets of antibiotic resistance genes (ARGs)) and the dispersion of ARGs in nature. A comprehensive metagenomic characterization of the human body resistome is paramount for laying the foundation to develop a better strategy to address this health concern. Here, we study the resistomes of 771 samples from five major body parts of healthy subjects from the Human Microbiome Project (HMP). In line with the One Health concept (WHO), we also investigated the presence of ARGs from the HMP in 272 pristine environments. ResultsOf all the detected HMP genes/proteins (9.17E+07), 40,816 were ARGs showing high interindividual and inter-body-site abundance variability. Nares had the highest ARG abundance (2.18±2.64 ARGs/Mb; ≈5.5 ARG per bacterial genome), while the gut (0.34±0.34 ARGs/Mb; ≈1.3 ARG per bacterial genome), which also showed the highest richness of different ARG types, had the lowest abundance. Fluroquinolone resistance genes were the most abundant antibiotic resistance gene family, followed by MLS or tetracycline resistance genes, depending on the body site. From all the detected ARGs, we found 366 different ARG types, with parC R (fluoroquinolone resistance) being the most abundant in the oral cavity, mprF (peptide antibiotic resistance) in the skin and nares, and tetQ (tetracycline resistance) in the gut and vagina. Most of the ARGs belonged to common bacterial commensals, and many of them were also multidrug resistance genes and were more abundant in the nares and vagina. The total number of ARGs from the HMP data (n=34) detected in pristine environments (266 samples) was negligible, and most of them (73%) were classified as housekeeping genes in autochthonous bacteria having known mutations conferring antibiotic resistance (natural reservoirs). A significant fraction of ARGs (24%) in pristine environments were actually from exogenous contaminants. The detection of identical HMP ARGs in autochthonous bacteria was extremely infrequent (3%). Conclusions Our results comprehensively reveal the resistomes from all body parts and HMP samples that can serve as a baseline for comparison for long-term survey and monitoring of human resistome variations. Finally, our data provide hope, since the spread of common ARGs from the HMP data to pristine environments thus far remains very unlikely.

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“…2005; Aminov 2011; Perry and Wright 2013; Naidoo et al . 2020). Bacteriophages are present in high amounts in all ecological niches, including the human gut (Aminov 2011; Williamson et al .…”

Section: Potential Environmental Origin Of Args Prior To Disseminatiomentioning

confidence: 99%

“…Baquero et al 2008;D'costa et al 2011;Walsh and Duffy 2013;Cytryn 2013;Goethem et al 2018;Bezuidt et al 2020). This has led to the resistome hypothesis, which claims that many pathogen-associated ARGs had originated in antibiotic-producing soil and water environments bacteria and reached pathogens via horizontal gene transfer, which includes transduction(Ochman et al 2000;Humreniuk et al 2002;Poirel et al 2005;Aminov 2011;Perry and Wright 2013;Naidoo et al 2020). Bacteriophages are present in high amounts in all ecological niches, including the human gut(Aminov 2011;Williamson et al 2017;Moon et al 2020)…”

mentioning

confidence: 99%

Bacteriophages as antibiotic resistance genes carriers in agro‐food systems

Jebri

Rahmani

Hmaïed

2020

J. Appl. Microbiol.

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Antibiotic resistance genes (ARGs) are a global health concern. Antibiotic resistance occurs naturally, but misuse of antibiotics in humans and animals is accelerating the process of antibiotic resistance emergency, which has been aggravated by exposure to molecules of antibiotics present in clinical and agricultural settings and the engagement of many countries in water reuse especially in Middle East and North Africa region. Bacteriophages have the potential to be significant actors in ARGs transmission through the transduction process. These viruses have been detected along with ARGs in non impacted habitats and in anthropogenic impacted environments like wastewater, reclaimed water and manure amended soil as well as minimally processed food and ready to eat vegetables. The ubiquity of bacteriophages and their persistence in the environment raises concern about their involvement in ARGs transmission among different biomes and the generation of pathogenicresistant bacteria that pose a great threat to human health. The aim of this review is to give an overview of the potential role of bacteriophages in the dissemination and the transfer of ARGs to pathogens in food production and processing and the consequent contribution to antibiotic resistance transmission through faecal oral route carrying ARGs to our dishes.

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A clinically important, plasmid-borne antibiotic resistance gene (β-lactamase TEM-116) present in desert soils

Cited by 16 publications

References 89 publications

Mobile antimicrobial resistance genes in probiotics

Mobile antimicrobial resistance genes in probiotics

A Roadmap of The Human Body Resistome

Bacteriophages as antibiotic resistance genes carriers in agro‐food systems

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