Antibiotic Resistance of Escherichia coli from Humans and Black Rhinoceroses in Kenya

Kipkorir, Kebenei C; Ang’ienda, Paul Oyieng’; Onyango, David Miruka; Onyango, Patrick

doi:10.1007/s10393-019-01461-z

Cited by 8 publications

(3 citation statements)

References 32 publications

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“…By assessing ARGs in multiple ring-tailed lemur populations living under variably disturbed conditions, we (a) shed light on the breadth of ARG presence and diversity outside of traditionally studied settings, (b) highlight the potentially different routes by which ARGs may be acquired by wild versus captive animals, and (c) demonstrate covariance between lemur and soil resistomes in a subset of wild populations. Consistent with previous findings on natural resistomes in wildlife microbiota (Vittecoq et al, 2016;Kipkorir et al, 2019;Marcelino et al, 2019) and environmental microbiota (Esiobu et al, 2002), ARGs were present in nearly all lemur and soil samples collected, including from animals that had potentially minimal exposure to introduced antibiotics (Pallecchi et al, 2008;McCann et al, 2019). As one of the broadest examinations of ARGs in an endangered species and its habitat, our study adds to the growing recognition that wildlife-associated and environmental consortia may act as inextricable reservoirs of ARGs, exemplifying both the ecological and conservation concerns associated with the resistance crisis.…”

Section: Discussionsupporting

confidence: 92%

Antibiotic Resistance Genes in Lemur Gut and Soil Microbiota Along a Gradient of Anthropogenic Disturbance

Bornbusch

Drea

2021

Front. Ecol. Evol.

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The overuse of man-made antibiotics has facilitated the global propagation of antibiotic resistance genes in animals, across natural and anthropogenically disturbed environments. Although antibiotic treatment is the most well-studied route by which resistance genes can develop and spread within host-associated microbiota, resistomes also can be acquired or enriched via more indirect routes, such as via transmission between hosts or via contact with antibiotic-contaminated matter within the environment. Relatively little is known about the impacts of anthropogenic disturbance on reservoirs of resistance genes in wildlife and their environments. We therefore tested for (a) antibiotic resistance genes in primate hosts experiencing different severities and types of anthropogenic disturbance (i.e., non-wildlife animal presence, human presence, direct human contact, and antibiotic treatment), and (b) covariation between host-associated and environmental resistomes. We used shotgun metagenomic sequencing of ring-tailed lemur (Lemur catta) gut resistomes and associated soil resistomes sampled from up to 10 sites: seven in the wilderness of Madagascar and three in captivity in Madagascar or the United States. We found that, compared to wild lemurs, captive lemurs harbored greater abundances of resistance genes, but not necessarily more diverse resistomes. Abundances of resistance genes were positively correlated with our assessments of anthropogenic disturbance, a pattern that was robust across all ten lemur populations. The composition of lemur resistomes was site-specific and the types of resistance genes reflected antibiotic usage in the country of origin, such as vancomycin use in Madagascar. We found support for multiple routes of ARG enrichment (e.g., via human contact, antibiotic treatment, and environmental acquisition) that differed across lemur populations, but could result in similar degrees of enrichment. Soil resistomes varied across natural habitats in Madagascar and, at sites with greater anthropogenic disturbance, lemurs and soil resistomes covaried. As one of the broadest, single-species investigations of wildlife resistomes to date, we show that the transmission and enrichment of antibiotic resistance genes varies across environments, thereby adding to the mounting evidence that the resistance crisis extends outside of traditional clinical settings.

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Section: Discussionsupporting

confidence: 92%

Antibiotic Resistance Genes in Lemur Gut and Soil Microbiota Along a Gradient of Anthropogenic Disturbance

Bornbusch

Drea

2021

Front. Ecol. Evol.

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“…The spread and aggregation of ARGs into resistant pathogens have challenged life-saving antibiotic therapies in recent decades (Zhu et al, 2013 ; Cevidanes et al, 2020 ; Wang et al, 2020 ). ARGs can be transferred among species in the wild through several mobile genetic elements, such as integrons, plasmids, and transposons (Bellanger et al, 2014 ; Blair et al, 2015 ; Chen et al, 2015 ; Mu et al, 2015 ; Kipkorir et al, 2020 ). Wild birds are under the selective pressure of antibiotics, in that not only do these antibiotics kill beneficial gut bacteria, but they also alter the composition, structure, and function of the gut microbiome, even causing some bacteria to completely disappear from the gut (Wang et al, 2017 ).…”

Section: Discussionmentioning

confidence: 99%

Metagenomic analysis of gut microbiota and antibiotic-resistant genes in Anser erythropus wintering at Shengjin and Caizi Lakes in China

Liu

Feng

2023

Front. Microbiol.

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Migratory birds are the primary source and reservoir of antibiotic-resistant genes (ARGs) related to their gut microbes. In this study, we performed metagenomics analysis to study the gut microbial communities and ARGs of Anser erythropus wintering at Shengjin (SJ) and Caizi (CZ) Lakes. The results showed that bacteria, fungi, viruses, and archaea were the dominant gut microbes. Principal component analysis (PCA) indicated that the microbiota compositions significantly differed between the two populations. Diet may be the most crucial driver of the gut microbial communities for A. erythropus. This species fed exclusively on Poaceae spp. at Shengjin Lake and primarily on Carex spp. at Caizi Lake. Tetracycline, macrolide, fluoroquinolone, phenicol, and peptide antibiotics were the dominant resistant types. ARGs had a significantly higher abundance of operational taxonomic units (OTUs) in the Shengjin Lake samples than in Caizi Lake samples. PCA indicated that most Shengjin Lake samples significantly differed in gut microbiota composition from those obtained at Caizi Lake. This difference in gut microbiota composition between the two lakes' samples is attributed to more extensive aquaculture operations and poultry farms surrounding Shengjin Lake than Caizi Lake. ARGs–microbes associations indicated that 24 bacterial species, commonly used as indicators of antibiotic resistance in surveillance efforts, were abundant in wintering A. erythropus. The results revealed the composition and structural characteristics of the gut microbiota and ARGs of A. erythropus, pointing to their high sensitivities to diet habits at both lakes. This study also provides primary data for risk prevention and control of potential harmful pathogens that could endanger public health and therefore are of major significance to epidemiological and public health.

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“…There are several reports of drug-resistant Enterobacteriaceae in various livestock, including poultry, sheep, cattle, and pigs [7][8][9][10]. Furthermore, despite the lack of prior antibiotic exposure in wildlife, AMR has been reported in monkey [11], green sea turtles [12], and black rhinoceros [13], probably due to exposure to antibiotic-resistant organisms at the human-animal-environment interface. AMR is a threat to humans and livestock because of the inappropriate use of antibiotics and the use of antibiotics as growth promoters in food animals.…”

Section: Introductionmentioning

confidence: 99%

Antimicrobial Use Survey and Detection of ESBL-Escherichia coli in Commercial and Medium-/Small-Scale Poultry Farms in Selected Districts of Zambia

Sinyawa,

Shawa,

Muuka

et al. 2024

Antibiotics

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Antimicrobial resistance (AMR) among Escherichia coli from food animals is a rising problem, and heavy antimicrobial use in poultry is a contributing factor. In Zambia, studies linking poultry-associated AMR and antibiotic use (AMU) are rare. This study aimed to investigate commercial and medium-/small-scale poultry farmers’ usage of antimicrobials based on a questionnaire survey in ten districts of Zambia. In addition, the study characterized extended-spectrum β-lactamase (ESBL)-producing E. coli isolates obtained from poultry in the same districts. Data regarding knowledge and usage of antimicrobials were collected from commercial and medium-/small-scale poultry farmers using a pre-tested structured questionnaire. At the same time, cloacal samples were collected and analyzed. One hundred and fifty E. coli isolates were tested for antimicrobial susceptibility using eight antibiotic classes. The isolates were further screened for ESBL production by streaking them on cefotaxime (CTX)-supplemented MacConkey agar, then subjecting them to sequencing on a NextSeq. The questionnaire survey showed that more medium-/small-scale than commercial poultry farmers used antimicrobials (OR = 7.70, 95% CI = 2.88–20.61) but less prescriptions (OR = 0.02, 95% CI = 0.00–0.08). Susceptibility testing revealed that resistance was highest to ampicillin (128/148, 86.5%) and tetracycline (101/136, 74.3%) and that the prevalence of multidrug resistance (MDR) (28/30, 93.3%) was high. Whole-genome sequencing (WGS) of eight (8/30, 26.7%) isolates with CTX Minimum Inhibitory Concentration (MIC) ≥ 4 µg/mL revealed the presence of ESBL-encoding genes blaCTX-M-14, blaCTX-M-55, and blaTEM. WGS also detected other AMR genes for quinolones, aminoglycosides, phenicols, tetracycline, macrolides, and folate-pathway antagonists. Altogether, the questionnaire survey results showed a higher proportion of AMU and lower prescription usage among medium-/small-scale farmers. In addition, our results emphasize the circulation of ESBL-producing E. coli strains with associated MDR. It is critical to educate farmers about AMR risks and to encourage responsible usage of antimicrobials. Furthermore, there is a need to strengthen regulations limiting access to antimicrobials. Finally, there is a need to establish a one health system to guide public health response.

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Antibiotic Resistance of Escherichia coli from Humans and Black Rhinoceroses in Kenya

Cited by 8 publications

References 32 publications

Antibiotic Resistance Genes in Lemur Gut and Soil Microbiota Along a Gradient of Anthropogenic Disturbance

Antibiotic Resistance Genes in Lemur Gut and Soil Microbiota Along a Gradient of Anthropogenic Disturbance

Metagenomic analysis of gut microbiota and antibiotic-resistant genes in Anser erythropus wintering at Shengjin and Caizi Lakes in China

Antimicrobial Use Survey and Detection of ESBL-Escherichia coli in Commercial and Medium-/Small-Scale Poultry Farms in Selected Districts of Zambia

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