Antibiotic resistance genes, mobile elements, virulence genes, and phages in cultivated ESBL-producing Escherichia coli of poultry origin in Kwara State, North Central Nigeria

Al-Mustapha, Ahmad Ibrahim; Raufu, Ibrahim A.; Ogundijo, Oluwaseun Adeolu; Odetokun, Ismail Ayoade; Tiwari, Ananda; Brouwer, Michael S.M.; Adetunji, Victoria O.; Heikinheimo, Annamari

doi:10.1016/j.ijfoodmicro.2023.110086

Cited by 17 publications

(18 citation statements)

References 56 publications

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“…This study revealed the presence of beta-lactam-resistant genes in all five isolates, fluoroquinolones resistant genes with more than triple mutation (gyrA_S83L, gyrA_D87N, parC_S80I, and parE_S458A), the Colistin-resistant gene (pmrB_Y358N) found in XDR E.coli (34,35) and other classes of antibiotics. The presence of these enteric pathogens isolated from presumptive healthy children is of great concern as these children serve as potential reservoirs for transmission of these pathogens to other susceptible individuals.…”

Section: Discussionmentioning

confidence: 78%

Genomic Characterisation of Multidrug-Resistant Pathogenic Enteric Bacteria from healthy children in Osun State, Nigeria

Uwanibe

Olawoye

Happi

et al. 2023

Preprint

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Antimicrobial resistance (AMR) has been established to be a significant driver for the persistence and spread of bacterial infections. It is, therefore, essential to conduct epidemiological surveillance of AMR in healthy individuals to understand the actual dynamics of AMR in Nigeria. Multi-drug resistant Klebsiella quasivariicola (n=1), Enterobacter hormaechei (n=1), and Escherichia coli (n=3) from stool samples of healthy children were subjected to whole genome sequencing using Illumina Nextseq1000/2000 and Oxford nanopore. Bioinformatics analysis reveals antimicrobial resistance, virulence genes, and plasmids. This pathogenic enteric bacteria harbored more than three plasmid replicons of either Col and/or Inc type associated with outbreaks and AMR resistant gene pmrB responsible for colistin resistance. Plasmid reconstruction revealed an integrated tetA gene responsible for tetracycline resistance, and caa gene responsible for toxin production in two of the E.coli isolates, and a cusC gene known to induce neonatal meningitis in the K. quasivariicola ST3879. The global spread of MDR pathogenic enteric bacteria is a worrying phenomenon, and close surveillance of healthy individuals, especially children, is strongly recommended to prevent the continuous spread and achieve the elimination and eradication of these infections. Molecular epidemiological surveillance using whole genome sequencing (WGS) will improve the detection of MDR pathogens in Nigeria.

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Section: Discussionmentioning

confidence: 78%

Genomic Characterisation of Multidrug-Resistant Pathogenic Enteric Bacteria from healthy children in Osun State, Nigeria

Uwanibe

Olawoye

Happi

et al. 2023

Preprint

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“…India poultry samples continue to have a higher presence of ESBL-producing bacteria than the pig and cattle samples [ 38 ]. In Nigeria, the same pattern was observed, and the presence of ESBL-producing E. coli was observed in 10.8% of broiler samples and 8% in spent layers samples [ 39 ]. In South Korea, samples of chickens, pigs and cattle were also studied, and the same pattern of high prevalence of ESBLs in chickens was observed.…”

Section: Food-producing Animals As One Of the Potential Sources Of Fo...mentioning

confidence: 73%

Antimicrobial Resistance and Clonal Lineages of Escherichia coli from Food-Producing Animals

Silva

Pereira

et al. 2023

Antibiotics

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Escherichia coli are one of the most important pathogenic bacteria readily found in the livestock and widely studied as an indicator that carries drug-resistant genes between humans, animals, and the environment. The use of antimicrobials in the food chain, particularly in food-producing animals, is recognized as a significant contributor to the development and spread of antimicrobial resistance (AMR) and resistance genes can be transferred from the farm through the food-chain. The objective of this review is to highlight the background of the antimicrobials use in food-producing animals, more specifically, to study clonal lineages and the resistance profiles observed in E. coli, as well as in extended spectrum beta-lactamases (ESBL) producing E. coli, in a set of food-production animals with greater relevance in food consumption, such as pigs, poultry, cattle, fish farming and rabbits. Regarding the prevalence of ESBL-producing E. coli among farm animals, high-to-moderate prevalence was observed, and the highest resistance rates to tetracycline and ampicillin was detected in different farms in all geographic regions. Worldwide pandemic clones and high-risk zoonotic E. coli clones have been identified in most food-producing animals, and some of these clones are already disseminated in different niches, such as the environment and humans. A better understanding of the epidemiology of E. coli and ESBL-producing E. coli in livestock is urgently needed. Animal production is one of the major causes of the antibiotic resistance problem worldwide and a One Health approach is needed.

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“…The metagenomic sequencing showed that the abundance of sulphonamide and fluoroquinolone resistance genes decreased compared with that in measurements by [ 1 , 4 , 27 ]. Compared with [ 2 , 3 , 28 ]’s measurements, the abundance of glycopeptide resistance genes and AdeF and qacG multidrug resistance genes was high, indicating that the Chinese government’s policy of reducing and replacing antibiotics in animal husbandry has played a role in altering the abundances of antibiotic resistance genes.…”

Section: Discussionmentioning

confidence: 99%

“…The interconnected domains of the One Health Framework have identified that the emergence, evolution, and dissemination of antibiotic-resistant microorganisms at both the local and global scales pose a substantial risk to global health. Multiple environmental reservoirs of microorganisms, including water and farm waste, contribute to the dissemination of ABR [ 1 , 2 ].…”

Section: Introductionmentioning

confidence: 99%

Analysis of Antibiotic Resistance Genes in Water Reservoirs and Related Wastewater from Animal Farms in Central China

Rui,

Qiu

2024

Microorganisms

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This study aimed to explore the phenotype and relationship of drug resistance genes in livestock and poultry farm wastewater and drinking water reservoirs to provide evidence for the transmission mechanisms of drug resistance genes, in order to reveal the spread of drug resistance genes in wastewater from intensive farms in Central China to urban reservoirs that serve as drinking water sources and provide preliminary data for the treatment of wastewater from animal farms to reduce the threat to human beings. DNA extraction and metagenomic sequencing were performed on eight groups of samples collected from four water reservoirs and four related wastewaters from animal farms in Central China. Metagenomic sequencing showed that the top 20 AROs with the highest abundance were vanT_gene, vanY_gene, adeF, qacG, Mtub_rpsL_STR, vanY_gene_, vanW_gene, Mtub_murA_FOF, vanY_gene, vanH_gene, FosG, rsmA, qacJ, RbpA, vanW_gene, aadA6, vanY_gene, sul4, sul1, and InuF. The resistance genes mentioned above belong to the following categories of drug resistance mechanisms: antibiotic target replacement, antibiotic target protection, antibiotic inactivation, and antibiotic efflux. The resistomes that match the top 20 genes are Streptococcus agalactiae and Streptococcus anginosus; Enterococcus faecalis; Enterococcus faecium; Actinomyces viscosus and Bacillus cereus. Enterococcus faecium; Clostridium tetani; Streptococcus agalactiae and Streptococcus anginosus; Streptococcus agalactiae and Streptococcus anginosus; Acinetobacter baumannii, Bifidobacterium bifidum, Bifidobacterium breve, Bifidobacterium longum, Corynebacterium jeikeium, Corynebacterium urealyticum, Mycobacterium kansasii, Mycobacterium tuberculosis, Schaalia odontolytica, and Trueperella pyogenes; Mycobacterium avium and Mycobacterium tuberculosis; Aeromonas caviae, Enterobacter hormaechei, Vibrio cholerae, Vibrio metoecus, Vibrio parahaemolyticus, and Vibrio vulnificus; Pseudomonas aeruginosa and Pseudomonas fluorescens; Staphylococcus aureus and Staphylococcus equorum; M. avium, Achromobacter xylosoxidans, and Acinetobacter baumannii; Sphingobium yanoikuyae, Acinetobacter indicus, Morganella morganii, Proteus mirabilis, Proteus vulgaris, Providencia rettgeri, and Providencia stuartii. Unreported drug resistance genes and drug-resistant bacteria in Central China were identified in 2023. In the transmission path of drug resistance genes, the transmission path from aquaculture wastewater to human drinking water sources cannot be ignored. For the sake of human health and ecological balance, the treatment of aquaculture wastewater needs to be further strengthened, and the effective blocking of drug resistance gene transmission needs to be considered.

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Antibiotic resistance genes, mobile elements, virulence genes, and phages in cultivated ESBL-producing Escherichia coli of poultry origin in Kwara State, North Central Nigeria

Cited by 17 publications

References 56 publications

Genomic Characterisation of Multidrug-Resistant Pathogenic Enteric Bacteria from healthy children in Osun State, Nigeria

Genomic Characterisation of Multidrug-Resistant Pathogenic Enteric Bacteria from healthy children in Osun State, Nigeria

Antimicrobial Resistance and Clonal Lineages of Escherichia coli from Food-Producing Animals

Analysis of Antibiotic Resistance Genes in Water Reservoirs and Related Wastewater from Animal Farms in Central China

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