Erratum for Oladeinde et al., “Horizontal Gene Transfer Is the Main Driver of Antimicrobial Resistance in Broiler Chicks Infected with Salmonella enterica Serovar Heidelberg”

Oladeinde, Adelumola; Abdo, Zaid; Press, Maximilian O.; Cook, Kimberly J.; Cox, N. A.; Zwirzitz, Benjamin; Woyda, Reed; Lakin, Steven M.; Thomas, Jesse C.; Looft, Torey; Cosby, D. E.; Hinton, Arthur; Guard, Jean; Line, Eric; Rothrock, Michael J.; Berrang, M. E.; Herrington, Kyler; Zock, Gregory; Lawrence, Jodie Plumblee; Cudnik, Denice; House, Sandra L.; Ingram, K. D.; Lariscy, Leah; Wagner, Martin; Aggrey, Samuel E.; Chai, Lilong; Ritz, Casey W.

doi:10.1128/msystems.01147-21

Cited by 4 publications

(4 citation statements)

References 0 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…For example, the IncA/C plasmids have been isolated from multiple S. enterica and E. coli strains associated with infections of animals and human patients and often found to simultaneously contain multiple AMR, DBR and HMR genes (Harmer and Hall, 2014;Mattioni Marchetti et al, 2020;Octavia et al, 2020;Zhao et al, 2020). The IncI1-complex of plasmids also has a global diversity in Enterobacteriaceae, and many representatives carry multiple resistance genes, including those for clinically important agents, and they have been reported as a major driver of AMR in Salmonella, E. coli and Klebsiella pneumoniae (Sekizuka et al, 2017;Abraham et al, 2018;Zhang et al, 2019;Foley et al, 2021;Oladeinde et al, 2021). The IncHI plasmids tend to be very large plasmids, often greater than 200 kB in size and carry multiple AMR, HMR and DBR operons, as well as virulence factors that are important for enteric fever (Phan and Wain, 2008;Han et al, 2012).…”

mentioning

confidence: 99%

In silico analyses of diversity and dissemination of antimicrobial resistance genes and mobile genetics elements, for plasmids of enteric pathogens

Algarni

Han²,

Gudeta³

et al. 2023

Front. Microbiol.

View full text Add to dashboard Cite

IntroductionThe antimicrobial resistance (AMR) mobilome plays a key role in the dissemination of resistance genes encoded by mobile genetics elements (MGEs) including plasmids, transposons (Tns), and insertion sequences (ISs). These MGEs contribute to the dissemination of multidrug resistance (MDR) in enteric bacterial pathogens which have been considered as a global public health risk.MethodsTo further understand the diversity and distribution of AMR genes and MGEs across different plasmid types, we utilized multiple sequence-based computational approaches to evaluate AMR-associated plasmid genetics. A collection of 1,309 complete plasmid sequences from Gammaproteobacterial species, including 100 plasmids from each of the following 14 incompatibility (Inc) types: A/C, BO, FIA, FIB, FIC, FIIA, HI1, HI2, I1, K, M, N, P except W, where only 9 sequences were available, was extracted from the National Center for Biotechnology Information (NCBI) GenBank database using BLAST tools. The extracted FASTA files were analyzed using the AMRFinderPlus web-based tools to detect antimicrobial, disinfectant, biocide, and heavy metal resistance genes and ISFinder to identify IS/Tn MGEs within the plasmid sequences.Results and DiscussionIn silico prediction based on plasmid replicon types showed that the resistance genes were diverse among plasmids, yet multiple genes were widely distributed across the plasmids from enteric bacterial species. These findings provide insights into the diversity of resistance genes and that MGEs mediate potential transmission of these genes across multiple plasmid replicon types. This notion was supported by the observation that many IS/Tn MGEs and resistance genes known to be associated with them were common across multiple different plasmid types. Our results provide critical insights about how the diverse population of resistance genes that are carried by the different plasmid types can allow for the dissemination of AMR across enteric bacteria. The results also highlight the value of computational-based approaches and in silico analyses for the assessment of AMR and MGEs, which are important elements of molecular epidemiology and public health outcomes.

show abstract

mentioning

confidence: 99%

In silico analyses of diversity and dissemination of antimicrobial resistance genes and mobile genetics elements, for plasmids of enteric pathogens

Algarni

Han²,

Gudeta³

et al. 2023

Front. Microbiol.

View full text Add to dashboard Cite

show abstract

“…The use of antimicrobial drugs in food animals also enhances the percentage of MDR bacteria and ARGs in human microbiota (Ma et al, 2022). Moreover, E. coli is also known to serve as donor bacteria for horizontal gene transfer within and between species (Oladeinde et al, 2019). Lima et al (2020) highlighted the importance of animal manure and manure-substituted agriculture lands as a major source of antibiotic residues, ARGs, and AMR bacteria in the environment posing a potential threat to public health via horizontal gene transfer mechanisms with the help of mobile genetic elements such as plasmids, transposons, and integrons.…”

Section: Discussionmentioning

confidence: 99%

The emergence of multi-drug resistant and virulence gene carrying Escherichia coli strains in the dairy environment: a rising threat to the environment, animal, and public health

Shoaib

Geng

et al. 2023

Front. Microbiol.

View full text Add to dashboard Cite

Escherichia coli is a common inhabitant of the intestinal microbiota and is responsible for udder infection in dairy cattle and gastro-urinary tract infections in humans. We isolated E. coli strains from a dairy farm environment in Xinjiang, China, and investigated their epidemiological characteristics, phenotypic and genotypic resistance to antimicrobials, virulence-associated genes, and phylogenetic relationship. A total of 209 samples were collected from different sources (feces, slurry, water, milk, soil) and cultured on differential and selective agar media (MAC and EMB). The presumptive identification was done by the VITEK2 system and confirmed by 16S rRNA gene amplification by PCR. Antimicrobial susceptibility testing was done by micro-dilution assay, and genomic characterization was done by simple and multiplex polymerase chain reaction (PCR). A total of 338 E. coli strains were identified from 141/209 (67.5%) of the samples. Most of the E. coli strains were resistant to sulfamethoxazole/trimethoprim (62.43%), followed by cefotaxime (44.08%), ampicillin (33.73%), ciprofloxacin (31.36%), tetracycline (28.99%), and a lesser extent to florfenicol (7.99%), gentamicin (4.44%), amikacin (1.77%), and fosfomycin (1.18%). All of the strains were susceptible to meropenem, tigecycline, and colistin sulfate. Among the resistant strains, 44.4% were identified as multi-drug resistant (MDR) showing resistance to at least one antibiotic from ≥3 classes of antibiotics. Eighteen out of 20 antibiotic-resistance genes (ARGs) were detected with sul2 (67.3%), blaTEM (56.3%), gyrA (73.6%), tet(B) (70.4%), aph(3)-I (85.7%), floR (44.4%), and fosA3 (100%, 1/1) being the predominant genes among different classes of antibiotics. Among the virulence-associated genes (VAGs), ompA was the most prevalent (86.69%) followed by ibeB (85.0%), traT (84.91%), ompT (73.96%), fyuA (23.1%), iroN (23.1%), and irp2 gene (21.9%). Most of the E. coli strains were classified under phylogenetic group B1 (75.45%), followed by A (18.34%), C (2.96%), D (1.18%), E (1.18%), and F (0.30%). The present study identified MDR E. coli strains carrying widely distributed ARGs and VAGs from the dairy environment. The findings suggested that the dairy farm environment may serve as a source of mastitis-causing pathogens in animals and horizontal transfer of antibiotic resistance and virulence genes carrying bacterial strains to humans via contaminated milk and meat, surface water and agricultural crops.

show abstract

“…Upon entry into the GIT, bacterial populations ingested are challenged with several selection pressures in the upper and lower GIT, including acidic pH, low oxygen levels, competition from resident microbiota and the chicken host immune responses. The cecum is part of the lower GIT that carries the highest bacterial densities, has the longest residence time of digesta, and is an important site for urea recycling and water regulation (Clench and Mathias, 1995;Oladeinde et al, 2019). In addition, bacterial populations in the ceca experience low redox potential that can lead to an increase in the abundance of obligate anaerobic bacteria and a reduction in aerobes or facultative anaerobes (Rinttilä and Apajalahti, 2013).…”

Section: Discussionmentioning

confidence: 99%

Temporal dynamics of the cecal and litter microbiome of chickens raised in two separate broiler houses

Zwirzitz

Oladeinde²,

Johnson³

et al. 2023

Front. Physiol.

View full text Add to dashboard Cite

In this study, we investigated the dynamics of the ceca and litter microbiome of chickens from post-hatch through pre-harvest. To achieve this, six hundred one-day old Cobb 500 broiler chicks were raised on floor pens for 49 days in two separate houses. We performed short-read and full-length sequencing of the bacterial 16S rRNA gene present in the meconium and in cecal and litter samples collected over the duration of the study. In addition, we determined the antimicrobial resistance (AMR) phenotype of Escherichia coli and Enterococcus spp. isolated from the meconium and the ceca of 49-day old chickens. We monitored the relative humidity, temperature, and ammonia in each house daily and the pH and moisture of litter samples weekly. The overall microbial community structure of the ceca and litter consistently changed throughout the course of the grow-out and correlated with some of the environmental parameters measured (p < 0.05). We found that the ceca and litter microbiome were similar in the two houses at the beginning of the experiment, but over time, the microbial community separated and differed between the houses. When we compared the environmental parameters in the two houses, we found no significant differences in the first half of the growth cycle (day 0–21), but morning temperature, morning humidity, and ammonia significantly differed (p < 0.05) between the two houses from day 22–49. Lastly, the prevalence of AMR in cecal E. coli isolates differed from meconium isolates (p < 0.001), while the AMR phenotype of cecal Enterococcus isolates differed between houses (p < 0.05).

show abstract

Erratum for Oladeinde et al., “Horizontal Gene Transfer Is the Main Driver of Antimicrobial Resistance in Broiler Chicks Infected with Salmonella enterica Serovar Heidelberg”

Cited by 4 publications

References 0 publications

In silico analyses of diversity and dissemination of antimicrobial resistance genes and mobile genetics elements, for plasmids of enteric pathogens

In silico analyses of diversity and dissemination of antimicrobial resistance genes and mobile genetics elements, for plasmids of enteric pathogens

The emergence of multi-drug resistant and virulence gene carrying Escherichia coli strains in the dairy environment: a rising threat to the environment, animal, and public health

Temporal dynamics of the cecal and litter microbiome of chickens raised in two separate broiler houses

Contact Info

Product

Resources

About