Characterization of the microbiota and resistome of bulk tank milk samples from Prince Edward Island dairy farms

Warder, Landon M.C.; Doster, Enrique; Parker, Jennifer; Morley, Paul S.; McClure, J. Trenton; Heider, Luke C.; Sánchez, Javier

doi:10.3168/jds.2020-19995

Cited by 8 publications

(5 citation statements)

References 38 publications

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“…This allows the detection of both known and novel SE gene variants. Both reads‐based and assembly‐based approaches enable WMS to resolve resistomes comprehensively, identifying antimicrobial resistance genes from low‐abundance bacteria and elucidating genomic contexts more effectively (Liu et al., 2020; Rubiola et al., 2022; Warder et al., 2021). Full‐length 16S rRNA gene metabarcoding by third‐generation sequencing cost‐effectively profiles the most abundant taxa with practicality.…”

Section: Discussionmentioning

confidence: 99%

“…Full‐length 16S rRNA gene metabarcoding by third‐generation sequencing cost‐effectively profiles the most abundant taxa with practicality. Full‐length 16S rRNA gene metabarcoding appropriately identifies predominant microorganisms, while WMS sequencing demonstrates superior capacity for taxonomically detecting low‐abundance microorganisms and functionally examining microbial communities (Liu et al., 2020; Rubiola et al., 2022; Warder et al., 2021). Advancing bioinformatic tools and analytical algorithms is crucial for accurately identifying and characterising SE genes within the complex metagenomic datasets produced by high‐throughput sequencing (Liu et al., 2020).…”

Section: Discussionmentioning

confidence: 99%

“…This poses treatment challenges in mastitis and heightens the risk of enterotoxigenic S. aureus poisoning. (Liu et al, 2020;Warder et al, 2021). Advancing bioinformatic tools and analytical algorithms is crucial for accurately identifying and characterising SE genes within the complex metagenomic datasets produced by highthroughput sequencing (Liu et al, 2020).…”

Section: F I G U R Ementioning

confidence: 99%

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Rapid detection of major enterotoxin genes and antibiotic resistance of Staphylococcus aureus isolated from raw milk in the Yazd province, Iran

Forouzani‐Moghaddam,

Habibi,

Hosseini‐Safa

et al. 2024

Veterinary Medicine & Sci

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IntroductionRaw milk is a nutrient‐rich food, but it may harbour harmful bacteria, such as enterotoxigenic Staphylococcus aureus (S. aureus), which can cause staphylococcal food poisoning. Antibiotic resistance of S. aureus in raw milk can increase the risk of such infections, particularly among susceptible individuals.ObjectiveThis study aimed to investigate the prevalence of enterotoxin genes a, d, g, i and j and the antibiotic resistance of S. aureus isolated from raw milk samples.MethodsDuring a 6‐month sampling period, 60 raw milk specimens were obtained from diverse locations in Yazd province, Iran. Antibiogram profiling was conducted via the disc diffusion method. In addition, staphylococcal enterotoxin (SE) genes a, d, g, i, and j were detected through real‐time PCR analysis.ResultsBacteriological assays confirmed the presence of S. aureus in 11 samples (18.3%). All isolates demonstrated 100% resistance to penicillin G but exhibited sensitivity to vancomycin, while resistance to other antibiotics ranged from 36.4% to 45.5%. The prevalence of enterotoxin genes in these strains showed variable distribution, with sea being the predominant SE (45.5%), followed by sed (36.4%), seg (18.2), sej and sei (9.1% each).ConclusionsThis study discovered the presence of multiple enterotoxins in S. aureus strains obtained from raw milk samples. These strains also demonstrated resistance to a variety of antibiotics. Since enterotoxigenic S. aureus is known to cause human food poisoning, monitoring food hygiene practices, especially during raw milk production, is critical.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: F I G U R Ementioning

confidence: 99%

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Rapid detection of major enterotoxin genes and antibiotic resistance of Staphylococcus aureus isolated from raw milk in the Yazd province, Iran

Forouzani‐Moghaddam,

Habibi,

Hosseini‐Safa

et al. 2024

Veterinary Medicine & Sci

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“…The gut microbiome of animals has been identified as a significant reservoir of ARGs ( 5 – 7 ) and from which antibiotic resistance is found widely shared with the human gut ( 8 , 9 ). Dairy cattle are the primary provider of meat and dairy products and are closely related to food safety ( 10 , 11 ). Therefore, studies examining the gut resistome in dairy cattle are vital to address the public health issues related to sustainable dairy farming and mitigations of antibiotic resistance.…”

Section: Introductionmentioning

confidence: 99%

Fecal microbial gene transfer contributes to the high-grain diet-induced augmentation of aminoglycoside resistance in dairy cattle

Zhang,

Mu,

Gao

et al. 2024

mSystems

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A high-grain (HG) diet can rapidly lower the rumen pH and thus modify the gastrointestinal microbiome in dairy cattle. Although the prevalence of antibiotic resistance is strongly linked with the gut microbiome, the influences of HG diet on animals’ gut resistome remain largely unexplored. Here, we examined the impact and mechanism of an HG diet on the fecal resistome in dairy cattle by metagenomically characterizing the gut microbiome. Eight lactating Holstein cattle were randomly allocated into two groups and fed either a conventional (CON) or HG diet for 3 weeks. The fecal microbiome and resistome were significantly altered in dairy cattle from HG, demonstrating an adaptive response that peaks at day 14 after the dietary transition. Importantly, we determined that feeding an HG diet specifically elevated the prevalence of resistance to aminoglycosides (0.11 vs 0.24 RPKG, P < 0.05). This diet-induced resistance increase is interrelated with the disproportional propagation of microbes in Lachnospiraceae, indicating a potential reservoir of aminoglycosides resistance. We further showed that the prevalence of acquired resistance genes was also modified by introducing a different diet, likely due to the augmented frequency of lateral gene transfer (LGT) in microbes (CON vs HG: 254 vs 287 taxa) such as Lachnospiraceae. Consequently, we present that diet transition is associated with fecal resistome modification in dairy cattle and an HG diet specifically enriched aminoglycosides resistance that is likely by stimulating microbial LGT. IMPORTANCE The increasing prevalence of antimicrobial resistance is one of the most severe threats to public health, and developing novel mitigation strategies deserves our top priority. High-grain (HG) diet is commonly applied in dairy cattle to enhance animals’ performance to produce more high-quality milk. We present that despite such benefits, the application of an HG diet is correlated with an elevated prevalence of resistance to aminoglycosides, and this is a combined effect of the expansion of antibiotic-resistant bacteria and increased frequency of lateral gene transfer in the fecal microbiome of dairy cattle. Our results provided new knowledge in a typically ignored area by showing an unexpected enrichment of antibiotic resistance under an HG diet. Importantly, our findings laid the foundation for designing potential dietary intervention strategies to lower the prevalence of antibiotic resistance in dairy production.

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“…It has been shown that the metagenomics approach is a useful and reliable measurement for AMR in pig production [17][18][19][20][21] . It has also been suggested that the use of metagenomics will increase the likelihood that emerging ARGs are detected earlier since the whole microbiota in the sample is being analysed for AMR [22][23][24] .…”

Section: Introductionmentioning

confidence: 99%

Modelling the Effectiveness of Surveillance Based on Metagenomics in Detecting, Monitoring, and Forecasting Antimicrobial Resistance in Livestock Production Under Economic Constraints

2022

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Characterization of the microbiota and resistome of bulk tank milk samples from Prince Edward Island dairy farms

Cited by 8 publications

References 38 publications

Rapid detection of major enterotoxin genes and antibiotic resistance of Staphylococcus aureus isolated from raw milk in the Yazd province, Iran

Rapid detection of major enterotoxin genes and antibiotic resistance of Staphylococcus aureus isolated from raw milk in the Yazd province, Iran

Fecal microbial gene transfer contributes to the high-grain diet-induced augmentation of aminoglycoside resistance in dairy cattle

Modelling the Effectiveness of Surveillance Based on Metagenomics in Detecting, Monitoring, and Forecasting Antimicrobial Resistance in Livestock Production Under Economic Constraints

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