Prevalent and highly mobile antibiotic resistance genes in commercial organic fertilizers

Xie, Wan‐Ying; Wang, Yating; Yuan, Jun; Hong, Wen-Dan; Niu, Guoqing; Zou, Xi; Yang, X. B.; Shen, Qirong; Zhao, Fang‐Jie

doi:10.1016/j.envint.2022.107157

Cited by 36 publications

(7 citation statements)

References 46 publications

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“…Under selective antibiotic pressure, plasmids can indicate potential mobility and may effectively contribute to the spread of antibiotic resistance ( Zhao et al, 2020 ). Recent studies have reported a significant association between ARG and MGE abundance ( Li et al, 2022 ; Liu et al, 2018 ; Xie et al, 2022 ). Consequently, the higher levels of antimicrobial exposure in Chinese pigs, particularly in the absence of rigorous monitoring, may pose a greater risk to public health than in European pigs, where antibiotic use is more tightly regulated.…”

Section: Discussionmentioning

confidence: 99%

Core and variable antimicrobial resistance genes in the gut microbiomes of Chinese and European pigs

Tong,

Huo,

Diao

et al. 2024

Zoological Research

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Monitoring the prevalence of antimicrobial resistance genes (ARGs) is vital for addressing the global crisis of antibiotic-resistant bacterial infections. Despite its importance, the characterization of ARGs and microbiome structures, as well as the identification of indicators for routine ARG monitoring in pig farms, are still lacking, particularly concerning variations in antimicrobial exposure in different countries or regions. Here, metagenomics and random forest machine learning were used to elucidate the ARG profiles, microbiome structures, and ARG contamination indicators in pig manure under different antimicrobial pressures between China and Europe. Results showed that Chinese pigs exposed to high-level antimicrobials exhibited higher total and plasmid-mediated ARG abundances compared to those in European pigs ( P <0.05). ANT(6)-Ib , APH(3')-IIIa , and tet (40) were identified as shared core ARGs between the two pig populations. Furthermore, the core ARGs identified in pig populations were correlated with those found in human populations within the same geographical regions. Lactobacillus and Prevotella were identified as the dominant genera in the core microbiomes of Chinese and European pigs, respectively. Forty ARG markers and 43 biomarkers were able to differentiate between the Chinese and European pig manure samples with accuracies of 100% and 98.7%, respectively. Indicators for assessing ARG contamination in Chinese and European pigs also achieved high accuracy ( r =0.72–0.88). Escherichia flexneri in both Chinese and European pig populations carried between 21 and 37 ARGs. The results of this study emphasize the importance of global collaboration in reducing antimicrobial resistance risk and provide validated indicators for evaluating the risk of ARG contamination in pig farms.

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Section: Discussionmentioning

confidence: 99%

Core and variable antimicrobial resistance genes in the gut microbiomes of Chinese and European pigs

Tong,

Huo,

Diao

et al. 2024

Zoological Research

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“…In the present study, MGEs make a greater contribution to defining the ARG structures than the bacterial community (Figure A). Microbial succession with the same bacterial taxonomy can utilize both vertical gene transfer facilitated by parent–offspring propagation and horizontal gene transfer mediated by MGEs to regulate the dynamics of ARG reservoirs, while the distinct bacterial background would rely heavily on MGEs to structure the ARG compositions, weakening the transfer by vertical pathways. , Our results have confirmed the significant changes in bacterial structure due to the alteration of land uses as well as the prevalent correlation of MGEs and ARGs (Figures and ), highlighting the critical role of MGEs in structuring ARGs. MGEs are able to pointedly capture ARGs among different populations of bacterial communities and horizontally transfer them to bacterial hosts via plasmids, transposons, or phages, while bacteria with a broad range and nontargetability are capable of randomly receiving ARGs via vertical/horizontal gene transfer to be potential hosts, explaining the relatively low correlation via bacterial taxonomy to diffuse ARGs as compared to MGEs.…”

Section: Discussionmentioning

confidence: 99%

Distinct Assembly Patterns of Soil Antibiotic Resistome Revealed by Land-Use Changes over 30 Years

Fu,

Hu,

Wang

et al. 2024

Environ. Sci. Technol.

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Compared with the ever-growing information about the anthropogenic discharge of nutrients, metals, and antibiotics on the disturbance of antibiotic resistance genes (ARGs), less is known about how the potential natural stressors drive the evolutionary processes of antibiotic resistance. This study examined how soil resistomes evolved and differentiated over 30 years in various land use settings with spatiotemporal homogeneity and minimal human impact. We found that the contents of soil organic carbon, nitrogen, soil microbial biomass, and bioavailable heavy metals, as well as related changes in the antibiotic resistome prevalence including diversity and abundance, declined in the order of grassland > cropland > bareland. Sixty-nine remaining ARGs and 14 mobile genetic elements (MGEs) were shared among three land uses. Multiple factors (i.e., soil properties, heavy metals, bacterial community, and MGEs) contributed to the evolutionary changes of the antibiotic resistome, wherein the resistome profile was dominantly driven by MGEs from both direct and indirect pathways, supported by a partial least-squares path model analysis. Our results suggest that pathways to mitigate ARGs in soils can coincide with land degradation processes, posing a challenge to the common goal of managing our environment sustainably.

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“…More than half of the samples had four or more carbapenemase genes together. Some earlier studies reported some ARGs of β-lactam resistance, quinolone resistance, and colistin resistance in organic manures [ 29 ]; however, reporting the carbapenem resistance gene at this high abundance has not been reported yet. The abundance of carbapenem-resistance genes in Bangladeshi animal husbandry substantiates earlier studies stating that Indian subcontinental countries are endemic with carbapenemase genes in the human-animal-environment interface [ 22 , 30 ].…”

Section: Discussionmentioning

confidence: 99%

Using Quantitative Polymerase Chain Reaction (qPCR) to Identify a Myriad of Carbapenemase Genes in Fresh Cow Dung in Bangladesh

Al Asad,

Siddique Shanta,

Akter

et al. 2024

Cureus

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Introduction The emergence of antimicrobial resistance (AMR) is driven by the selection pressure of frequent uses of antimicrobial agents in healthcare, the food chain, agriculture, fishery, and the food animal industry, which poses a serious health risk for transmission-linked humans and the surrounding environment. Livestock, particularly cattle, play an essential role in the food sector in Bangladesh. The food-animal chains can be the potential routes of exposure to AMR-microorganisms for every domain of one health. Antimicrobial resistance genes (ARGs) can impart a reservoir of AMR within the food supply chain, even without pathogenic microorganisms. This study investigated the history of infection for the last six-month period of antimicrobials utilized in cattle farms and the distribution of selected carbapenemase resistance genes, namely, bla-KPC , bla-IMP , bla-VIM , bla-NDM-1 , bla-SIM , bla-GIM , bla-SPM , and bla-SME , in cattle feces in Bangladesh. Methods A cross-sectional study was designed to analyze ARGs in fresh cow dung samples collected from commercial farms and individual houses in four Bangladesh districts, namely, Dhaka, Gazipur, Manikganj, and Tangail. Types of cattle breeds, their existing diseases, recent antimicrobial uses, and vaccine uses were recorded. DNA was extracted from each cow dung sample using commercial kits (Qiagen GmbH, Germany). Real-time quantitative polymerase chain reaction (RT-qPCR) was employed to assess the eight carbapenem resistance genes in the extracted DNA. The eight carbapenem resistance genes in the extracted DNA were assessed by RT-qPCR using the qTOWER3 thermal cycler (Analytik Jena GmbH, Konrad-Zuse-Straße 1, 07745 Jena, Germany). Results Group A carbapenemase, bla-KPC , was detected in 66.7% of the samples. However, no bla -SME was identified in all of the test samples. Group B metallo carbapenemase, bla-IMP , bla-NDM-1 , bla-VIM , bla-SIM , bla-GIM , and bla-SPM , were in 66.7% (80/120), 49.2% (59/120), 48.3% (58/120), 68.3% (82/120), 58.3% (70/120), and 12.5% (15/120), respectively. Only 8.3% of the tested samples contained no MBL gene; 10% carried a single-type carbapenemase gene; and the remaining 81.7% carried two or more carbapenemase genes concurrently. Co-carriage of four or more genes was found in over 59% of samples. As many as seven genes were found together in 6.7% of samples. ARG detection in commercial cattle samples and household feces is not statistically significant. Conclusions Substantial carbapenem-resistance ARGs were detected in commercially farmed cow dung and household cattle samples. Frequ...

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Prevalent and highly mobile antibiotic resistance genes in commercial organic fertilizers

Cited by 36 publications

References 46 publications

Core and variable antimicrobial resistance genes in the gut microbiomes of Chinese and European pigs

Core and variable antimicrobial resistance genes in the gut microbiomes of Chinese and European pigs

Distinct Assembly Patterns of Soil Antibiotic Resistome Revealed by Land-Use Changes over 30 Years

Using Quantitative Polymerase Chain Reaction (qPCR) to Identify a Myriad of Carbapenemase Genes in Fresh Cow Dung in Bangladesh

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