Antimicrobial resistance (AMR) can develop in deep-pit swine manure storage when bacteria are selectively pressured by unmetabolized antibiotics. Subsequent manure application on row crops is then a source of AMR into soil and downstream runoff water. Therefore, understanding the patterns of diverse antibiotic resistance genes (ARGs) in manure among different farms is important for both interpreting the results of the detection of these genes from previous studies and for the use of these genes as bioindicators of manure borne antibiotic resistance in the environment. Previous studies of manure-associated ARGs are based on limited samples of manures. To better understand the distribution of ARGs between manures, we characterized manures from 48 geographically independent swine farms across Iowa. The objectives of this study were to characterize the distribution of ARGs among these manures and to evaluate what factors in manure management may influence the presence of ARGs in manures. Our analysis included quantification of two commonly found ARGs in swine manure, ermB and tetM . Additionally, we characterized a broader suite of 31 ARGs which allowed for simultaneous assays of the presence or absence of multiple genes. We found the company integrator had a significant effect on both ermB ( P=0.0007 ) and tetM gene concentrations ( P=0.0425 ). Our broad analysis on ARG profiles found that the tet(36) gene was broadly present in swine manures, followed by the detection of tetT , tetM , erm(35) , ermF , ermB , str , aadD , and intl3 in samples from 14 farms. Finally, we provide a comparison of methods to detect ARGs in manures, specifically comparing conventional and high-throughput qPCR and discuss their role in ARG environmental monitoring efforts. Results of this study provide insight into commonalities of ARG presence in manure holding pits and provide supporting evidence that company integrator decisions may impact ARG concentrations.
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Co-occurrence of antimicrobials and metals as potential drivers of antimicrobial resistance in swine farms
The application of animal manures to cropland is an important nutrient recycling strategy in many parts of the world. Commonly, aggregated manure wastes contain chemical stressors including veterinary antimicrobials, heavy metals, and antimicrobial resistance genes (ARGs) that can stimulate the development and proliferation of antimicrobial resistance (AMR). While the presence of antimicrobials in manure is well-documented, the co-occurrence of other potentially impactful chemical stressors in swine manure remains underreported. This study quantifies and analyzes correlations between antimicrobials, metals, and certain ARGs present in manure samples from swine farms in Iowa, United States. Relationships between chemical stressors and different stages of swine production or feed composition are also investigated. Results revealed substantial levels of tetracyclines [up to 1,260 µg g −1 dry weight (d.w.) of manure for oxytetracycline] detected in all samples. Tiamulin, two ionophores (monensin and lasalocid), and one macrolide (tilmicosin) were detected at maximum class concentrations of 9.4, 0.547, and 0.472 µg g −1 d.w., respectively. The median relative abundances of ermB and tetM were 0.13 and 0.17 copies g −1 wet weight (w.w.) manure (normalized to 16S gene), respectively. Additionally, high levels of copper (Cu), iron (Fe), and zinc (Zn) were detected in all samples, with maximum concentrations of 887, 1,900, and 2,100 µg g −1 d.w., respectively. Notably, uranium (U) was detected in 11 samples, at concentrations up to 0.77 µg g −1 . A global analysis of AMR-stressor relationships using Spearman’s rank correlation indicates Cu, and Ba are the most positively and significantly correlated with cytotoxic anhydrotetracycline (ATC) and/or anhydrochlortetracycline (ACTC) concentrations in all tested facilities (Cu-ATC: ρ = 0.67, p = 0.0093; Cu-ACTC: ρ = 0.75, p = 0.0022; Ba-ATC: ρ = 0.84, p = 0.0002). Interestingly, ermB and tetM genes were strongly, positively correlated to each other ( ρ = 0.92, p < 0.0001), suggesting possible co-selection, despite the absence of correlation between ARGs and tetracycline concentrations. This study demonstrates the complexity of interactions between antimicrobials, metals, and ARGs in multiple manure storage pits prior to cropland application.
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- Award ID(s):
- 1828942
- PAR ID:
- 10444301
- Date Published:
- Journal Name:
- Frontiers in Environmental Science
- Volume:
- 10
- ISSN:
- 2296-665X
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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- Free Publicly Accessible Full Text
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Accepted Manuscript1.0
- Journal Article:
- https://doi.org/10.3389/fenvs.2022.1018739
