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Shrivas VL, Choudhary AK, Hariprasad P, Sharma S. Transmission of antibiotic resistance through organic amendments in arable land: A 3-year field study with pigeonpea-wheat cropping system. JOURNAL OF HAZARDOUS MATERIALS 2024; 471:134378. [PMID: 38691926 DOI: 10.1016/j.jhazmat.2024.134378] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2024] [Revised: 04/19/2024] [Accepted: 04/20/2024] [Indexed: 05/03/2024]
Abstract
The worldwide emergence of antimicrobial resistance (AMR) poses a substantial risk to human health and environmental stability. In agriculture, organic amendments (derived from organic sources such as manure, and plant residues) are beneficial in restoring soil properties and providing essential nutrients to crops but raise concerns about harboring antibiotic resistance, which emphasizes the need for vigilant monitoring and strategic interventions in their application. The current study assessed the impact of farming practices (organic and conventional) in a three-year field experiment with pigeonpea-wheat cropping system, focusing on the transmission of AMR using culture-dependent and -independent approaches, and soil nutrient content. Markers for antibiotic resistance genes (ARGs) (aminoglycoside-aacA, β-lactam-blaTEM, chloramphenicol-cmlA1, macrolide-ermB, sulfonamides-sul1, sul2, and tetracycline-tetO) and integrons (intl1 and intl2) were targeted using qPCR. Manure amendments, particularly FYM1, exhibited a higher abundance of copies of ARGs compared to the rhizospheric soil. Organic farming was associated with higher copies of intl2, sul1, blaTEM, and tetO genes, while conventional farming showed increased copies of sul2 and ermB genes in the rhizosphere. Significant positive correlations were observed among soil nutrient contents, ARGs, and MGEs. The notable prevalence of ARGs linked to manure amendments serves as a cautionary note, demanding responsible management practices.
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Affiliation(s)
- Vijay Laxmi Shrivas
- Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology Delhi, New Delhi 110016, India; Centre for Rural Development and Technology, Indian Institute of Technology Delhi, New Delhi 110016, India
| | - Anil K Choudhary
- Division of Agronomy, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - P Hariprasad
- Centre for Rural Development and Technology, Indian Institute of Technology Delhi, New Delhi 110016, India
| | - Shilpi Sharma
- Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology Delhi, New Delhi 110016, India.
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Gao X, Zhang H, Xu L, Wang L, Li X, Jiang Y, Yu H, Zhu G. Impact of earthworms on antibiotic resistance genes removal in ampicillin-contaminated soil through bacterial community alteration. JOURNAL OF ENVIRONMENTAL QUALITY 2024. [PMID: 38708516 DOI: 10.1002/jeq2.20567] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Accepted: 04/09/2024] [Indexed: 05/07/2024]
Abstract
The emergence of antibiotic resistance genes (ARGs) as contaminants in soil poses a significant threat to public health. Earthworms (Eisenia foetida), which are common inhabitants of soil, have been extensively studied for their influence on ARGs. However, the specific impact of earthworms on penicillin-related ARGs remains unclear. In this study, we investigate the role of earthworms in mitigating ARGs, specifically penicillin-related ARGs, in ampicillin-contaminated soil. Utilizing high-throughput quantitative PCR (HT-qPCR), we quantified a significant reduction in the relative abundance of penicillin-related ARGs in soil treated with earthworms, showing a decrease with a p-value of <0.01. Furthermore, high-throughput 16S rRNA gene sequencing revealed that earthworm intervention markedly alters the microbial community structure, notably enhancing the prevalence of specific bacterial phyla such as Proteobacteria, Firmicutes, Chloroflexi, and Tenericutes. Our findings not only demonstrate the effectiveness of earthworms in reducing the environmental load of penicillin-related ARGs but also provide insight into the alteration of microbial communities as a potential mechanism. This research contributes to our understanding of the role of earthworms in mitigating the spread of antibiotic resistance and provides valuable insights for the development of strategies to combat this global health issue.
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Affiliation(s)
- Xuan Gao
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases and Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, Anhui Normal Unversity, Wuhu, China
| | - Hong Zhang
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases and Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, Anhui Normal Unversity, Wuhu, China
| | - Longhui Xu
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases and Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, Anhui Normal Unversity, Wuhu, China
| | - Lida Wang
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases and Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, Anhui Normal Unversity, Wuhu, China
- Hefei Yuanzai Biotechnology Co., Ltd., Hefei, China
| | - Xiqing Li
- Hefei Yuanzai Biotechnology Co., Ltd., Hefei, China
| | - Yongbin Jiang
- Engineering Research Center of Biofilm Water Purification and Utilization Technology of Ministry of Education, Anhui University of Technology, Ma'anshan, China
| | - Hongmei Yu
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases and Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, Anhui Normal Unversity, Wuhu, China
| | - Guoping Zhu
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases and Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, Anhui Normal Unversity, Wuhu, China
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Fan Q, Zhang J, Shi H, Chang S, Hou F. Metagenomic Profiles of Yak and Cattle Manure Resistomes in Different Feeding Patterns before and after Composting. Appl Environ Microbiol 2023; 89:e0064523. [PMID: 37409977 PMCID: PMC10370317 DOI: 10.1128/aem.00645-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2023] [Accepted: 06/04/2023] [Indexed: 07/07/2023] Open
Abstract
Antibiotic resistance is a global threat to public health, with antibiotic resistance genes (ARGs) being one of the emerging contaminants; furthermore, animal manure is an important reservoir of biocide resistance genes (BRGs) and metal resistance genes (MRGs). However, few studies have reported differences in the abundance and diversity of BRGs and MRGs between different types of animal manure and the changes in BRGs and MRGs before and after composting. This study employed a metagenomics-based approach to investigate ARGs, BRGs, MRGs, and mobile genetic elements (MGEs) of yak and cattle manure before and after composting under grazing and intensive feeding patterns. The total abundances of ARGs, clinical ARGs, BRGs, MRGs, and MGEs were lower in the manure of grazing livestock than in the manure of the intensively fed group. After composting, the total abundances of ARGs, clinical ARGs, and MGEs in intensively fed livestock manure decreased, whereas those of ARGs, clinical ARGs, MRGs, and MGEs increased in grazing livestock manure. The synergy between MGEs mediated horizontal gene transfer and vertical gene transmission via host bacteria proliferation, which was the main driver that altered the abundance and diversity of ARGs, BRGs, and MRGs in livestock manure and compost. Additionally, tetQ, IS91, mdtF, and fabK were potential indicators for estimating the total abundance of clinical ARGs, BRGs, MRGs, and MGEs in livestock manure and compost. These findings suggest that grazing livestock manure can be directly discharged into the fields, whereas intensively fed livestock manure should be composted before returning to the field. IMPORTANCE The recent increase in the prevalence of antibiotic resistance genes (ARGs), biocide resistance genes (BRGs), and metal resistance genes (MRGs) in livestock manure poses risks to human health. Composting is known to be a promising technology for reducing the abundance of resistance genes. This study investigated the differences and changes in the abundances of ARGs, BRGs, and MRGs between yak and cattle manure under grazing and intensive feeding patterns before and after composting. The results indicate that the feeding pattern significantly affected the abundances of resistance genes in livestock manure. Manure in intensive farming should be composted before being discharged into the field, while grazing livestock manure is not suitable for composting due to an increased number of resistance genes.
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Affiliation(s)
- Qingshan Fan
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Jing Zhang
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Hairen Shi
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Shenghua Chang
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Fujiang Hou
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
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Xu M, Xiang Q, Xu F, Guo L, Carter LJ, Du W, Zhu C, Yin Y, Ji R, Wang X, Guo H. Elevated CO 2 alleviated the dissemination of antibiotic resistance genes in sulfadiazine-contaminated soil: A free-air CO 2 enrichment study. JOURNAL OF HAZARDOUS MATERIALS 2023; 450:131079. [PMID: 36857828 DOI: 10.1016/j.jhazmat.2023.131079] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Revised: 02/13/2023] [Accepted: 02/22/2023] [Indexed: 06/18/2023]
Abstract
Climate change affects soil microbial communities and their genetic exchange, and subsequently modifies the transfer of antibiotic resistance genes (ARGs) among bacteria. However, how elevated CO2 impacts soil antibiotic resistome remains poorly characterized. Here, a free-air CO2 enrichment system was used in the field to investigate the responses of ARGs profiles and bacterial communities to elevated CO2 (+200 ppm) in soils amended with sulfadiazine (SDZ) at 0, 0.5 and 5 mg kg-1. Results showed that SDZ exposure induced the co-occurrence of beta-lactamase and tetracycline resistance genes, and SDZ at 5 mg kg-1 enhanced the abundance of aminoglycoside, sulfonamide and multidrug resistance genes. However, elevated CO2 weakened the effects of SDZ at 0.5 mg kg-1 following an observed reduction in the total abundance of ARGs and mobile genetic elements. Additionally, elevated CO2 significantly decreased the abundance of vancomycin resistance genes and alleviated the stimulation of SDZ on the dissemination of aminoglycoside resistance genes. Correlation analysis and structural equation models revealed that elevated CO2 could directly influence the spread of ARGs or impose indirect effects on ARGs by affecting soil properties and bacterial communities. Overall, our results furthered the knowledge of the dissemination risks of ARGs under future climate scenarios.
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Affiliation(s)
- Meiling Xu
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China; College of Environmental Science and Engineering, Yangzhou University, Yangzhou 225127, China
| | - Qian Xiang
- Key Laboratory of Urban Environment and Health, Ningbo Urban Environment Observation and Research Station, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China; Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control, CAS Haixi Industrial Technology Innovation Center in Beilun, Ningbo 315830, China
| | - Fen Xu
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Lei Guo
- Department of Cadre Ward, Eastern Theater General Hospital of Chinese People's Liberation Army, Nanjing 210002, China
| | - Laura J Carter
- School of Geography, Faculty of Environment, University of Leeds, Leeds LS2 9JT, UK
| | - Wenchao Du
- School of Environment, Nanjing Normal University, Nanjing 210023, China
| | - Chunwu Zhu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Science, Nanjing 210008, China
| | - Ying Yin
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Rong Ji
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Xiaozhi Wang
- College of Environmental Science and Engineering, Yangzhou University, Yangzhou 225127, China
| | - Hongyan Guo
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China; Joint International Research Centre for Critical Zone Science-University of Leeds and Nanjing University, Nanjing University, Nanjing 210023, China.
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Azhogina T, Sazykina M, Konstantinova E, Khmelevtsova L, Minkina T, Antonenko E, Sushkova S, Khammami M, Mandzhieva S, Sazykin I. Bioaccessible PAH influence on distribution of antibiotic resistance genes and soil toxicity of different types of land use. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:12695-12713. [PMID: 36114974 DOI: 10.1007/s11356-022-23028-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Accepted: 09/10/2022] [Indexed: 06/15/2023]
Abstract
For a better understanding of the dissemination of antibiotic resistance genes (ARGs) in natural microbial communities, it is necessary to study the factors influencing it. There are not enough studies showing the connection of some pollutants with the dissemination of ARGs and especially few works on the effect of polycyclic aromatic compounds (PAHs) on the spread of resistance in microbiocenosis. In this respect, the aim of the study was to determine the effect of bioaccessible PAHs on soil resistome. The toxicity and the content of bioaccessible PAHs and ARGs were studied in 64 samples of soils of different types of land use in the Rostov Region of Russia. In most soils, a close positive correlation was demonstrated between different ARGs and bioaccessible PAHs with different content of rings in the structure. Six of the seven studied ARGs correlated with the content of 2-, 3-, 4-, 5- or 6-ring PAHs. The greatest number of close correlations was found between the content of PAHs and ARGs in the soils of protected areas, for agricultural purposes, and in soils of hospitals. The diverse composition of microbial communities in these soils might greatly facilitate this process. A close correlation between various toxic effects identified with a battery of whole-cell bacterial biosensors and bioaccessible PAHs of various compositions was established. This correlation showed possible mechanisms of PAHs' influence on microorganisms (DNA damage, oxidative stress, etc.), which led to a significant increase in horizontal gene transfer and spread of some ARGs in soil microbial communities. All this information, taken together, suggests that bioaccessible PAHs can enhance the spread of antibiotic resistance genes.
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Affiliation(s)
- Tatiana Azhogina
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Marina Sazykina
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation.
| | - Elizaveta Konstantinova
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Ludmila Khmelevtsova
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Tatiana Minkina
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Elena Antonenko
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Svetlana Sushkova
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Margarita Khammami
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Saglara Mandzhieva
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
| | - Ivan Sazykin
- Southern Federal University, 194/2 Stachki Avenue, Rostov-on-Don, 344090, Russian Federation
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Yao H, Jiang J, Wang H, Wei T, Sangeetha T, Sun P, Jia F, Liu F, Fang F, Guo J. An emerging unrated mobile reservoir for antibiotic resistant genes: Does transportation matter to the spread. ENVIRONMENTAL RESEARCH 2022; 213:113634. [PMID: 35697082 DOI: 10.1016/j.envres.2022.113634] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Revised: 05/22/2022] [Accepted: 06/05/2022] [Indexed: 06/15/2023]
Abstract
The regional distribution of antibiotic resistance genes has been caused by the use and preference of antibiotics. Not only environmental factors, but also the population movement associated with transportation development might have had a great impact, but yet less is known regarding this issue. This research study has investigated and reported that the high-speed railway train was a possible mobile reservoir of bacteria with antibiotic resistance, based on the occurrence, diversity, and abundance of antibiotic resistant bacteria (ARB), antibiotic resistance genes (ARGs), and mobile gene elements (MGEs) in untreated train wastewater. High-throughput 16S rRNA sequencing analyses have indicated that opportunistic pathogens like Pseudomonas and Enterococcuss were the predominant bacteria in all samples, especially in cultivable multi-antibiotic resistant bacteria. The further isolated Enterococcus faecalis and Enterococcus faecium exhibited multi-antibiotic resistance ability, potentially being an indicator for disinfection proficiency. Positive correlations amongst ARGs and MGEs were observed, such as between intI1 and tetW, tetA, blaTEM, among Tn916/154 and mefA/F, qnrS, implying a broad dissemination of multi-ARGs during transportation. The study findings suggested that the high-speed railway train wastewater encompassed highly abundant antibiotic-resistant pathogens, and the wastewater discharge without effective treatment may pose severe hazards to human health and ecosystem safety.
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Affiliation(s)
- Hong Yao
- Beijing International Scientific and Technological Cooperation Base of Water Pollution Control Techniques for Antibiotics and Resistance Genes, Beijing Key Laboratory of Aqueous Typical Pollutants Control and Water Quality Safeguard, School of Environment, Beijing Jiaotong University, Beijing, 100044, China.
| | - Jie Jiang
- Beijing International Scientific and Technological Cooperation Base of Water Pollution Control Techniques for Antibiotics and Resistance Genes, Beijing Key Laboratory of Aqueous Typical Pollutants Control and Water Quality Safeguard, School of Environment, Beijing Jiaotong University, Beijing, 100044, China
| | - Hui Wang
- SINOPEC Research Institute of Petroleum Processing, Beijing, 100083, China
| | - Ting Wei
- Beijing International Scientific and Technological Cooperation Base of Water Pollution Control Techniques for Antibiotics and Resistance Genes, Beijing Key Laboratory of Aqueous Typical Pollutants Control and Water Quality Safeguard, School of Environment, Beijing Jiaotong University, Beijing, 100044, China
| | - Thangavel Sangeetha
- Research Center of Energy Conservation for New Generation of Residential, Commercial, and Industrial Sectors, Department of Energy and Refrigerating Air-Conditioning Engineering, National Taipei University of Technology, Taipei, 10608, Taiwan
| | - Peizhe Sun
- Beijing International Scientific and Technological Cooperation Base of Water Pollution Control Techniques for Antibiotics and Resistance Genes, Beijing Key Laboratory of Aqueous Typical Pollutants Control and Water Quality Safeguard, School of Environment, Beijing Jiaotong University, Beijing, 100044, China; School of Environmental Science and Engineering, Tianjin University, Tianjin, 300072, China
| | - Fangxu Jia
- Beijing International Scientific and Technological Cooperation Base of Water Pollution Control Techniques for Antibiotics and Resistance Genes, Beijing Key Laboratory of Aqueous Typical Pollutants Control and Water Quality Safeguard, School of Environment, Beijing Jiaotong University, Beijing, 100044, China
| | - Fang Liu
- Beijing International Scientific and Technological Cooperation Base of Water Pollution Control Techniques for Antibiotics and Resistance Genes, Beijing Key Laboratory of Aqueous Typical Pollutants Control and Water Quality Safeguard, School of Environment, Beijing Jiaotong University, Beijing, 100044, China
| | - Fang Fang
- College of Life Sciences and Bioengineering, Beijing Jiaotong University, Beijing, 100044, China
| | - Jianhua Guo
- Advanced Water Management Centre (AWMC), University of Queensland, St Lucia, Brisbane, QLD, 4072, Australia
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Qi Z, Le Z, Han F, Qi Y, Liu R. β-lactamase genes transmission influenced by tetracycline, sulfonamide and β-lactams antibiotics contamination in the on-site farm soil. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2022; 241:113753. [PMID: 35687999 DOI: 10.1016/j.ecoenv.2022.113753] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Revised: 05/04/2022] [Accepted: 06/05/2022] [Indexed: 06/15/2023]
Abstract
The prevalence of antibiotic resistance genes (ARGs), which have been identified as emerging environmental pollutants that pose a considerable risk to human health is widespread. The formation and transmission of ARGs are mainly associated with the antibiotic stress in an environment. And the abundance of ARGs also influenced by other categories antibiotics. The geographic information system was used to visualize the relative abundance of 28 types of ARGs and concentration of 18 types of antibiotics. The concentration of tetracycline antibiotics (TCs) and sulfonamide antibiotics (SAs) decreased gradually with increasing soil depth, while that of β-lactams (β-Ls) showed an increasing trend. The results revealed that TCs accounted for the largest proportion of all antibiotics. Furthermore, the abundance of β-lactam ARGs (β-RGs) increased with TCs and β-Ls increased. The abundance of tetracycline ARGs (TRGs) remained relatively stable with increasing concentrations of all antibiotics, while that of sulfonamide ARGs (SRGs) showed a decreasing trend. Although the abundance of β-RGs significantly increased with increasing levels of TCs and β-Ls. However, β-RGs were not significantly correlated with β-Ls, but with TCs. This study provided visual and comprehensive insights into the correlation between the distribution of typical antibiotics and ARGs and analyzed the synergy or antagonism between different antibiotics and ARGs. It is significant for soil remediation to reduce the likelihood of ARGs entering into and spreading in the human food chain via milk and beef consumption.
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Affiliation(s)
- Zheng Qi
- Engineering Research Center for Medicine, Ministry of Education, Harbin University of Commerce, 138 Tongda Street, Daoli District, Harbin 150076, China.
| | - Zhiwei Le
- Engineering Research Center for Medicine, Ministry of Education, Harbin University of Commerce, 138 Tongda Street, Daoli District, Harbin 150076, China
| | - Furui Han
- Engineering Research Center for Medicine, Ministry of Education, Harbin University of Commerce, 138 Tongda Street, Daoli District, Harbin 150076, China
| | - Yue Qi
- Engineering Research Center for Medicine, Ministry of Education, Harbin University of Commerce, 138 Tongda Street, Daoli District, Harbin 150076, China
| | - Rijia Liu
- Engineering Research Center for Medicine, Ministry of Education, Harbin University of Commerce, 138 Tongda Street, Daoli District, Harbin 150076, China.
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8
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Kang Y, Xu W, Zhang Y, Tang X, Bai Y, Hu J. Bloom of tetracycline resistance genes in mudflats following fertilization is attributed to the increases in the shared potential hosts between soil and organic fertilizers. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:13292-13304. [PMID: 34585344 DOI: 10.1007/s11356-021-16676-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Accepted: 09/19/2021] [Indexed: 06/13/2023]
Abstract
A field experiment was carried out in mudflats adjacent to the Yellow Sea, China, amended with sewage sludge and vermicompost by one-time input at different rates to reveal the fates of tetracycline resistance genes (TRGs) and their potential hosts in the soils. Quantitative PCR results showed that soils added with either sludge or vermicompost had more abundant TRGs compared with the non-fertilized soil. This situation was more obvious in sludge fertilized soils especially at high application rates. Vermicompost exhibited a promising outlook for improvement of the mudflats. The abundances of intI1 in the non-fertilized soils were significantly higher than those in fertilizers and fertilized soils. The potential hosts for intI1 were not shared with other TRGs-contained hosts, indicating that intI1 had little effects on the dissemination of TRGs in the mudflats. Moreover, the exclusive hosts for TRGs in fertilizers were not higher than those in the non-fertilized soils, illustrating little effects of fertilization on the introduction of exogenous TRGs into soil. The shared hosts between soil and fertilizers were highest among four possible sources, contributing vastly to the bloom of TRGs following fertilization. It was also shown that different organic fertilizers caused distinct categories of shared potential hosts for TRGs. RDA analysis further indicated that the abundances of the shared potential hosts were affected by soil nutrients. These results suggested that the development of TRGs in soil following fertilization depended on the shared potential hosts with similar ecological niches between soil and fertilizers.
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Affiliation(s)
- Yijun Kang
- Environmental Science & Engineering, Yangzhou University, Yangzhou, Jiangsu, People's Republic of China
- Yancheng Bioengineering Research Center for 'Binhai Bai-shou-wu', Yancheng Teachers University, Yancheng, Jiangsu, People's Republic of China
| | - Wenjie Xu
- Environmental Science & Engineering, Yangzhou University, Yangzhou, Jiangsu, People's Republic of China
| | - Yang Zhang
- Environmental Science & Engineering, Yangzhou University, Yangzhou, Jiangsu, People's Republic of China
| | - Xingyao Tang
- Yancheng Bioengineering Research Center for 'Binhai Bai-shou-wu', Yancheng Teachers University, Yancheng, Jiangsu, People's Republic of China
| | - Yanchao Bai
- Environmental Science & Engineering, Yangzhou University, Yangzhou, Jiangsu, People's Republic of China
| | - Jian Hu
- Environmental Science & Engineering, Yangzhou University, Yangzhou, Jiangsu, People's Republic of China.
- Yancheng Teachers University, 2 South Hope Avenue, Yancheng, Jiangsu, People's Republic of China, 224007.
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9
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Zhou H, Li X, Jin H, She D. Mechanism of a double-channel nitrogen-doped lignin-based carbon on the highly selective removal of tetracycline from water. BIORESOURCE TECHNOLOGY 2022; 325:124710. [PMID: 34979279 DOI: 10.1016/j.biortech.2021.124710] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2020] [Revised: 01/06/2021] [Accepted: 01/08/2021] [Indexed: 05/26/2023]
Abstract
A high-performance nitrogen-doped lignin-based carbon material (ILAC-N) was synthesized using industrial lignin and urea by hydrothermal and activation, as an absorbent of tetracycline hydrochloride (TC). The results showed that the ILAC-N comprises a double-channeled structure with micro and mesopores. It exhibits an excellent adsorption capacity of TC across a wide pH range (pH 2-11), with the highest adsorption capacity of 1396 mg g-1 at 323 K. Tests in actual wastewater showed that the TC removal rate by ILAC-N exceeded 97.4%. Moreover, it maintained a removal rate of 84% after 10 regeneration cycles, revealing its high reusability. Mechanisms suggested that pore filling and π-π interaction played a critical role in this process. In conclusion, ILAC-N can be broadly applied to livestock manure and pharmaceutical wastewater treatment, owing to its high adsorption capacity, good adsorption properties across a wide pH range, excellent reusability. Furthermore, this research opens a new path for lignin utilization.
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Affiliation(s)
- Hanjun Zhou
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, PR China
| | - Xianzhen Li
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, PR China
| | - Haoting Jin
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, PR China
| | - Diao She
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Northwest A&F University, Yangling 712100, PR China; Institute of Soil and Water Conservation, CAS&MWR, Yangling 712100, PR China.
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10
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Black Z, Balta I, Black L, Naughton PJ, Dooley JSG, Corcionivoschi N. The Fate of Foodborne Pathogens in Manure Treated Soil. Front Microbiol 2021; 12:781357. [PMID: 34956145 PMCID: PMC8702830 DOI: 10.3389/fmicb.2021.781357] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Accepted: 11/22/2021] [Indexed: 12/25/2022] Open
Abstract
The aim of this review was to provide an update on the complex relationship between manure application, altered pathogen levels and antibiotic resistance. This is necessary to protect health and improve the sustainability of this major farming practice in agricultural systems based on high levels of manure production. It is important to consider soil health in relation to environment and land management practices in the context of the soil microflora and the introduction of pathogens on the health of the soil microbiome. Viable pathogens in manure spread on agricultural land may be distributed by leaching, surface run-off, water source contamination and contaminated crop removal. Thus it is important to understand how multiple pathogens can persist in manures and on soil at farm-scale and how crops produced under these conditions could be a potential transfer route for zoonotic pathogens. The management of pathogen load within livestock manure is a potential mechanism for the reduction and prevention of outbreaks infection with Escherichia coli, Listeria Salmonella, and Campylobacter. The ability of Campylobacter, E. coli, Listeria and Salmonella to combat environmental stress coupled with their survival on food crops and vegetables post-harvest emphasizes the need for further study of these pathogens along with the emerging pathogen Providencia given its link to disease in the immunocompromised and its’ high levels of antibiotic resistance. The management of pathogen load within livestock manure has been widely recognized as a potential mechanism for the reduction and prevention of outbreaks infection but any studies undertaken should be considered as region specific due to the variable nature of the factors influencing pathogen content and survival in manures and soil. Mediocre soils that require nutrients could be one template for research on manure inputs and their influence on soil health and on pathogen survival on grassland and in food crops.
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Affiliation(s)
- Zoe Black
- Grassland and Plant Sciences Branch, AFBI Crossnacreevy, Sustainable Agri-Food Sciences Division, Agri-Food and Biosciences Institute, Belfast, United Kingdom.,Bacteriology Branch, Veterinary Sciences Division, Agri-Food and Biosciences Institute, Belfast, United Kingdom.,Nutrition Innovation Centre for Food and Health (NICHE), School of Biomedical Sciences, Ulster University, Coleraine, United Kingdom
| | - Igori Balta
- Bacteriology Branch, Veterinary Sciences Division, Agri-Food and Biosciences Institute, Belfast, United Kingdom.,Faculty of Bioengineering of Animal Resources, Banat University of Animal Sciences and Veterinary Medicine, King Michael I of Romania, Timisoara, Romania
| | - Lisa Black
- Grassland and Plant Sciences Branch, AFBI Crossnacreevy, Sustainable Agri-Food Sciences Division, Agri-Food and Biosciences Institute, Belfast, United Kingdom
| | - Patrick J Naughton
- Nutrition Innovation Centre for Food and Health (NICHE), School of Biomedical Sciences, Ulster University, Coleraine, United Kingdom
| | - James S G Dooley
- Nutrition Innovation Centre for Food and Health (NICHE), School of Biomedical Sciences, Ulster University, Coleraine, United Kingdom
| | - Nicolae Corcionivoschi
- Bacteriology Branch, Veterinary Sciences Division, Agri-Food and Biosciences Institute, Belfast, United Kingdom.,Faculty of Bioengineering of Animal Resources, Banat University of Animal Sciences and Veterinary Medicine, King Michael I of Romania, Timisoara, Romania
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11
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Mei Z, Xiang L, Wang F, Xu M, Fu Y, Wang Z, Hashsham SA, Jiang X, Tiedje JM. Bioaccumulation of Manure-borne antibiotic resistance genes in carrot and its exposure assessment. ENVIRONMENT INTERNATIONAL 2021; 157:106830. [PMID: 34418848 DOI: 10.1016/j.envint.2021.106830] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2021] [Revised: 08/08/2021] [Accepted: 08/13/2021] [Indexed: 05/23/2023]
Abstract
The effect of manure application on the distribution and accumulation of antibiotic resistance genes (ARGs) in tissue of root vegetables remains unclear, which poses a bottleneck in assessing the health risks from root vegetables due to application of manure. Towards this goal, experiments were conducted in pots to investigate the distribution and bioaccumulation of ARGs in carrot tissues due to application of pig manure. The 144 ARGs targeting nine types of antibiotics were quantified by high throughput qPCR in the soil and plant samples. The rhizosphere was a hot spot for ARGs enrichment in the manured soil. The abundance, diversity, and bioaccumulation factors of ARGs in the phyllosphere were significantly higher than those of carrot root skin and tuber. Manure application increased bioaccumulation of 12 ARGs and 2 MGEs in carrot tuber with 124 the highest factor. The application of manure increased transfer of 10 ARGs and 3 MGEs from carrot skin to inner tuber by factors of 0.1-11.8. The average gene copy number of ARGs of per gram carrot root was about 4.8 × 104 and 1.1 × 106 in the control and the manured treatment, respectively. Children and adults may co-ingest 2.7 × 107 and 3.2 × 107 of ARGs copies/d from carrots grown with pig manure, using estimated human intake values. However, peeling may reduce the intake of ARGs by 28-91% and of MGEs by 46-59%. In conclusion, the application of pig manure increased the accumulation of ARGs in the skin of carrots, whereas peeling was an effective strategy to reduce the risk.
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Affiliation(s)
- Zhi Mei
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Leilei Xiang
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Fang Wang
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Min Xu
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yuhao Fu
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Ziquan Wang
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Syed A Hashsham
- Center for Microbial Ecology, Department of Plant, Soil and Microbial Sciences, Michigan State University, MI 48824, USA; Department of Civil and Environmental Engineering, Michigan State University, MI 48824, USA
| | - Xin Jiang
- CAS Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - James M Tiedje
- Center for Microbial Ecology, Department of Plant, Soil and Microbial Sciences, Michigan State University, MI 48824, USA
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12
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Prevalence and Antimicrobial Resistance Profiles of Foodborne Pathogens Isolated from Dairy Cattle and Poultry Manure Amended Farms in Northeastern Ohio, the United States. Antibiotics (Basel) 2021; 10:antibiotics10121450. [PMID: 34943663 PMCID: PMC8698512 DOI: 10.3390/antibiotics10121450] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Revised: 11/17/2021] [Accepted: 11/22/2021] [Indexed: 12/22/2022] Open
Abstract
Foodborne pathogens significantly impact public health globally. Excessive antimicrobial use plays a significant role in the development of the public health crisis of antibiotic resistance. Here, we determined the prevalence and antimicrobial resistance profiles of E. coli O157, Salmonella, L. monocytogenes, and Campylobacter isolated between 2016 and 2020 from small scale agricultural settings that were amended with dairy cattle or poultry manure in Northeastern Ohio. The total prevalence of the foodborne pathogens was 19.3%: Campylobacter 8%, Listeria monocytogenes 7.9%, Escherichia coli O157 1.8%, and Salmonella 1.5%. The prevalence was significantly higher in dairy cattle (87.7%) compared to poultry (12.2%) manure amended farms. Furthermore, the prevalence was higher in manure samples (84%) compared to soil samples (15.9%; p < 0.05). Multiple drug resistance was observed in 73%, 77%, 100%, and 57.3% of E. coli O157, Salmonella, L. monocytogenes, and Campylobacter isolates recovered, respectively. The most frequently observed resistance genes were mphA, aadA, and aphA1 in E. coli O157; blaTEM, tet(B), and strA in Salmonella; penA, ampC, lde, ermB, tet(O), and aadB in L. monocytogenes and blaOXA-61, tet(O), and aadE in Campylobacter. Our results highlight the critical need to address the dissemination of foodborne pathogens and antibiotic resistance in agricultural settings.
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Wang C, Zhu W, Strong PJ, Zhu F, Han X, Hong C, Wang W, Yao Y. Disentangling the Effects of Physicochemical, Genetic, and Microbial Properties on Phase-Driven Resistome Dynamics during Multiple Manure Composting Processes. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:14732-14745. [PMID: 34689552 DOI: 10.1021/acs.est.1c03933] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Composting alters manure-derived antibiotic resistance genes (ARGs) to a certain extent, which is largely dependent upon the composting phase, manure type, microbial phylogeny, and physicochemical properties. However, little is known about how these determinants influence the fate and dynamics of ARGs as well as the mechanisms underlying the ecological process of ARGs during composting. Here, we investigated the temporal patterns of ARGs and their correlations with a series of physicochemical, genetic, and microbial properties during pilot-scale composting of chicken, maggot, bovine, and swine manure. We detected 237 ARGs, 71 of which were co-occurring across all four composting processes and accounted for >80% of the sum of resistome abundance. In support of this ARG co-occurrence, variance partition analyses demonstrated that the manure type explained less resistome variations (5.6%) than the composting phase (21.6%). During the phase-driven resistome dynamics, ARGs showed divergent variations in abundance, and certain beta-lactams and multidrug ARGs were consistently enriched across multiple manure composting processes. Correlation analyses all led to the conclusion that the divergent ARG variations during composting were attributable to the unequal effects of physicochemical properties, mobile elements, and succession of indigenous microbiota, whereas antibiotic residues' effects were marginal. Ultimately, this study determines the relative importance of various key determinants in the phase-driven divergence of ARGs during multiple manure composting processes and demonstrates a clear need to evaluate risks posed by enriched ARGs toward their receiving environments.
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Affiliation(s)
- Cheng Wang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China
| | - Weijing Zhu
- Institute of Environmental Resources and Soil Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - P J Strong
- School of Biology and Environmental Science, Centre for Agriculture and the Bioeconomy, Queensland University of Technology, GPO Box 2432, 2 George St, Brisbane, QLD 4001, Australia
| | - Fengxiang Zhu
- Institute of Environmental Resources and Soil Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Xingguo Han
- Institute of Biogeochemistry and Pollutant Dynamics, Swiss Federal Institute of Technology, Zurich (ETH Zurich), Universitätstrasse 16, 8092 Zurich, Switzerland
| | - Chunlai Hong
- Institute of Environmental Resources and Soil Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Weiping Wang
- Institute of Environmental Resources and Soil Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Yanlai Yao
- Institute of Environmental Resources and Soil Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
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14
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Xu S, Schwinghamer T, Sura S, Cessna AJ, Zvomuya F, Zaheer R, Larney FJ, McAllister TA. Degradation of antimicrobial resistance genes within stockpiled beef cattle feedlot manure. JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART A, TOXIC/HAZARDOUS SUBSTANCES & ENVIRONMENTAL ENGINEERING 2021; 56:1093-1106. [PMID: 34605371 DOI: 10.1080/10934529.2021.1965416] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Revised: 07/27/2021] [Accepted: 07/30/2021] [Indexed: 06/13/2023]
Abstract
Degradation of antimicrobial resistance genes (ARG) in manure from beef cattle administered (kg-1 feed) 44 mg of chlortetracycline (CTC), 44 mg of chlortetracycline plus sulfamethazine (CTCSMZ), 11 mg of tylosin (TYL), or no antimicrobials (Control) was examined. Manure was stockpiled and quantitative PCR (qPCR) was used to assess tetracycline [tet(C), (L), (M), (W)], erythromycin [erm(A), (B), (F), (X)], and sulfamethazine [sul(1), (2)] ARG and 16S rDNA. After 102 d, copies of all ARG decreased by 0.3 to 1.5 log10 copies (g dry matter)-1. Temperature in the interior of piles averaged ≥ 55 °C for 10 d, except for CTCSMZ, but did not reach 55 °C at pile exteriors. Compared to Control, CTCSMZ increased (P < 0.05) tet(C), tet(M), tet(W), sul(1), and sul(2) in stockpiled manure. Copies of 16S rDNA remained higher (P < 0.05) in CTCSMZ than Control for the first 26 d. Levels of most ARG did not differ between the interior and exterior of stockpiles. Our results suggest that stockpiled manure would still introduce ARG to land upon manure application, but at levels lower than if manure was applied fresh.
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Affiliation(s)
- Shanwei Xu
- Alberta Agriculture and Forestry, Lethbridge, Alberta, Canada
| | - Tim Schwinghamer
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, Alberta, Canada
| | - Srinivas Sura
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, Manitoba, Canada
| | - Allan J Cessna
- Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan, Canada
| | - Francis Zvomuya
- Department of Soil Science, University of Manitoba, Winnipeg, Manitoba, Canada
| | - Rahat Zaheer
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, Alberta, Canada
| | - Francis J Larney
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, Alberta, Canada
| | - Tim A McAllister
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, Alberta, Canada
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15
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Dunn FB, Silverman AI. Sunlight Photolysis of Extracellular and Intracellular Antibiotic Resistance Genes tetA and sul2 in Photosensitizer-Free Water. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:11019-11028. [PMID: 34346694 DOI: 10.1021/acs.est.1c00732] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Antibiotic resistance genes (ARGs; the genetic material in bacteria that encode for resistance to antibiotics) have been found in the aquatic environment, raising concerns of an environmental transmission route. In an effort to contribute to models predicting the fate of ARGs in the environment-to design control measures, predict health risks, inform ARG surveillance activities, and prioritize policy interventions-and given the importance of sunlight in damaging DNA, we evaluated the sunlight photolysis kinetics of antibiotic-resistant bacteria (ARB) and ARGs under laboratory conditions, focusing on Escherichia coli SMS-3-5 and its ARGs tetA and sul2. Experiments were conducted in the absence of photosensitizers, and ARG decay rates were quantified by quantitative polymerase chain reaction (qPCR) with short and long amplicon targets. Long amplicon qPCR targets quantified greater photolysis rate constants, due to greater ARG coverage. After a lag phase, intracellular ARG had faster decay rates than extracellular ARG, likely due to the contribution of intracellular indirect photolysis processes. Furthermore, all ARG decay rates were significantly slower than those of E. coli. Decay rate constants and quantum yields are presented as foundational work in the development of models to describe the persistence of ARGs in sunlit, environmental waters.
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Affiliation(s)
- Fiona B Dunn
- Department of Civil and Urban Engineering, Tandon School of Engineering, New York University, Brooklyn, New York 11201, United States
| | - Andrea I Silverman
- Department of Civil and Urban Engineering, Tandon School of Engineering, New York University, Brooklyn, New York 11201, United States
- School of Global Public Health, New York University, New York, New York 10003, United States
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Xue J, Wu J, Hu Y, Sha C, Yao S, Li P, Lin K, Cui C. Occurrence of heavy metals, antibiotics, and antibiotic resistance genes in different kinds of land-applied manure in China. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:40011-40021. [PMID: 33768462 DOI: 10.1007/s11356-021-13307-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Accepted: 03/01/2021] [Indexed: 06/12/2023]
Abstract
Various pollutants remaining in the livestock and poultry manures pose potential threat to the soil ecosystem during land application, whose impact should be appreciated. The occurrence of heavy metals, antibiotics, and antibiotic resistance genes (ARGs) in swine manure (SM), chicken manure (CM), and the SM organic fertilizer (OF) were investigated. The order of total concentrations of antibiotics detected in manures was as follows: SM > CM > OF. The amount of ciprofloxacin (CIP) in SM reached up to 6.61 mg/kg, which only occupied 1% of the antibiotic concentration reported in the past years. The total concentration of thirteen ARGs in CM ranked first, reaching 7.35 × 1011 copies/g, among which the strB gene was detected with the highest concentration. It was worth noting that the qnr ARGs were persistent in OF with the absence of corresponding antibiotics, indicating ARGs were harder to remove than antibiotics during manure composting. Zn and Cu (46.5-843 mg/kg) were obviously higher than other seven heavy metals, and significantly correlated with most ARGs (p < 0.01). This study provided the basic data of the pollution in animal manures that will be land-applied, illuminating the original source of potential risk in soil ecosystem.
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Affiliation(s)
- Jiajia Xue
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resources and Environmental Engineering, East China University of Science and Technology, Shanghai, 200237, China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai, 200092, China
| | - Jianqiang Wu
- Shanghai Academy of Environmental Sciences, 508 Qinzhou Road, Shanghai, 200233, China.
| | - Yaru Hu
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resources and Environmental Engineering, East China University of Science and Technology, Shanghai, 200237, China
| | - Chenyan Sha
- Shanghai Academy of Environmental Sciences, 508 Qinzhou Road, Shanghai, 200233, China
| | - Shijie Yao
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resources and Environmental Engineering, East China University of Science and Technology, Shanghai, 200237, China
| | - Peng Li
- College of Environmental Science and Engineering, Donghua University, 2999 Renmin North Road, Shanghai, 201600, China
| | - Kuangfei Lin
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resources and Environmental Engineering, East China University of Science and Technology, Shanghai, 200237, China
| | - Changzheng Cui
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resources and Environmental Engineering, East China University of Science and Technology, Shanghai, 200237, China.
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai, 200092, China.
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Xu M, Du W, Ai F, Xu F, Zhu J, Yin Y, Ji R, Guo H. Polystyrene microplastics alleviate the effects of sulfamethazine on soil microbial communities at different CO 2 concentrations. JOURNAL OF HAZARDOUS MATERIALS 2021; 413:125286. [PMID: 33592488 DOI: 10.1016/j.jhazmat.2021.125286] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Revised: 01/08/2021] [Accepted: 01/27/2021] [Indexed: 06/12/2023]
Abstract
Microplastics were reported to adsorb antibiotics and may modify their effects on soil systems. But there has been little research investigating how microplastics may affect the toxicities of antibiotics to microbes under future climate conditions. Here, we used a free-air CO2 enrichment system to investigate the responses of soil microbes to sulfamethazine (SMZ, 1 mg kg-1) in the presence of polystyrene microplastics (PS, 5 mg kg-1) at different CO2 concentrations (ambient at 380 ppm and elevated at 580 ppm). SMZ alone decreased bacterial diversity, negatively affected the bacterial structure and inter-relationships, and enriched the sulfonamide-resistance genes (sul1 and sul2) and class 1 integron (intl1). PS, at both CO2 conditions, showed little effect on soil bacteria but markedly alleviated SMZ's adverse effects on bacterial diversity, composition and structure, and inhibited sul1 transmission by decreasing the intl1 abundance. Elevated CO2 had limited modification in SMZ's disadvantages to microbial communities but markedly decreased the sul1 and sul2 abundance. Results indicated that increasing CO2 concentration or the presence of PS affected the responses of soil microbes to SMZ, providing new insights into the risk prediction of antibiotics under future climate conditions.
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Affiliation(s)
- Meiling Xu
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Wenchao Du
- School of Environment, Nanjing Normal University, Nanjing 210023, China.
| | - Fuxun Ai
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Fen Xu
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Jianguo Zhu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Science, Nanjing 210008, China
| | - Ying Yin
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Rong Ji
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Hongyan Guo
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China.
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Macedo G, van Veelen HPJ, Hernandez-Leal L, van der Maas P, Heederik D, Mevius D, Bossers A, Schmitt H. Targeted metagenomics reveals inferior resilience of farm soil resistome compared to soil microbiome after manure application. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 770:145399. [PMID: 33736375 DOI: 10.1016/j.scitotenv.2021.145399] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2020] [Revised: 01/18/2021] [Accepted: 01/20/2021] [Indexed: 05/26/2023]
Abstract
Application of animal manure to soils results in the introduction of manure-derived bacteria and their antimicrobial resistance genes (ARGs) into soils. ResCap is a novel targeted-metagenomic approach that allows the detection of minority components of the resistome gene pool without the cost-prohibitive coverage depths and can provide a valuable tool to study the spread of antimicrobial resistance (AMR) in the environment. We used high-throughput sequencing and qPCR for 16S rRNA gene fragments as well as ResCap to explore the dynamics of bacteria, and ARGs introduced to soils and adjacent water ditches, both at community and individual scale, over a period of three weeks. The soil bacteriome and resistome showed strong resilience to the input of manure, as manuring did not impact the overall structure of the bacteriome, and its effects on the resistome were transient. Initially, manure application resulted in a substantial increase of ARGs in soils and adjacent waters, while not affecting the overall bacterial community composition. Still, specific families increased after manure application, either through the input of manure (e.g., Dysgonomonadaceae) or through enrichment after manuring (e.g., Pseudomonadaceae). Depending on the type of ARG, manure application resulted mostly in an increase (e.g., aph(6)-Id), but occasionally also in a decrease (e.g., dfrB3) of the absolute abundance of ARG clusters (FPKM/kg or L). This study shows that the structures of the bacteriome and resistome are shaped by different factors, where the bacterial community composition could not explain the changes in ARG diversity or abundances. Also, it highlights the potential of applying targeted metagenomic techniques, such as ResCap, to study the fate of AMR in the environment.
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Affiliation(s)
- Gonçalo Macedo
- Department of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Yalelaan 1, 3584 CL Utrecht, the Netherlands; Wetsus, European Centre of Excellence for Sustainable Water Technology, Oostergoweg 9, 8911 MA Leeuwarden, the Netherlands.
| | - H Pieter J van Veelen
- Wetsus, European Centre of Excellence for Sustainable Water Technology, Oostergoweg 9, 8911 MA Leeuwarden, the Netherlands
| | - Lucia Hernandez-Leal
- Wetsus, European Centre of Excellence for Sustainable Water Technology, Oostergoweg 9, 8911 MA Leeuwarden, the Netherlands
| | - Peter van der Maas
- Van Hall Larenstein, University of Applied Sciences, Agora 1, 8901 BV Leeuwarden, the Netherlands
| | - Dick Heederik
- Institute for Risk Assessment Sciences, Utrecht University, Yalelaan 2, 3584, CM, Utrecht, the Netherlands
| | - Dik Mevius
- Department of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Yalelaan 1, 3584 CL Utrecht, the Netherlands; Department of Bacteriology and Epidemiology, Wageningen Bioveterinary Research, Houtribweg 39, 8221 RA Lelystad, the Netherlands
| | - Alex Bossers
- Institute for Risk Assessment Sciences, Utrecht University, Yalelaan 2, 3584, CM, Utrecht, the Netherlands; Department of Infection Biology, Wageningen Bioveterinary Research, Houtribweg 39, 8221 RA Lelystad, the Netherlands
| | - Heike Schmitt
- Centre for Infectious Disease Control, National Institute for Public Health and the Environment (RIVM), Antonie van Leeuwenhoeklaan 9, 3721 MA Bilthoven, the Netherlands
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Kampouris ID, Agrawal S, Orschler L, Cacace D, Kunze S, Berendonk TU, Klümper U. Antibiotic resistance gene load and irrigation intensity determine the impact of wastewater irrigation on antimicrobial resistance in the soil microbiome. WATER RESEARCH 2021; 193:116818. [PMID: 33571903 DOI: 10.1016/j.watres.2021.116818] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2020] [Revised: 01/03/2021] [Accepted: 01/06/2021] [Indexed: 05/23/2023]
Abstract
Treated wastewater (TWW) irrigation is a useful counter-measure against the depletion of freshwater (FW) resources. However, TWW contains several contaminants of emerging concern, such as antibiotic resistant bacteria (ARB) and antibiotic resistant genes (ARGs). Thus, TWW irrigation might promote the spread of antimicrobial resistance in soil environments. In the present work, we hypothesized that the ARG load and irrigation intensity define the effect of TWW irrigation on ARG spread dynamics in soil. This hypothesis was tested using a multiphase approach: a) comparing soil from a full-scale, commercially operated, TWW irrigated field with non-irrigated soil, b) long-term sampling of the TWW irrigated field over one year with different irrigation intensities and intercepted by irrigation breaks and c) laboratory-scale soil microcosms irrigated with TWW compared to FW. Six ARGs, the integrase gene intI1 and the 16S rRNA were quantified using qPCR. In addition, effects of TWW irrigation on bacterial community composition of microcosm-samples were analysed with 16S rRNA amplicon sequencing. The genes sul1, qnrS, blaOXA-58, tet(M) and intI1 were significantly more abundant in the TWW irrigated field soil, whereas blaCTX--M-32 and blaTEM, the least abundant genes in the TWW irrigation, showed higher abundance in the non-irrigated soil. The relative abundance of sul1, qnrS, blaOXA-58, tet(M) and intI1 correlated with TWW irrigation intensity and decreased during irrigation breaks. Despite the decrease, the levels of these genes remained consistently higher than the non-irrigated soil indicating persistence upon their introduction into the soil. Microcosm experiments verified observations from the field study: TWW irrigation promoted the spread of ARGs and intI1 into soil at far elevated levels compared to FW irrigation. However, the impact of TWW irrigation on 16S rRNA absolute abundance and the soil microbial community composition was negligible. In conclusion, the impact of TWW irrigation depends mainly on the introduced ARG load and the irrigation intensity.
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Affiliation(s)
- Ioannis D Kampouris
- Institute for Hydrobiology, Technische Universität Dresden, 01217 Dresden, Germany.
| | - Shelesh Agrawal
- Technische Universität Darmstadt, Institute IWAR, Chair of Wastewater Engineering, Franziska-Braun-Straße 7, 64287 Darmstadt, Germany
| | - Laura Orschler
- Technische Universität Darmstadt, Institute IWAR, Chair of Wastewater Engineering, Franziska-Braun-Straße 7, 64287 Darmstadt, Germany
| | - Damiano Cacace
- Institute for Hydrobiology, Technische Universität Dresden, 01217 Dresden, Germany
| | - Steffen Kunze
- Institute for Hydrobiology, Technische Universität Dresden, 01217 Dresden, Germany
| | - Thomas U Berendonk
- Institute for Hydrobiology, Technische Universität Dresden, 01217 Dresden, Germany
| | - Uli Klümper
- Institute for Hydrobiology, Technische Universität Dresden, 01217 Dresden, Germany.
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Assessing Environmental Factors within the One Health Approach. ACTA ACUST UNITED AC 2021; 57:medicina57030240. [PMID: 33807528 PMCID: PMC7999754 DOI: 10.3390/medicina57030240] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2021] [Revised: 02/25/2021] [Accepted: 02/28/2021] [Indexed: 01/08/2023]
Abstract
Background: One Health is a comprehensive and multisectoral approach to assess and examine the health of animals, humans and the environment. However, while the One Health approach gains increasing momentum, its practical application meets hindrances. This paper investigates the environmental pillar of the One Health approach, using two case studies to highlight the integration of environmental considerations. The first case study pertains to the Danish monitoring and surveillance programme for antimicrobial resistance, DANMAP. The second case illustrates the occurrence of aflatoxin M1 (AFM1) in milk in dairy-producing ruminants in Italian regions. Method: A scientific literature search was conducted in PubMed and Web of Science to locate articles informing the two cases. Grey literature was gathered to describe the cases as well as their contexts. Results: 19 articles and 10 reports were reviewed and informed the two cases. The cases show how the environmental component influences the apparent impacts for human and animal health. The DANMAP highlights the two approaches One Health and farm to fork. The literature provides information on the comprehensiveness of the DANMAP, but highlights some shortcomings in terms of environmental considerations. The AFM1 case, the milk metabolite of the carcinogenic mycotoxin aflatoxin B1, shows that dairy products are heavily impacted by changes of the climate as well as by economic drivers. Conclusions: The two cases show that environmental conditions directly influence the onset and diffusion of hazardous factors. Climate change, treatment of soils, water and standards in slaughterhouses as well as farms can have a great impact on the health of animals, humans and the environment. Hence, it is important to include environmental considerations, for example, via engaging environmental experts and sharing data. Further case studies will help to better define the roles of environment in One Health scenarios.
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Phattarapattamawong S, Chareewan N, Polprasert C. Comparative removal of two antibiotic resistant bacteria and genes by the simultaneous use of chlorine and UV irradiation (UV/chlorine): Influence of free radicals on gene degradation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 755:142696. [PMID: 33059146 DOI: 10.1016/j.scitotenv.2020.142696] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 09/12/2020] [Accepted: 09/27/2020] [Indexed: 06/11/2023]
Abstract
The research aimed to remove antibiotic resistance by the simultaneous use of UV irradiation and chlorine (UV/chlorine). The inactivations of tetracycline resistant bacteria (TRB) during chlorination, UV irradiation, and UV/chlorine was investigated and compared with those of amoxicillin resistant bacteria (AmRB). Similar examination was also conducted for comparing the removals of their resistant genes (i.e., tetM and blaTem). The removals of antibiotic resistance highly depended on chlorine doses and UV intensities. The sufficient chlorine dose (20 mg.L-1) in the chlorination and the UV/chlorine completely inactivated TRB and AmRB (>7.3 log), while the UV irradiation could not achieve the complete disinfection. Microorganisms resistant to different antibiotics exhibit different susceptibility to the disinfection processes. The removals of antibiotic resistant genes (i.e., tetM and blaTem) were more difficult than those of TRB and AmRB. The UV/chlorine was the greatest process for tetM and blaTem removals, followed by chlorination and UV irradiation, respectively. Chlorination decreased the tetM and blaTem by 0.40-1.45 log and 1.04-2.45 log, respectively. The blaTem gene was highly reactive to chlorine, compared with tetM. The UV irradiation caused the tetM and blaTem reductions by 0.32-0.91 log and 0.59-0.96 log, respectively. The UV/chlorine improved the tetM and blaTem removals by 0.98-3.20 log and 1.28-3.36 log, respectively. The •OH contributed to the fraction of tetM and blaTem removals by 48% and 19%, respectively. The effect of reactive chlorine species on the tetM and blaTem removals was minor. The pseudo 1st-order kinetic constants (k') for tetM and blaTem removals by the UV/chlorine were highest. The •OH enhanced the k' values by 120% and 20% for the tetM and blaTem removals, respectively. The study showed the potential use of UV/chlorine for controlling antibiotic resistance.
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Affiliation(s)
- Songkeart Phattarapattamawong
- Department of Environmental Engineering, Faculty of Engineering, King Mongkut's University of Technology Thonburi (KMUTT), Thailand; Center of Excellence on Hazardous Substance Management (HSM), Thailand.
| | - Narissara Chareewan
- Department of Environmental Engineering, Faculty of Engineering, King Mongkut's University of Technology Thonburi (KMUTT), Thailand
| | - Chongrak Polprasert
- Department of Civil Engineering, Faculty of Engineering, Thammasat University, Thailand
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Zhong C, Zhou Y, Zhao J, Fu J, Jiang T, Liu B, Chen F, Cao G. High throughput sequencing reveals the abundance and diversity of antibiotic-resistant bacteria in aquaculture wastewaters, Shandong, China. 3 Biotech 2021; 11:104. [PMID: 33552832 PMCID: PMC7847479 DOI: 10.1007/s13205-021-02656-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Accepted: 01/12/2021] [Indexed: 12/11/2022] Open
Abstract
An innovative investigation was undertaken into the abundance and diversity of high antibiotic-resistant bacteria in aquaculture waters in Shandong Province, China, through cumulation incubation, PCR amplification of 16S rDNA, and high-throughput sequencing. The results showed that Vibrio, Bacillus, Vagococcus, Acinetobacter, Shewanella, Psychrobacter, Lactococcus, Enterococcus, Marinimonus and Myroids were abundant in the aquaculture waters, whereas other phylum including Actinobacteria, Deinococcus-Thermus, Omnitrophica and Nitrospirae had relatively lower abundance. Our studies revealed the presence of different bacteria in different locations in the aquaculture waters, most of which were resistant to multiple antibiotics. That is, the same microbial species from the same aquaculture wastewater can resist different antibiotics. Altogether, a considerable portion of the microbial community were found to be multi-drug resistant. It is essential that the spread of the antibiotic-resistant bacteria is controlled so that the distribution of antibiotic resistance genes to other environments is avoided. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s13205-021-02656-4.
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Affiliation(s)
- Chuanqing Zhong
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan, China
- Resources and Environment Innovation Research Institute, Shandong Jianzhu University, Jinan, China
| | - Yingping Zhou
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan, China
| | - Jia Zhao
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan, China
| | - Jiafang Fu
- College of Biomedical Sciences, Shandong First Medical University and Shandong Academy of Medical Sciences, Jinan, 250117 China
| | - Tianyi Jiang
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan, China
| | - Bing Liu
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan, China
- Resources and Environment Innovation Research Institute, Shandong Jianzhu University, Jinan, China
| | - Feiyong Chen
- Resources and Environment Innovation Research Institute, Shandong Jianzhu University, Jinan, China
| | - Guangxiang Cao
- College of Biomedical Sciences, Shandong First Medical University and Shandong Academy of Medical Sciences, Jinan, 250117 China
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23
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Zhao W, Gu J, Wang X, Hu T, Wang J, Yu J, Dai X, Lei L. Effects of shrimp shell powder on antibiotic resistance genes and the bacterial community during swine manure composting. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 752:142162. [PMID: 33207525 DOI: 10.1016/j.scitotenv.2020.142162] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2020] [Revised: 08/16/2020] [Accepted: 09/01/2020] [Indexed: 06/11/2023]
Abstract
The present study compared the effects of adding shrimp shell powder (SSP) at four levels comprising 0% (CK), 5% (L), 10% (M), and 15% (H) on the abundance of antibiotic resistance genes (ARGs) and the bacterial community succession during swine manure composting. The relative abundances of 5/11 ARGs were reduced in CK, and 7/11 in H. Moreover, the removal rate was enhanced by adding SSP. Thus, H decreased the total abundance of ARGs by 32.68%, whereas CK increased it by 6.31%. Redundancy analysis indicated that mobile genetic elements (MGEs) (46.6%) and the bacterial community (31.1%) mainly explained the changes in ARGs. H enhanced the removal of MGEs, prolonged the thermophilic phase, stabilized copper and zinc, and retained nitrogen. LEfSe analysis and non-metric multidimensional scaling indicated that the bacterial community changed in the composting process, and it was optimized by H. The abundances of the potential bacterial co-hosts (such as Lactobacillus, Corynebacterium_1, and Ornithinicoccus) of ARGs and MGEs were lower and the decomposition of organic matter was higher in H compared with CK. Thus, composting with 15% SSP can reduce the risk of ARGs and improve the practical value for agronomic application.
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Affiliation(s)
- Wenya Zhao
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Jie Gu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China; Research Center of Recycle Agricultural Engineering and Technology of Shaanxi Province, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Xiaojuan Wang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Ting Hu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Jia Wang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Jing Yu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Xiaoxia Dai
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Liusheng Lei
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
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24
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Ondon BS, Li S, Zhou Q, Li F. Sources of Antibiotic Resistant Bacteria (ARB) and Antibiotic Resistance Genes (ARGs) in the Soil: A Review of the Spreading Mechanism and Human Health Risks. REVIEWS OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY 2021; 256:121-153. [PMID: 33948742 DOI: 10.1007/398_2020_60] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Soil is an essential part of our ecosystem and plays a crucial role as a nutrient source, provides habitat for plants and other organisms. Overuse of antibiotics has accelerated the development and dissemination of antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARGs). ARB and ARGs are recognized as emerging environmental contaminants causing soil pollution and serious risks to public health. ARB and ARGs are discharged into soils through several pathways. Application of manure in agriculture is one of the primary sources of ARB and ARGs dissemination in the soil. Different sources of contamination by ARB and ARGs were reviewed and analyzed as well as dissemination mechanisms in the soil. The effects of ARB and ARGs on soil bacterial community were evaluated. Furthermore, the impact of different sources of manure on soil microbial diversity as well as the effect of antibiotics on the development of ARB and ARGs in soils was analyzed. Human health risk assessments associated with the spreading of ARB and ARGs in soils were investigated. Finally, recommendations and mitigation strategies were proposed.
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Affiliation(s)
- Brim Stevy Ondon
- Key Laboratory of Pollution Processes and Environmental Criteria at Ministry of Education, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin, People's Republic of China
| | - Shengnan Li
- Key Laboratory of Pollution Processes and Environmental Criteria at Ministry of Education, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin, People's Republic of China
| | - Qixing Zhou
- Key Laboratory of Pollution Processes and Environmental Criteria at Ministry of Education, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin, People's Republic of China
| | - Fengxiang Li
- Key Laboratory of Pollution Processes and Environmental Criteria at Ministry of Education, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin, People's Republic of China.
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25
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Luo Y, Feng L, Jia R, Yang G, Yang Q, Mu J. Variation in microbial populations and antibiotic resistance genes in mariculture sediments in the present of the seaweed Ulva fasciata and under selective pressure of oxytetracycline. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 204:111114. [PMID: 32798752 DOI: 10.1016/j.ecoenv.2020.111114] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2020] [Revised: 07/29/2020] [Accepted: 07/31/2020] [Indexed: 06/11/2023]
Abstract
The widely distributed seaweed Ulva fasciata has nutrient absorption abilities and can be used in the bioremediation of polluted maricultural environments. This study explored microbial community and antibiotic resistance gene (ARG) variation in mariculture sediments in response to different trace levels (10, 100, and 500 μg L-1) of oxytetracycline (OTC) and the presence of Ulva fasciata. The increase in OTC level promoted nutrient (NO3_-N and PO43--P) removal mainly due to Ulva fasciata adsorption. The abundances of the Euryarchaeota and Planctomycetes phyla in sediments were positively related to the increase in OTC stress, while a negative correlation occurred for the Proteobacteria phylum via metagenomic analysis. Compared with the control system, the increase rates of total ARGs were 3.90%, 7.36% and 13.42% at the OTC levels of 10, 100 and 500 μg L-1, respectively. OTC stress mainly favoured the collateral enrichment of non-corresponding polypeptide and MLS ARGs, mainly due to the enrichment of the phyla Planctomycetes and Euryarchaeota by the synergistic effect of OTC and nutrients. The results of quantitative PCR with tetracycline resistance genes (TRGs) (tetO, tetT, tetPB, tetW and otrA) and a horizontal transfer gene (intl1) demonstrated that all of genes had much higher gene numbers in sediments after 3 months of OTC stress than in those without OTC stress, which was strongly related to the variation in the phyla Bacteroidetes, Gemmatimonadetes and Acidobacteria. The significant correlation between intl1 and the target TRGs is indicative of the important role of the horizontal transfer of integron-resistant genes in the spread of TRGs.
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Affiliation(s)
- Yuqin Luo
- Department of Environment Science and Engineering, Zhejiang Ocean University, Zhoushan, 316022, PR China
| | - Lijuan Feng
- Department of Environment Science and Engineering, Zhejiang Ocean University, Zhoushan, 316022, PR China.
| | - Rong Jia
- Department of Environment Science and Engineering, Zhejiang Ocean University, Zhoushan, 316022, PR China
| | - Guangfeng Yang
- Department of Environment Science and Engineering, Zhejiang Ocean University, Zhoushan, 316022, PR China
| | - Qiao Yang
- Department of Environment Science and Engineering, Zhejiang Ocean University, Zhoushan, 316022, PR China
| | - Jun Mu
- Department of Environment Science and Engineering, Zhejiang Ocean University, Zhoushan, 316022, PR China; School of Ecology and Environment, Hainan Tropical Ocean University, Sanya City, 572022, PR China
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26
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Wei H, Ding S, Qiao Z, Su Y, Xie B. Insights into factors driving the transmission of antibiotic resistance from sludge compost-amended soil to vegetables under cadmium stress. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 729:138990. [PMID: 32380328 DOI: 10.1016/j.scitotenv.2020.138990] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2020] [Revised: 04/23/2020] [Accepted: 04/23/2020] [Indexed: 06/11/2023]
Abstract
Sludge compost is often used as a fertilizer for crops, although it might be enriched with antibiotic resistance genes (ARGs) and heavy metals that cannot be removed through composting. A robust understanding of the factors affecting the transmission of ARGs to vegetables grown in soils treated with sludge products is lacking. In this study, target ARGs in the bulk and rhizosphere soils and endophytes of shallots under heavy metal stress (i.e., Cd) were assessed, and the factors driving the transmission of ARGs were identified. Cd stress resulted in an increase in the relative abundances of target ARGs in the bulk and rhizosphere soils and endophytes. The driving factors were different in soils and plants under different degrees of Cd stress. The fungal community composition was the main driving factor of ARG variation in both bulk and rhizosphere soils. Moreover, endophytic bacteria played a crucial role in transferring ARGs to plants. Higher Cd stress promoted the transfer of most target ARGs from the below-ground plant parts to the above-ground parts. These findings indicate that application of sludge contaminated with heavy metals, such as Cd, can facilitate the dissemination of ARGs into vegetables, which must be considered while assessing the risks to public health.
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Affiliation(s)
- Huawei Wei
- Shanghai Engineering Research Center of Biotransformation of Organic Solid Waste, Shanghai 200241, China; Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China
| | - Sheng Ding
- Shanghai Engineering Research Center of Biotransformation of Organic Solid Waste, Shanghai 200241, China; Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China
| | - Ziru Qiao
- Shanghai Engineering Research Center of Biotransformation of Organic Solid Waste, Shanghai 200241, China; Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China
| | - Yinglong Su
- Shanghai Engineering Research Center of Biotransformation of Organic Solid Waste, Shanghai 200241, China; Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China
| | - Bing Xie
- Shanghai Engineering Research Center of Biotransformation of Organic Solid Waste, Shanghai 200241, China; Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China.
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27
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Hedman HD, Vasco KA, Zhang L. A Review of Antimicrobial Resistance in Poultry Farming within Low-Resource Settings. Animals (Basel) 2020; 10:E1264. [PMID: 32722312 PMCID: PMC7460429 DOI: 10.3390/ani10081264] [Citation(s) in RCA: 80] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Revised: 07/18/2020] [Accepted: 07/20/2020] [Indexed: 12/28/2022] Open
Abstract
The emergence, spread, and persistence of antimicrobial resistance (AMR) remain a pressing global health issue. Animal husbandry, in particular poultry, makes up a substantial portion of the global antimicrobial use. Despite the growing body of research evaluating the AMR within industrial farming systems, there is a gap in understanding the emergence of bacterial resistance originating from poultry within resource-limited environments. As countries continue to transition from low- to middle income countries (LMICs), there will be an increased demand for quality sources of animal protein. Further promotion of intensive poultry farming could address issues of food security, but it may also increase risks of AMR exposure to poultry, other domestic animals, wildlife, and human populations. Given that intensively raised poultry can function as animal reservoirs for AMR, surveillance is needed to evaluate the impacts on humans, other animals, and the environment. Here, we provide a comprehensive review of poultry production within low-resource settings in order to inform future small-scale poultry farming development. Future research is needed in order to understand the full extent of the epidemiology and ecology of AMR in poultry within low-resource settings.
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Affiliation(s)
- Hayden D. Hedman
- Illinois Natural History Survey, Prairie Research Institute, University of Illinois Urbana-Champaign, Champaign, IL 61820, USA
| | - Karla A. Vasco
- Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI 48824, USA; (K.A.V.); (L.Z.)
| | - Lixin Zhang
- Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI 48824, USA; (K.A.V.); (L.Z.)
- Department of Epidemiology and Biostatistics, Michigan State University, East Lansing, MI 48824, USA
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28
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Zhang X, Ma C, Zhang W, Li W, Yu J, Xue D, Wu X, Deng G. Shifts in microbial community, pathogenicity-related genes and antibiotic resistance genes during dairy manure piled up. Microb Biotechnol 2020; 13:1039-1053. [PMID: 32202696 PMCID: PMC7264890 DOI: 10.1111/1751-7915.13551] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2019] [Revised: 02/15/2020] [Accepted: 02/17/2020] [Indexed: 01/02/2023] Open
Abstract
The uncomposted faeces of dairy cow are usually stacked on cow breeding farms, dried under natural conditions and then used as cow bedding material or they may be continuously piled up. However, no information is available to evaluate variations in the human and animal pathogen genes and antibiotic resistance during the accumulation of fresh faeces of dairy cow to manure. Here, we present the metagenomic analysis of fresh faeces and manure from a dairy farm in Ning Xia, showing a unique enrichment of human and animal pathogen genes and antibiotic resistance genes (ARGs) in manure. We found that manure accumulation could significantly increase the diversity and abundance of the pathogenic constituents. Furthermore, pathogens from manure could spread to the plant environment and enphytotic pathogens could affect the yield and quality of crops during the use of manure as a fertilizer. Levels of virulence genes and ARGs increased with the enrichment of microbes and pathogens when faeces accumulated to manure. Accumulated manure was also the transfer station of ARGs to enrich the ARGs in the environment, indicating the ubiquitous presence of environmental antibiotic resistance genes. Our results demonstrate that manure accumulation and usage without effective manure management is an unreasonable approach that could enrich pathogenic microorganisms and ARGs in the environment. The manure metagenome structure allows us to appreciate the overall influence and interaction of animal waste on water, soil and other areas impacted by faecal accumulation and the factors that influence pathogen occurrence in products from dairy cows.
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Affiliation(s)
- Xu Zhang
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
| | - Chenjie Ma
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
| | - Wen Zhang
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
| | - Wu Li
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
| | - Jialin Yu
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
| | - Di Xue
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
| | - Xiaolin Wu
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
| | - Guangcun Deng
- Key Lab of Ministry of Education for Protection and Utilization of Special Biological Resources in Western ChinaNingxia UniversityNingxiaChina
- School of Life ScienceNingxia UniversityNingxiaChina
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29
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Pu Q, Zhao LX, Li YT, Su JQ. Manure fertilization increase antibiotic resistance in soils from typical greenhouse vegetable production bases, China. JOURNAL OF HAZARDOUS MATERIALS 2020; 391:122267. [PMID: 32062545 DOI: 10.1016/j.jhazmat.2020.122267] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/11/2019] [Revised: 02/07/2020] [Accepted: 02/08/2020] [Indexed: 05/21/2023]
Abstract
A large quantity of manure is applied in greenhouse vegetable production (GVP) soils, while manure fertilization often leads to the proliferation of antibiotic resistance genes (ARGs) in soils. However, comprehensive study on the effects of different types of manure on ARGs in GVP soils remains unknown, and the baseline level of ARGs in GVP soil is poorly quantified. This study conducted a comprehensive survey of ARGs in GVP soils using high-throughput quantitative PCR. We found elevated ARG diversity and absolute abundance in fertilized soil, whereas no significant difference in soil ARGs amended with different types of manure. Redundancy analysis indicated that the change of bacterial community compositions and environmental factors contributed partially to the shift in ARG profiles. Bipartite network analysis indicated that one ARG was detected in non-manured soils, while 50 ARGs and 4 mobile gene elements were exclusively detected in fertilized soils, suggesting introduction of ARGs from manure into soils largely explained the increased ARG diversity in fertilized soil. By comparison of ARG absolute abundance between manured and non-manured soil, we estimated the typical level of ARG absolute abundance in non-manured soil, which provided the first rough baseline level of ARGs to assess ARG contamination in GVP soils.
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Affiliation(s)
- Qiang Pu
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, 1799 Jimei Road, Xiamen 361021, China; University of Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049, China
| | - Li-Xia Zhao
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Yong-Tao Li
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China; College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China
| | - Jian-Qiang Su
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, 1799 Jimei Road, Xiamen 361021, China.
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Han L, Liu Y, Fang K, Zhang X, Liu T, Wang F, Wang X. Azoxystrobin dissipation and its effect on soil microbial community structure and function in the presence of chlorothalonil, chlortetracycline and ciprofloxacin. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 257:113578. [PMID: 31806458 DOI: 10.1016/j.envpol.2019.113578] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2019] [Revised: 10/22/2019] [Accepted: 11/04/2019] [Indexed: 06/10/2023]
Abstract
The residual characteristics and the adsorption-desorption behaviors of azoxystrobin (AZO) as well as the soil ecological effects in the individual repeated treatments of AZO and its combination with chlorothalonil (CTL), chlortetracycline (CTC) and ciprofloxacin (CIP) were systematically studied in organic manure (OM)-amended soil under laboratory conditions. The presence of CTL, CTC, and CIP, both individually and combined, decreased the sorption affinity of AZO with the Freundlich adsorption and desorption coefficient decreasing by 0.3-24.2%, and CTC and CIP exhibited greater adverse effects than CTL. AZO dissipated slowly and the residues significantly accumulated during ten repeated treatments. The dissipation of AZO was inhibited to different degrees in the combined treatments. Biolog analysis revealed that the soil microbial functional diversity in the OM-soil + AZO and OM-soil + AZO + CTL treatments was higher than that in the OM-soil treatment during the former three repeated treatments, but which was inhibited during the latter seven repeated treatments. The soil microbial functional diversity in the OM-soil + AZO + CTC, OM-soil + AZO + CIP and OM-soil + AZO + CTL + CTC + CIP treatments was inhibited during the ten repeated treatments compared with OM-soil treatment. Metagenomic results showed that all repeated treatments significantly increased the relative abundance of Actinobacteria, but significantly decreased that of Proteobacteria and Firmicutes during the ten repeated treatments. Furthermore, the relative abundance of soil dominant bacterial genera Rhodococcus, Mycobacterium and Arthrobacter in all the repeated treatments significantly increased by 1.5-1283.9% compared with the OM-soil treatment. It is concluded that coexistence of CTL, CTC and CIP, both individually and combined, with AZO can inhibit the dissipation of AZO, reduce the adsorption affinity of AZO on soil, and alter the soil microbial community structure and functional diversity.
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Affiliation(s)
- Lingxi Han
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Yalei Liu
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Kuan Fang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Xiaolian Zhang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Tong Liu
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Fenglong Wang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Xiuguo Wang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China.
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Duan M, Zhang Y, Zhou B, Wang Q, Gu J, Liu G, Qin Z, Li Z. Changes in antibiotic resistance genes and mobile genetic elements during cattle manure composting after inoculation with Bacillus subtilis. BIORESOURCE TECHNOLOGY 2019; 292:122011. [PMID: 31442833 DOI: 10.1016/j.biortech.2019.122011] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2019] [Revised: 08/11/2019] [Accepted: 08/12/2019] [Indexed: 06/10/2023]
Abstract
This study explored the effects of Bacillus subtilis at four levels (0, 0.5%, 1%, and 2% w/w compost) on the variations in ARGs, mobile genetic elements (MGEs), and the bacterial community during composting. The composting process had a greater impact on ARGs than Bacillus subtilis. The main ARG detected was sul1. The addition of Bacillus subtilis at 0.5% reduced the relative abundances of ARGs, MGEs, and human pathogenic bacteria (by 2-3 logs) in the mature products. Network and redundancy analyses suggested that intI1, Firmicutes, and pH were mainly responsible for the changes in ARGs, thus controlling these factors might help to inhibit the spread of ARGs.
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Affiliation(s)
- Manli Duan
- State Key Laboratory of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
| | - Yuhua Zhang
- State Key Laboratory of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
| | - Beibei Zhou
- State Key Laboratory of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China.
| | - Quanjiu Wang
- State Key Laboratory of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
| | - Jie Gu
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Guohuan Liu
- State Key Laboratory of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
| | - Zhenlun Qin
- State Key Laboratory of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
| | - Zhijian Li
- State Key Laboratory of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
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Duan M, Gu J, Wang X, Li Y, Zhang R, Hu T, Zhou B. Factors that affect the occurrence and distribution of antibiotic resistance genes in soils from livestock and poultry farms. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 180:114-122. [PMID: 31078018 DOI: 10.1016/j.ecoenv.2019.05.005] [Citation(s) in RCA: 56] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2018] [Revised: 04/25/2019] [Accepted: 05/01/2019] [Indexed: 05/21/2023]
Abstract
Livestock manure is generally dumped directly onto open soil or used to enhance the soil fertility. However, there are growing concerns regarding the impact of these practices on the development and dissemination of antibiotic resistance genes (ARGs) in soil. In this study, we sampled soils treated with manure from 10 large-scale farms (pig, beef cattle, and chicken farms) and those from farmland without manure. The results showed that the abundance of ARGs was more than 2.62 times higher in the soil samples treated with livestock manure than the farmland soil without manure. The abundances of ARGs and intI1 in all samples were in the following order: pig farms > chicken farms > beef cattle farms. tetX, sul1, sul2, and tetG were the dominant ARGs in farm soil. The concentrations of tetracycline antibiotics and sulfonamide antibiotics were 0.15-4.76 mg/kg and 0-2.62 mg/kg, respectively, in the soils treated with manure, which were higher than those in farmland soils without manure. Redundancy analysis (P < 0.05) and network analysis (P < 0.01, R > 0.80) demonstrated that copper, zinc, actinomycetes, and tetracycline antibiotics were the main factors that affected the distribution of ARGs in soils treated with livestock manure.
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Affiliation(s)
- Manli Duan
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China; State Key Laboratory Base of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
| | - Jie Gu
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China.
| | - Xiaojuan Wang
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Yang Li
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China; Institute of Earth Environment, Chinese Academy of Sciences, Xi'an 710075, China
| | - Ranran Zhang
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Ting Hu
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Beibei Zhou
- State Key Laboratory Base of Eco-hydraulic Engineering in Arid Area, Xi'an University of Technology, Xi'an 710048, China
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Sun Y, Qiu T, Gao M, Shi M, Zhang H, Wang X. Inorganic and organic fertilizers application enhanced antibiotic resistome in greenhouse soils growing vegetables. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 179:24-30. [PMID: 31022652 DOI: 10.1016/j.ecoenv.2019.04.039] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2019] [Revised: 04/02/2019] [Accepted: 04/11/2019] [Indexed: 06/09/2023]
Abstract
Antibiotic resistance genes (ARGs) and antibiotic-resistant bacteria (ARB) in fertilizers pose risks to human health and their variation in soil after fertilization has been reported. However, some important questions, such as the origin of ARG and ARB observed in soil following fertilization, which are present in soil regardless of fertilizer type (i.e., core (shared) ARGs and ARB), and the contribution of various ARG subtypes to the soil antibiotic resistome, need to be addressed. In this study, the effects of a long-term (9-year) application of organic (manure) and inorganic (chemistry) fertilizers on ARGs in greenhouse soils growing vegetables were investigated using metagenomic sequencing. The results showed that both organic and inorganic fertilizers application increased the diversity and abundance of soil ARGs. The dominant ARG types in organic fertilizer (OF) were different from that in organic fertilizer treated soil (SO), inorganic fertilizer treated soil (SI) and no fertilizer control plots (SC). The difference of core ARGs abundance reflected the variation of ARG profiles among SC, SI and SO. The OF is likely a source of the elevated ARG subtypes in soil and almost all the soil core ARG subtypes can be detected in organic fertilizer. Fifteen ARG types were enriched in the soil with OF, and some ARG subtypes such as sul1, sul2, tetX and tetL might derived from OF while others including as vanR, tcmA, rosB, and mexF might be from indigenous microbes in soil. The nutrition factors were found to influence the ARG profiles in fertilized soil. In summary, this study revealed the possible reason for the soil total ARG numbers and their relative abundance increase after fertilization, which will facilitate the control of ARGs and ARB dissemination.
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Affiliation(s)
- Yanmei Sun
- Beijing Agro-Biotechnology Research Center, Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Tianlei Qiu
- Beijing Agro-Biotechnology Research Center, Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Min Gao
- Beijing Agro-Biotechnology Research Center, Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Mingming Shi
- Beijing Agro-Biotechnology Research Center, Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China; College of Chemical Engineering, Northeast Dianli University, Jilin 132012, China
| | - Haifeng Zhang
- College of Chemical Engineering, Northeast Dianli University, Jilin 132012, China
| | - Xuming Wang
- Beijing Agro-Biotechnology Research Center, Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China.
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Lopatto E, Choi J, Colina A, Ma L, Howe A, Hinsa-Leasure S. Characterizing the soil microbiome and quantifying antibiotic resistance gene dynamics in agricultural soil following swine CAFO manure application. PLoS One 2019; 14:e0220770. [PMID: 31425534 PMCID: PMC6699696 DOI: 10.1371/journal.pone.0220770] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2019] [Accepted: 07/23/2019] [Indexed: 12/16/2022] Open
Abstract
As agriculture industrializes, concentrated animal feeding operations (CAFOs) are becoming more common. Feces from CAFOs is often used as fertilizer on fields. However, little is known about the effects manure has on the soil microbiome, which is an important aspect of soil health and fertility. In addition, due to the subtherapeutic levels of antibiotics necessary to keep the animals healthy, CAFO manure has elevated levels of antibiotic resistant bacteria. Using 16s rRNA high-throughput sequencing and qPCR, this study sought to determine the impact of swine CAFO manure application on both the soil microbiome and abundance of select antibiotic resistance genes (ARGs) and mobile element genes (erm(B), erm(C), sul1, str(B), intI1, IncW repA) in agricultural soil over the fall and spring seasons. We found the manure community to be distinct from the soil community, with a majority of bacteria belonging to Bacteroidetes and Firmicutes. The soil samples had more diverse communities dominated by Acidobacteria, Actinobacteria, Proteobacteria, Verrucomicrobia, and unclassified bacteria. We observed significant differences in the soil microbiome between all time points, except between the spring samples. However, by tracking manure associated taxa, we found the addition of the manure microbiome to be a minor driver of the shift. Of the measured genes, manure application only significantly increased the abundance of erm(B) and erm(C) which remained elevated in the spring. These results suggest bacteria in the manure do not survive well in soil and that ARG dynamics in soil following manure application vary by resistance gene.
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Affiliation(s)
- Edward Lopatto
- Department of Biology, Grinnell College, Grinnell, Iowa, United States of America
| | - Jinlyung Choi
- Department of Agricultural and Biosystems Engineering, Iowa State University, Ames, Iowa, United States of America
| | - Alfredo Colina
- Department of Biology, Grinnell College, Grinnell, Iowa, United States of America
| | - Lanying Ma
- Department of Agricultural and Biosystems Engineering, Iowa State University, Ames, Iowa, United States of America
| | - Adina Howe
- Department of Agricultural and Biosystems Engineering, Iowa State University, Ames, Iowa, United States of America
| | - Shannon Hinsa-Leasure
- Department of Biology, Grinnell College, Grinnell, Iowa, United States of America
- * E-mail:
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Han L, Zhang H, Long Z, Ge Q, Mei J, Yu Y, Fang H. Exploring microbial community structure and biological function in manured soil during ten repeated treatments with chlortetracycline and ciprofloxacin. CHEMOSPHERE 2019; 228:469-477. [PMID: 31051349 DOI: 10.1016/j.chemosphere.2019.04.154] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2018] [Revised: 04/19/2019] [Accepted: 04/20/2019] [Indexed: 06/09/2023]
Abstract
The changes of enzyme activities, microbial community structure and function, and the diversity and resistance level of antibiotic-resistant bacteria (ARB) were studied in soil during ten repeated treatments with chlortetracycline (CTC) and/or ciprofloxacin (CIP) together with organic manure (OM) under laboratory conditions. The activities of neutral phosphatase (NPA) and catalase (CAT) displayed the suppression-recovery-stimulation trend in the OM&CTC treatment but the stimulation trend in the OM&CTC&CIP treatment. The NPA was stimulated but the CAT was little affected in the OM&CIP treatment. Soil microbial functional diversity displayed the suppression-recovery-stimulation trend in the OM&CTC and OM&CTC&CIP treatments and the stimulation-suppression trend in the OM&CIP treatment with the treatment frequency. Metagenomic analysis showed that the relative abundances of Actinobacteria and Firmicutes in the antibiotic treatment significantly increased by 0.5-235.6%, but that of Proteobacteria decreased by 0.2-27.3% compared to the control with the treatment frequency. Furthermore, the relative abundances of dominant bacterial genera including Streptomyces, Actinomadura, Mycobacterium, and Streptococcus in the antibiotic treatment significantly increased by 1.1-10433.3% compared to the control. Meanwhile, repeated antibiotic treatments induced a significant increase in the diversity and resistance level of ARB isolates, especially in the OM&CTC treatment. It is concluded that repeated treatments with CTC and/or CIP can alter enzyme activities, microbial community structure and function, and increase the diversity and resistance level of ARB isolates.
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Affiliation(s)
- Lingxi Han
- Institute of Pesticide and Environmental Toxicology, College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, 310058, China
| | - Houpu Zhang
- Institute of Pesticide and Environmental Toxicology, College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, 310058, China
| | - Zhengnan Long
- Institute of Pesticide and Environmental Toxicology, College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, 310058, China
| | - Qiqing Ge
- Institute of Pesticide and Environmental Toxicology, College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, 310058, China
| | - Jiajia Mei
- Institute of Pesticide and Environmental Toxicology, College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, 310058, China
| | - Yunlong Yu
- Institute of Pesticide and Environmental Toxicology, College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, 310058, China
| | - Hua Fang
- Institute of Pesticide and Environmental Toxicology, College of Agriculture & Biotechnology, Zhejiang University, Hangzhou, 310058, China.
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Zhou Q, Wang M, Zhong X, Liu P, Xie X, Wangxiao J, Sun Y. Dissemination of resistance genes in duck/fish polyculture ponds in Guangdong Province: correlations between Cu and Zn and antibiotic resistance genes. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2019; 26:8182-8193. [PMID: 30697656 DOI: 10.1007/s11356-018-04065-2] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2018] [Accepted: 12/20/2018] [Indexed: 06/09/2023]
Abstract
Duck/fish polyculture farming is a typical farming model in the Pearl River delta in southern China. We examined soil, water, and sediment samples from three duck-fish farms in Guangdong Province in September and December 2014. We determined the abundance of three metal resistance genes, 16S rDNA, and 23 antibiotic resistance genes encoding resistance to tetracycline, sulfonamides, quinolones, chloramphenicol, and β-lactamases. Microbial community structure was quantified by Illumina high-throughput sequencing of 16S rDNA genes. We found a prevalence of antibiotic resistance genes and the sul1, sul2, tetA, tetM, aac(6')-Ib, and floR genes were the most abundant. Levels of Cu and Zn were significantly correlated with numerous ARG types and sul2, floR, and tetM were identified as potential antibiotic resistance gene indicators. Cu levels were significantly and positively correlated with the relative abundance of sul3, tetT, tetW, qnrB, qnrS, fexB, sul1, sul2, tetM, and qnrA. Zn was significantly correlated to relative abundance of sul2, sul3, tetM, tetA, tetT, tetW, qnrA, qnrB, qnrS, aac(6')-Ib, qepA, blaSHV, cmlA, floR, fexA, cfr, and fexB. The levels of Acinetobacter, Brevibacillus, and Wautersiella showed significant positive correlations with metal resistance genes as well as qnrB, oqxA, oqxB, and blaSHV (p > 0.8). Sphingobacterium, Flavobacterium, Acidothermus, and Corynebacterium had significant correlations with abundance of tetracycline resistance genes, sulfonamide resistance genes, blaTEM, blaCTX, and cfr (p > 0.8). Sphingobacterium, Flavobacterium, Acidothermus, and Corynebacterium were most abundant in soil samples while Acinetobacter, Brevibacillus, and Wautersiella were most abundant in water samples. Dissemination of antibiotic resistance genes in aquaculture environments is extensive and tracing their origins is necessary to establish risk assessment methods required for aquatic environmental protection.
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Affiliation(s)
- Qin Zhou
- National Laboratory of safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, Guangzhou, 510642, China
- National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, Guangzhou, 510642, China
| | - Mianzhi Wang
- National Laboratory of safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, Guangzhou, 510642, China
- National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, Guangzhou, 510642, China
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, 510642, China
| | - Xiaoxia Zhong
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, 510642, China
| | - Peng Liu
- National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, Guangzhou, 510642, China
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, 510642, China
| | - Xiying Xie
- National Laboratory of safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, Guangzhou, 510642, China
- National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, Guangzhou, 510642, China
| | - Junyi Wangxiao
- National Laboratory of safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, Guangzhou, 510642, China
- National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, Guangzhou, 510642, China
| | - Yongxue Sun
- National Laboratory of safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, Guangzhou, 510642, China.
- National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, Guangzhou, 510642, China.
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, 510642, China.
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Lu C, Gu J, Wang X, Liu J, Zhang K, Zhang X, Zhang R. Effects of coal gasification slag on antibiotic resistance genes and the bacterial community during swine manure composting. BIORESOURCE TECHNOLOGY 2018; 268:20-27. [PMID: 30064034 DOI: 10.1016/j.biortech.2018.07.086] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2018] [Revised: 07/14/2018] [Accepted: 07/17/2018] [Indexed: 06/08/2023]
Abstract
This study investigated the effects of the addition of coal gasification slag (CGS) at three levels (0%, 5%, and 10% w/w) on antibiotic resistance genes (ARGs) and the bacterial community during composting. The addition of CGS effectively facilitated the removal of ARGs and mobile genetic elements (MGEs), where it significantly reduced the relative abundances of 5/11 ARGs and three MGEs in the swine manure composting product. In addition, the enrichment of ARGs and intI1 was lower under the addition of 10% CGS compared with 0% CGS. The bacterial community was distributed according to the composting time under different treatments. Redundancy analysis showed that bacterial community succession and MGE-mediated horizontal gene transfer played important roles in the variations in ARGs. Network analysis indicated the co-occurrence of ARGs and MGEs with specific microorganisms. Thus, 10% CGS may be a suitable additive for reducing the risks of ARGs in compost products.
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Affiliation(s)
- Chunya Lu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Jie Gu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China; Research Center of Recycle Agricultural Engineering and Technology of Shaanxi Province, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Xiaojuan Wang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Jiayao Liu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Kaiyu Zhang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Xin Zhang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Ranran Zhang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
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Li H, Zhang S, Yang XL, Xu H, Yang YL, Wang YW, Song HL. Simulated wastewater reduced Klebsiella michiganensis strain LH-2 viability and corresponding antibiotic resistance gene abundance in bio-electrochemical reactors. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2018; 162:376-382. [PMID: 30015182 DOI: 10.1016/j.ecoenv.2018.07.018] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2018] [Revised: 06/25/2018] [Accepted: 07/05/2018] [Indexed: 06/08/2023]
Abstract
A previous study revealed that the electrolytic stimulation process in bio-electrochemical reactors (BER) can accelerate growth of sulfadiazine (SDZ) antibiotic resistant bacteria (ARB) in nutrient broth medium. However, the influence of different medium nutrient richness on the fate of ARB and the relative abundance of their corresponding antibiotic resistance genes (ARGs) in this process is unknown. Specifically, it is not clear if the fate of ARB in minimal nutrition simulated wastewater is the same as in nutrient broth under electrolytic stimulation. Therefore, in this study, nutrient broth medium and the simulated wastewater were compared to identify differences in the relative abundance of Klebsiella michiganensis LH-2 ARGs in response to the electrolytic stimulation process, as well as the fate of the strain in simulated wastewater. Lower biomass, specific growth rates and viable bacterial counts were obtained in response to the application of increasing current to simulated wastewater medium. Furthermore, the percentage of ARB lethality, which was reflected by flow cytometry analysis, increased with current in the medium. A significant positive correlation of sul genes and intI gene relative abundance versus current was also observed in nutrient broth. However, a significant negative correlation was observed in simulated wastewater because of the higher metabolic burden, which may have led to decreased ARB viability. Further investigation showed that the decrease in ARGs abundance was responsible for decreased strain tolerance to SDZ in simulated wastewater. These results reveal that minimal nutrition simulated wastewater may reduce ARB and ARGs propagation in BER.
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Affiliation(s)
- Hua Li
- School of Energy and Environment, Southeast University, Nanjing 210096, China.
| | - Shuai Zhang
- School of Energy and Environment, Southeast University, Nanjing 210096, China.
| | - Xiao-Li Yang
- School of Civil Engineering, Southeast University, Nanjing 210096, China.
| | - Han Xu
- School of Energy and Environment, Southeast University, Nanjing 210096, China.
| | - Yu-Li Yang
- School of Civil Engineering, Southeast University, Nanjing 210096, China; School of Environment, Nanjing Normal University, Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application, Jiangsu Engineering Lab of Water and Soil Eco-remediation, Wenyuan Road 1, Nanjing 210023, China; Department of Civil and Environmental Engineering, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.
| | - Ya-Wen Wang
- School of Environment, Nanjing Normal University, Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application, Jiangsu Engineering Lab of Water and Soil Eco-remediation, Wenyuan Road 1, Nanjing 210023, China.
| | - Hai-Liang Song
- School of Environment, Nanjing Normal University, Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application, Jiangsu Engineering Lab of Water and Soil Eco-remediation, Wenyuan Road 1, Nanjing 210023, China.
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