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Wang H, Wang X, Zhang L, Zhang X, Cao Y, Xiao R, Bai Z, Ma L. Meta-analysis addressing the potential of antibiotic resistance gene elimination through aerobic composting. WASTE MANAGEMENT (NEW YORK, N.Y.) 2024; 182:197-206. [PMID: 38670003 DOI: 10.1016/j.wasman.2024.04.034] [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: 11/06/2023] [Revised: 04/15/2024] [Accepted: 04/19/2024] [Indexed: 04/28/2024]
Abstract
The significant increase in antibiotic resistance genes (ARGs) in organic solid wastes (OSWs) has emerged as a major threat to the food chain. Aerobic composting is a widely used technology for OSW management, with the potential to influence the fate of AGRs. However, the variability of the ARG elimination effects reported in different studies has highlighted the uncertainty regarding the effects of composting on ARGs. To identify the potential of composting in reducing ARG and the factors (e.g., composting technologies and physiochemical properties) influence ARG changes, a meta-analysis was conducted with a database including 4,232 observations. The abundances of ARGs and mobile genetic elements (MGEs) can be substantially reduced by 74.3% and 78.8%, respectively, via aerobic composting. During composting, the ARG levels in chicken and swine manure tended to be reduced more significantly (81.7% and 78.0%) compared to those in cattle manure (52.3%) and sewage sludge (32.6%). The reduction rate of sulfonamide resistant genes was only 35.3%, which was much lower than those of other types. MGEs and composting duration (CD) were identified as the most important factors driving ARG changes during composting. These findings provide a comprehensive insight into the effects of composting on ARG reduction, which may help prevent the transmission in food systems.
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Affiliation(s)
- Hongge Wang
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang 050021, Hebei, PR China; University of Chinese Academy of Sciences, 19 A Yuquan Road, Shijingshan District, Beijing 100049, PR China
| | - Xuan Wang
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang 050021, Hebei, PR China
| | - Lu Zhang
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang 050021, Hebei, PR China; University of Chinese Academy of Sciences, 19 A Yuquan Road, Shijingshan District, Beijing 100049, PR China
| | - Xinyuan Zhang
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang 050021, Hebei, PR China; University of Chinese Academy of Sciences, 19 A Yuquan Road, Shijingshan District, Beijing 100049, PR China
| | - Yubo Cao
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang 050021, Hebei, PR China; University of Chinese Academy of Sciences, 19 A Yuquan Road, Shijingshan District, Beijing 100049, PR China
| | - Ran Xiao
- Interdisciplinary Research Center for Agriculture Green Development in Yangtze River Basin, College of Resources and Environment, Southwest University, Chongqing 400715, PR China
| | - Zhaohai Bai
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang 050021, Hebei, PR China
| | - Lin Ma
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang 050021, Hebei, PR China.
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Wang B, Chen W, Sa C, Gao X, Chang S, Wei Y, Li J, Shi X, Zhang L, Zhang C, Li W, Sun H. Dynamics of antibiotic resistance genes and the association with bacterial community during pig manure composting with chitin and glucosamine addition. Front Microbiol 2024; 15:1384577. [PMID: 38841060 PMCID: PMC11150687 DOI: 10.3389/fmicb.2024.1384577] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Accepted: 05/10/2024] [Indexed: 06/07/2024] Open
Abstract
In modern ecological systems, the overuse and misuse of antibiotics have escalated the prevalence of antibiotic resistance genes (ARGs) and mobile genetic elements (MGEs), positioning them as emerging environmental contaminants. Notably, composting serves as a sustainable method to recycle agricultural waste into nutrient-rich fertilizer while potentially reducing ARGs and MGEs. This study conducted a 47-day composting experiment using pig manure and corn straw, supplemented with chitin and N-Acetyl-D-glucosamine, to explore the impact of these additives on the dynamics of ARGs and MGEs, and to unravel the interplay between these genetic elements and microbial communities in pig manure composting. Results showed that adding 5% chitin into composting significantly postponed thermophilic phase, yet enhanced the removal efficiency of total ARGs and MGEs by over 20% compared to the control. Additionally, the addition of N-Acetyl-D-glucosamine significantly increased the abundance of tetracycline-resistant and sulfonamide-resistant genes, as well as MGEs. High-throughput sequencing revealed that N-Acetyl-D-glucosamine enhanced bacterial α-diversity, providing diverse hosts for ARGs and MGEs. Resistance mechanisms, predominantly efflux pumps and antibiotic deactivation, played a pivotal role in shaping the resistome of composting process. Co-occurrence network analysis identified the key bacterial phyla Proteobacteria, Firmicutes, Gemmatimonadota, and Myxococcota in ARGs and MGEs transformation and dissemination. Redundancy analysis indicated that physicochemical factors, particularly the carbon-to-nitrogen ratio emerged as critical variables influencing ARGs and MGEs. The findings lay a foundation for the developing microbial regulation method to reduce the risks of ARGs in animal manure composts.
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Affiliation(s)
- Bo Wang
- Institute of Animal Nutrition and Feed, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, China
- Key Laboratory of Grass-Feeding Livestock Healthy Breeding and Livestock Product Quality Control (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Hohhot, China
- Inner Mongolia Key Laboratory of Herbivore Nutrition Science, Hohhot, China
| | - Wenjie Chen
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Beijing, China
| | - Chula Sa
- Institute of Animal Nutrition and Feed, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, China
- Key Laboratory of Grass-Feeding Livestock Healthy Breeding and Livestock Product Quality Control (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Hohhot, China
- Inner Mongolia Key Laboratory of Herbivore Nutrition Science, Hohhot, China
| | - Xin Gao
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Beijing, China
| | - Su Chang
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Beijing, China
| | - Yuquan Wei
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Beijing, China
| | - Ji Li
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Beijing, China
| | - Xiong Shi
- Yangtze Eco-Environment Engineering Research Center, China Three Gorges Corporation, Beijing, China
| | | | - Chunhua Zhang
- Institute of Animal Nutrition and Feed, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, China
- Key Laboratory of Grass-Feeding Livestock Healthy Breeding and Livestock Product Quality Control (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Hohhot, China
- Inner Mongolia Key Laboratory of Herbivore Nutrition Science, Hohhot, China
| | - Wenting Li
- Institute of Animal Nutrition and Feed, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, China
- Key Laboratory of Grass-Feeding Livestock Healthy Breeding and Livestock Product Quality Control (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Hohhot, China
- Inner Mongolia Key Laboratory of Herbivore Nutrition Science, Hohhot, China
| | - Haizhou Sun
- Institute of Animal Nutrition and Feed, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, China
- Key Laboratory of Grass-Feeding Livestock Healthy Breeding and Livestock Product Quality Control (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Hohhot, China
- Inner Mongolia Key Laboratory of Herbivore Nutrition Science, Hohhot, China
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Yu X, Lv Y, Wang Q, Wang W, Wang Z, Wu N, Liu X, Wang X, Xu X. Deciphering and predicting changes in antibiotic resistance genes during pig manure aerobic composting via machine learning model. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:33610-33622. [PMID: 38689043 DOI: 10.1007/s11356-024-33087-2] [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: 01/03/2024] [Accepted: 03/21/2024] [Indexed: 05/02/2024]
Abstract
Livestock manure is one of the most important pools of antibiotic resistance genes (ARGs) in the environment. Aerobic composting can effectively reduce the spread of antibiotic resistance risk in livestock manure. Understanding the effect of aerobic composting process parameters on manure-sourced ARGs is important to control their spreading risk. In this study, the effects of process parameters on ARGs during aerobic composting of pig manure were explored through data mining based on 191 valid data collected from literature. Machine learning (ML) models (XGBoost and Random Forest) were utilized to predict the rate of ARGs changes during pig manure composting. The model evaluation index of the XGBoost model (R2 = 0.651) was higher than that of the Random Forest (R2 = 0.490), indicating that XGBoost had better prediction performance. Feature importance was further calculated for the XGBoost model, and the XGBoost black box model was interpreted by Shapley additive explanations analysis. Results indicated that the influencing factors on the ARGs variation in pig manure were sequentially divided into thermophilic period, total composting period, composting real time, and thermophilic stage average temperature. The findings gave an insight into the application of ML models to predict and decipher the ARG changes during manure composting and provided suggestions for better composting manipulation and optimization of process parameters.
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Affiliation(s)
- Xiaohui Yu
- Key Laboratory of Smart Breeding (Co-construction by Ministry and Province) of Ministry of Agriculture and Rural Affairs, Tianjin Agricultural University, Tianjin, 300392, China
- College of Engineering and Technology, Tianjin Agricultural University, Tianjin, 300392, China
| | - Yang Lv
- College of Engineering and Technology, Tianjin Agricultural University, Tianjin, 300392, China
| | - Qing Wang
- Key Laboratory of Smart Breeding (Co-construction by Ministry and Province) of Ministry of Agriculture and Rural Affairs, Tianjin Agricultural University, Tianjin, 300392, China
- College of Engineering and Technology, Tianjin Agricultural University, Tianjin, 300392, China
| | - Wenhao Wang
- College of Chemical Engineering and Material Science, Tianjin University of Science & Technology, Tianjin, 300457, China
| | - Zhiqiang Wang
- Key Laboratory of Smart Breeding (Co-construction by Ministry and Province) of Ministry of Agriculture and Rural Affairs, Tianjin Agricultural University, Tianjin, 300392, China
- College of Engineering and Technology, Tianjin Agricultural University, Tianjin, 300392, China
| | - Nan Wu
- Key Laboratory of Smart Breeding (Co-construction by Ministry and Province) of Ministry of Agriculture and Rural Affairs, Tianjin Agricultural University, Tianjin, 300392, China.
- College of Engineering and Technology, Tianjin Agricultural University, Tianjin, 300392, China.
| | - Xinyuan Liu
- College of Engineering and Technology, Tianjin Agricultural University, Tianjin, 300392, China
| | - Xiaobo Wang
- Key Laboratory of Smart Breeding (Co-construction by Ministry and Province) of Ministry of Agriculture and Rural Affairs, Tianjin Agricultural University, Tianjin, 300392, China
- College of Agronomy and Resource and Environment, Tianjin Agricultural University, Tianjin, 300392, China
| | - Xiaoyan Xu
- Key Laboratory of Smart Breeding (Co-construction by Ministry and Province) of Ministry of Agriculture and Rural Affairs, Tianjin Agricultural University, Tianjin, 300392, China
- College of Agronomy and Resource and Environment, Tianjin Agricultural University, Tianjin, 300392, China
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Wei J, Wang YX, Guan TK, Wang QY, Zhang J, Zhang JY, Wang JL, Chen QJ, Zhang GQ. Bacterial communities during composting cultivation of oyster mushroom Pleurotus floridanus using broken eggs as the nitrogen source and study of agronomic and nutritional properties. Front Microbiol 2024; 14:1274032. [PMID: 38282740 PMCID: PMC10822690 DOI: 10.3389/fmicb.2023.1274032] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2023] [Accepted: 12/31/2023] [Indexed: 01/30/2024] Open
Abstract
Introduction Broken eggs are a byproduct of the poultry industry and a potential nitrogen source for mushroom cultivation. However, its feasibility needs to be evaluated experimentally. Methods In this study, a series of different addition amounts (0, 1.8, 3.6, 5.3 and 8.5%, w/w) of broken egg mixture (BEM) were applied in the composting cultivation process of oyster mushroom. The physicochemical properties and bacterial communities of composting substrate, and agronomic and nutritional properties of fruiting bodies were determined. Results and discussion The results showed that the BEM addition significantly (P < 0.05) increased the total nitrogen content in the composted substrate, and the contents of crude protein, total amino acids and essential amino acids of mushrooms. The P3 treatment (initial C/N of 26:1) showed the highest biological efficiency (BE) of 100.19% and a low contamination rate (CR) of 7.00%, while the higher dosage of BEM (P4 and P5) led to a sharp decrease in BE and a sharp increase in CR. High throughput sequencing revealed that the addition of BEM significantly (P < 0.05) changed the bacterial communities in the substrate at the beginning of composting. Streptococcus and Lactococcus were predominant bacterial genera in BEM treatments at the beginning stage of composting, while Acinetobacter became predominant at the ending stage. The co-occurrence network analysis showed that the P3 treatment demonstrated a much more complex bacterial community. The structural equation model analysis indicated that the addition of BEM affected the bacterial communities and nitrogen metabolism during composting, which further affected agronomic and nutritional properties of oyster mushrooms. An appropriate amount of BEM combined with composting processes can significantly improve the yield and quality of oyster mushroom, providing a new way for efficient utilization of BEM.
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Affiliation(s)
| | | | | | | | | | | | | | - Qing-Jun Chen
- College of Plant Science and Technology, Beijing Key Laboratory for Agricultural Application and New Technique, Beijing University of Agriculture, Beijing, China
| | - Guo-Qing Zhang
- College of Plant Science and Technology, Beijing Key Laboratory for Agricultural Application and New Technique, Beijing University of Agriculture, Beijing, China
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Feng M, Liu Y, Yang L, Li Z. Antibiotics and antibiotic resistance gene dynamics in the composting of antibiotic fermentation waste - A review. BIORESOURCE TECHNOLOGY 2023; 390:129861. [PMID: 37863331 DOI: 10.1016/j.biortech.2023.129861] [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: 07/16/2023] [Revised: 10/09/2023] [Accepted: 10/09/2023] [Indexed: 10/22/2023]
Abstract
Fate of antibiotics and antibiotic resistance genes (ARGs) during composting of antibiotic fermentation waste (AFW) is a major concern. This review article focuses on recent literature published on this subject. The key findings are that antibiotics can be removed effectively during AFW composting, with higher temperatures, appropriate bulking agents, and suitable pretreatments improving their degradation. ARGs dynamics during composting are related to bacteria and mobile genetic elements (MGEs). Higher temperatures, suitable bulking agents and an appropriate C/N ratio (30:1) lead to more efficient removal of ARGs/MGEs by shaping the bacterial composition. Keeping materials dry (moisture less than 30%) and maintaining pH stable around 7.5 after composting could inhibit the rebound of ARGs. Overall, safer utilization of AFW can be realized by optimizing composting conditions. However, further removal of antibiotics and ARGs at low levels, degradation mechanism of antibiotics, and spread mechanism of ARGs during AFW composting require further investigation.
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Affiliation(s)
- Minmin Feng
- Hebei Key Laboratory of Heavy Metal Deep-Remediation in Water and Resource Reuse, School of Environmental and Chemical Engineering, Yanshan University, Qinhuangdao 066004, China
| | - Yuanwang Liu
- Hebei Key Laboratory of Heavy Metal Deep-Remediation in Water and Resource Reuse, School of Environmental and Chemical Engineering, Yanshan University, Qinhuangdao 066004, China.
| | - Lie Yang
- Wuhan University of Technology, School of Resources & Environmental Engineering, Wuhan 430070, China
| | - Zhaojun Li
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, China-New Zealand Joint Laboratory for Soil Molecular Ecology, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
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Lin X, Al-Dhabi NA, Li F, Wang N, Peng H, Chen A, Wu G, Zhang J, Zhang L, Huang H, Yan B, Luo L, Tang W. Relative contribution of ammonia-oxidizing bacteria and denitrifying fungi to N 2O production during rice straw composting with biochar and biogas residue amendments. BIORESOURCE TECHNOLOGY 2023; 390:129891. [PMID: 37863336 DOI: 10.1016/j.biortech.2023.129891] [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: 09/05/2023] [Revised: 10/09/2023] [Accepted: 10/17/2023] [Indexed: 10/22/2023]
Abstract
Nitrous oxide (N2O) production is associated with ammonia-oxidizing bacteria (amoA-AOB) and denitrifying fungi (nirK-fungi) during the incorporation of biochar and biogas residue composting. This research examined the relative contribution of alterations in the abundance, diversity and structure of amoA-AOB and nirK-fungi communities on N2O emission by real-time PCR and sequence processing. Results showed that N2O emissions showed an extreme relation with the abundance of amoA-AOB (rs = 0.584) while giving credit to nirK-fungi (rs = 0.500). Nitrosomonas and Nitrosospira emerged as the dominant genera driving ammoxidation process. Biogas residue changed the community structure of AOB by altering Nitrosomonadaceae proportion and physiological capacity. The denitrification process, primarily governed by nirK-fungi, served as a crucial pathway for N2O production, unveiling the pivotal mechanism of biochar to suppress N2O emissions. C/N and NH4+-N were identified as significant parameters influencing the distribution of nirK-fungi, especially Micromonospora, Halomonas and Mesorhizobium.
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Affiliation(s)
- Xu Lin
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China
| | - Naif Abdullah Al-Dhabi
- Department of Botany and Microbiology, College of Science, King Saud University, P. O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Fanghong Li
- State Environmental Protection Key Laboratory of Environmental Pollution Health Risk Assessment, South China Institute of Environmental Sciences, Ministry of Ecology and Environment of the PR China, Guangzhou 510655, China
| | - Nanyi Wang
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China
| | - Hua Peng
- Hunan Institute of Agro-Environment and Ecology, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Anwei Chen
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China
| | - Genyi Wu
- College of Environment and Ecology, Hunan Agricultural University, 410128, China
| | - Jiachao Zhang
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China.
| | - Lihua Zhang
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China
| | - Hongli Huang
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China
| | - Binghua Yan
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China
| | - Lin Luo
- College of Environment and Ecology, Hunan Agricultural University, 410128, China; Yuelu Mountain Laboratory, Hunan Agricultural University Area, Changsha 410000, Hunan, China
| | - Wangwang Tang
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China
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Yang H, Lu H, Li K, Huang Y, Li Q. Insights into antibiotic resistance gene abundances and regulatory mechanisms induced by ionic liquids during composting. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 345:118652. [PMID: 37481880 DOI: 10.1016/j.jenvman.2023.118652] [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: 05/05/2023] [Revised: 06/15/2023] [Accepted: 07/15/2023] [Indexed: 07/25/2023]
Abstract
This study investigated the regulatory mechanism of the evolution of antibiotic resistance genes (ARGs) during the composting process with sawdust and cow manure as raw materials using ionic liquids (ILs) pretreatment. The results showed that genes of MLS, chloramphenicol, tetracycline, beta - lactam as composting gradually decreased. From day0 to day3, MLS in control group (CK) and experimental group (T) decreased by 25.62% and 26.66%, respectively. Tetracycline decreased by 7.21% in CK and by 7.86% in T. Chloramphenicol decreased by 2.85% in CK and 3.34% in T. Beta-lactam decreased by 1.95% in Ck and by 3.69% in T. Mechanism studies have shown that ILs can effectively decompose extracellular polymeric substances (EPS) and enhance lactose dehydrogenase (LDH) release, resulting in ARGs release and elimination. Meanwhile, ILs pretreatment can inhibit growth of some ARGs hosts, especially Firmicutes, resulting in decreased ARGs. Moreover, metabolic pathways and related genes take part in ARGs transmission were down regulated, leading to decreased ARGs.
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Affiliation(s)
- Hongxiang Yang
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Heng Lu
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Kecheng Li
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Yite Huang
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Qunliang Li
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China.
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Ahmed I, Zhang Y, Sun P, Zhang B. Co-occurrence pattern of ARGs and N-functional genes in the aerobic composting system with initial elevated temperature. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 343:118073. [PMID: 37229868 DOI: 10.1016/j.jenvman.2023.118073] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Revised: 04/10/2023] [Accepted: 04/28/2023] [Indexed: 05/27/2023]
Abstract
Animal manure is known to harbor antibiotic resistance genes (ARGs). Aerobic composting is a prevalent cost-effective and sustainable method to treat animal waste. However, the effect of initially elevated temperature on antibiotic resistome during the composting process is unclear. In this study composting was subjected to initial external heating (EHC) for a period of 5 days compared to conventional composting (CC). After composting ARGs abundance was significantly reduced by 2.43 log in EHC and 1.95 log in CC. Mobile genetic elements (MGEs) also exhibited a reduction of 1.95 log in EHC and 1.49 log in CC. However, during the cooling phase, the genes resisting macrolide lincosamide and streptogramin B (MLSB) rebounded by 0.04 log in CC. The potential human pathogenic bacteria Pseudomonas (41.5-61.5%) and Actinobacteria (98.4-98.8%) were significantly reduced in both treatments and the bulk of targeted antibiotics were eliminated by 80.74% in EHC and 68.98% in CC. ARGs and N-functional genes (NFGs), mainly denitrification genes, were carried by the same microbial species, such as Corynebacterium sp. and Bacillus sp., of the dominant phylum. Redundancy analysis (RDA) revealed that CC microbial communities played a key role in the enrichment of ARGs while in EHC the variation of ARGs was attributed to the composting temperature. The number of high-risk ARGs was also lower in EHC (4) compared with CC (6) on day 30. These results provide insight into the effects of an initially enhanced temperature on ARGs removal and the relationship between ARGs and NFGs during the composting process.
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Affiliation(s)
- Imtiaz Ahmed
- Environmental Science and Engineering School, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Yongpeng Zhang
- Environmental Science and Engineering School, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Pengyu Sun
- Environmental Science and Engineering School, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Bo Zhang
- Environmental Science and Engineering School, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China; State Environmental Protection Key Laboratory of Environmental Health Impact Assessment of Emerging Contaminants, Shanghai, 200240, China.
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9
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Ma S, Liu H, Hou J, Zhang J. External static magnetic field potentiates the reduction of antibiotic resistance genes during swine manure composting. JOURNAL OF HAZARDOUS MATERIALS 2023; 448:130882. [PMID: 36738618 DOI: 10.1016/j.jhazmat.2023.130882] [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: 10/05/2022] [Revised: 01/10/2023] [Accepted: 01/25/2023] [Indexed: 06/18/2023]
Abstract
Livestock and poultry manure are repositories of antibiotic resistance genes (ARGs). Accumulating evidence suggests that composting is an important way to effectively attenuate ARGs, but how to reinforce the reduction in ARGs during composting needs to be further investigated. This study explored the influence of an external static magnetic field on ARG mitigation enhancement during swine manure composting. The results showed that a total of 12 high-risk ARGs were identified. A relatively high magnetic field intensity (14.81 mT) was more effective in reducing the abundance of high-risk ARGs, and the removal rate was 20.66-100 %. It also reduced the abundance of 27.14 % of integrons, 79.44 % of insertion sequences, and 8.78 % of plasmids. Partial least squares path modeling showed that a relatively high magnetic field intensity treatment promoted the reduction in ermB by reducing the abundance of Phascolarctobacterium, Streptococcus, and insertion sequences. It also mitigated sul1 expression by reducing the abundance of Acinetobacter and integrons, and it mitigated tetM expression by decreasing Lactobacillus, Streptococcus, insertion sequences, and plasmids. These findings demonstrate that an external static magnetic field is an effective method for intensifying the reduction in ARGs, providing a feasible reference for controlling the potential ARG risk of organic waste composting.
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Affiliation(s)
- Shuangshuang Ma
- Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Hongtao Liu
- Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China.
| | - Jiayi Hou
- Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Jun Zhang
- Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin University of Technology, Guilin 541004, China
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Cao H, Jiao Q, Cheng L, Song L, Xun M, Yang H. Occurrence and prevalence of antibiotic resistance genes in apple orchard after continual application of anaerobic fermentation residues of pig manure. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:29229-29242. [PMID: 36409412 DOI: 10.1007/s11356-022-24320-x] [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: 08/09/2022] [Accepted: 11/15/2022] [Indexed: 06/16/2023]
Abstract
Fermented organic fertilizers made from pig manure contaminated with antibiotics are widely used in fruit tree production. However, their effects on the residual antibiotics and the spread of antibiotic resistance genes (ARGs) and mobile genetic elements (MGEs) in apple orchards are still largely unknown. In the present study, we detected 100 ARGs and 10 MGEs that were transferred from pig manure to an apple orchard. Compared with the original pig manure, significantly greater concentrations of tetracycline, chlortetracycline, oxytetracycline, sulfadiazine, and salfamethyldiazine were observed in anaerobic fermentation residues of the pig manure. The total relative abundance levels of ARGs on the apple pericarp surface, in the orchard soil treated with biogas slurry, and in the orchard soil treated with biogas residue were 122.5, 5.2, 1.4 times higher than those in pristine soil, respectively, which were primarily attributed to the increase in the relative abundance of some ARG subtypes, including blaCTX-M, blaTEM, ermC, sul2, tetO, vgaB, and vgb. Long-term biogas slurry and biogas residue applications to orchard soil enriched bioaccumulation of 10 ARGs and 1 MGEs on the apple pericarp surface with 67.98 the highest factor. This research indicates that the application of anaerobic fermentation residues of pig manure promoted the spread of ARGs in the soil and fruits and increased the level of ARG pollution in the orchard. Results of this study highlight the importance of assessing the ecological safety of organic fertilizers from the perspective of ARGs and indicate that efforts should be devoted to further reducing ARG levels in pig manure before its application to farmland.
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Affiliation(s)
- Hui Cao
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277000, Shandong Province, China
- College of Horticulture Science and Engineering, State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, 271018, Shandong Province, China
| | - Qian Jiao
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277000, Shandong Province, China
| | - Liangmei Cheng
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277000, Shandong Province, China
| | - Linhui Song
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277000, Shandong Province, China
| | - Mi Xun
- College of Horticulture Science and Engineering, State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, 271018, Shandong Province, China
| | - Hongqiang Yang
- College of Horticulture Science and Engineering, State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, 271018, Shandong Province, China.
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11
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Deng Y, Jiang J, Huang Y, Cheng C, Lin Z, Liu G, Guo Z, Feng J. Hypoxia triggers the proliferation of antibiotic resistance genes in a marine aquaculture system. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 859:160305. [PMID: 36410487 DOI: 10.1016/j.scitotenv.2022.160305] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 11/15/2022] [Accepted: 11/15/2022] [Indexed: 06/16/2023]
Abstract
The transmission of antibiotic resistance genes (ARGs) affects the safety of aquaculture animals. Dissolved oxygen (DO) can affect the transmission of ARGs, but its mechanism of action in this process is unclear. We conducted laboratory breeding experiment with low and control DO groups. Combined quantitative PCR and 16S rRNA sequencing to study the effect of DO on the spread of ARGs. Hypoxia treatment significantly increased the accumulation of ammonium and nitrite in aquaculture water, and it increased the relative abundances of ARGs and mobile genetic elements (MGEs), especially the ARGs resistant to drugs in the categories of sulfonamide, (flor)/(chlor)/(am)phenicol, and MLSB (macrolide, lincosamide and streptogramin B) and the MGE intI-1(clinic), by 2.39-95.69 % in 28 days relative to the control DO treatment. Though the abundance of ARG carries, especially the Rhodocyclaceae, Caldilineaceae, Cyclobacteriaceae, Saprospiraceae, Enterobacteriaceae, Sphingomonadaceae families, showed higher abundance in low DO groups, relating to the vertical transmission of ARGs. Hypoxia treatment is more likely to promote the horizontal gene transfer (HGT)-related pathways, including ABC transporters, two component system, and quorum sensing, thus to induce the HGT of ARGs. The changed bacterial proliferation also altered the abundance of MGEs, especially intI-1(clinic), which induced HGT of ARGs as well. Additionally, pearson correlation results revealed that the succession of bacterial community function played the strongest role in ARG proliferation, followed by bacterial community structure and MGEs. Our results highlight the importance of suitable DO concentration in controlling the spread of ARGs especially the HGT of ARGs. In the context of global attention to food safety, our results provide important information for ensuring the safety of aquatic products and the sustainable development of aquaculture.
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Affiliation(s)
- Yiqin Deng
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Jianjun Jiang
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Yinbang Huang
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Changhong Cheng
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Ziyang Lin
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Guangxin Liu
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Zhixun Guo
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Juan Feng
- Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China.
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12
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Ahmed I, Zhang Y, Sun P, Xie Y, Zhang B. Sensitive response mechanism of ARGs and MGEs to initial designed temperature during swine manure and food waste co-composting. ENVIRONMENTAL RESEARCH 2023; 216:114513. [PMID: 36208781 DOI: 10.1016/j.envres.2022.114513] [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: 08/07/2022] [Revised: 09/29/2022] [Accepted: 10/03/2022] [Indexed: 06/16/2023]
Abstract
The rapid aerobic composting process has been used to reduce organic wastes, but the associated risks of antibiotic resistance genes (ARGs) need to evaluate in an efficient way. The primary objective of this work was to explore the underlying mechanism of initial adjustment in composting temperature on the variation of ARGs, mobile genetic elements (MGEs), and microbial composition during co-composting. The co-composting was initially externally heated (T2) for 5 days. The results showed that ARGs abundance in conventional composting (T1) was reduced by 49.36%, while multidrug was enriched by 86.16% after a period of 30 days. While in T2 ARGs were removed by 79.46% particularly the fraction of sulfonamide, multidrug, and vancomycin resistance genes were >90% without rebounding of any ARGs. Whereas, MGEs were reduced by 68.12% and 93.62% in T1 and T2, while the half-lives of ARGs and MGEs were lower in T2 compared to T1 (86.3%,86.7%). T2 also affected the metabolism function by regulating carbohydrate metabolism (9.62-10.39%) and amino acid metabolism (9.92-10.93%). Apart from this, the potential human pathogenic bacteria Pseudomonas was reduced by 90.6% in T2 and only 32.9% in T1 respectively. Network analysis showed that Ureibacillus, Weissella, Corynebacterium, Escherichia-Shigella, Acinetobacter were the main host of multiple genes. Structural equation models exhibited that bacterial communities were mainly responsible for the enrichment of ARGs in T1, whereas, it was directly affected by MGEs in T2. Similarly, ARGs variation was directly related to composting temperature. With this simple strategy, ARGs associated risk can be significantly reduced in composting.
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Affiliation(s)
- Imtiaz Ahmed
- School of Environmental Science and Engineering, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Yongpeng Zhang
- School of Environmental Science and Engineering, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Pengyu Sun
- School of Environmental Science and Engineering, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Yu Xie
- School of Environmental Science and Engineering, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Bo Zhang
- School of Environmental Science and Engineering, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China; State Environmental Protection Key Laboratory of Environmental Health Impact Assessment of Emerging Contaminants, Shanghai, 200240, China.
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He Y, Liu D, He X, Wang Y, Liu J, Shi X, Chater CCC, Yu F. Characteristics of bacterial and fungal communities and their impact during cow manure and agroforestry biowaste co-composting. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2022; 324:116377. [PMID: 36352711 DOI: 10.1016/j.jenvman.2022.116377] [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: 05/17/2022] [Revised: 09/17/2022] [Accepted: 09/25/2022] [Indexed: 06/16/2023]
Abstract
Microbial communities and environmental conditions are both of great importance for efficient utilization of agroforestry resources. Nevertheless, knowledge about the role of soluble nutrients and enzymatic properties, and their inner links with microbial communities remain limited. This is especially the case for the co-composting of agricultural and forestry biowaste. Here, we investigate the succession of key microbes during co-composting (sawdust + cow manure, SA; straw + cow manure, ST), employing amplicon sequencing, enzyme assays, and physicochemical analyses. N-fixing bacteria (Pseudomonas) and C-degrading fungi (Acaulium) have been identified as dominant taxa during such co-composting. Although eight antibiotic resistance genes were found to persist during composting, pathogenic microbes declined with composting time. NO3--N content was screened as a determinant structuring the bacterial and fungal communities, with importance also shown for C-degrading enzymes such as cellulose, laccase, and peroxidase activity. These results identify the key microbial taxa and their main interactive environmental factors, which are potentially valuable for the development of a mixed microbial inoculant to accelerate the maturation of agroforestry biowastes composting.
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Affiliation(s)
- Yan He
- The Germplasm Bank of Wild Species, Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China
| | - Dong Liu
- The Germplasm Bank of Wild Species, Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China.
| | - Xinhua He
- The Germplasm Bank of Wild Species, Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China; Department of Land, Air and Water Resources, University of California at Davis, Davis, CA, 95616, USA; School of Biological Sciences, University of Western Australia, Perth, WA, 6009, Australia
| | - Yanliang Wang
- The Germplasm Bank of Wild Species, Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China
| | - Jianwei Liu
- The Germplasm Bank of Wild Species, Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China
| | - Xiaofei Shi
- The Germplasm Bank of Wild Species, Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China; Guizhou Kangqunyuan Biotechnology Co., LTD, Liupanshui, 553600, Guizhou, China
| | | | - Fuqiang Yu
- The Germplasm Bank of Wild Species, Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China.
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Zhu P, Wu Y, Ru Y, Hou Y, San KW, Yu X, Guo W. Industrial-scale aerobic composting of livestock manures with the addition of biochar: Variation of bacterial community and antibiotic resistance genes caused by various composting stages. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 314:120270. [PMID: 36162559 DOI: 10.1016/j.envpol.2022.120270] [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: 07/27/2022] [Revised: 09/04/2022] [Accepted: 09/21/2022] [Indexed: 06/16/2023]
Abstract
The presence of large amounts of antibiotic resistance genes (ARGs) in livestock manures poses an impending, tough safety risk to ecosystems. To investigate more comprehensively the mechanisms of ARGs removal from industrial-scale composting of livestock manure based on biochar addition, we tracked the dynamics of bacterial community and ARGs at various stages of aerobic composting of livestock manures with 10% biochar. There were no significant effects of biochar on the bacterial community and the profiles of ARGs. During aerobic composting, the relative abundance of ARGs and mobile genetic elements (MGEs) showed overall trends of decreasing and then increasing. The key factor driving the dynamics of ARGs was bacterial community composition, and the potential hosts of ARGs were Caldicoprobacter, Tepidimicrobium, Ignatzschineria, Pseudogracilibacillus, Actinomadura, Flavobacterium and Planifilum. The retention of the thermophilic bacteria and the repopulation of the initial bacteria were the dominant reasons for the increase in ARGs at maturation stage. Additionally, among the MGEs, the relative abundance of transposon gene was substantially removed, while the integron genes remained at high relative abundance. Our results highlighted that the suitability of biochar addition to industrial-scale aerobic composting needs to be further explored and that effective measures are needed to prevent the increase of ARGs content on maturation stage.
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Affiliation(s)
- Pengcheng Zhu
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, Ministry of Natural Resources, School of Life Sciences, Shandong University, Qingdao, 266237, PR China
| | - Yuxin Wu
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, Ministry of Natural Resources, School of Life Sciences, Shandong University, Qingdao, 266237, PR China
| | - Yuning Ru
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, Ministry of Natural Resources, School of Life Sciences, Shandong University, Qingdao, 266237, PR China
| | - Yihang Hou
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, Ministry of Natural Resources, School of Life Sciences, Shandong University, Qingdao, 266237, PR China
| | - Kim Woon San
- Tounong Organic Fertilizer Co. Ltd., Qingdao, 266733, PR China
| | - Xiaona Yu
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, Ministry of Natural Resources, School of Life Sciences, Shandong University, Qingdao, 266237, PR China
| | - Weihua Guo
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, Ministry of Natural Resources, School of Life Sciences, Shandong University, Qingdao, 266237, PR China.
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15
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Zhang B, Guo Z, Qu J, Zhang J, Liu J, Tao Y, Zhang Y, Sardar MF, Dai X, Liu H. Simultaneous reductions in antibiotic, antibiotic resistance genes and nitrogen loss during bioaugmentation tylosin fermentation dregs co-composting. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 850:158069. [PMID: 35981593 DOI: 10.1016/j.scitotenv.2022.158069] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2022] [Revised: 08/11/2022] [Accepted: 08/12/2022] [Indexed: 06/15/2023]
Abstract
Considering the main problems presented in the typical solid wastes antibiotic fermentation dregs (AFDs) composting that the residual antibiotics could result in the propagation of antibiotic resistance genes (ARGs), and the reduced value of agronomic production caused by the ammonia gas (NH3) emissions. This study established a bio-augmented tylosin fermentation dregs (TFDs) aerobic co-composting system to investigate the effects of a novel isolated high-efficiency strain Klebsiella sp. TN-1 inoculation on tylosin degradation, reduction in ammonia emissions, and ARG abundances during this process. Results showed that the application of strain Klebsiella sp. TN-1 extended the thermophilic stage and promoted compost maturity. Moreover, bio-enhanced co-composting with strain Klebsiella sp. TN-1 led to a totally degradation of tylosin, and removed most of ARGs, metal resistance genes (MRGs) and mobile genetic elements (MGEs), and also effectively reduce ammonia emission by 49.76 %.via increasing ammoxidation rates. Principal co-ordinates analysis further suggested that the strain Klebsiella sp. TN-1 had little influence on the bacterial community composition, while the changes of other physical and chemical properties during this process were the main reasons for the evolution of bacterial community and propagation of ARGs in the TFDs co-composting. This study suggests the potential of the bio-enhanced strain Klebsiella sp. TN-1 for antibiotic biodegradation and its application for nitrogen conservation in the AFDs co-composting process, which could decrease the risk of ARGs spreading and make compost products more secure.
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Affiliation(s)
- Bo Zhang
- School of Resources and Environment, Northeast Agricultural University, Harbin 150030, PR China
| | - Zhen Guo
- Management School, Harbin University of Commerce, Harbin 150028, PR China
| | - Jianhua Qu
- School of Resources and Environment, Northeast Agricultural University, Harbin 150030, PR China
| | - Jingdan Zhang
- School of Resources and Environment, Northeast Agricultural University, Harbin 150030, PR China
| | - Jie Liu
- School of Resources and Environment, Northeast Agricultural University, Harbin 150030, PR China
| | - Yue Tao
- School of Resources and Environment, Northeast Agricultural University, Harbin 150030, PR China
| | - Ying Zhang
- School of Resources and Environment, Northeast Agricultural University, Harbin 150030, PR China
| | - Muhammad Fahad Sardar
- Agricultural Clean Watershed Research Group, Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China
| | - Xiaohu Dai
- School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Huiling Liu
- School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China.
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Zhang J, Xia A, Yao D, Guo X, Lam SS, Huang Y, Zhu X, Zhu X, Liao Q. Removal of oxytetracycline and ofloxacin in wastewater by microalgae-bacteria symbiosis for bioenergy production. BIORESOURCE TECHNOLOGY 2022; 363:127891. [PMID: 36089133 DOI: 10.1016/j.biortech.2022.127891] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2022] [Revised: 08/27/2022] [Accepted: 08/29/2022] [Indexed: 06/15/2023]
Abstract
The development of microalgae-bacteria symbiosis for treating wastewater is flourishing owing to its high biomass productivity and exceptional ability to purify contaminants. A nature-selected microalgae-bacteria symbiosis, mainly consisting of Dictyosphaerium and Pseudomonas, was used to treat oxytetracycline (OTC), ofloxacin (OFLX), and antibiotic-containing swine wastewater. Increased antibiotic concentration gradually reduced biomass productivity and intricately changed symbiosis composition, while 1 mg/L OTC accelerated the growth of symbiosis. The symbiosis biomass productivity reached 3.4-3.5 g/L (5.7-15.3 % protein, 18.4-39.3 % carbohydrate, and 2.1-3.9 % chlorophyll) when cultured in antibiotic-containing swine wastewater. The symbiosis displayed an excellent capacity to remove 76.3-83.4 % chemical oxygen demand, 53.5-62.4 % total ammonia nitrogen, 97.5-100.0 % total phosphorus, 96.3-100.0 % OTC, and 32.8-60.1 % OFLX in swine wastewater. The microbial community analysis revealed that the existence of OTC/OFLX increased the richness and evenness of microalgae but reduced bacteria species in microalgae-bacteria, and the toxicity of OFLX to bacteria was stronger than that of OTC.
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Affiliation(s)
- Jingmiao Zhang
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China
| | - Ao Xia
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China.
| | - Dunxue Yao
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China
| | - Xiaobo Guo
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China
| | - Su Shiung Lam
- Higher Institution Centre of Excellence (HICoE), Institute of Tropical Aquaculture and Fisheries (AKUATROP), Universiti Malaysia Terengganu, 21030 Kuala Nerus, Terengganu, Malaysia; Sustainability Cluster, School of Engineering, University of Petroleum & Energy Studies, Dehradun, Uttarakhand 248007, India
| | - Yun Huang
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China
| | - Xianqing Zhu
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China
| | - Xun Zhu
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China
| | - Qiang Liao
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing 400044, China; Institute of Engineering Thermophysics, School of Energy and Power Engineering, Chongqing University, Chongqing 400044, China
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17
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Jiang M, Wang P, Liu H, Dai X, Song S, Liu Y. The Effect of Operating Strategies on the Anaerobic Digestion of Gentamicin Mycelial Residues: Insights into the Enhancement of Methane Production and Attenuation of Gentamicin Resistance. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:15130-15140. [PMID: 35984723 DOI: 10.1021/acs.est.2c00481] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Anaerobic digestion (AD) has been widely employed for converting various biowastes into renewable energy. However, AD of gentamicin mycelial residues (GMRs, a byproduct of gentamicin production) is limited by ammonia inhibition and antimicrobial resistance risk. Compared to mesophilic AD (MMAD) of GMRs, this study looked into three semicontinuous AD processes, i.e., codigestion with wheat straw, thermophilic digestion (TAcoD), and AD at shortened retention time (RT). Results showed that a stable and safe AD could be achieved under suitable operating conditions. Co-digestion could effectively mitigate the adverse effect of ammonia inhibition. The methane production increased by 35.86% in TAcoD compared to that in MMAD and 43.99% of hazardous waste was reduced in TAcoD. Concerning the antimicrobial resistance of AD system, gentamicin was degraded efficiently and the degradation process was not involved in the expression of antibiotic resistance genes (ARGs) related to modifying enzyme. Effective removal of ARGs under three operating strategies was associated with a higher reduction in bacterial abundance of potential hosts. In addition, the changes in the relevant proteins for transformation and conjugation as predicted by PICRUSt suggested that thermophilic condition and shorter RT were conducive to the reduction of the dissemination risks of ARGs.
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Affiliation(s)
- Mingye Jiang
- School of Environment, State Key Laboratory of Urban Water Resources and Environment, Harbin Institute of Technology, Harbin 150090, China
| | - Peng Wang
- School of Environment, State Key Laboratory of Urban Water Resources and Environment, Harbin Institute of Technology, Harbin 150090, China
| | - Huiling Liu
- School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Xiaohu Dai
- School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Siqi Song
- School of Environment, State Key Laboratory of Urban Water Resources and Environment, Harbin Institute of Technology, Harbin 150090, China
| | - Yu Liu
- Advanced Environmental Biotechnology Centre, Nanyang Environment and Water Research Institute, Nanyang Technological University, 1 Cleantech Loop, Singapore 637141, Singapore
- School of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore
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Chen J, Cai Y, Deng W, Xing S, Liao X. Transmission of tetracycline resistance genes and microbiomes from manure-borne black soldier fly larvae frass to rhizosphere soil and pakchoi endophytes. Front Microbiol 2022; 13:1014910. [DOI: 10.3389/fmicb.2022.1014910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Accepted: 10/17/2022] [Indexed: 11/13/2022] Open
Abstract
Manure treatment with black soldier fly larvae (BSFL) and BSFL frass application in crop land is a sustainable strategy; however, whether residual antibiotic resistance genes (ARGs) and their transmission risk are related to the manure BSFL treatment process is still unknown. In this paper, the effect of BSFL addition density on residual tetracycline resistance genes (TRGs) and transmission from frass to pakchoi was determined. The results showed that BSFL frass can provide sufficient nutrients for growth, improve the economic value of pakchoi, and reduce the risk of transmission of TRGs in chicken manure regardless of BSFL density. The potential hosts of the TRGs we detected were found in BSFL frass (Oblitimonas and Tissierella), rhizosphere soil (Mortierella and Fermentimonas), and pakchoi endophytes (Roseomonas). The present study concluded that BSFL frass produced by adding 100 BSFL per 100 g of chicken manure has the advantages of high value and low risk. These findings will provide important strategic guidance for animal manure disposal and theoretical support for preventing the transmission of TRGs in BSFL applications.
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19
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Lin C, Huang FY, Zhou SYD, Li H, Zhang X, Su JQ. HiLi-chip: A high-throughput library construction chip for comprehensive profiling of environmental microbial communities. ENVIRONMENTAL RESEARCH 2022; 213:113650. [PMID: 35690091 DOI: 10.1016/j.envres.2022.113650] [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: 04/28/2022] [Revised: 06/02/2022] [Accepted: 06/07/2022] [Indexed: 06/15/2023]
Abstract
Investigating the contribution and associations of environmental microbes to ecological health and human well-being is in great demand with the goal of One Health proposed. To achieve the goal, there is an urgent need for accurate approaches to obtaining a large amount of high-resolution molecular information from various microbes. In this study, we developed a high-throughput library construction chip (HiLi-Chip) for profiling environmental microbial communities and evaluated its performance. The HiLi-Chip showed high conformity with the conventional Pacbio method in terms of α-diversity, community composition of abundant bacteria (>83%), as well as rare taxa (>84%) and human pathogens detection (>67%), indicating its advantages of accuracy, high-throughput, cost-efficiency, and broad practicability. It is suggested that the optimal strategy of the HiLi-Chip was a 2.4 μL PCR mixture per sample (∼2.4 ng DNA) with a 216-sample × 24-replicate format. We have successfully applied the HiLi-Chip to the Jiulongjiang River and identified 51 potential human bacterial pathogens with a total relative abundance of 0.22%. Additionally, under limited nutrients and similar upstream environments, bacteria tended to impose competitive pressures, resulting in a more connected network at the downstream river confluence (RC). Whereas narrow niche breadth of bacteria and upstream environmental heterogeneity probably promoted niche complementary and environment selection leading to fewer links at RC in the midsection of the river. Core bacteria might represent the entire bacterial community and enhance network stability through synergistic interactions with other core bacteria. Collectively, our results demonstrate that the HiLi-Chip is a robust tool for rapid comprehensive profiling of microbial communities in environmental samples and has significant implications for a profound understanding of environmental microbial interactions.
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Affiliation(s)
- Chenshuo Lin
- 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
| | - Fu-Yi Huang
- 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.
| | - Shu-Yi-Dan Zhou
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Sciences, Xingke Road 723, Tianhe District, Guangzhou, 510650, China
| | - Hu Li
- 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
| | - Xian Zhang
- 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
| | - Jian-Qiang Su
- 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
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20
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Zhu Q, Hou H, Wu Y, Hu J, Liu B, Liang S, Xiao K, Yu W, Yuan S, Yang J, Su X. Deciphering the role of extracellular polymeric substances in the regulation of microbial extracellular electron transfer under low concentrations of tetracycline exposure: Insights from transcriptomic analysis. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 838:156176. [PMID: 35613646 DOI: 10.1016/j.scitotenv.2022.156176] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Revised: 04/18/2022] [Accepted: 05/19/2022] [Indexed: 06/15/2023]
Abstract
Low concentrations of antibiotics can regulate the formation of electroactive biofilms, however, the underlying mechanisms, especially the composition and spatial distribution of extracellular polymeric substances (EPS) and their effects on extracellular electron transfer (EET) process, have not been fully deciphered. Here, the response of EPS of Geobacter sulfurreducens biofilm to low concentrations of tetracycline (μg L-1 to mg L-1) was explored, and the impact of such EPS variations on EET efficiency was further elucidated by transcriptomic analysis. Results showed that 0.05 mg L-1 of tetracycline achieved both beneficial quantitative and spatial regulation of redox-active proteins and non-conducting exopolysaccharides in EPS, while higher concentrations induced negative effects. Moreover, 1 mg L-1 of tetracycline upregulated multiple exopolysaccharide biosynthesis-related genes, indicating a stress response for cell-protection, while 0.05 mg L-1 of tetracycline upregulated most direct EET-related gene expressions, resulting in the promoted EET efficiency. Furthermore, 0.05 mg L-1 of tetracycline selectively enriched Geobacter (45.55% vs 19.55% in control, respectively) from mixed inoculum. This research provides a new insight of how antibiotics at low concentrations regulated EET process through modulation of EPS.
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Affiliation(s)
- Qian Zhu
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China
| | - Huijie Hou
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China.
| | - Yaqian Wu
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China
| | - Jingping Hu
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China; State Key Laboratory of Coal Combustion, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
| | - Bingchuan Liu
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China
| | - Sha Liang
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China
| | - Keke Xiao
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China
| | - Wenbo Yu
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China
| | - Shushan Yuan
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China
| | - Jiakuan Yang
- School of Environmental Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China; Hubei Provincial Engineering Laboratory of Solid Waste Treatment, Disposal and Recycling, 1037 Luoyu Road, Wuhan, Hubei 430074, China; State Key Laboratory of Coal Combustion, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
| | - Xintai Su
- School of Environment and Energy, Guangdong Provincial Key Laboratory of Solid Wastes Pollution Control and Recycling, South China University of Technology, Guangzhou, Guangdong 510006, China
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21
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Ma S, Liu H. Three-dimensional printed bulking agents reduce antibiotic resistance genes in swine manure aerobic composting by regulating oxygen concentration to alter host microorganisms and mobile genetic elements. BIORESOURCE TECHNOLOGY 2022; 359:127489. [PMID: 35724908 DOI: 10.1016/j.biortech.2022.127489] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2022] [Revised: 06/11/2022] [Accepted: 06/14/2022] [Indexed: 06/15/2023]
Abstract
Antibiotic resistance genes (ARGs) in manure aerobic composting are a potential environmental pollutant. Therefore, reducing the abundance of ARGs is crucial. The effects of adding three-dimensional printed bulking agents (3DBAs) on ARGs in aerobic composting of swine manure were investigated in this study. Compared with the control group, 3DBAs with different addition dosages can greatest reduce the total ARGs by 5.98%, tetracycline resistance genes by 14.02%, macrolide resistance genes by 9.65%, and sulfonamide resistance genes by 20.59%. By further combining physicochemical parameters, host microorganisms, and mobile genetic elements (MGEs) for analysis, it was found that oxygen concentration was vital for ARGs reduction, and 3DBAs with regular porosity and uniform size indirectly regulate the activity of host microorganisms and MGEs abundance by changing the oxygen consumption, finally reducing vertical or horizontal ARGs transfer risks. Overall, 3DBAs addition is an effective strategy to reduce the abundance of ARGs in aerobic composting.
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Affiliation(s)
- Shuangshuang Ma
- Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; Engineering Laboratory for Yellow River Delta Modern Agriculture, Chinese Academy of Sciences, Beijing 100101, China
| | - Hongtao Liu
- Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; Engineering Laboratory for Yellow River Delta Modern Agriculture, Chinese Academy of Sciences, Beijing 100101, China.
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22
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Preharvest Environmental and Management Drivers of Multidrug Resistance in Major Bacterial Zoonotic Pathogens in Pastured Poultry Flocks. Microorganisms 2022; 10:microorganisms10091703. [PMID: 36144304 PMCID: PMC9505790 DOI: 10.3390/microorganisms10091703] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Revised: 07/25/2022] [Accepted: 08/18/2022] [Indexed: 12/25/2022] Open
Abstract
Due to nutritional benefits and perceived humane ways of treating the animals, the demand for antibiotic-free pastured poultry chicken has continued to be steadily rise. Despite the non-usage of antibiotics in pastured poultry broiler production, antibiotic resistance (AR) is reported in zoonotic poultry pathogens. However, factors that drive multidrug resistance (MDR) in pastured poultry are not well understood. In this study, we used machine learning and deep learning approaches to predict farm management practices and physicochemical properties of feces and soil that drive MDR in zoonotic poultry pathogens. Antibiotic use in agroecosystems is known to contribute to resistance. Evaluation of the development of resistance in environments that are free of antibiotics such as the all-natural, antibiotic-free, pastured poultry production systems described here is critical to understand the background AR in the absence of any selection pressure, i.e., basal levels of resistance. We analyzed 1635 preharvest (feces and soil) samples collected from forty-two pastured poultry flocks and eleven farms in the Southeastern United States. CDC National Antimicrobial Resistance Monitoring System guidelines were used to determine antimicrobial/multidrug resistance profiles of Salmonella, Listeria, and Campylobacter. A combination of two traditional machine learning (RandomForest and XGBoost) and three deep learning (Multi-layer Perceptron, Generative Adversarial Network, and Auto-Encoder) approaches identified critical farm management practices and environmental variables that drive multidrug resistance in poultry pathogens in broiler production systems that represents background resistance. This study enumerates management practices that contribute to AR and makes recommendations to potentially mitigate multidrug resistance and the prevalence of Salmonella and Listeria in pastured poultry.
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23
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Zhu P, Yang S, Wu Y, Ru Y, Yu X, Wang L, Guo W. Shifts in Soil Microbial Community Composition, Function, and Co-occurrence Network of Phragmites australis in the Yellow River Delta. Front Microbiol 2022; 13:858125. [PMID: 35928147 PMCID: PMC9344067 DOI: 10.3389/fmicb.2022.858125] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Accepted: 06/10/2022] [Indexed: 11/28/2022] Open
Abstract
Soil microorganisms play vital roles in regulating biogeochemical processes. The composition and function of soil microbial community have been well studied, but little is known about the responses of bacterial and fungal communities to different habitats of the same plant, especially the inter-kingdom co-occurrence pattern including bacteria and fungi. Herein, we used high-throughput sequencing to investigate the bacterial and fungal communities of five Phragmites australis habitats in the Yellow River Delta and constructed their inter-kingdom interaction network by network analysis. The results showed that richness did not differ significantly among habitats for either the bacterial or fungal communities. The distribution of soil bacterial community was significantly affected by soil physicochemical properties, whereas that of the fungal community was not. The main functions of the bacterial and fungal communities were to participate in the degradation of organic matter and element cycling, both of which were significantly affected by soil physicochemical properties. Network analysis revealed that bacteria and fungi participated in the formation of networks through positive interactions; the role of intra-kingdom interactions were more important than inter-kingdom interactions. In addition, rare species acted as keystones played a critical role in maintaining the network structure, while NO3−−N likely played an important role in maintaining the network topological properties. Our findings provided insights into the inter-kingdom microbial co-occurrence network and response of the soil microbial community composition and function to different P. australis habitats in coastal wetlands, which will deepen our insights into microbial community assembly in coastal wetlands.
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Affiliation(s)
- Pengcheng Zhu
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, School of Life Sciences, Ministry of Natural Resources, Shandong University, Qingdao, China
| | - Shuren Yang
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, School of Life Sciences, Ministry of Natural Resources, Shandong University, Qingdao, China
| | - Yuxin Wu
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, School of Life Sciences, Ministry of Natural Resources, Shandong University, Qingdao, China
| | - Yuning Ru
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, School of Life Sciences, Ministry of Natural Resources, Shandong University, Qingdao, China
| | - Xiaona Yu
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, School of Life Sciences, Ministry of Natural Resources, Shandong University, Qingdao, China
| | - Lushan Wang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- Lushan Wang,
| | - Weihua Guo
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, School of Life Sciences, Ministry of Natural Resources, Shandong University, Qingdao, China
- *Correspondence: Weihua Guo, whguo@
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24
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López-González JA, Estrella-González MJ, Lerma-Moliz R, Jurado MM, Suárez-Estrella F, López MJ. Industrial Composting of Sewage Sludge: Study of the Bacteriome, Sanitation, and Antibiotic-Resistant Strains. Front Microbiol 2022; 12:784071. [PMID: 35003014 PMCID: PMC8739954 DOI: 10.3389/fmicb.2021.784071] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2021] [Accepted: 11/17/2021] [Indexed: 01/04/2023] Open
Abstract
Wastewater treatment generates a huge amount of sewage sludge, which is a source of environmental pollution. Among the alternatives for the management of this waste, industrial composting stands out as one of the most relevant. The objective of this study was to analyze the bacterial population linked to this process and to determine its effectiveness for the reduction, and even elimination, of microorganisms and pathogens present in these organic wastes. For this purpose, the bacteriome and the fecal bacteria contamination of samples from different sewage sludge industrial composting facilities were evaluated. In addition, fecal bacteria indicators and pathogens, such as Salmonella, were isolated from samples collected at key stages of the process and characterized for antibiotic resistance to macrolide, β-lactam, quinolone, and aminoglycoside families. 16S rRNA phylogeny data revealed that the process clearly evolved toward a prevalence of Firmicutes and Actinobacteria phyla, removing the fecal load. Moreover, antibiotic-resistant microorganisms present in the raw materials were reduced, since these were isolated only in the bio-oxidative phase. Therefore, industrial composting of sewage sludge results in a bio-safe final product suitable for use in a variety of applications.
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Affiliation(s)
- Juan A López-González
- Unit of Microbiology, Department of Biology and Geology, CITE II-B, Agrifood Campus of International Excellence ceiA3, CIAIMBITAL, University of Almería, Almería, Spain
| | - María J Estrella-González
- Unit of Microbiology, Department of Biology and Geology, CITE II-B, Agrifood Campus of International Excellence ceiA3, CIAIMBITAL, University of Almería, Almería, Spain
| | - Rosario Lerma-Moliz
- Unit of Microbiology, Department of Biology and Geology, CITE II-B, Agrifood Campus of International Excellence ceiA3, CIAIMBITAL, University of Almería, Almería, Spain
| | - Macarena M Jurado
- Unit of Microbiology, Department of Biology and Geology, CITE II-B, Agrifood Campus of International Excellence ceiA3, CIAIMBITAL, University of Almería, Almería, Spain
| | - Francisca Suárez-Estrella
- Unit of Microbiology, Department of Biology and Geology, CITE II-B, Agrifood Campus of International Excellence ceiA3, CIAIMBITAL, University of Almería, Almería, Spain
| | - María J López
- Unit of Microbiology, Department of Biology and Geology, CITE II-B, Agrifood Campus of International Excellence ceiA3, CIAIMBITAL, University of Almería, Almería, Spain
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25
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Planifilum fulgidum Is the Dominant Functional Microorganism in Compost Containing Spent Mushroom Substrate. SUSTAINABILITY 2021. [DOI: 10.3390/su131810002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The extensive accumulation of spent mushroom substrate (SMS) owing to the large-scale production of edible fungi is causing environmental problems that cannot be ignored. Co-composting is a promising method for agricultural and animal husbandry waste disposal. In this study, the composition and function of microbial communities in the process of cattle manure–maize straw composting with SMS addition were compared through an integrated meta-omics approach. The results showed that irrespective of SMS addition, the predominant fungi were Ascomycota, while the dominant bacteria were Firmicutes, Proteobacteria, Actinobacteria, and Bacteroidetes. High temperature promoted the evolution from Gram-negative bacteria (Bacteroides, Proteobacteria) to Gram-positive bacteria (Firmicutes, Actinomycetes). The composting process was accelerated by SMS addition, and the substrate was effectively degraded in 14 days. Metaproteomics results showed that the dominant microorganism, Planifilum fulgidum, secreted large amounts of S8, M17, and M32 proteases that could degrade macromolecular protein substrates in the presence of SMS. Planifilum fulgidum, along with Thermobifida fusca and Melanocarpus albomyces, synergistically degraded hemicellulose, cellulose, and protein. In addition, the dominant microorganisms related to the initial raw materials such as Pichia, Lactobacillus in the microbial agent and Hypsizygus in SMS could not adapt to the high-temperature environment (>60 °C) and were replaced by thermophilic bacteria after 5 days of composting.
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