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Wei H, You A, Wang D, Zhang A. Plant-derived essential oil contributes to the reduction of multidrug resistance genes in the sludge composting process. ENVIRONMENT INTERNATIONAL 2024; 190:108854. [PMID: 38950496 DOI: 10.1016/j.envint.2024.108854] [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: 03/02/2024] [Revised: 05/27/2024] [Accepted: 06/26/2024] [Indexed: 07/03/2024]
Abstract
Multidrug-resistant bacteria and multi-resistance genes in sludge have become a serious issue for public health. It is imperative to develop feasible and environmentally friendly methods of sludge composting to alleviate multidrug resistance genes. Plant-derived essential oil is an effective natural and eco-friendly antibacterial, which has great utilization in inhibiting pathogens in the agricultural industry. Nevertheless, the application of plant-derived essential oil to control pathogenic bacteria and antibiotic resistance in composting has not been reported. This study conducted a composting system by adding plant-derived essential oil i.e., oregano essential oil (OEO), to sludge composting. The findings indicated that multidrug resistance genes and priority pathogens (critical, high, and medium categories) were reduced by (17.0 ± 2.2)% and (26.5 ± 3.0)% in the addition of OEO (OH treatment) compared to control. Besides, the OH treatment changed the bacterial community and enhanced the gene sequences related to carbohydrate metabolism in compost microorganisms. Mantel test and variation partitioning analysis revealed that the target virulence factors (VFs), target mobile genetic elements (MGEs), and priority pathogens were the most important factors affecting multidrug resistance in composting. The OH treatment could significantly inhibit the target VFs, target MGEs, and priority pathogens, which were helpful for the suppression and elimination of multidrug resistance genes. These findings provide new insights into the regulation of multidrug resistance genes during sludge composting and a novel way to diminish the environmental risk of antibiotic resistance.
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Affiliation(s)
- Huawei Wei
- Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, School of Public Health, Guizhou Medical University, Gui'an New District 561113, Guizhou, PR China; Collaborative Innovation Center for Prevention and Control of Endemic and Ethnic Regional Diseases Co-constructed by the Province and Ministry, Guizhou Medical University, Gui'an New District 561113, Guizhou, PR China.
| | - Anbo You
- Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, School of Public Health, Guizhou Medical University, Gui'an New District 561113, Guizhou, PR China
| | - Dapeng Wang
- Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, School of Public Health, Guizhou Medical University, Gui'an New District 561113, Guizhou, PR China; Collaborative Innovation Center for Prevention and Control of Endemic and Ethnic Regional Diseases Co-constructed by the Province and Ministry, Guizhou Medical University, Gui'an New District 561113, Guizhou, PR China
| | - Aihua Zhang
- Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, School of Public Health, Guizhou Medical University, Gui'an New District 561113, Guizhou, PR China; Collaborative Innovation Center for Prevention and Control of Endemic and Ethnic Regional Diseases Co-constructed by the Province and Ministry, Guizhou Medical University, Gui'an New District 561113, Guizhou, PR China.
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Mu M, Yang F, Han B, Tian G, Zhang K. Vermicompost: In situ retardant of antibiotic resistome accumulation in cropland soils. J Environ Sci (China) 2024; 141:277-286. [PMID: 38408828 DOI: 10.1016/j.jes.2023.05.032] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Revised: 05/18/2023] [Accepted: 05/22/2023] [Indexed: 02/28/2024]
Abstract
The dissemination of antibiotic resistance genes (ARGs) in soil has become a global environmental issue. Vermicomposting is gaining prominence in agricultural practices as a soil amendment to improve soil quality. However, its impact on soil ARGs remains unclear when it occurs in farmland. We comprehensively explored the evolution and fate of ARGs and their hosts in the field soil profiles under vermicompost application for more than 3 years. Vermicompost application increased several ARG loads in soil environment but decreased the high-risk bla-ARGs (blaampC, blaNDM, and blaGES-1) by log(0.04 - 0.43). ARGs in soil amended with vermicompost primarily occurred in topsoil (approximately 1.04-fold of unfertilized soil), but it is worth noting that their levels in the 40-60 cm soil layer were the same or even less than in the unfertilized soil. The microbial community structure changed in soil profiles after vermicompost application. Vermicompost application altered the microbial community structure in soil profiles, showing that the dominant bacteria (i.e., Proteobacteria, Actinobacteriota, Firmicutes) were decreased 2.62%-5.48% with the increase of soil depth. A network analysis further revealed that most of ARG dominant host bacteria did not migrate from surface soil to deep soil. In particular, those host bacteria harboring high-risk bla-ARGs were primarily concentrated in the surface soil. This study highlights a lower risk of the propagation of ARGs caused by vermicompost application and provides a novel approach to reduce and relieve the dissemination of ARGs derived from animals in agricultural production.
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Affiliation(s)
- Meirui Mu
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Fengxia Yang
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China.
| | - Bingjun Han
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Guisheng Tian
- Wuxue City Agriculture and Rural Bureau, Wuhan 435400, China
| | - Keqiang Zhang
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China; Key Laboratory of Low-carbon Green Agriculture in North China, Ministry of Agriculture and Rural Affairs P. R. China, Beijing 10083, China.
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Ng HJ, Goh KM, Yahya A, Abdul-Wahab MF. Microbial community dynamics and functional potentials in the conversion of oil palm wastes into biomethane. 3 Biotech 2024; 14:91. [PMID: 38419684 PMCID: PMC10897112 DOI: 10.1007/s13205-024-03933-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2023] [Accepted: 01/14/2024] [Indexed: 03/02/2024] Open
Abstract
Oil palm processing generates substantial waste materials rich in organic content, posing various environmental challenges. Anaerobic digestion (AD), particularly for palm oil mill effluent (POME), offers a sustainable solution, by converting waste into valuable biomethane for thermal energy or electricity generation. The synergistic activities of the AD microbiota directly affect the biomethane production, and the microbial community involved in biomethane production in POME anaerobic digestion has been reported. The composition of bacterial and archaeal communities varies under different substrate and physicochemical conditions. This review discusses the characteristics of POME, explores the microbial members engaged in each stage of AD, and elucidates the impacts of substrate and physicochemical conditions on the microbial community dynamics, with a specific focus on POME. Finally, the review outlines current research needs and provides future perspectives on optimizing the microbial communities for enhanced biomethane production from oil palm wastes.
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Affiliation(s)
- Hui Jing Ng
- Faculty of Science, Department of Biosciences, Universiti Teknologi Malaysia, 81310 UTM Johor Bahru, Johor, Malaysia
| | - Kian Mau Goh
- Faculty of Science, Department of Biosciences, Universiti Teknologi Malaysia, 81310 UTM Johor Bahru, Johor, Malaysia
| | - Adibah Yahya
- Faculty of Science, Department of Biosciences, Universiti Teknologi Malaysia, 81310 UTM Johor Bahru, Johor, Malaysia
| | - Mohd Firdaus Abdul-Wahab
- Faculty of Science, Department of Biosciences, Universiti Teknologi Malaysia, 81310 UTM Johor Bahru, Johor, Malaysia
- Taiwan-Malaysia Innovation Centre for Clean Water and Sustainable Energy (WISE Centre), 81310 UTM Johor Bahru, Johor, Malaysia
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4
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Wei X, Sun X, Zhang H, Zhong Q, Lu G. The influence of low-temperature resistant lactic acid bacteria on the enhancement of quality and the microbial community in winter Jerusalem Artichoke ( Helianthus tuberosus L.) silage on the Qinghai-Tibet Plateau. Front Microbiol 2024; 15:1297220. [PMID: 38348187 PMCID: PMC10860748 DOI: 10.3389/fmicb.2024.1297220] [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: 10/04/2023] [Accepted: 01/11/2024] [Indexed: 02/15/2024] Open
Abstract
Jerusalem Artichoke (Helianthus tuberosus L.), an emerging "food and fodder" economic crop on the Qinghai-Tibet Plateau. To tackle problems such as incomplete fermentation and nutrient loss occurring during the low-temperature ensilage of Jerusalem Artichokes in the plateau's winter, this study inoculated two strains of low-temperature resistant lactic acid bacteria, Lactobacillus plantarum (GN02) and Lactobacillus brevis (XN25), along with their mixed components, into Jerusalem Artichoke silage material. We investigated how low-temperature resistant lactic acid bacteria enhance the quality of low-temperature silage fermentation for Jerusalem Artichokes and clarify its mutual feedback effect with microorganisms. Results indicated that inoculating low-temperature resistant lactic acid bacteria significantly reduces the potential of hydrogen and water-soluble carbohydrates content of silage, while increasing lactic acid and acetic acid levels, reducing propionic acid, and preserving additional dry matter. Inoculating the L. plantarum group during fermentation lowers pH and propionic acid levels, increases lactic acid content, and maintains a dry matter content similar to the original material. Bacterial community diversity exhibited more pronounced changes than fungal diversity, with inoculation having a minor effect on fungal community diversity. Within the bacteria, Lactobacillus remains consistently abundant (>85%) in the inoculated L. plantarum group. At the fungal phylum and genus levels, no significant changes were observed following fermentation, and dominant fungal genera in all groups did not differ significantly from those in the raw material. L. plantarum exhibited a positive correlation with lactic acid and negative correlations with pH and propionic acid. In summary, the inoculation of L. plantarum GN02 facilitated the fermentation process, preserved an acidic silage environment, and ensured high fermentation quality; it is a suitable inoculant for low-temperature silage in the Qinghai-Tibet Plateau.
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Affiliation(s)
- Xiaoqiang Wei
- Qinghai University, Xining, China
- Qinghai Provincial Key Laboratory of Vegetable Genetics and Physiology, Xining, China
- Academy of Agriculture and Forestry Sciences, Qinghai University, Xining, China
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, China
| | - Xuemei Sun
- Qinghai University, Xining, China
- Qinghai Provincial Key Laboratory of Vegetable Genetics and Physiology, Xining, China
- Academy of Agriculture and Forestry Sciences, Qinghai University, Xining, China
| | - Haiwang Zhang
- Qinghai University, Xining, China
- Qinghai Provincial Key Laboratory of Vegetable Genetics and Physiology, Xining, China
- Academy of Agriculture and Forestry Sciences, Qinghai University, Xining, China
| | - Qiwen Zhong
- Qinghai University, Xining, China
- Qinghai Provincial Key Laboratory of Vegetable Genetics and Physiology, Xining, China
- Academy of Agriculture and Forestry Sciences, Qinghai University, Xining, China
| | - Guangxin Lu
- Qinghai University, Xining, China
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, China
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Wei M, Flowers L, Knight SAB, Zheng Q, Murga-Garrido S, Uberoi A, Pan JTC, Walsh J, Schroeder E, Chu EW, Campbell A, Shin D, Bradley CW, Duran-Struuck R, Grice EA. Harnessing diversity and antagonism within the pig skin microbiota to identify novel mediators of colonization resistance to methicillin-resistant Staphylococcus aureus. mSphere 2023; 8:e0017723. [PMID: 37404023 PMCID: PMC10449522 DOI: 10.1128/msphere.00177-23] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2023] [Accepted: 05/02/2023] [Indexed: 07/06/2023] Open
Abstract
The microbiota mediate multiple aspects of skin barrier function, including colonization resistance to pathogens such as Staphylococcus aureus. The endogenous skin microbiota limits S. aureus colonization via competition and direct inhibition. Novel mechanisms of colonization resistance are promising therapeutic targets for drug-resistant infections, such as those caused by methicillin-resistant S. aureus (MRSA). Here, we developed and characterized a swine model of topical microbiome perturbation and MRSA colonization. As in other model systems, topical antimicrobial treatment had a little discernable effect on community diversity though the overall microbial load was sensitive to multiple types of intervention, including swabbing. In parallel, we established a porcine skin culture collection and screened 7,700 isolates for MRSA inhibition. Using genomic and phenotypic criteria, we curated three isolates to investigate whether prophylactic colonization would inhibit MRSA colonization in vivo. The three-member consortium together, but not individually, provided protection against MRSA colonization, suggesting cooperation and/or synergy among the strains. Inhibitory isolates were represented across all major phyla of the pig skin microbiota and did not have a strong preference for inhibiting closely related species, suggesting that relatedness is not a condition of antagonism. These findings reveal the porcine skin as an underexplored reservoir of skin commensal species with the potential to prevent MRSA colonization and infection. IMPORTANCE The skin microbiota is protective against pathogens or opportunists such as S. aureus, the most common cause of skin and soft tissue infections. S. aureus can colonize normal skin and nasal passages, and colonization is a risk factor for infection, especially on breach of the skin barrier. Here, we established a pig model to study the competitive mechanisms of the skin microbiota and their role in preventing colonization by MRSA. This drug-resistant strain is also a livestock pathogen, and swine herds can be reservoirs of MRSA carriage. From 7,700 cultured skin isolates, we identified 37 unique species across three phyla that inhibited MRSA. A synthetic community of three inhibitory isolates provided protection together, but not individually, in vivo in a murine model of MRSA colonization. These findings suggest that antagonism is widespread in the pig skin microbiota, and these competitive interactions may be exploited to prevent MRSA colonization.
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Affiliation(s)
- Monica Wei
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Laurice Flowers
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Simon A. B. Knight
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Qi Zheng
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Sofia Murga-Garrido
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Aayushi Uberoi
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Jamie Ting-Chun Pan
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Jasmine Walsh
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Erin Schroeder
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Emily W. Chu
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Amy Campbell
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Daniel Shin
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Charles W. Bradley
- Department of Pathobiology, School of Veterinary Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Raimon Duran-Struuck
- Department of Pathobiology, School of Veterinary Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
| | - Elizabeth A. Grice
- Department of Dermatology & Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA
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6
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Chen S, Zhong W, Ning Z, Niu J, Feng J, Qin X, Li Z. Effect of homemade compound microbial inoculum on the reduction of terramycin and antibiotic resistance genes in terramycin mycelial dreg aerobic composting and its mechanism. BIORESOURCE TECHNOLOGY 2023; 368:128302. [PMID: 36403916 DOI: 10.1016/j.biortech.2022.128302] [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: 10/07/2022] [Revised: 11/02/2022] [Accepted: 11/05/2022] [Indexed: 06/16/2023]
Abstract
In order to tackle the issue of terramycin mycelial dreg (TMD) diagnosis and removal of terramycin and antibiotic resistance genes (ARGs), this study adopted aerobic composting (AC) technology and added homemade compound microbial inoculum (HCMI) to promote the AC of TMD and enhance the removal of terramycin and ARGs. The findings demonstrated that terramycin residue could be basically harmless after AC. Moreover, HCMI not only reduced QacB and tetH but also increased the degradation rates of VanRA, VanT, and dfrA24 by 40.81%, 5.65%, and 54.18%, respectively. The HCMI improved the removal rate of ARG subtypes to a certain extent. According to redundancy analysis, during AC, the succession of the microbial community had a stronger influence on the variance of ARG subtype than the environmental conditions. Differences in the abundance of various bacteria due to changes in temperature may be an intrinsic mechanism for the variation of ARG subtypes.
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Affiliation(s)
- Sainan Chen
- College of Environmental Science and Engineering, Hebei University of Science and Technology, Shijiazhuang 050018, China; Pollution Prevention Biotechnology Laboratory of Hebei Province, Shijiazhuang 050018, China
| | - Weizhang Zhong
- College of Environmental Science and Engineering, Hebei University of Science and Technology, Shijiazhuang 050018, China; Pollution Prevention Biotechnology Laboratory of Hebei Province, Shijiazhuang 050018, China.
| | - Zhifang Ning
- College of Environmental Science and Engineering, Hebei University of Science and Technology, Shijiazhuang 050018, China; Pollution Prevention Biotechnology Laboratory of Hebei Province, Shijiazhuang 050018, China
| | - Jianrui Niu
- College of Environmental Science and Engineering, Hebei University of Science and Technology, Shijiazhuang 050018, China; Pollution Prevention Biotechnology Laboratory of Hebei Province, Shijiazhuang 050018, China
| | - Jing Feng
- Key Laboratory of Energy Resource Utilization from Agricultural Residues, Ministry of Agriculture and Rural Affairs of the People's Republic of China, Chinese Academy of Agricultural Planning and Engineering, Beijing 100125, China
| | - Xue Qin
- College of Environmental Science and Engineering, Hebei University of Science and Technology, Shijiazhuang 050018, China; Pollution Prevention Biotechnology Laboratory of Hebei Province, Shijiazhuang 050018, China
| | - Zaixing Li
- College of Environmental Science and Engineering, Hebei University of Science and Technology, Shijiazhuang 050018, China; Pollution Prevention Biotechnology Laboratory of Hebei Province, Shijiazhuang 050018, China
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Rupani PF, Embrandiri A, Rezania S, Wang S, Shao W, Domínguez J, Appels L. Changes in the microbiota during biological treatment of palm oil mill waste: A critical review. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2022; 320:115772. [PMID: 35944317 DOI: 10.1016/j.jenvman.2022.115772] [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: 05/12/2022] [Revised: 07/05/2022] [Accepted: 07/14/2022] [Indexed: 06/15/2023]
Abstract
Palm oil mill waste has a complex cellulosic structure, is rich in nutrients, and provides a habitat for diverse microbial communities. Current research focuses on how the microbiota and organic components interact during the degradation of this type of waste. Some recent studies have described the microbial communities present in different biodegradation processes of palm oil mill waste, identifying the dominant bacteria/fungi responsible for breaking down the cellulosic components. However, understanding the degradation process's mechanisms is vital to eliminating the need for further pretreatment of lignocellulosic compounds in the waste mixture and facilitating the commercialization of palm oil mill waste treatment technology. Thus, the present work aims to review microbial community dynamics via three biological treatment systems comprehensively: composting, vermicomposting, and dark fermentation, to understand how inspiration from nature can further enhance existing degradation processes. The information presented could be used as an umbrella to current research on biological treatment processes and specific research on the bioaugmentation of indigenous microbial consortia isolated during the biological degradation of palm oil mill waste.
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Affiliation(s)
- Parveen Fatemeh Rupani
- KU Leuven, Department of Chemical Engineering, Process and Environmental Technology Lab, Jan Pieter De Nayerlaan 5, B-2860 Sint-Katelijne-Waver, Belgium.
| | - Asha Embrandiri
- Department of Environmental Health, Wollo University, Dessie, 1145, Amhara, Ethiopia.
| | - Shahabaldin Rezania
- Department of Environment and Energy, Sejong University, Seoul, 05006, South Korea.
| | - Shuang Wang
- School of Energy and Power Engineering, Jiangsu University, Zhenjiang, 212013, Jiangsu, PR China.
| | - Weilan Shao
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, Jiangsu, PR China.
| | - Jorge Domínguez
- Grupo de Ecoloxía Animal (GEA), Universidade de Vigo, 36310, Vigo, Spain.
| | - Lise Appels
- KU Leuven, Department of Chemical Engineering, Process and Environmental Technology Lab, Jan Pieter De Nayerlaan 5, B-2860 Sint-Katelijne-Waver, Belgium.
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Mu M, Yang F, Han B, Tian X, Zhang K. Manure application: A trigger for vertical accumulation of antibiotic resistance genes in cropland soils. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2022; 237:113555. [PMID: 35483148 DOI: 10.1016/j.ecoenv.2022.113555] [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: 11/25/2021] [Revised: 03/08/2022] [Accepted: 04/19/2022] [Indexed: 06/14/2023]
Abstract
The application of livestock manure increases the dissemination risk of antibiotic resistance genes (ARGs) in farmland soil environment. However, the vertical migration behavior and driving factor of ARGs in manured soil under swine manure application remains undefined. Here, the dynamics of ARGs, mobile genetic elements (MGEs) and bacterial communities in different soil depths (0 - 80 cm) with long-term swine manure application were tracked and conducted using real-time qPCR. Results showed that long-term application of swine manure remarkably facilitated the vertical accumulation of ARGs and MGEs, in particular that the relative abundance of blaampC showed significant enrichment with increasing depth. ARGs abundance was similar in the three fields with long-term application of swine manure. (p>0.05). Procrustes analysis indicated that microbial communities were the dominant drivers of ARGs variation in topsoil, and the changes of environmental factors played a vital role in vertical migration ARGs in cropland soils. Additionally, the variation patterns of high-risk ARGs (i.e., blaampC, blaTEM-1) were influenced by the dominant bacteria (Actinomycetes) and pH. This study illustrated that the swine manure application promoted the vertical migration of ARGs, including multidrug resistance determinants, highlighting the ecological risk caused by long-term manure application.
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Affiliation(s)
- Meirui Mu
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Fengxia Yang
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China.
| | - Bingjun Han
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Xueli Tian
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Keqiang Zhang
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China.
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Werner KA, Poehlein A, Schneider D, El-Said K, Wöhrmann M, Linkert I, Hübner T, Brüggemann N, Prost K, Daniel R, Grohmann E. Thermophilic Composting of Human Feces: Development of Bacterial Community Composition and Antimicrobial Resistance Gene Pool. Front Microbiol 2022; 13:824834. [PMID: 35250940 PMCID: PMC8895236 DOI: 10.3389/fmicb.2022.824834] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Accepted: 01/10/2022] [Indexed: 01/01/2023] Open
Abstract
In times of climate change, practicing sustainable, climate-resilient, and productive agriculture is of primordial importance. Compost from different resources, now treated as wastes, could be one form of sustainable fertilizer creating a resilience of agriculture to the adverse effects of climate change. However, the safety of the produced compost regarding human pathogens, pharmaceuticals, and related resistance genes must be considered. We have assessed the effect of thermophilic composting of dry toilet contents, green cuttings, and straw, with and without biochar, on fecal indicators, the bacterial community, and antibiotic resistance genes (ARGs). Mature compost samples were analyzed regarding fecal indicator organisms, revealing low levels of Escherichia coli that are in line with German regulations for fertilizers. However, one finding of Salmonella spp. exceeded the threshold value. Cultivation of bacteria from the mature compost resulted in 200 isolates with 36.5% of biosafety level 2 (BSL-2) species. The majority is known as opportunistic pathogens that likewise occur in different environments. A quarter of the isolated BSL-2 strains exhibited multiresistance to different classes of antibiotics. Molecular analysis of total DNA before and after composting revealed changes in bacterial community composition and ARGs. 16S rRNA gene amplicon sequencing showed a decline of the two most abundant phyla Proteobacteria (start: 36-48%, end: 27-30%) and Firmicutes (start: 13-33%, end: 12-16%), whereas the abundance of Chloroflexi, Gemmatimonadetes, and Planctomycetes rose. Groups containing many human pathogens decreased during composting, like Pseudomonadales, Bacilli with Bacillus spp., or Staphylococcaceae and Enterococcaceae. Gene-specific PCR showed a decline in the number of detectable ARGs from 15 before to 8 after composting. The results reveal the importance of sufficiently high temperatures lasting for a sufficiently long period during the thermophilic phase of composting for reducing Salmonella to levels matching the criteria for fertilizers. However, most severe human pathogens that were targeted by isolation conditions were not detected. Cultivation-independent analyses also indicated a decline in bacterial orders comprising many pathogenic bacteria, as well as a decrease in ARGs. In summary, thermophilic composting could be a promising approach for producing hygienically safe organic fertilizer from ecological sanitation.
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Affiliation(s)
- Katharina A. Werner
- Faculty of Life Sciences and Technology, Department of Microbiology, Berliner Hochschule für Technik, Berlin, Germany
| | - Anja Poehlein
- Göttingen Genomics Laboratory, Department of Genomic and Applied Microbiology, Institute of Microbiology and Genetics, Georg-August-Universität Göttingen, Göttingen, Germany
| | - Dominik Schneider
- Göttingen Genomics Laboratory, Department of Genomic and Applied Microbiology, Institute of Microbiology and Genetics, Georg-August-Universität Göttingen, Göttingen, Germany
| | - Khaliel El-Said
- Faculty of Life Sciences and Technology, Department of Microbiology, Berliner Hochschule für Technik, Berlin, Germany
| | - Michael Wöhrmann
- Faculty of Life Sciences and Technology, Department of Microbiology, Berliner Hochschule für Technik, Berlin, Germany
| | - Isabel Linkert
- Faculty of Life Sciences and Technology, Department of Microbiology, Berliner Hochschule für Technik, Berlin, Germany
| | - Tobias Hübner
- Department of Environmental Microbiology, Helmholtz-Centre for Environmental Research GmbH - UFZ, Leipzig, Germany
| | - Nicolas Brüggemann
- Institute of Bio- and Geosciences Agrosphere (IBG-3), Forschungszentrum Jülich, Jülich, Germany
| | - Katharina Prost
- Institute of Bio- and Geosciences Agrosphere (IBG-3), Forschungszentrum Jülich, Jülich, Germany
| | - Rolf Daniel
- Göttingen Genomics Laboratory, Department of Genomic and Applied Microbiology, Institute of Microbiology and Genetics, Georg-August-Universität Göttingen, Göttingen, Germany
| | - Elisabeth Grohmann
- Faculty of Life Sciences and Technology, Department of Microbiology, Berliner Hochschule für Technik, Berlin, Germany
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10
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Pham VHT, Ahn JY, Ro YH, Ravindran B, Kim JS, Chang SW, Shim JH, Chung WJ. The efficiency of potential food waste-degrading bacteria under harsh conditions. J Appl Microbiol 2021; 132:340-350. [PMID: 33900007 DOI: 10.1111/jam.15119] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Revised: 04/02/2021] [Accepted: 04/21/2021] [Indexed: 11/27/2022]
Abstract
AIMS Investigate the impact of highly adapted bacterial strains and their ability in waste degradation under a wide range of temperatures. METHODS AND RESULTS Bacteria isolated from soil and food waste were grown in various media under fluctuated temperatures. After screening for organic compound degradation, the seven strongest bacterial strains have been selected for further experiments. Their enzyme activities were expressed in terms of the size of the hydrolysis zone in a wide temperature range of 2.5-70 ºC. The enzyme production assay was carried out for each protease, cellulase, and amylase. The waste degradation was determined with a maximum 80% decrease in the volume of food waste in 21 days compared to the control in lab-scale with enriched bacterial cultures and soil bacteria as additives at room temperature around 18 ºC-20 ºC. CONCLUSION These seven bacteria are promising candidates for food waste biodegradation in composting especially in the winter without heating expense for maintaining ambient temperature. SIGNIFICANCE AND IMPACT OF THE STUDY It is necessary to coax the uncultured bacteria from the various environments into the laboratory for investigating their valuable functions. Herein, using enrichment culture of consortium and additive of soil have illustrated the significant mean in food waste degradation.
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Affiliation(s)
- Van Hong Thi Pham
- Environmental Remediation Laboratory, Department of Environmental Energy Engineering, Kyonggi University, South Korea
| | - Jeong Yoon Ahn
- Environmental Remediation Laboratory, Department of Environmental Energy Engineering, Kyonggi University, South Korea
| | - Yeon Hee Ro
- Environmental Remediation Laboratory, Department of Environmental Energy Engineering, Kyonggi University, South Korea
| | - Balasubramani Ravindran
- Environmental Remediation Laboratory, Department of Environmental Energy Engineering, Kyonggi University, South Korea
| | - Jai Soo Kim
- Microbial Ecology Laboratory, Department of Life Science, Kyonggi University, South Korea
| | - Soon Woong Chang
- Environmental Remediation Laboratory, Department of Environmental Energy Engineering, Kyonggi University, South Korea
| | - Jea Hong Shim
- Fertilizer Resources Lab, Soil and Fertilizer Management Division, National Institute of Agricultural Science, Rural Development Administration
| | - Woo Jin Chung
- Environmental Remediation Laboratory, Department of Environmental Energy Engineering, Kyonggi University, South Korea
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11
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Wang Y, Gong J, Li J, Xin Y, Hao Z, Chen C, Li H, Wang B, Ding M, Li W, Zhang Z, Xu P, Xu T, Ding GC, Li J. Insights into bacterial diversity in compost: Core microbiome and prevalence of potential pathogenic bacteria. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 718:137304. [PMID: 32087588 DOI: 10.1016/j.scitotenv.2020.137304] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2019] [Revised: 02/12/2020] [Accepted: 02/12/2020] [Indexed: 06/10/2023]
Abstract
Fertilizer-replacement programs by the ministry of agriculture and rural affairs are extraordinary actions for environment protection and sustainable agriculture in China. A national-level survey was performed to acquire consensuses of bio-physiochemical properties for composts. A total of 116 compost samples collected from 16 provinces in China were analyzed by high throughput sequencing of bacterial 16S rRNA gene amplicons. The germination index and bacterial alpha-diversity were lower in composts from poultry manure than others. This large-scale survey revealed that bacterial communities were distinct among different composts and slightly explained by pH, moisture and total nitrogen, but not by raw material or composting process. Nevertheless, 26 OTUs affiliated with Firmicutes (Cerasibacillus, Atopostipes and Bacillus) and Actinobacteria (Thermobifida, Actinomadura and Nocardiopsis) were present in most (>90%) composts and majority of these bacterial species were possibly associated with the biodegradation of organic materials. Surprisingly, 629 potential human or animal bacterial pathogens accounting an average of 1.21% of total 16S rRNA gene were detected and these bacteria were mainly affiliated with Helicobacter, Staphylococcus, Acinotobacter, Streptococcus, Mycobacterium and Enterococcus. In summary, this study provides baseline data for the diversity and abundance of core microbiome and potential pathogens in composts.
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Affiliation(s)
- Yue Wang
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Jingyang Gong
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Jiaxin Li
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Yuanyuan Xin
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Ziyi Hao
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Chen Chen
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Huixiu Li
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Bo Wang
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Min Ding
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Wanwan Li
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Zeyu Zhang
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Pengxiang Xu
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China
| | - Ting Xu
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University and Suzhou ViHong Biotechnology, Wuzhong District, 215128, Jiangsu Province, China
| | - Guo-Chun Ding
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University and Suzhou ViHong Biotechnology, Wuzhong District, 215128, Jiangsu Province, China.
| | - Ji Li
- College of Resources and Environmental Sciences, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Yuanmingyuan West Road No.2, Haidian District, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University and Suzhou ViHong Biotechnology, Wuzhong District, 215128, Jiangsu Province, China.
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12
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Zainudin MH, Mustapha NA, Maeda T, Ramli N, Sakai K, Hassan M. Biochar enhanced the nitrifying and denitrifying bacterial communities during the composting of poultry manure and rice straw. WASTE MANAGEMENT (NEW YORK, N.Y.) 2020; 106:240-249. [PMID: 32240940 DOI: 10.1016/j.wasman.2020.03.029] [Citation(s) in RCA: 90] [Impact Index Per Article: 22.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/26/2019] [Revised: 03/20/2020] [Accepted: 03/22/2020] [Indexed: 06/11/2023]
Abstract
Biochar has proven to be a feasible additive for mitigating nitrogen loss during the composting process. This study aims to evaluate the influence of biochar addition on bacterial community and physicochemical properties changes, including ammonium (NH4+), nitrite (NO2-) and nitrate (NO3-) contents during the composting of poultry manure. The composting was carried out by adding 20% (w/w) of biochar into the mixture of poultry manure and rice straw with a ratio of 2:1, and the same treatment without biochar was prepared as a control. The finished product of control compost recorded the high contents of NO2- and NO3- (366 mg/kg and 600 mg/kg) with reduced the total NH4+ content to 10 mg/kg. Meanwhile, biochar compost recorded a higher amount of total NH4+ content (110 mg/kg) with low NO2- and NO3- (161 mg/kg and 137 mg/kg) content in the final composting material. The principal component analysis showed that the dynamics of dominant genera related to Halomonas, Pusillimonas, and Pseudofulvimonas, all of which were known as nitrifying and denitrifying bacteria, was significantly correlated with the dynamic of NO2- and NO3- content throughout the composting process. The genera related to Pusillimonas, and Pseudofulvimonas appeared as the dominant communities as the NO2- and NO3- increased. In contrast, as the NO2- and NO3- concentration decreased, the Halomonas genus were notably enriched in biochar compost. This study revealed the bacterial community shifts corresponded with the change of physicochemical properties, which provides essential information for a better understanding of monitoring and improving the composting process.
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Affiliation(s)
- Mohd Huzairi Zainudin
- Laboratory of Sustainable Animal Production and Biodiversity, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia.
| | - Nurul Asyifah Mustapha
- Department of Biological Function and Engineering, Graduate School of Life Science and System Engineering, Kyushu Institute of Technology, 2-4 Hibikino, Wakamatsu-ku, Fukuoka 808-0196, Japan
| | - Toshinari Maeda
- Department of Biological Function and Engineering, Graduate School of Life Science and System Engineering, Kyushu Institute of Technology, 2-4 Hibikino, Wakamatsu-ku, Fukuoka 808-0196, Japan
| | - Norhayati Ramli
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia
| | - Kenji Sakai
- Laboratory of Soil and Environmental Microbiology, Division of Systems Bioengineering, Graduate School of Bioresources and Bioenviromental Sciences, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Mohd Hassan
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia
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13
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Li H, Cheng W, Li B, Xu Y, Zheng X. The fate of antibiotic resistance genes during co-composting of swine manure with cauliflower and corn straw. BIORESOURCE TECHNOLOGY 2020; 300:122669. [PMID: 31891854 DOI: 10.1016/j.biortech.2019.122669] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2019] [Revised: 12/20/2019] [Accepted: 12/22/2019] [Indexed: 06/10/2023]
Abstract
Composting is not completely effective in reducing antibiotic resistance genes (ARGs) in animal manure. This work studied the effects of different treatment conditions on the fate of ARGs in composting swine manure with cauliflower and corn straw as bulking agents. The results showed that the addition of microbial agents or the ratio of corn stalks to cauliflower (1:12) could significantly decrease the absolute abundances of most ARGs (an average of 480 times) compared with the control treatment. Principal component analysis indicated that bacterial communities were significantly correlated with ARG abundance, suggesting that microbial communities have an impact on ARG variation during co-composting. Redundancy and Network analysis confirmed the changing patterns of individual ARGs (qnrS, blaAmpC, blaTEM-1) were influenced by the selectivity of host bacteria (Pseudomonas, Klebsiella, and Halocella) and environmental variables (TN, NH3-N, TOC, and pH). These findings helped to optimize composting conditions, thereby reducing the risk of ARGs spread.
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Affiliation(s)
- Houyu Li
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Weimin Cheng
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
| | - Bihan Li
- College of Life Sciences, Shandong Agricultural University, Tai'an 271018, China
| | - Yan Xu
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China.
| | - Xiangqun Zheng
- Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China
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14
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Qiao C, Ryan Penton C, Liu C, Shen Z, Ou Y, Liu Z, Xu X, Li R, Shen Q. Key extracellular enzymes triggered high-efficiency composting associated with bacterial community succession. BIORESOURCE TECHNOLOGY 2019; 288:121576. [PMID: 31176934 DOI: 10.1016/j.biortech.2019.121576] [Citation(s) in RCA: 51] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2019] [Revised: 05/25/2019] [Accepted: 05/27/2019] [Indexed: 05/22/2023]
Abstract
A consortium of key bacterial taxa plays critical roles in the composting process. In order to elucidate the identity and mechanisms by which specific bacterial species drive high-efficiency composting, the succession of key bacterial consortia and extracellular enzymes produced during the composting process were monitored in composting piles with varying initial C/N ratios. Results showed that C/N ratios of 25 and 35 enhanced composting efficiency through elevated temperatures, higher germination indices, enhanced cellulose and hemicellulose degradation, and higher cellulase and dehydrogenase activities. The activities of cellulase and β-glucosidase, cellulase and protease, and cellulase and β-glucosidase exhibited significant relationships with bacterial community composition within the mesophilic, thermophilic, and mature phases, respectively. Putative key taxa, linked to a higher composting efficiency, such as Nonomuraea, Desemzia, Cellulosimicrobium, Virgibacillus, Clostridium, and Achromobacter, exhibited significantly positive relationships with extracellular enzyme activities, suggesting a significant contribution to these taxa to the development of composting maturity.
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Affiliation(s)
- Cece Qiao
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China; College of Integrative Sciences and Arts, Center for Fundamental and Applied Microbiomics, The Biodesign Institute, Arizona State University, Mesa, AZ, USA
| | - C Ryan Penton
- College of Integrative Sciences and Arts, Center for Fundamental and Applied Microbiomics, The Biodesign Institute, Arizona State University, Mesa, AZ, USA
| | - Chao Liu
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China
| | - Zongzhuan Shen
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China
| | - Yannan Ou
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China
| | - Zhengyang Liu
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China
| | - Xu Xu
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China
| | - Rong Li
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China.
| | - Qirong Shen
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing 210095, Jiangsu, PR China
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15
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Liao H, Friman VP, Geisen S, Zhao Q, Cui P, Lu X, Chen Z, Yu Z, Zhou S. Horizontal gene transfer and shifts in linked bacterial community composition are associated with maintenance of antibiotic resistance genes during food waste composting. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 660:841-850. [PMID: 30743970 DOI: 10.1016/j.scitotenv.2018.12.353] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2018] [Revised: 12/02/2018] [Accepted: 12/23/2018] [Indexed: 06/09/2023]
Abstract
About 1.3 billion tons of food waste (FW) is annually produced at a global scale. A major fraction of FW is deposited into landfills thereby contributing to environmental pollution and emission of greenhouse gasses. While increasing amounts of FW are recycled more sustainably into fertilizers in industrial-scale composting, very little is known about the antibiotic resistance genes (ARGs) present in FW and how their abundance is affected by composting. To study this, we quantified the diversity and abundance of ARGs, mobile genetic elements (MGEs) and bacterial communities in the beginning, during and at the end of the FW composting. All targeted 27 ARGs and 5 MGEs were detected in every sample suggesting that composted FW remains a reservoir of ARGs and MGEs. While the composting drastically changed the abundance, composition and diversity of bacterial communities, an increase in total ARG and MGE abundances was observed. Changes in ARGs were linked with shifts in the composition of bacterial communities as revealed by a Procrustes analysis (P < 0.01). Crucially, even though the high composting temperatures reduced the abundance and diversity of initially ARG-associated bacterial taxa, ARG abundances were maintained in other associated bacterial taxa. This was likely driven by horizontal gene transfer and physicochemical composting properties as revealed by a clear positive correlation between ARGs, MGEs, pH, NO3- and moisture. Together our findings suggest that traditional composting is not efficient at removing ARGs and MGEs from FW. More effective composting strategies are thus needed to minimize ARG release from composted FW into agricultural environments.
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Affiliation(s)
- Hanpeng Liao
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Ville-Petri Friman
- Department of Biology, Wentworth Way, YO10 5DD, University of York, York, UK
| | - Stefan Geisen
- Department of Terrestrial Ecology, Netherlands Institute of Ecology, Wageningen, Netherlands
| | - Qian Zhao
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Peng Cui
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Xiaomei Lu
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zhi Chen
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zhen Yu
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-environmental Science & Technology, Guangzhou 510650, China
| | - Shungui Zhou
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
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16
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Hassan MA, Ahmad Farid MA, Shirai Y, Ariffin H, Othman MR, Samsudin MH, Hasan MY. Oil Palm Biomass Biorefinery for Sustainable Production of Renewable Materials. Biotechnol J 2019; 14:e1800394. [PMID: 30925022 DOI: 10.1002/biot.201800394] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2018] [Revised: 01/23/2019] [Indexed: 11/07/2022]
Abstract
Oil palm biomass is widely known for its potential as a renewable resource for various value-added products due to its lignocellulosic content and availability. Oil palm biomass biorefinery is an industry that comes with sociopolitical benefits through job opportunities, as well as potential environmental benefits. Many studies have been conducted on the technological advancements of oil-palm biomass-derived renewable materials, which are discussed comprehensively in this review. Recent technological developments have made it possible to bring new and innovative technologies to commercialization, such as compost, biocharcoal, biocomposites, and bioplastics.
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Affiliation(s)
- Mohd A Hassan
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, UPM Serdang, Selangor, Malaysia
| | - Mohammed A Ahmad Farid
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, UPM Serdang, Selangor, Malaysia
| | - Yoshihito Shirai
- Graduate School of Life Sciences and System Engineering, Kyushu Institute of Technology, 808-0196 Hibikino 2-4, Wakamatsu-ku, Kitakyushu-shi, Fukuoka, Japan
| | - Hidayah Ariffin
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, UPM Serdang, Selangor, Malaysia
- Institute of Tropical Forestry and Forest Products (INTROP), Universiti Putra Malaysia, 43400, UPM Serdang, Selangor, Malaysia
| | - Mohd R Othman
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, UPM Serdang, Selangor, Malaysia
| | - Mohd H Samsudin
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, UPM Serdang, Selangor, Malaysia
| | - Mohamad Y Hasan
- Section of Bioengineering Technology, Malaysian Institute of Chemical and Bioengineering Technology (MICET), Universiti Kuala Lumpur, Alor Gajah, Melaka, 78000, Malaysia
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17
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Zhang R, Gu J, Wang X, Li Y, Zhang K, Yin Y, Zhang X. Contributions of the microbial community and environmental variables to antibiotic resistance genes during co-composting with swine manure and cotton stalks. JOURNAL OF HAZARDOUS MATERIALS 2018; 358:82-91. [PMID: 29990821 DOI: 10.1016/j.jhazmat.2018.06.052] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2017] [Revised: 06/11/2018] [Accepted: 06/24/2018] [Indexed: 06/08/2023]
Abstract
Understanding the main drivers that affect the spread of antibiotic resistance genes (ARGs) during the composting process is important for the removal of ARGs. In this study, three levels of tylosin (25, 50, and 75 mg kg-1 on a dry weight basis) were added to swine manure plus a control, which was composted with cotton stalks. Each treatment was repeated in triplicate and the ARG profiles were determined with different levels of tylosin. The top 35 genera and ARGs profiles were clustered together based on the composting time. Combined composting parameters (temperature, pH, NH4+-N, NO3-N, and moisture content) accounted for 78.4% of the total variation in the changes in the potential host bacteria. In addition, the selected five composting parameters and six phyla (including 25 potential host bacterial genera) explained 46.9% and 30.7% of the variation in the ARG profiles according to redundancy analysis, respectively. The variations in ARGs during the composting process were mainly affected by the dynamics of potential host bacteria rather than integrons and the selective pressure due to bio-Cu and bio-Zn.
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Affiliation(s)
- Ranran Zhang
- 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.
| | - Xiaojuan Wang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Yang Li
- 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
| | - Yanan Yin
- 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
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18
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Chin CFS, Furuya Y, Zainudin MHM, Ramli N, Hassan MA, Tashiro Y, Sakai K. Novel multifunctional plant growth–promoting bacteria in co-compost of palm oil industry waste. J Biosci Bioeng 2017; 124:506-513. [DOI: 10.1016/j.jbiosc.2017.05.016] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2017] [Revised: 05/24/2017] [Accepted: 05/26/2017] [Indexed: 01/04/2023]
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