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Miravalle E, Balboa S, Zanetti M, Otero A, Lazzari M. New insights on the degradation of polystyrene and polypropylene by larvae of the superworm Zophobas atratus and gut bacterial consortium enrichments obtained under different culture conditions. JOURNAL OF HAZARDOUS MATERIALS 2024; 478:135475. [PMID: 39146588 DOI: 10.1016/j.jhazmat.2024.135475] [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: 05/17/2024] [Revised: 07/11/2024] [Accepted: 08/08/2024] [Indexed: 08/17/2024]
Abstract
This study aims to deepen knowledge of the biodegradation of plastics, focusing on polypropylene (PP) fabric from surgical masks and polystyrene (PS) by larvae of Zophobas atratus as well as of specialized bacterial consortia from their gut, which were obtained in different enrichment conditions (aerobic, anaerobic, presence or absence of combined nitrogen). Plastics ingested by larvae obtained in Spain did not show any signs of oxidation but only limited depolymerization, preferably from the lowest molecular weight chains. Gut microbiota composition changed as an effect of plastic feeding. Such differences were more evident in bacterial enrichment cultures, where the polymer type influenced the composition more than by culture conditions, with an increase in the presence of nitrogen-fixers in anaerobic conditions. PS and PP degradation by different enrichment cultures was confirmed under aerobic and anaerobic conditions by respirometry tests, with anaerobic conditions favouring a more active plastic degradation. In addition, exposure to selected bacterial consortia in aerobiosis induced limited surface oxidation of PS. This possibly indicates that different biochemical routes are being utilized in the anaerobic gut and in aerobic conditions to degrade the polymer.
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Affiliation(s)
- Edoardo Miravalle
- Department of Chemistry, University of Turin, 10125 Turin, Italy; Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CiQUS), Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain.
| | - Sabela Balboa
- Departamento de Microbioloxía e Parasitoloxía, Facultade de Bioloxía, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain; Cross-disciplinary Research Center in Environmental Technologies (CRETUS), Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain.
| | - Marco Zanetti
- Department of Chemistry, University of Turin, 10125 Turin, Italy.
| | - Ana Otero
- Departamento de Microbioloxía e Parasitoloxía, Facultade de Bioloxía, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain; Aquatic One Health Research Institute (iARCUS). Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain.
| | - Massimo Lazzari
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CiQUS), Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain; Departamento de Química Física, Facultade de Química, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain.
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2
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Zhuang M, Qiao C, Han L, Bi Y, Cao M, Wang S, Guo L, Pang R, Xie H. Multi-omics analyses reveal the responses of wheat (Triticum aestivum L.) and rhizosphere bacterial community to nano(micro)plastics stress. J Nanobiotechnology 2024; 22:507. [PMID: 39180071 PMCID: PMC11344414 DOI: 10.1186/s12951-024-02777-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2024] [Accepted: 08/14/2024] [Indexed: 08/26/2024] Open
Abstract
The pervasive existence of nanoplastics (NPs) and microplastics (MPs) in soil has become a worldwide environmental concern. N/MPs exist in the environment in a variety of forms, sizes, and concentrations, while multi-omics studies on the comprehensive impact of N/MPs with different properties (e.g. type and size) on plants remain limited. Therefore, this study utilized multi-omics analysis methods to investigate the effects of three common polymers [polyethylene-NPs (PE-NPs, 50 nm), PE-MPs (PE-MPs, 10 μm), and polystyrene-MPs (PS-MPs, 10 μm)] on the growth and stress response of wheat, as well as the rhizosphere microbial community at two concentrations (0.05 and 0.5 g/kg). PS and PE exhibited different effects for the same particle size and concentration. PE-NPs had the most severe stress effects, resulting in reduced rhizosphere bacteria diversity, plant biomass, and antioxidant enzyme activity while increasing beneficial bacteria richness. N/MPs altered the expression of nitrogen-, phosphorus-, and sulfur-related functional genes in rhizosphere bacteria, thereby affecting photosynthesis, as well as metabolite and gene levels in wheat leaves. Partial least squares pathway models (PLSPMs) indicated that concentration, size, and type play important roles in the impact of N/MPs on the plant ecological environment, which could have essential implications for assessing the environmental risk of N/MPs.
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Affiliation(s)
- Ming Zhuang
- Innovation Center of Pesticide Research, Department of Applied Chemistry, College of Science, China Agricultural University, 2 Yuanmingyuan Western Road, Haidian District, Beijing, 100193, China
| | - Chengkui Qiao
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009, China.
- Zhongyuan Research Center, Chinese Academy of Agricultural Sciences, Xinxiang, 453514, China.
| | - Lijun Han
- Innovation Center of Pesticide Research, Department of Applied Chemistry, College of Science, China Agricultural University, 2 Yuanmingyuan Western Road, Haidian District, Beijing, 100193, China.
| | - Yingying Bi
- SCIEX Application Center, Shanghai, 200233, China
| | - Mengyuan Cao
- Innovation Center of Pesticide Research, Department of Applied Chemistry, College of Science, China Agricultural University, 2 Yuanmingyuan Western Road, Haidian District, Beijing, 100193, China
| | - Shiyu Wang
- Innovation Center of Pesticide Research, Department of Applied Chemistry, College of Science, China Agricultural University, 2 Yuanmingyuan Western Road, Haidian District, Beijing, 100193, China
| | - Linlin Guo
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009, China
| | - Rongli Pang
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009, China
| | - Hanzhong Xie
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009, China
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3
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Di Gregorio S, Niccolini L, Seggiani M, Strangis G, Barbani N, Vitiello V, Becarelli S, Petroni G, Yan X, Buttino I. Marine copepod culture as a potential source of bioplastic-degrading microbiome: The case of poly(butylene succinate-co-adipate). CHEMOSPHERE 2024; 362:142603. [PMID: 38885765 DOI: 10.1016/j.chemosphere.2024.142603] [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: 10/12/2023] [Revised: 05/21/2024] [Accepted: 06/11/2024] [Indexed: 06/20/2024]
Abstract
The poly(butylene succinate-co-adipate) (PBSA) is emerging as environmentally sustainable polyester for applications in marine environment. In this work the capacity of microbiome associated with marine plankton culture to degrade PBSA, was tested. A taxonomic and functional characterization of the microbiome associated with the copepod Acartia tonsa, reared in controlled conditions, was analysed by 16S rDNA metabarcoding, in newly-formed adult stages and after 7 d of incubation. A predictive functional metagenomic profile was inferred for hydrolytic activities involved in bioplastic degradation with a particular focus on PBSA. The copepod-microbiome was also characterized in newly-formed carcasses of A. tonsa, and after 7 and 33 d of incubation in the plankton culture medium. Copepod-microbiome showed hydrolytic activities at all developmental stages of the alive copepods and their carcasses, however, the evenness of the hydrolytic bacterial community significantly increased with the time of incubation in carcasses. Microbial genera, never described in association with copepods: Devosia, Kordia, Lentibacter, Methylotenera, Rheinheimera, Marinagarivorans, Paraglaciecola, Pseudophaeobacter, Gaiella, Streptomyces and Kribbella sps., were retrieved. Kribbella sp. showed carboxylesterase activity and Streptomyces sp. showed carboxylesterase, triacylglycerol lipase and cutinase activities, that might be involved in PBSA degradation. A culturomic approach, adopted to isolate bacterial specimen from carcasses, led to the isolation of the bacterial strain, Vibrio sp. 01 tested for the capacity to promote the hydrolysis of the ester bonds. Granules of PBSA, incubated 82 d at 20 °C with Vibrio sp. 01, were characterized by scanning electron microscopy, infrared spectroscopy, thermogravimetric analysis, and differential scanning calorimetry, showing fractures compared to the control sample, and hydrolysis of ester bonds. These preliminary results are encouraging for further investigation on the ability of the microbiome associated with plankton to biodegrade polyesters, such as PBSA, and increasing knowledge on microorganisms involved in bioplastic degradation in marine environment.
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Affiliation(s)
- Simona Di Gregorio
- Department of Biology, University of Pisa, Via Luca Ghini 13, 56123, Pisa, Italy
| | - Luca Niccolini
- Department of Biology, University of Pisa, Via Luca Ghini 13, 56123, Pisa, Italy; Functional Biology and Plankton Genomic Lab. ISPRA - Italian Institute for Environmental Protection and Research, Via del Cedro n.38, 57122, Livorno, Italy
| | - Maurizia Seggiani
- Department of Civil and Industrial Engineering, University of Pisa, Largo Lucio Lazzarino 1, 56122, Pisa, Italy
| | - Giovanna Strangis
- Department of Civil and Industrial Engineering, University of Pisa, Largo Lucio Lazzarino 1, 56122, Pisa, Italy
| | - Niccoletta Barbani
- Department of Civil and Industrial Engineering, University of Pisa, Largo Lucio Lazzarino 1, 56122, Pisa, Italy
| | - Valentina Vitiello
- Functional Biology and Plankton Genomic Lab. ISPRA - Italian Institute for Environmental Protection and Research, Via del Cedro n.38, 57122, Livorno, Italy; Sino-Italian Joint Laboratory Functional Biology of Marine Biota, ISPRA, 57122, Livorno, Italy
| | - Simone Becarelli
- Department of Biology, University of Pisa, Via Luca Ghini 13, 56123, Pisa, Italy
| | - Giulio Petroni
- Department of Biology, University of Pisa, Via Luca Ghini 13, 56123, Pisa, Italy
| | - Xiaojun Yan
- Sino-Italian Joint Laboratory Functional Biology of Marine Biota, ISPRA, 57122, Livorno, Italy; Laboratory of Marine Biological Resources and Molecular Engineering, Marine Science and Technical College, Zhejiang Ocean University, Zhoushan City, 316022, Zhejiang, China
| | - Isabella Buttino
- Functional Biology and Plankton Genomic Lab. ISPRA - Italian Institute for Environmental Protection and Research, Via del Cedro n.38, 57122, Livorno, Italy; Sino-Italian Joint Laboratory Functional Biology of Marine Biota, ISPRA, 57122, Livorno, Italy.
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4
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Mitsumori C, Tsuboi S, Shimamura M, Miura T. Application of MicroResp™ for quick and easy detection of plastic degradation by marine bacterial isolates. MARINE ENVIRONMENTAL RESEARCH 2024; 196:106430. [PMID: 38447329 DOI: 10.1016/j.marenvres.2024.106430] [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: 12/01/2023] [Revised: 01/26/2024] [Accepted: 02/26/2024] [Indexed: 03/08/2024]
Abstract
Microplastic debris in the marine environment is a global problem. Biodegradable polymers are being developed as alternatives to petroleum-based plastics, and quick and easy methods for screening for bacterial strains that can degrade such polymers are needed. As a screening method, the clear zone method has been widely used but has technical difficulties such as plate preparation and interpretation of results. In this study, we adapted the MicroResp™ system to easily detect biodegradation activity of marine bacteria in a 3-day assay. Among the 6 bacterial strains tested, 3, 2 and 1 strain degraded poly (butylene succinate-co-adipate) (PBSA), poly (ε-caprolactone) (PCL) and poly (3-hydroxybutyrate-co-3-hydroxyhexanoate), respectively. Only one strain that showed degradation activity of PBSA and PCL in the MicroResp™ system was also positive in the clear zone assay on the respective emulsion plates. Our results show that the adapted MicroResp™ system can screen for bacterial strains that degrade plastic.
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Affiliation(s)
- Cristina Mitsumori
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), Kisarazu, 292-0818, Japan
| | - Shun Tsuboi
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), Kisarazu, 292-0818, Japan.
| | - Mamiko Shimamura
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), Kisarazu, 292-0818, Japan
| | - Takamasa Miura
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), Kisarazu, 292-0818, Japan
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5
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Barbe V, Jacquin J, Bouzon M, Wolinski A, Derippe G, Cheng J, Cruaud C, Roche D, Fouteau S, Petit JL, Conan P, Pujo-Pay M, Bruzaud S, Ghiglione JF. Bioplastic degradation and assimilation processes by a novel bacterium isolated from the marine plastisphere. JOURNAL OF HAZARDOUS MATERIALS 2024; 466:133573. [PMID: 38306834 DOI: 10.1016/j.jhazmat.2024.133573] [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: 10/17/2023] [Revised: 11/23/2023] [Accepted: 01/17/2024] [Indexed: 02/04/2024]
Abstract
Biosourced and biodegradable plastics offer a promising solution to reduce environmental impacts of plastics for specific applications. Here, we report a novel bacterium named Alteromonas plasticoclasticus MED1 isolated from the marine plastisphere that forms biofilms on foils of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV). Experiments of degradation halo, plastic matrix weight loss, bacterial oxygen consumption and heterotrophic biosynthetic activity showed that the bacterial isolate MED1 is able to degrade PHBV and to use it as carbon and energy source. The likely entire metabolic pathway specifically expressed by this bacterium grown on PHBV matrices was shown by further genomic and transcriptomic analysis. In addition to a gene coding for a probable secreted depolymerase, a gene cluster was located that encodes characteristic enzymes involved in the complete depolymerization of PHBV, the transport of oligomers, and in the conversion of the monomers into intermediates of central carbon metabolism. The transcriptomic experiments showed the activation of the glyoxylate shunt during PHBV degradation, setting the isocitrate dehydrogenase activity as regulated branching point of the carbon flow entering the tricarboxylic acid cycle. Our study also shows the potential of exploring the natural plastisphere to discover new bacteria with promising metabolic capabilities.
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Affiliation(s)
- Valérie Barbe
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - Justine Jacquin
- CNRS, Sorbonne Université, UMR 7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique de Banyuls, France
| | - Madeleine Bouzon
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - Adèle Wolinski
- CNRS, Sorbonne Université, UMR 7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique de Banyuls, France
| | - Gabrielle Derippe
- CNRS, Sorbonne Université, UMR 7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique de Banyuls, France; Institut de Recherche Dupuy de Lôme (IRDL), Université de Bretagne-Sud, UMR CNRS 6027, Rue Saint Maudé, Lorient, France
| | - Jingguang Cheng
- CNRS, Sorbonne Université, UMR 7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique de Banyuls, France
| | - Corinne Cruaud
- Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - David Roche
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - Stéphanie Fouteau
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - Jean-Louis Petit
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - Pascal Conan
- CNRS, Sorbonne Université, UMR 7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique de Banyuls, France
| | - Mireille Pujo-Pay
- CNRS, Sorbonne Université, UMR 7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique de Banyuls, France
| | - Stéphane Bruzaud
- Institut de Recherche Dupuy de Lôme (IRDL), Université de Bretagne-Sud, UMR CNRS 6027, Rue Saint Maudé, Lorient, France
| | - Jean-François Ghiglione
- CNRS, Sorbonne Université, UMR 7621, Laboratoire d'Océanographie Microbienne, Observatoire Océanologique de Banyuls, France.
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6
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Lian Y, Shi R, Liu J, Zeb A, Wang Q, Wang J, Yu M, Li J, Zheng Z, Ali N, Bao Y, Liu W. Effects of polystyrene, polyethylene, and polypropylene microplastics on the soil-rhizosphere-plant system: Phytotoxicity, enzyme activity, and microbial community. JOURNAL OF HAZARDOUS MATERIALS 2024; 465:133417. [PMID: 38183945 DOI: 10.1016/j.jhazmat.2023.133417] [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: 10/09/2023] [Revised: 12/04/2023] [Accepted: 12/29/2023] [Indexed: 01/08/2024]
Abstract
The widespread presence of soil microplastics (MPs) has become a global environmental problem. MPs of different properties (i.e., types, sizes, and concentrations) are present in the environment, while studies about the impact of MPs having different properties are limited. Thus, this study investigated the effects of three common polymers (polystyrene, polyethylene, and polypropylene) with two concentrations (0.01% and 0.1% w/w) on growth and stress response of lettuce (Lactuca sativa L.), soil enzymes, and rhizosphere microbial community. Lettuce growth was inhibited under MPs treatments. Moreover, the antioxidant system, metabolism composition, and phyllosphere microbiome of lettuce leaves was also perturbed. MPs reduced phytase activity and significantly increased dehydrogenase activity. The diversity and structure of rhizosphere microbial community were disturbed by MPs and more sensitive to polystyrene microplastics (PSMPs) and polypropylene microplastics (PPMPs). In general, the results by partial least squares pathway models (PLS-PMs) showed that the presence of MPs influenced the soil-rhizosphere-plant system, which may have essential implications for assessing the environmental risk of MPs.
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Affiliation(s)
- Yuhang Lian
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Ruiying Shi
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Jinzheng Liu
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Aurang Zeb
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Qi Wang
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Jianling Wang
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Miao Yu
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Jiantao Li
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Zeqi Zheng
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Nouman Ali
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Yanyu Bao
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China
| | - Weitao Liu
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China; Tianjin Engineering Research Center of Environmental Diagnosis and Contamination Remediation, Tianjin 300350, China.
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Hachisuka SI, Sakurai T, Mizuno S, Kosuge K, Endo S, Ishii-Hyakutake M, Miyahara Y, Yamazaki M, Tsuge T. Isolation and characterization of polyhydroxyalkanoate-degrading bacteria in seawater at two different depths from Suruga Bay. Appl Environ Microbiol 2023; 89:e0148823. [PMID: 37855636 PMCID: PMC10686062 DOI: 10.1128/aem.01488-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2023] [Accepted: 09/04/2023] [Indexed: 10/20/2023] Open
Abstract
IMPORTANCE Polyhydroxyalkanoate (PHA) is a highly biodegradable microbial polyester, even in marine environments. In this study, we incorporated an enrichment culture-like approach in the process of isolating marine PHA-degrading bacteria. The resulting 91 isolates were suggested to fall into five genera (Alloalcanivorax, Alteromonas, Arenicella, Microbacterium, and Pseudoalteromonas) based on 16S rRNA analysis, including two novel genera (Arenicella and Microbacterium) as marine PHA-degrading bacteria. Microbacterium schleiferi (DSM 20489) and Alteromonas macleodii (NBRC 102226), the type strains closest to the several isolates, have an extracellular poly(3-hydroxybutyrate) [P(3HB)] depolymerase homolog that does not fit a marine-type domain composition. However, A. macleodii exhibited no PHA degradation ability, unlike M. schleiferi. This result demonstrates that the isolated Alteromonas spp. are different species from A. macleodii. P(3HB) depolymerase homologs in the genus Alteromonas should be scrutinized in the future, particularly about which ones work as the depolymerase.
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Affiliation(s)
- Shin-Ichi Hachisuka
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
| | - Tetsuo Sakurai
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
| | - Shoji Mizuno
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
| | - Kazuho Kosuge
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
| | - Sayaka Endo
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
| | - Manami Ishii-Hyakutake
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
| | - Yuki Miyahara
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
| | - Motoyuki Yamazaki
- Shizuoka Prefectural Research Institute of Fishery and Ocean, Iwashigashima, Yaizu, Shizuoka, Japan
| | - Takeharu Tsuge
- Department of Materials Science and Engineering, Tokyo Institute of Technology, Yokohama, Kanagawa, Japan
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8
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Ma Y, Wang J, Liu Y, Wang X, Zhang B, Zhang W, Chen T, Liu G, Xue L, Cui X. Nocardioides: "Specialists" for Hard-to-Degrade Pollutants in the Environment. Molecules 2023; 28:7433. [PMID: 37959852 PMCID: PMC10649934 DOI: 10.3390/molecules28217433] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Revised: 10/24/2023] [Accepted: 11/01/2023] [Indexed: 11/15/2023] Open
Abstract
Nocardioides, a genus belonging to Actinomycetes, can endure various low-nutrient conditions. It can degrade pollutants using multiple organic materials such as carbon and nitrogen sources. The characteristics and applications of Nocardioides are described in detail in this review, with emphasis on the degradation of several hard-to-degrade pollutants by using Nocardioides, including aromatic compounds, hydrocarbons, haloalkanes, nitrogen heterocycles, and polymeric polyesters. Nocardioides has unique advantages when it comes to hard-to-degrade pollutants. Compared to other strains, Nocardioides has a significantly higher degradation rate and requires less time to break down substances. This review can be a theoretical basis for developing Nocardioides as a microbial agent with significant commercial and application potential.
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Affiliation(s)
- Yecheng Ma
- College of Biotechnology and Pharmaceutical Engineering, Lanzhou Jiaotong University, Lanzhou 730070, China
| | - Jinxiu Wang
- Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou 730000, China
- Key Laboratory of Desert and Desertification, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Yang Liu
- Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou 730000, China
- State Key Laboratory of Cryospheric Sciences, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Xinyue Wang
- Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou 730000, China
- State Key Laboratory of Cryospheric Sciences, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Binglin Zhang
- Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou 730000, China
- State Key Laboratory of Cryospheric Sciences, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Wei Zhang
- Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou 730000, China
- Key Laboratory of Desert and Desertification, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Tuo Chen
- Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou 730000, China
- State Key Laboratory of Cryospheric Sciences, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Guangxiu Liu
- Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou 730000, China
- Key Laboratory of Desert and Desertification, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Lingui Xue
- College of Biotechnology and Pharmaceutical Engineering, Lanzhou Jiaotong University, Lanzhou 730070, China
| | - Xiaowen Cui
- College of Geography and Environment Science, Northwest Normal University, Lanzhou 730070, China
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Yang C, Zeng Z, Zhang H, Gao D, Wang Y, He G, Liu Y, Wang Y, Du X. Distribution of sediment microbial communities and their relationship with surrounding environmental factors in a typical rural river, Southwest China. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:84206-84225. [PMID: 35778666 DOI: 10.1007/s11356-022-21627-7] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Accepted: 06/19/2022] [Indexed: 06/15/2023]
Abstract
With rapid urbanization and industrialization, rural rivers in China are facing deterioration in water quality and ecosystem health. Microorganisms living in river sediments are involved in biogeochemical processes, mineralization, and degradation of pollutants. Understanding bacterial community distribution in rural rivers could help evaluate the response of river ecosystems to environmental pollution and understand the river self-purification mechanism. In this study, the relationship between characteristics of sediment microbial communities and the surrounding environmental factors in a typical rural river was analyzed using 16S rRNA gene sequencing technology. The results showed that the dominant bacterial groups in the river sediment were Proteobacteria, Actinobacteria, Chloroflexi, Acidobacteria, Bacteroidetes, and Firmicutes, accounting for 83.61% of the total microbial load. Different areas have different sources of pollution which give rise to specific dominant bacteria. The upstream part of the river flows through an agricultural cultivation area where the dominant bacteria were norank_f_Gemmatimonadaceae, Haliangium, and Pseudolabrys, possessing obvious nitrogen- and phosphorus-metabolizing activities. The midstream section flows through an urban area where the dominant bacteria were Marmoricola, Nocardioides, Gaiella, Sphingomonas, norank_f_67-14, Subgroup_10, Agromyces, and Lysobacter, with strong metabolizing activity for toxic pollutants. The dominant bacteria in the downstream part were Clostridium_sensu_stricto_1, norank_f__Bacteroidetes_vadinHA17, Candidatus_Competibacter, and Methylocystis. Redundancy analysis and correlation heatmap analysis showed that environmental factors: ammonia nitrogen (NH4+-N) and total nitrogen (TN) in the sediment, and pH, temperature, TN, electrical conductivity (EC), and total dissolved solids (TDS) in the water, significantly affected the bacterial community in the sediment. The PICRUSt2 functional prediction analysis identified that the main function of bacteria in the sediment was metabolism (77.3%), specifically carbohydrate, amino acid, and energy metabolism. These activities are important for degrading organic matter and removing pollutants from the sediments. The study revealed the influence of organic pollutants derived from human activities on the bacterial community composition in the river sediments. It gave a new insight into the relationship between environmental factors and bacterial community distribution in rural watershed ecosystems, providing a theoretical basis for self-purification and bioremediation of rural rivers.
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Affiliation(s)
- Cheng Yang
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong University, Chengdu, China
| | - Zhuo Zeng
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong University, Chengdu, China
| | - Han Zhang
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong University, Chengdu, China.
| | - Dongdong Gao
- Sichuan Academy of Environmental Science, Chengdu, China
| | - Yuanyuan Wang
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong University, Chengdu, China
| | - Guangyi He
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong University, Chengdu, China
| | - Ying Liu
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong University, Chengdu, China
| | - Yan Wang
- Chengdu University of Traditional Chinese Medicine, Chengdu, China
| | - Xinyu Du
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong University, Chengdu, China
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Bher A, Mayekar PC, Auras RA, Schvezov CE. Biodegradation of Biodegradable Polymers in Mesophilic Aerobic Environments. Int J Mol Sci 2022; 23:12165. [PMID: 36293023 PMCID: PMC9603655 DOI: 10.3390/ijms232012165] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2022] [Revised: 10/03/2022] [Accepted: 10/07/2022] [Indexed: 08/29/2023] Open
Abstract
Finding alternatives to diminish plastic pollution has become one of the main challenges of modern life. A few alternatives have gained potential for a shift toward a more circular and sustainable relationship with plastics. Biodegradable polymers derived from bio- and fossil-based sources have emerged as one feasible alternative to overcome inconveniences associated with the use and disposal of non-biodegradable polymers. The biodegradation process depends on the environment's factors, microorganisms and associated enzymes, and the polymer properties, resulting in a plethora of parameters that create a complex process whereby biodegradation times and rates can vary immensely. This review aims to provide a background and a comprehensive, systematic, and critical overview of this complex process with a special focus on the mesophilic range. Activity toward depolymerization by extracellular enzymes, biofilm effect on the dynamic of the degradation process, CO2 evolution evaluating the extent of biodegradation, and metabolic pathways are discussed. Remarks and perspectives for potential future research are provided with a focus on the current knowledge gaps if the goal is to minimize the persistence of plastics across environments. Innovative approaches such as the addition of specific compounds to trigger depolymerization under particular conditions, biostimulation, bioaugmentation, and the addition of natural and/or modified enzymes are state-of-the-art methods that need faster development. Furthermore, methods must be connected to standards and techniques that fully track the biodegradation process. More transdisciplinary research within areas of polymer chemistry/processing and microbiology/biochemistry is needed.
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Affiliation(s)
- Anibal Bher
- School of Packaging, Michigan State University, East Lansing, MI 48824, USA
- Instituto de Materiales de Misiones, CONICET-UNaM, Posadas 3300, Misiones, Argentina
| | - Pooja C. Mayekar
- School of Packaging, Michigan State University, East Lansing, MI 48824, USA
| | - Rafael A. Auras
- School of Packaging, Michigan State University, East Lansing, MI 48824, USA
| | - Carlos E. Schvezov
- Instituto de Materiales de Misiones, CONICET-UNaM, Posadas 3300, Misiones, Argentina
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Rapid biodegradation of high molecular weight semi-crystalline polylactic acid at ambient temperature via enzymatic and alkaline hydrolysis by a defined bacterial consortium. Polym Degrad Stab 2022. [DOI: 10.1016/j.polymdegradstab.2022.110051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Carr CM, de Oliveira BFR, Jackson SA, Laport MS, Clarke DJ, Dobson ADW. Identification of BgP, a Cutinase-Like Polyesterase From a Deep-Sea Sponge-Derived Actinobacterium. Front Microbiol 2022; 13:888343. [PMID: 35495686 PMCID: PMC9039725 DOI: 10.3389/fmicb.2022.888343] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Accepted: 03/17/2022] [Indexed: 11/13/2022] Open
Abstract
Many marine bacteria produce extracellular enzymes that degrade complex molecules to facilitate their growth in environmental conditions that are often harsh and low in nutrients. Marine bacteria, including those inhabiting sea sponges, have previously been reported to be a promising source of polyesterase enzymes, which have received recent attention due to their potential ability to degrade polyethylene terephthalate (PET) plastic. During the screening of 51 marine bacterial isolates for hydrolytic activities targeting ester and polyester substrates, a Brachybacterium ginsengisoli B129SM11 isolate from the deep-sea sponge Pheronema sp. was identified as a polyesterase producer. Sequence analysis of genomic DNA from strain B129SM11, coupled with a genome "mining" strategy, allowed the identification of potential polyesterases, using a custom database of enzymes that had previously been reported to hydrolyze PET or other synthetic polyesters. This resulted in the identification of a putative PET hydrolase gene, encoding a polyesterase-type enzyme which we named BgP that shared high overall similarity with three well-characterized PET hydrolases-LCC, TfCut2, and Cut190, all of which are key enzymes currently under investigation for the biological recycling of PET. In silico protein analyses and homology protein modeling offered structural and functional insights into BgP, and a detailed comparison with Cut190 revealed highly conserved features with implications for both catalysis and substrate binding. Polyesterase activity was confirmed using an agar-based polycaprolactone (PCL) clearing assay, following heterologous expression of BgP in Escherichia coli. This is the first report of a polyesterase being identified from a deep-sea sponge bacterium such as Brachybacterium ginsengisoli and provides further insights into marine-derived polyesterases, an important family of enzymes for PET plastic hydrolysis. Microorganisms living in association with sponges are likely to have increased exposure to plastics and microplastics given the wide-scale contamination of marine ecosystems with these plastics, and thus they may represent a worthwhile source of enzymes for use in new plastic waste management systems. This study adds to the growing knowledge of microbial polyesterases and endorses further exploration of marine host-associated microorganisms as a potentially valuable source of this family of enzymes for PET plastic hydrolysis.
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Affiliation(s)
- Clodagh M. Carr
- School of Microbiology, University College Cork, Cork, Ireland
- SSPC-SFI Research Centre for Pharmaceuticals, University College Cork, Cork, Ireland
| | - Bruno Francesco Rodrigues de Oliveira
- School of Microbiology, University College Cork, Cork, Ireland
- Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
- Departamento de Microbiologia e Parasitologia, Instituto Biomédico, Universidade Federal Fluminense, Niterói, Brazil
| | - Stephen A. Jackson
- School of Microbiology, University College Cork, Cork, Ireland
- Environmental Research Institute, University College Cork, Cork, Ireland
| | - Marinella Silva Laport
- Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - David J. Clarke
- School of Microbiology, University College Cork, Cork, Ireland
| | - Alan D. W. Dobson
- School of Microbiology, University College Cork, Cork, Ireland
- SSPC-SFI Research Centre for Pharmaceuticals, University College Cork, Cork, Ireland
- Environmental Research Institute, University College Cork, Cork, Ireland
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Akan OD, Udofia GE, Okeke ES, Mgbechidinma CL, Okoye CO, Zoclanclounon YAB, Atakpa EO, Adebanjo OO. Plastic waste: Status, degradation and microbial management options for Africa. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 292:112758. [PMID: 34030015 DOI: 10.1016/j.jenvman.2021.112758] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2021] [Revised: 04/25/2021] [Accepted: 05/03/2021] [Indexed: 06/12/2023]
Abstract
This paper presents a review of synthetic polymer (notably plastic) wastes profiles in Africa, their current management status, and better options. Data revealed that of the approximated 86.14 million metric tonnes and 31.5 million metric tonnes of primary polymers and plastics, respectively, and an estimated 230 million metric tonnes of plastic components imported between 1990 and 2017, about 17 million metric tonnes are mismanaged. Leading African nations on the plastic wastes generator table in increasing order are Tunisia (6.9%), Morocco (9.6%), Algeria (11.2%), South Africa (11.6%), Nigeria (16.9%), and the chief is Egypt (18.4%). The volume of plastic wastes generated in Africa directly correlates with her increasing population status, however, the current treatment options have major drawbacks (high energy and technological input, high demand for space, and creation of obnoxious by-products). Ineffective regulations, poor monitoring, and slow adoption of veritable practices by governments are responsible for the steady increase in plastic volume in the African landscapes and environments. In Nigeria, only about 9% and 12% of the total generated wastes are recycled and incinerated. The remainder bulk is either discarded into waste dumps (and a few available landfills) or natural environments. There is a paucity of standard plastic biodegradative work by African scientists, and only a few works show detection of competent synthetic plastic degrading microbes globally. Asides from the ills of possible omission of core degraders, there is a need for researchers to follow standard degradation procedures to arrive at efficient, reproducible, and generally accepted outcomes utilizable on a larger scale. Thus, metagenomic search on the vast African urban and rural plastisphere is the best isolation option.
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Affiliation(s)
- Otobong Donald Akan
- College of Food Science and Engineering, Central South University of Forestry and Technology, Changsha, Hunan, 41004, China; Microbiology Department, Faculty of Biological Science, Akwa-Ibom State University, Ikot Akpaden, Mkpat Enin LGA, Uyo P.M.B., 1167, Akwa-Ibom State, Nigeria.
| | - Godwin Evans Udofia
- Department of Microbiology, Faculty of Science, University of Uyo, Uyo PMB, 1017, Nigeria
| | - Emmanuel Sunday Okeke
- Environmental Chemistry and Toxicology, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, China; Department of Biochemistry, Faculty of Biological Sciences & Natural Science Unit, School of General Studies University of Nigeria, Nsukka, 410001, Nigeria.
| | - Chiamaka Linda Mgbechidinma
- Ocean College, Zhejiang University, Zhoushan, 316021, Zhejiang, China; Department of Microbiology, University of Ibadan, Ibadan, Oyo State, 200243, Nigeria
| | - Charles Obinwanne Okoye
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, China; Department of Zoology and Environmental Biology, University of Nigeria, Nsukka, 410001, Nigeria
| | - Yedomon Ange Bovys Zoclanclounon
- Department of Crop Science and Biotechnology, Jeonbuk National University, Jeonju, 54896, South Korea; Department of Management of Environment, Polytechnic School of Abomey-Calavi, University of Abomey-Calavi, 01 POB 2009, Cotonou, Benin
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