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de Vogel FA, Goudriaan M, Zettler ER, Niemann H, Eich A, Weber M, Lott C, Amaral-Zettler LA. Biodegradable plastics in Mediterranean coastal environments feature contrasting microbial succession. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 928:172288. [PMID: 38599394 DOI: 10.1016/j.scitotenv.2024.172288] [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: 12/19/2023] [Revised: 03/09/2024] [Accepted: 04/05/2024] [Indexed: 04/12/2024]
Abstract
Plastic pollution of the ocean is a top environmental concern. Biodegradable plastics present a potential "solution" in combating the accumulation of plastic pollution, and their production is currently increasing. While these polymers will contribute to the future plastic marine debris budget, very little is known still about the behavior of biodegradable plastics in different natural environments. In this study, we molecularly profiled entire microbial communities on laboratory confirmed biodegradable polybutylene sebacate-co-terephthalate (PBSeT) and polyhydroxybutyrate (PHB) films, and non-biodegradable conventional low-density polyethylene (LDPE) films that were incubated in situ in three different coastal environments in the Mediterranean Sea. Samples from a pelagic, benthic, and eulittoral habitat were taken at five timepoints during an incubation period of 22 months. We assessed the presence of potential biodegrading bacterial and fungal taxa and contrasted them against previously published in situ disintegration data of these polymers. Scanning electron microscopy imaging complemented our molecular data. Putative plastic degraders occurred in all environments, but there was no obvious "core" of shared plastic-specific microbes. While communities varied between polymers, the habitat predominantly selected for the underlying communities. Observed disintegration patterns did not necessarily match community patterns of putative plastic degraders.
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Affiliation(s)
- Fons A de Vogel
- Department of Marine Microbiology and Biogeochemistry, NIOZ Royal Netherlands Institute for Sea Research, P.O. Box 59, 1790 AB Den Burg, the Netherlands
| | - Maaike Goudriaan
- Department of Marine Microbiology and Biogeochemistry, NIOZ Royal Netherlands Institute for Sea Research, P.O. Box 59, 1790 AB Den Burg, the Netherlands
| | - Erik R Zettler
- Department of Marine Microbiology and Biogeochemistry, NIOZ Royal Netherlands Institute for Sea Research, P.O. Box 59, 1790 AB Den Burg, the Netherlands
| | - Helge Niemann
- Department of Marine Microbiology and Biogeochemistry, NIOZ Royal Netherlands Institute for Sea Research, P.O. Box 59, 1790 AB Den Burg, the Netherlands; Faculty of Geosciences, Department of Earth Sciences, Utrecht University, P.O. Box 80.115, 3508 TC Utrecht, the Netherlands; CAGE-Centre for Arctic Gas Hydrate, Environment and Climate, Department of Geosciences, UiT the Arctic University of Norway, 9037 Tromsø, Norway
| | - Andreas Eich
- HYDRA Marine Sciences GmbH, D-77815 Bühl, Germany
| | - Miriam Weber
- HYDRA Marine Sciences GmbH, D-77815 Bühl, Germany
| | | | - Linda A Amaral-Zettler
- Department of Marine Microbiology and Biogeochemistry, NIOZ Royal Netherlands Institute for Sea Research, P.O. Box 59, 1790 AB Den Burg, the Netherlands; Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, P.O. Box 94240, 1090 GE Amsterdam, the Netherlands.
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2
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Di Cesare A, Sathicq MB, Sbaffi T, Sabatino R, Manca D, Breider F, Coudret S, Pinnell LJ, Turner JW, Corno G. Parity in bacterial communities and resistomes: Microplastic and natural organic particles in the Tyrrhenian Sea. MARINE POLLUTION BULLETIN 2024; 203:116495. [PMID: 38759465 DOI: 10.1016/j.marpolbul.2024.116495] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 05/10/2024] [Accepted: 05/12/2024] [Indexed: 05/19/2024]
Abstract
Petroleum-based microplastic particles (MPs) are carriers of antimicrobial resistance genes (ARGs) in aquatic environments, influencing the selection and spread of antimicrobial resistance. This research characterized MP and natural organic particle (NOP) bacterial communities and resistomes in the Tyrrhenian Sea, a region impacted by plastic pollution and climate change. MP and NOP bacterial communities were similar but different from the free-living planktonic communities. Likewise, MP and NOP ARG abundances were similar but different (higher) from the planktonic communities. MP and NOP metagenome-assembled genomes contained ARGs associated with mobile genetic elements and exhibited co-occurrence with metal resistance genes. Overall, these findings show that MPs and NOPs harbor potential pathogenic and antimicrobial resistant bacteria, which can aid in the spread of antimicrobial resistance. Further, petroleum-based MPs do not represent novel ecological niches for allochthonous bacteria; rather, they synergize with NOPs, collectively facilitating the spread of antimicrobial resistance in marine ecosystems.
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Affiliation(s)
- Andrea Di Cesare
- National Research Council of Italy - Water Research Institute (CNR-IRSA) Molecular Ecology Group (MEG), Verbania, Italy
| | - Maria Belen Sathicq
- Instituto de Limnología "Dr. Raúl A. Ringuelet" (ILPLA) CONICET-UNLP, Bv. 120 y 62 n1437, La Plata, Buenos Aires, Argentina
| | - Tomasa Sbaffi
- National Research Council of Italy - Water Research Institute (CNR-IRSA) Molecular Ecology Group (MEG), Verbania, Italy
| | - Raffaella Sabatino
- National Research Council of Italy - Water Research Institute (CNR-IRSA) Molecular Ecology Group (MEG), Verbania, Italy
| | - Dario Manca
- National Research Council of Italy - Water Research Institute (CNR-IRSA) Molecular Ecology Group (MEG), Verbania, Italy
| | - Florian Breider
- Ecole Polytechnique Fédérale de Lausanne EPFL, Central Environmental Laboratory, IIE, ENAC, Station 2, CH-1015 Lausanne, Switzerland
| | - Sylvain Coudret
- Ecole Polytechnique Fédérale de Lausanne EPFL, Central Environmental Laboratory, IIE, ENAC, Station 2, CH-1015 Lausanne, Switzerland
| | - Lee J Pinnell
- Veterinary Education, Research, and Outreach Program, School of Veterinary Medicine & Biomedical Sciences, Texas A&M University, Canyon, TX, USA
| | - Jeffrey W Turner
- Department of Life Sciences, Texas A&M University, Corpus Christi, TX, USA
| | - Gianluca Corno
- National Research Council of Italy - Water Research Institute (CNR-IRSA) Molecular Ecology Group (MEG), Verbania, Italy.
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3
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Ladewig SM, Bianchi TS, Coco G, Ferretti E, Gladstone-Gallagher RV, Hillman J, Hope JA, Savage C, Schenone S, Thrush SF. Polyester microfiber impacts on coastal sediment organic matter consumption. MARINE POLLUTION BULLETIN 2024; 202:116298. [PMID: 38581733 DOI: 10.1016/j.marpolbul.2024.116298] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2024] [Revised: 03/17/2024] [Accepted: 03/23/2024] [Indexed: 04/08/2024]
Abstract
As plastic pollution continues to accumulate at the seafloor, concerns around benthic ecosystem functionality heightens. This research demonstrates the systematic effects of polyester microfibers on seafloor organic matter consumption rates, an important benthic ecosystem function connected to multiple reactions and processes. We used a field-based assay to measure the loss of organic matter, both with and without polyester microfiber contamination. We identified sediment organic matter content, mud content, and mean grain size as the main drivers of organic matter consumption, however, polyester microfiber contamination decoupled ecosystem relationships and altered observed organic matter cycling dynamics. Organic matter consumption rates varied across horizontal and vertical spaces, highlighting that consumption and associated plastic effects are dependent on environmental heterogeneity at both small (within sites) and larger (between sites) scales. Our results emphasize the important role habitat heterogeneity plays in seafloor organic matter consumption and the associated effects of plastic pollution on ecosystem function.
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Affiliation(s)
- Samantha M Ladewig
- University of Auckland, Institute of Marine Science, Private Bag 92019, Auckland 1010, New Zealand.
| | - Thomas S Bianchi
- University of Florida, Dept. of Geological Sciences, Gainesville, FL 32611-2120, USA
| | - Giovanni Coco
- University of Auckland, School of Environment, Private Bag 92019, Auckland 1010, New Zealand
| | - Eliana Ferretti
- University of Auckland, Institute of Marine Science, Private Bag 92019, Auckland 1010, New Zealand
| | | | - Jenny Hillman
- University of Auckland, Institute of Marine Science, Private Bag 92019, Auckland 1010, New Zealand
| | - Julie A Hope
- Scottish Oceans Institute, School of Biology, The University of St Andrews, St Andrews KY16 9AJ, United Kingdom
| | - Candida Savage
- University of Otago, Department of Marine Science, Dunedin 9054, New Zealand; University of Cape Town, Marine Research Institute and Department of Biological Sciences, Rondebosch 7700, South Africa
| | - Stefano Schenone
- University of Auckland, Institute of Marine Science, Private Bag 92019, Auckland 1010, New Zealand
| | - Simon F Thrush
- University of Auckland, Institute of Marine Science, Private Bag 92019, Auckland 1010, New Zealand
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4
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Ridley RS, Conrad RE, Lindner BG, Woo S, Konstantinidis KT. Potential routes of plastics biotransformation involving novel plastizymes revealed by global multi-omic analysis of plastic associated microbes. Sci Rep 2024; 14:8798. [PMID: 38627476 PMCID: PMC11021508 DOI: 10.1038/s41598-024-59279-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: 11/17/2023] [Accepted: 04/09/2024] [Indexed: 04/19/2024] Open
Abstract
Despite increasing efforts across various disciplines, the fate, transport, and impact of synthetic plastics on the environment and public health remain poorly understood. To better elucidate the microbial ecology of plastic waste and its potential for biotransformation, we conducted a large-scale analysis of all publicly available meta-omic studies investigating plastics (n = 27) in the environment. Notably, we observed low prevalence of known plastic degraders throughout most environments, except for substantial enrichment in riverine systems. This indicates rivers may be a highly promising environment for discovery of novel plastic bioremediation products. Ocean samples associated with degrading plastics showed clear differentiation from non-degrading polymers, showing enrichment of novel putative biodegrading taxa in the degraded samples. Regarding plastisphere pathogenicity, we observed significant enrichment of antimicrobial resistance genes on plastics but not of virulence factors. Additionally, we report a co-occurrence network analysis of 10 + million proteins associated with the plastisphere. This analysis revealed a localized sub-region enriched with known and putative plastizymes-these may be useful for deeper investigation of nature's ability to biodegrade man-made plastics. Finally, the combined data from our meta-analysis was used to construct a publicly available database, the Plastics Meta-omic Database (PMDB)-accessible at plasticmdb.org. These data should aid in the integrated exploration of the microbial plastisphere and facilitate research efforts investigating the fate and bioremediation potential of environmental plastic waste.
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Affiliation(s)
- Rodney S Ridley
- School of Chemical and Biomolecular Engineering, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
| | - Roth E Conrad
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Blake G Lindner
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Seongwook Woo
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Konstantinos T Konstantinidis
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
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5
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Frey B, Aiesi M, Rast BM, Rüthi J, Julmi J, Stierli B, Qi W, Brunner I. Searching for new plastic-degrading enzymes from the plastisphere of alpine soils using a metagenomic mining approach. PLoS One 2024; 19:e0300503. [PMID: 38578779 PMCID: PMC10997104 DOI: 10.1371/journal.pone.0300503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Accepted: 02/28/2024] [Indexed: 04/07/2024] Open
Abstract
Plastic materials, including microplastics, accumulate in all types of ecosystems, even in remote and cold environments such as the European Alps. This pollution poses a risk for the environment and humans and needs to be addressed. Using shotgun DNA metagenomics of soils collected in the eastern Swiss Alps at about 3,000 m a.s.l., we identified genes and their proteins that potentially can degrade plastics. We screened the metagenomes of the plastisphere and the bulk soil with a differential abundance analysis, conducted similarity-based screening with specific databases dedicated to putative plastic-degrading genes, and selected those genes with a high probability of signal peptides for extracellular export and a high confidence for functional domains. This procedure resulted in a final list of nine candidate genes. The lengths of the predicted proteins were between 425 and 845 amino acids, and the predicted genera producing these proteins belonged mainly to Caballeronia and Bradyrhizobium. We applied functional validation, using heterologous expression followed by enzymatic assays of the supernatant. Five of the nine proteins tested showed significantly increased activities when we used an esterase assay, and one of these five proteins from candidate genes, a hydrolase-type esterase, clearly had the highest activity, by more than double. We performed the fluorescence assays for plastic degradation of the plastic types BI-OPL and ecovio® only with proteins from the five candidate genes that were positively active in the esterase assay, but like the negative controls, these did not show any significantly increased activity. In contrast, the activity of the positive control, which contained a PLA-degrading gene insert known from the literature, was more than 20 times higher than that of the negative controls. These findings suggest that in silico screening followed by functional validation is suitable for finding new plastic-degrading enzymes. Although we only found one new esterase enzyme, our approach has the potential to be applied to any type of soil and to plastics in various ecosystems to search rapidly and efficiently for new plastic-degrading enzymes.
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Affiliation(s)
- Beat Frey
- Swiss Federal Institute for Forest, Forest Soils and Biogeochemistry, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Margherita Aiesi
- Swiss Federal Institute for Forest, Forest Soils and Biogeochemistry, Snow and Landscape Research WSL, Birmensdorf, Switzerland
- Facoltà de Science Agrarie e Alimentari, University Degli Studi di Milano, Milano, Italy
| | - Basil M. Rast
- Swiss Federal Institute for Forest, Forest Soils and Biogeochemistry, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Joel Rüthi
- Swiss Federal Institute for Forest, Forest Soils and Biogeochemistry, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Jérôme Julmi
- Swiss Federal Institute for Forest, Forest Soils and Biogeochemistry, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Beat Stierli
- Swiss Federal Institute for Forest, Forest Soils and Biogeochemistry, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Weihong Qi
- Functional Genomics Center Zürich, ETH Zürich and University of Zürich, Zürich, Switzerland
- Swiss Institute of Bioinformatics SIB, Geneva, Switzerland
| | - Ivano Brunner
- Swiss Federal Institute for Forest, Forest Soils and Biogeochemistry, Snow and Landscape Research WSL, Birmensdorf, Switzerland
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6
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Arif Y, Mir AR, Zieliński P, Hayat S, Bajguz A. Microplastics and nanoplastics: Source, behavior, remediation, and multi-level environmental impact. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 356:120618. [PMID: 38508005 DOI: 10.1016/j.jenvman.2024.120618] [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: 10/23/2023] [Revised: 02/21/2024] [Accepted: 03/10/2024] [Indexed: 03/22/2024]
Abstract
Plastics introduced into the natural environment persist, degrade, and fragment into smaller particles due to various environmental factors. Microplastics (MPs) (ranging from 1 μm to 5 mm) and nanoplastics (NPs) (less than 1 μm) have emerged as pollutants posing a significant threat to all life forms on Earth. Easily ingested by living organisms, they lead to ongoing bioaccumulation and biomagnification. This review summarizes existing studies on the sources of MPs and NPs in various environments, highlighting their widespread presence in air, water, and soil. It primarily focuses on the sources, fate, degradation, fragmentation, transport, and ecotoxicity of MPs and NPs. The aim is to elucidate their harmful effects on marine organisms, soil biota, plants, mammals, and humans, thereby enhancing the understanding of the complex impacts of plastic particles on the environment. Additionally, this review highlights remediation technologies and global legislative and institutional measures for managing waste associated with MPs and NPs. It also shows that effectively combating plastic pollution requires the synergization of diverse management, monitoring strategies, and regulatory measures into a comprehensive policy framework.
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Affiliation(s)
- Yamshi Arif
- Department of Botany, Plant Physiology Section, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, India
| | - Anayat Rasool Mir
- Department of Botany, Plant Physiology Section, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, India
| | - Piotr Zieliński
- Department of Water Ecology, Faculty of Biology, University of Bialystok, Ciolkowskiego 1J, 15-245, Bialystok, Poland
| | - Shamsul Hayat
- Department of Botany, Plant Physiology Section, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, India
| | - Andrzej Bajguz
- Department of Biology and Plant Ecology, Faculty of Biology, University of Bialystok, Ciolkowskiego 1J, 15-245, Bialystok, Poland.
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7
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Parida D, Katare K, Ganguly A, Chakraborty D, Konar O, Nogueira R, Bala K. Molecular docking and metagenomics assisted mitigation of microplastic pollution. CHEMOSPHERE 2024; 351:141271. [PMID: 38262490 DOI: 10.1016/j.chemosphere.2024.141271] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2023] [Revised: 01/18/2024] [Accepted: 01/19/2024] [Indexed: 01/25/2024]
Abstract
Microplastics, tiny, flimsy, and direct progenitors of principal and subsidiary plastics, cause environmental degradation in aquatic and terrestrial entities. Contamination concerns include irrevocable impacts, potential cytotoxicity, and negative health effects on mortals. The detection, recovery, and degradation strategies of these pollutants in various biota and ecosystems, as well as their impact on plants, animals, and humans, have been a topic of significant interest. But the natural environment is infested with several types of plastics, all having different chemical makeup, structure, shape, and origin. Plastic trash acts as a substrate for microbial growth, creating biofilms on the plastisphere surface. This colonizing microbial diversity can be glimpsed with meta-genomics, a culture-independent approach. Owing to its comprehensive description of microbial communities, genealogical evidence on unconventional biocatalysts or enzymes, genomic correlations, evolutionary profile, and function, it is being touted as one of the promising tools in identifying novel enzymes for the degradation of polymers. Additionally, computational tools such as molecular docking can predict the binding of these novel enzymes to the polymer substrate, which can be validated through in vitro conditions for its environmentally feasible applications. This review mainly deals with the exploration of metagenomics along with computational tools to provide a clearer perspective into the microbial potential in the biodegradation of microplastics. The computational tools due to their polymathic nature will be quintessential in identifying the enzyme structure, binding affinities of the prospective enzymes to the substrates, and foretelling of degradation pathways involved which can be quite instrumental in the furtherance of the plastic degradation studies.
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Affiliation(s)
- Dinesh Parida
- Department of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, India.
| | - Konica Katare
- Department of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, India.
| | - Atmaadeep Ganguly
- Department of Microbiology, Ramakrishna Mission Vivekananda Centenary College, West Bengal State University, Kolkata, 700118, India.
| | - Disha Chakraborty
- Department of Botany, Shri Shikshayatan College, University of Calcutta, Lord Sinha Road, Kolkata, 700071, India.
| | - Oisi Konar
- Department of Botany, Shri Shikshayatan College, University of Calcutta, Lord Sinha Road, Kolkata, 700071, India.
| | - Regina Nogueira
- Institute of Sanitary Engineering and Waste Management, Leibniz Universität, Hannover, Germany.
| | - Kiran Bala
- Department of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, India.
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8
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Jasmin MY, Isa NM, Kamarudin MS, Lim KC, Karim M. Evaluating Bacillus flexus as bioremediators for ammonia removal in shrimp culture water and wastewater and characterizing microbial communities in shrimp pond sludge. Braz J Microbiol 2024; 55:529-536. [PMID: 38280093 PMCID: PMC10920598 DOI: 10.1007/s42770-024-01246-9] [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: 07/10/2023] [Accepted: 01/02/2024] [Indexed: 01/29/2024] Open
Abstract
The accumulation of nitrogen compounds in shrimp farming water and effluent presents a major challenge. Ammonia is a form of nitrogen that limits shrimp growth due to its potential toxicity and effects on shrimp health and water quality. This study is aimed at identifying promising bioremediators from shrimp pond sludge to mitigate ammonia levels in both culture water and wastewater and at determining major bacterial communities in sludge using metagenomic analysis. A sludge sample was collected from a shrimp pond in Selangor, Malaysia, to isolate potential ammonia-removing bacteria. Out of 64 isolated strains, Bacillus flexus SS2 showed the highest growth in synthetic basal media (SBM) containing ammonium sulfate at a concentration of 70 mg/L as the sole nitrogen source. The strain was then incubated in SBM with varying pH levels and showed optimal growth at pH 6.5-7. After 24 h of incubation, B. flexus SS2 reduced the ammonia concentration from an initial concentration of 5 to 0.01 mg/L, indicating a 99.61% reduction rate, which was highest in SBM at pH 7. Moreover, the strain showed ammonia removal ability at concentrations ranging from 5 to 70 mg/L. Metagenomic analysis revealed that Proteobacteria was the most abundant phylum in the sludge, followed by Cyanobacteria, Actinobacteria, Chloraflexi, Firmicutes, and Campilobacterota. Bacillus flexus SS2 belongs to the Bacillota phylum and has the potential to serve as a bioremediator for removing ammonia from shrimp culture water and wastewater.
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Affiliation(s)
- M Y Jasmin
- Department of Aquaculture, Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM, Serdang, Selangor, Malaysia
| | - N Mat Isa
- Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400 UPM, Serdang, Selangor, Malaysia
| | - M S Kamarudin
- Department of Aquaculture, Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM, Serdang, Selangor, Malaysia
- Laboratory of Sustainable Aquaculture, International Institute of Aquaculture and Aquatic Sciences, Universiti Putra Malaysia, 71050, Port Dickson, Negeri Sembilan, Malaysia
| | - K C Lim
- Department of Aquaculture, Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM, Serdang, Selangor, Malaysia
| | - Murni Karim
- Department of Aquaculture, Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM, Serdang, Selangor, Malaysia.
- Laboratory of Sustainable Aquaculture, International Institute of Aquaculture and Aquatic Sciences, Universiti Putra Malaysia, 71050, Port Dickson, Negeri Sembilan, Malaysia.
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9
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Omura T, Isobe N, Miura T, Ishii S, Mori M, Ishitani Y, Kimura S, Hidaka K, Komiyama K, Suzuki M, Kasuya KI, Nomaki H, Nakajima R, Tsuchiya M, Kawagucci S, Mori H, Nakayama A, Kunioka M, Kamino K, Iwata T. Microbial decomposition of biodegradable plastics on the deep-sea floor. Nat Commun 2024; 15:568. [PMID: 38278791 PMCID: PMC10817984 DOI: 10.1038/s41467-023-44368-8] [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: 12/10/2022] [Accepted: 12/11/2023] [Indexed: 01/28/2024] Open
Abstract
Microbes can decompose biodegradable plastics on land, rivers and seashore. However, it is unclear whether deep-sea microbes can degrade biodegradable plastics in the extreme environmental conditions of the seafloor. Here, we report microbial decomposition of representative biodegradable plastics (polyhydroxyalkanoates, biodegradable polyesters, and polysaccharide esters) at diverse deep-sea floor locations ranging in depth from 757 to 5552 m. The degradation of samples was evaluated in terms of weight loss, reduction in material thickness, and surface morphological changes. Poly(L-lactic acid) did not degrade at either shore or deep-sea sites, while other biodegradable polyesters, polyhydroxyalkanoates, and polysaccharide esters were degraded. The rate of degradation slowed with water depth. We analysed the plastic-associated microbial communities by 16S rRNA gene amplicon sequencing and metagenomics. Several dominant microorganisms carried genes potentially encoding plastic-degrading enzymes such as polyhydroxyalkanoate depolymerases and cutinases/polyesterases. Analysis of available metagenomic datasets indicated that these microorganisms are present in other deep-sea locations. Our results confirm that biodegradable plastics can be degraded by the action of microorganisms on the deep-sea floor, although with much less efficiency than in coastal settings.
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Affiliation(s)
- Taku Omura
- Laboratory of Science of Polymeric Materials, Department of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan
| | - Noriyuki Isobe
- Research Institute for Marine Resources Utilization, Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa, 237-0061, Japan
| | - Takamasa Miura
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), 2-5-8 Kazusakamatari, Kisarazu, Chiba, 292-0818, Japan
| | - Shun'ichi Ishii
- Institute for Extra-cutting-edge Science and Technology Avant-garde Research (X-STAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa, 237-0061, Japan
| | - Mihoko Mori
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), 2-5-8 Kazusakamatari, Kisarazu, Chiba, 292-0818, Japan
| | - Yoshiyuki Ishitani
- Institute for Extra-cutting-edge Science and Technology Avant-garde Research (X-STAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa, 237-0061, Japan
| | - Satoshi Kimura
- Laboratory of Science of Polymeric Materials, Department of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan
| | - Kohei Hidaka
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), 2-5-8 Kazusakamatari, Kisarazu, Chiba, 292-0818, Japan
| | - Katsuya Komiyama
- Laboratory of Science of Polymeric Materials, Department of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan
| | - Miwa Suzuki
- Gunma University Center for Food Science and Wellness (GUCFW), Maebashi, Gunma, 371-8510, Japan
| | - Ken-Ichi Kasuya
- Gunma University Center for Food Science and Wellness (GUCFW), Maebashi, Gunma, 371-8510, Japan
- Green Polymer Research Laboratory, Graduate School of Science and Technology, Gunma University, Kiryu, Gunma, 376-8515, Japan
| | - Hidetaka Nomaki
- Institute for Extra-cutting-edge Science and Technology Avant-garde Research (X-STAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa, 237-0061, Japan
| | - Ryota Nakajima
- Research Institute for Global Change (RIGC), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa, 237-0061, Japan
| | - Masashi Tsuchiya
- Research Institute for Global Change (RIGC), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa, 237-0061, Japan
| | - Shinsuke Kawagucci
- Research Institute for Global Change (RIGC), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa, 237-0061, Japan
| | - Hiroyuki Mori
- Japan BioPlastics Association (JBPA), 5-11 Nihonbashi Hakozaki-cho, Chuo-ku, Tokyo, 103-0015, Japan
| | - Atsuyoshi Nakayama
- Biomedical Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), 1-8-31 Midorigaoka, Ikeda, Osaka, 563-8577, Japan
| | - Masao Kunioka
- Standardization Promotion Office, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Umezono, Tsukuba, Ibaraki, 305-8560, Japan
| | - Kei Kamino
- Biological Resource Center, National Institute of Technology and Evaluation (NBRC), 2-5-8 Kazusakamatari, Kisarazu, Chiba, 292-0818, Japan
| | - Tadahisa Iwata
- Laboratory of Science of Polymeric Materials, Department of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan.
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10
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Guo S, Wu Z, Li X, Shen D, Shentu J, Lu L, Qi S, Zhu M, Long Y. Microplastic, a possible trigger of landfill sulfate reduction process. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167662. [PMID: 37820800 DOI: 10.1016/j.scitotenv.2023.167662] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2023] [Revised: 10/05/2023] [Accepted: 10/06/2023] [Indexed: 10/13/2023]
Abstract
The environmental impact of microplastics (MPs) formed from landfill has not been gained enough attention. This research investigated the characteristics of the MPs occurrence in landfills through field sampling. It shows that the MPs abundance in the landfill surface soil and non-landfill areas can reach 3573 items·g-1 and 3041 items·g-1, respectively. The vertical abundance of MPs increases significantly with depth, ranging from 387 to 11,599 items·g-1 with small size (≤10 μm, 65.61 %) and flake or wedge shape (38.48 %). The leachate movement in a longitudinal direction enables MPs to accumulate more easily in the landfill bottom layer with high moisture abundance. The abundance of MPs are significantly correlated with SO42- and S2- content, the two typical metabolic substrate and product of sulfate reduction process. In such heterogeneous environment, this significant correlation is not a random phenomenon in terms of the MPs have known substantial impact on biogeochemical processes. Microplastic is a possible trigger of landfill odor emission related with sulfate reduction. This research could serve as a reference for MPs and odor pollution management in landfills.
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Affiliation(s)
- Shuli Guo
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Zixiao Wu
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Xianghang Li
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Dongsheng Shen
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Jiali Shentu
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Li Lu
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Shengqi Qi
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Min Zhu
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Yuyang Long
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China.
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11
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Sun Y, Mazzotta MG, Miller CA, Apprill A, Izallalen M, Mazumder S, Perri ST, Edwards B, Reddy CM, Ward CP. Distinct microbial communities degrade cellulose diacetate bioplastics in the coastal ocean. Appl Environ Microbiol 2023; 89:e0165123. [PMID: 38054734 PMCID: PMC10734458 DOI: 10.1128/aem.01651-23] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Accepted: 10/23/2023] [Indexed: 12/07/2023] Open
Abstract
IMPORTANCE Cellulose diacetate (CDA) is a promising alternative to conventional plastics due to its versatility in manufacturing and low environmental persistence. Previously, our group demonstrated that CDA is susceptible to biodegradation in the ocean on timescales of months. In this study, we report the composition of microorganisms driving CDA degradation in the coastal ocean. We found that the coastal ocean harbors distinct bacterial taxa implicated in CDA degradation and these taxa have not been previously identified in prior CDA degradation studies, indicating an unexplored diversity of CDA-degrading bacteria in the ocean. Moreover, the shape of the plastic article (e.g., a fabric, film, or foam) and plasticizer in the plastic matrix selected for different microbial communities. Our findings pave the way for future studies to identify the specific species and enzymes that drive CDA degradation in the marine environment, ultimately yielding a more predictive understanding of CDA biodegradation across space and time.
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Affiliation(s)
- Yanchen Sun
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, USA
| | | | - Carolyn A. Miller
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, USA
| | - Amy Apprill
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, USA
| | | | | | | | | | - Christopher M. Reddy
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, USA
| | - Collin P. Ward
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, USA
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12
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Bhalerao A, Dueker U, Weber M, Eich A, Lott C, Endres HJ, Nogueira R. Bacterial diversity of biofilms on polyhydroxybutyrate exposed to marine conditions: Ex-situ vs. in-situ tests. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 905:167458. [PMID: 37777124 DOI: 10.1016/j.scitotenv.2023.167458] [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: 06/26/2023] [Revised: 09/18/2023] [Accepted: 09/27/2023] [Indexed: 10/02/2023]
Abstract
Biofilms form on any available surface and, depending on the characteristics of the material and the environmental conditions, biodegradation can take place. We compared the bacterial composition of polyhydroxybutyrate (PHB)-related biofilm communities from marine ex-situ and in-situ tests to assess the differences in diversity and abundance between these two biofilms. This comparison will help to better assess the transferability of tank tests to real-life scenarios. The in-situ tests were set up in the Mediterranean Sea on the Island of Elba, Italy where PHB-tensile bars were lodged in the sediments. This created a water-exposed aerobic and mud-planted anaerobic scenario. The ex-situ tests were modeled after in-situ tests and performed in temperature-controlled tanks. The PHB-related biofilms were harvested after 240 days of exposure along with planktonic bacteria, and particle- and sediment-related biofilm. The bacterial composition was elucidated using 16S rDNA sequencing. Biofilms harvested from the in-situ test were more diverse, less even, and contained more rare species compared to biofilms from the ex-situ test. The PHB-related biofilm was characterized by a higher abundance of the bacterial order Desulfobacterales. The composition of PHB-related biofilm varied significantly between the two tests and between aerobic and anaerobic conditions. The composition of PHB-related biofilm was significantly different from planktonic bacteria, particle, and sediment-related biofilm, showing the influence of PHB on the biofilm composition. Thus, the ex-situ tank test for PHB degradation cannot, in terms of bacterial composition, simulate the in-situ conditions to their full extent.
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Affiliation(s)
- Aniruddha Bhalerao
- Institute of Sanitary Engineering and Waste Management, Leibniz University Hannover, Welfengarten 1, D-30167 Hannover, Germany
| | - Urda Dueker
- Institute of Sanitary Engineering and Waste Management, Leibniz University Hannover, Welfengarten 1, D-30167 Hannover, Germany
| | - Miriam Weber
- HYDRA Marine Sciences GmbH, Steinfeldweg 15, 77815 Bühl, Germany
| | - Andreas Eich
- HYDRA Marine Sciences GmbH, Steinfeldweg 15, 77815 Bühl, Germany
| | - Christian Lott
- HYDRA Marine Sciences GmbH, Steinfeldweg 15, 77815 Bühl, Germany
| | - Hans Josef Endres
- Institute for Plastics and Circulation Technology, Leibniz University Hannover, An der Universität 2, 30823 Garbsen, Germany
| | - Regina Nogueira
- Institute of Sanitary Engineering and Waste Management, Leibniz University Hannover, Welfengarten 1, D-30167 Hannover, Germany.
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13
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Giroux MS, Reichman JR, Langknecht T, Burgess RM, Ho KT. Using eRNA/eDNA metabarcoding to detect community-level impacts of nanoplastic exposure to benthic estuarine ecosystems. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 338:122650. [PMID: 37777055 PMCID: PMC10762991 DOI: 10.1016/j.envpol.2023.122650] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2022] [Revised: 09/27/2023] [Accepted: 09/28/2023] [Indexed: 10/02/2023]
Abstract
Plastic particles are ubiquitous in marine systems and fragment into smaller pieces, such as nanoplastics (NPs). The effects of NPs on marine organisms are of growing concern but are not well understood. Marine sediments act as a sink for many contaminants, like microplastics, and are rich habitats for benthic micro- and meiofauna which are ecologically-important components of marine food webs; however, little is known about the sensitivities of specific organisms to NPs or the effects on community diversity and composition. Utilizing molecular methods, such as metabarcoding of environmental DNA/RNA, allows for the rapid and comprehensive detection of microscopic organisms via high-throughput sequencing to assess adverse effects at the community level. The objective of this study was to use a metabarcoding approach to investigate the effects of NPs on benthic micro- and meiofaunal community diversity. Mesocosms were created with sediment cores collected from the Narrow River estuary (Rhode Island, USA) and exposed to 900 nm diameter weathered polystyrene beads at concentrations of 0.1, 1, 10, or 100 mg/kg dry weight in sediment for two weeks. Following exposure, RNA and DNA were co-extracted from the sediment, RNA was reverse-transcribed, 18S and COI markers were PCR-amplified, and amplicons were sequenced on an Illumina MiSeq. Using the 18S marker and eRNA template, increases to α-diversity and significant differences to β-diversity were observed in the highest NP exposures relative to the control. Observed differences in community composition were driven by the differential abundance of several types of protists and arthropods. Significant dose-dependent shifts in composition were observed in β-diversity Jaccard and Unweighted-Unifrac metrics with the 18S marker using the RNA template. To our knowledge, this is the first demonstration of a dose-response relationship for NPs at a community level, and it highlights the value of using community-level endpoints to assess environmental impacts of nanoparticles.
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Affiliation(s)
- Marissa S Giroux
- U.S. EPA, Office of Research and Development, Atlantic Coastal Environmental Sciences Division, Narragansett, RI, USA.
| | - Jay R Reichman
- U.S. EPA, Office of Research and Development, Pacific Ecological Systems Division, Corvallis, OR, USA
| | - Troy Langknecht
- ORISE c/o U.S. EPA ORD/CEMM Atlantic Coastal Environmental Sciences Division, USA
| | - Robert M Burgess
- U.S. EPA, Office of Research and Development, Atlantic Coastal Environmental Sciences Division, Narragansett, RI, USA
| | - Kay T Ho
- U.S. EPA, Office of Research and Development, Atlantic Coastal Environmental Sciences Division, Narragansett, RI, USA
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14
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Porter R, Černoša A, Fernández-Sanmartín P, Cortizas AM, Aranda E, Luo Y, Zalar P, Podlogar M, Gunde-Cimerman N, Gostinčar C. Degradation of polypropylene by fungi Coniochaeta hoffmannii and Pleurostoma richardsiae. Microbiol Res 2023; 277:127507. [PMID: 37793281 DOI: 10.1016/j.micres.2023.127507] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 09/11/2023] [Accepted: 09/21/2023] [Indexed: 10/06/2023]
Abstract
The urgent need for better disposal and recycling of plastics has motivated a search for microbes with the ability to degrade synthetic polymers. While microbes capable of metabolizing polyurethane and polyethylene terephthalate have been discovered and even leveraged in enzymatic recycling approaches, microbial degradation of additive-free polypropylene (PP) remains elusive. Here we report the isolation and characterization of two fungal strains with the potential to degrade pure PP. Twenty-seven fungal strains, many isolated from hydrocarbon contaminated sites, were screened for degradation of commercially used textile plastic. Of the candidate strains, two identified as Coniochaeta hoffmannii and Pleurostoma richardsiae were found to colonize the plastic fibers using scanning electron microscopy (SEM). Further experiments probing degradation of pure PP films were performed using C. hoffmannii and P. richardsiae and analyzed using SEM, Raman spectroscopy and Fourier transform infrared spectroscopy with attenuated total reflectance (FTIR-ATR). The results showed that the selected fungi were active against pure PP, with distinct differences in the bonds targeted and the degree to which each was altered. Whole genome and transcriptome sequencing was conducted for both strains and the abundance of carbohydrate active enzymes, GC content, and codon usage bias were analyzed in predicted proteomes for each. Enzymatic assays were conducted to assess each strain's ability to degrade naturally occurring compounds as well as synthetic polymers. These investigations revealed potential adaptations to hydrocarbon-rich environments and provide a foundation for further investigation of PP degrading activity in C. hoffmannii and P. richardsiae.
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Affiliation(s)
- Rachel Porter
- Biophysics Program, Stanford University School of Medicine, Stanford, CA, USA
| | - Anja Černoša
- University of Ljubljana, Biotechnical Faculty, Department of Biology, Jamnikarjeva 101, Ljubljana, Slovenia
| | - Paola Fernández-Sanmartín
- CRETUS, EcoPast Research Group (GI-1553), Departamento de Edafoloxía e Química Agrícola, Faculty of Biology, Universidade de Santiago de Compostela, Campus Vida, 15782 Santiago de Compostela, Spain
| | - Antonio Martínez Cortizas
- CRETUS, EcoPast Research Group (GI-1553), Departamento de Edafoloxía e Química Agrícola, Faculty of Biology, Universidade de Santiago de Compostela, Campus Vida, 15782 Santiago de Compostela, Spain
| | - Elisabet Aranda
- University of Granada, Institute of Water Research, Environmental Microbiology Group, Ramón y Cajal n4, 18071 Granada, Spain
| | - Yonglun Luo
- Lars Bolund Institute of Regenerative Medicine, Qingdao-Europe Advanced Institute for Life Sciences, BGI-Qingdao, Qingdao 266555, China
| | - Polona Zalar
- University of Ljubljana, Biotechnical Faculty, Department of Biology, Jamnikarjeva 101, Ljubljana, Slovenia
| | - Matejka Podlogar
- Department for Nanostructured Materials, Jožef Stefan Institute, Jamova cesta 39, Ljubljana, Slovenia
| | - Nina Gunde-Cimerman
- University of Ljubljana, Biotechnical Faculty, Department of Biology, Jamnikarjeva 101, Ljubljana, Slovenia
| | - Cene Gostinčar
- University of Ljubljana, Biotechnical Faculty, Department of Biology, Jamnikarjeva 101, Ljubljana, Slovenia.
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15
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Botti A, Musmeci E, Negroni A, Capuozzo R, Fava F, Biagi E, Zanaroli G. Site-specific response of sediment microbial community to supplementation of polyhydroxyalkanoates as biostimulants for PCB reductive dechlorination. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 898:165485. [PMID: 37442469 DOI: 10.1016/j.scitotenv.2023.165485] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2023] [Revised: 06/23/2023] [Accepted: 07/10/2023] [Indexed: 07/15/2023]
Abstract
The use of biodegradable plastics is constantly raising, increasing the likeliness for these polymers to end up in the environment. Environmental applications foreseeing the intentional release of biodegradable plastics have been also recently proposed, e.g., for polyhydroxyalkanoates (PHAs) acting as slow hydrogen releasing compounds to stimulate microbial reductive dehalogenation processes. However, the effects of their release into the environment on the ecosystems still need to be thoroughly explored. In this work, the use of PHAs to enhance the microbial reductive dechlorination of polychlorobiphenyls (PCBs) and their impact on the metabolic and compositional features of the resident microbial community have been investigated in laboratory microcosms of a polluted marine sediment from Mar Piccolo (Taranto, Italy), and compared with recent findings on a different contaminated marine sediment from Pialassa della Baiona (Ravenna, Italy). A decreased biostimulation efficiency of PHAs on PCBs reductive dechlorination was observed in the sediment from Mar Piccolo, with respect to the sediment from Pialassa della Baiona, suggesting that the sediments' physical-chemical characteristics and/or the biodiversity and composition of its microbial community might play a key role in determining the outcome of this biostimulation strategy. Regardless of the sediment origin, PHAs were found to have a specific and pervasive effect on the sediment microbial community, reducing its biodiversity, defining a newly arranged microbial core of primary degraders and consequently affecting, in a site-specific way, the abundance of subdominant bacteria, possibly cross-feeders. Such potential to dramatically change the structure of autochthonous microbial communities should be carefully considered, since it might have secondary effects, e.g., on the natural biogeochemical cycles.
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Affiliation(s)
- Alberto Botti
- Dept. of Civil, Chemical, Environmental and Material Engineering (DICAM), Alma Mater Studiorum University of Bologna, Via Terracini 28, 40131 Bologna, Italy
| | - Eliana Musmeci
- Dept. of Civil, Chemical, Environmental and Material Engineering (DICAM), Alma Mater Studiorum University of Bologna, Via Terracini 28, 40131 Bologna, Italy
| | - Andrea Negroni
- Dept. of Civil, Chemical, Environmental and Material Engineering (DICAM), Alma Mater Studiorum University of Bologna, Via Terracini 28, 40131 Bologna, Italy
| | - Rosaria Capuozzo
- Dept. of Civil, Chemical, Environmental and Material Engineering (DICAM), Alma Mater Studiorum University of Bologna, Via Terracini 28, 40131 Bologna, Italy
| | - Fabio Fava
- Dept. of Civil, Chemical, Environmental and Material Engineering (DICAM), Alma Mater Studiorum University of Bologna, Via Terracini 28, 40131 Bologna, Italy
| | - Elena Biagi
- Dept. of Civil, Chemical, Environmental and Material Engineering (DICAM), Alma Mater Studiorum University of Bologna, Via Terracini 28, 40131 Bologna, Italy.
| | - Giulio Zanaroli
- Dept. of Civil, Chemical, Environmental and Material Engineering (DICAM), Alma Mater Studiorum University of Bologna, Via Terracini 28, 40131 Bologna, Italy
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16
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Karkanorachaki K, Syranidou E, Kalogerakis N. Extreme weather events as an important factor for the evolution of plastisphere but not for the degradation process. WATER RESEARCH 2023; 246:120687. [PMID: 37801984 DOI: 10.1016/j.watres.2023.120687] [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: 06/05/2023] [Revised: 09/26/2023] [Accepted: 09/29/2023] [Indexed: 10/08/2023]
Abstract
Marine plastics, with their negative effects on marine life and the human health, have been recently recognized as a new niche for the colonization and development of marine biofilms. Members of the colonizing communities could possess the potential for plastic biodegradation. Thus, there is an urgent need to characterize these complex and geographically variable communities and elucidate the functionalities. In this work, we characterize the fungal and bacterial colonizers of 5 types of plastic films (High Density Polyethylene, Low Density Polyethylene, Polypropylene, Polystyrene and Polyethylene Terepthalate) over the course of a 242-day incubation in the south-eastern Mediterranean and relate them to the chemical changes observed on the surface of the samples via ATR-FTIR. The 16s rRNA and ITS2 ribosomal regions of the plastisphere communities were sequenced on four time points (35, 152, 202 and 242 days). The selection of the time points was dictated by the occurrence of a severe storm which removed biological fouling from the surface of the samples and initiated a second colonization period. The bacterial communities, dominated by Proteobacteria and Bacteroidetes, were the most variable and diverse. Fungal communities, characterized mainly by the presence of Ascomycota, were not significantly affected by the storm. Neither bacterial nor fungal community structure were related to the polymer type acting as substrate, while the surface of the plastic samples underwent weathering of oscillating degrees with time. This work examines the long-term development of Mediterranean epiplastic biofilms and is the first to examine how primary colonization influences the microbial community re-attachment and succession as a response to extreme weather events. Finally, it is one of the few studies to examine fungal communities, despite them containing putative plastic degraders.
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Affiliation(s)
- Katerina Karkanorachaki
- School of Chemical and Environmental Engineering, Technical University of Crete, GR-73100, Chania, Greece
| | - Evdokia Syranidou
- School of Chemical and Environmental Engineering, Technical University of Crete, GR-73100, Chania, Greece
| | - Nicolas Kalogerakis
- School of Chemical and Environmental Engineering, Technical University of Crete, GR-73100, Chania, Greece; Institute of GeoEnergy, Foundation for Research and Technology - Hellas, GR-73100, Chania, Greece.
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17
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Zadjelovic V, Wright RJ, Borsetto C, Quartey J, Cairns TN, Langille MGI, Wellington EMH, Christie-Oleza JA. Microbial hitchhikers harbouring antimicrobial-resistance genes in the riverine plastisphere. MICROBIOME 2023; 11:225. [PMID: 37908022 PMCID: PMC10619285 DOI: 10.1186/s40168-023-01662-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Accepted: 09/04/2023] [Indexed: 11/02/2023]
Abstract
BACKGROUND The widespread nature of plastic pollution has given rise to wide scientific and social concern regarding the capacity of these materials to serve as vectors for pathogenic bacteria and reservoirs for Antimicrobial Resistance Genes (ARG). In- and ex-situ incubations were used to characterise the riverine plastisphere taxonomically and functionally in order to determine whether antibiotics within the water influenced the ARG profiles in these microbiomes and how these compared to those on natural surfaces such as wood and their planktonic counterparts. RESULTS We show that plastics support a taxonomically distinct microbiome containing potential pathogens and ARGs. While the plastisphere was similar to those biofilms that grew on wood, they were distinct from the surrounding water microbiome. Hence, whilst potential opportunistic pathogens (i.e. Pseudomonas aeruginosa, Acinetobacter and Aeromonas) and ARG subtypes (i.e. those that confer resistance to macrolides/lincosamides, rifamycin, sulfonamides, disinfecting agents and glycopeptides) were predominant in all surface-related microbiomes, especially on weathered plastics, a completely different set of potential pathogens (i.e. Escherichia, Salmonella, Klebsiella and Streptococcus) and ARGs (i.e. aminoglycosides, tetracycline, aminocoumarin, fluoroquinolones, nitroimidazole, oxazolidinone and fosfomycin) dominated in the planktonic compartment. Our genome-centric analysis allowed the assembly of 215 Metagenome Assembled Genomes (MAGs), linking ARGs and other virulence-related genes to their host. Interestingly, a MAG belonging to Escherichia -that clearly predominated in water- harboured more ARGs and virulence factors than any other MAG, emphasising the potential virulent nature of these pathogenic-related groups. Finally, ex-situ incubations using environmentally-relevant concentrations of antibiotics increased the prevalence of their corresponding ARGs, but different riverine compartments -including plastispheres- were affected differently by each antibiotic. CONCLUSIONS Our results provide insights into the capacity of the riverine plastisphere to harbour a distinct set of potentially pathogenic bacteria and function as a reservoir of ARGs. The environmental impact that plastics pose if they act as a reservoir for either pathogenic bacteria or ARGs is aggravated by the persistence of plastics in the environment due to their recalcitrance and buoyancy. Nevertheless, the high similarities with microbiomes growing on natural co-occurring materials and even more worrisome microbiome observed in the surrounding water highlights the urgent need to integrate the analysis of all environmental compartments when assessing risks and exposure to pathogens and ARGs in anthropogenically-impacted ecosystems. Video Abstract.
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Affiliation(s)
- Vinko Zadjelovic
- School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK.
- Present address: Centro de Bioinnovación de Antofagasta (CBIA), Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta, 1271155, Antofagasta, Chile.
| | - Robyn J Wright
- Department of Pharmacology, Faculty of Medicine, Dalhousie University, Halifax, Canada
| | - Chiara Borsetto
- School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK
| | - Jeannelle Quartey
- School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK
| | - Tyler N Cairns
- School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK
| | - Morgan G I Langille
- Department of Pharmacology, Faculty of Medicine, Dalhousie University, Halifax, Canada
| | | | - Joseph A Christie-Oleza
- School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK.
- Department of Biology, University of the Balearic Islands, 07122, Palma, Spain.
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18
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Wang PY, Zhao ZY, Xiong XB, Wang N, Zhou R, Zhang ZM, Ding F, Hao M, Wang S, Ma Y, Uzamurera AG, Xiao KW, Khan A, Tao XP, Wang WY, Tao HY, Xiong YC. Microplastics affect soil bacterial community assembly more by their shapes rather than the concentrations. WATER RESEARCH 2023; 245:120581. [PMID: 37703757 DOI: 10.1016/j.watres.2023.120581] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2023] [Revised: 08/26/2023] [Accepted: 09/04/2023] [Indexed: 09/15/2023]
Abstract
Polyethylene film mulching is a key technology for soil water retention in dryland agriculture, but the aging of the films can generate a large number of microplastics with different shapes. There exists a widespread misunderstanding that the concentrations of microplastics might be the determinant affecting the diversity and assembly of soil bacterial communities, rather than their shapes. Here, we examined the variations of soil bacteria community composition and functioning under two-year field incubation by four shapes (ball, fiber, fragment and powder) of microplastics along the concentration gradients (0.01%, 0.1% and 1%). Data showed that specific surface area of microplastics was significantly positively correlated with the variations of bacterial community abundance and diversity (r=0.505, p<0.05). The fragment- and fiber-shape microplastics displayed more pronounced interfacial continuity with soil particles and induced greater soil bacterial α-diversity, relative to the powder- and ball-shape ones. Strikingly, microplastic concentrations were not significantly correlated with bacterial community indices (r=0.079, p>0.05). Based on the variations of the βNTI, bacterial community assembly actually followed both stochastic and deterministic processes, and microplastic shapes significantly modified soil biogeochemical cycle and ecological functions. Therefore, the shapes of microplastics, rather than the concentration, significantly affected soil bacterial community assembly, in association with microplastic-soil-water interfaces.
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Affiliation(s)
- Peng-Yang Wang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Ze-Ying Zhao
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Xiao-Bin Xiong
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Ning Wang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Rui Zhou
- School of Ecology and Environmental Science, Yunnan University, Kunming 650091, China
| | - Zhi-Ming Zhang
- School of Ecology and Environmental Science, Yunnan University, Kunming 650091, China
| | - Fan Ding
- College of Land and Environment, Shenyang Agricultural University, Shenyang 110866, China
| | - Meng Hao
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Song Wang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Yue Ma
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Aimee Grace Uzamurera
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Kai-Wen Xiao
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Aziz Khan
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China
| | - Xiu-Ping Tao
- Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610095, China
| | - Wen-Ying Wang
- School of Life Sciences, Qinghai Normal University, Xining 810001, China
| | - Hong-Yan Tao
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China.
| | - You-Cai Xiong
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China.
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19
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Abed RMM, Al-Hinai M, Al-Balushi Y, Haider L, Muthukrishnan T, Rinner U. Degradation of starch-based bioplastic bags in the pelagic and benthic zones of the Gulf of Oman. MARINE POLLUTION BULLETIN 2023; 195:115496. [PMID: 37703633 DOI: 10.1016/j.marpolbul.2023.115496] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Revised: 08/21/2023] [Accepted: 09/02/2023] [Indexed: 09/15/2023]
Abstract
The Gulf of Oman is becoming increasingly polluted with plastics, hence bioplastics have been considered 'a substitute', although their biodegradability in marine environments has not been well investigated. Most research has been performed on cellulose-based bioplastics, whereas starch-based bioplastics have proven to be a suitable, but less researched, alternative. This study is the first of its kind designed to investigate the degradability of two different types of starch-based bioplastic bags, available in the market and labeled as "biodegradable", in the pelagic and benthic zones of one of the warmest marine environment in the world. Fourier-Transform Infrared Spectroscopy (FTIR) showed a clear reduction in the presence of OH, CH, and CO in the bioplastic bags after 5 weeks of immersion. Thermo-Gravimetric Analysis (TGA) indicated degradation of glycerol, starch, and polyethylene. The biofouling bacterial communities on bioplastic surfaces showed distinct grouping based on the immersion zone. Candidaatus saccharibacteria, Verrucomicrobiae, Acidimicrobiia and Planctomycetia sequences were only detectable on bioplastics in the pelagic zone, whereas Actinomyces, Pseudomonas, Sphingobium and Acinetobacter related sequences were only found on bioplastics in the benthic layer. We conclude that starch-based bioplastics are more readily degradable in the Gulf of Oman than conventional plastics, hence could serve as a better environmentally friendly alternative.
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Affiliation(s)
- Raeid M M Abed
- Biology Department, College of Science, Sultan Qaboos University, P. O. Box: 36, PC 123 Al Khoud, Sultanate of Oman.
| | - Mahmood Al-Hinai
- Biology Department, College of Science, Sultan Qaboos University, P. O. Box: 36, PC 123 Al Khoud, Sultanate of Oman
| | - Yasmin Al-Balushi
- Biology Department, College of Science, Sultan Qaboos University, P. O. Box: 36, PC 123 Al Khoud, Sultanate of Oman
| | - Lorenz Haider
- Institute of Applied Chemistry, IMC University of Applied Sciences Krems, Piaristengasse 1, 3500 Krems, Austria
| | - Thirumahal Muthukrishnan
- Department of Chemical Engineering and Applied Chemistry, University of Toronto, Ontario M5S 3E5, Canada
| | - Uwe Rinner
- Institute of Applied Chemistry, IMC University of Applied Sciences Krems, Piaristengasse 1, 3500 Krems, Austria
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20
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Kim SH, Cho JY, Hwang JH, Kim HJ, Oh SJ, Kim HJ, Bhatia SK, Yun J, Lee SH, Yang YH. Revealing the key gene involved in bioplastic degradation from superior bioplastic degrader Bacillus sp. JY35. Int J Biol Macromol 2023:125298. [PMID: 37315675 DOI: 10.1016/j.ijbiomac.2023.125298] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2023] [Revised: 05/18/2023] [Accepted: 06/02/2023] [Indexed: 06/16/2023]
Abstract
The use of bioplastics, which can alleviate environmental pollution caused by non-degradable bioplastics, has received attention. As there are many types of bioplastics, method that can treat them simultaneously is important. Therefore, Bacillus sp. JY35 which can degrade different types of bioplastics, was screened in previous study. Most types of bioplastics, such as polyhydroxybutyrate (PHB), (P(3HB-co-4HB)), poly(butylene adipate-co-terephthalate) (PBAT), polybutylene succinate (PBS), and polycaprolactone (PCL), can be degraded by esterase family enzymes. To identify the genes that are involved in bioplastic degradation, analysis with whole-genome sequencing was performed. Among the many esterase enzymes, three carboxylesterase and one triacylglycerol lipase were identified and selected based on previous studies. Esterase activity using p-nitrophenyl substrates was measured, and the supernatant of JY35_02679 showed strong emulsion clarification activity compared with others. In addition, when recombinant E. coli was applied to the clear zone test, only the JY35_02679 gene showed activity in the clear zone test with bioplastic containing solid cultures. Further quantitative analysis showed 100 % PCL degradation at 7 days and 45.7 % PBS degradation at 10 days. We identified a gene encoding a bioplastic-degrading enzyme in Bacillus sp. JY35 and successfully expressed the gene in heterologous E. coli, which secreted esterases with broad specificity.
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Affiliation(s)
- Su Hyun Kim
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Jang Yeon Cho
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Jeong Hyeon Hwang
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Hyun Jin Kim
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Suk Jin Oh
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Hyun Joong Kim
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Shashi Kant Bhatia
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea; Institute for Ubiquitous Information Technology and Application, Konkuk University, Seoul, Republic of Korea
| | - Jeonghee Yun
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, Republic of Korea
| | - Sang-Ho Lee
- Department of Pharmacy, College of Pharmacy, Jeju National University, Jeju-si, Republic of Korea
| | - Yung-Hun Yang
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea; Institute for Ubiquitous Information Technology and Application, Konkuk University, Seoul, Republic of Korea.
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21
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Bitalac JMS, Lantican NB, Gomez NCF, Onda DFL. Attachment of potential cultivable primo-colonizing bacteria and its implications on the fate of low-density polyethylene (LDPE) plastics in the marine environment. JOURNAL OF HAZARDOUS MATERIALS 2023; 451:131124. [PMID: 36871466 DOI: 10.1016/j.jhazmat.2023.131124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Revised: 02/27/2023] [Accepted: 03/01/2023] [Indexed: 06/18/2023]
Abstract
Plastics released in the environment become suitable matrices for microbial attachment and colonization. Plastics-associated microbial communities interact with each other and are metabolically distinct from the surrounding environment. However, pioneer colonizing species and their interaction with the plastic during initial colonization are less described. Marine sediment bacteria from sites in Manila Bay were isolated via a double selective enrichment method using sterilized low-density polyethylene (LDPE) sheets as the sole carbon source. Ten isolates were identified to belong to the genera Halomonas, Bacillus, Alteromonas, Photobacterium, and Aliishimia based on 16S rRNA gene phylogeny, and majority of the taxa found exhibit a surface-associated lifestyle. Isolates were then tested for their ability to colonize polyethylene (PE) through co-incubation with LDPE sheets for 60 days. Growth of colonies in crevices, formation of cell-shaped pits, and increased roughness of the surface indicate physical deterioration. Fourier-transform infrared (FT-IR) spectroscopy revealed significant changes in the functional groups and bond indices on LDPE sheets separately co-incubated with the isolates, demonstrating that different species potentially target different substrates of the photo-oxidized polymer backbone. Understanding the activity of primo-colonizing bacteria on the plastic surface can provide insights on the possible mechanisms used to make plastic more bioavailable for other species, and their implications on the fate of plastics in the marine environment.
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Affiliation(s)
- Justine Marey S Bitalac
- The Marine Science Institute, University of the Philippines Diliman, 1101 Quezon City, Philippines; Microbiology Division, Institute of Biological Sciences, College of Arts and Sciences, University of the Philippines Los Baños, 4031 Laguna, Philippines
| | - Nacita B Lantican
- Microbiology Division, Institute of Biological Sciences, College of Arts and Sciences, University of the Philippines Los Baños, 4031 Laguna, Philippines
| | - Norchel Corcia F Gomez
- The Marine Science Institute, University of the Philippines Diliman, 1101 Quezon City, Philippines; Microbiology Division, Institute of Biological Sciences, College of Arts and Sciences, University of the Philippines Los Baños, 4031 Laguna, Philippines
| | - Deo Florence L Onda
- The Marine Science Institute, University of the Philippines Diliman, 1101 Quezon City, Philippines.
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22
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Ghiglione JF, Barbe V, Bruzaud S, Burgaud G, Cachot J, Eyheraguibel B, Lartaud F, Ludwig W, Meistertzheim AL, Paul-Pont I, Pesant S, Ter Halle A, Thiebeauld O. Mission Tara Microplastics: a holistic set of protocols and data resources for the field investigation of plastic pollution along the land-sea continuum in Europe. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023:10.1007/s11356-023-26883-9. [PMID: 37140856 DOI: 10.1007/s11356-023-26883-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Accepted: 04/04/2023] [Indexed: 05/05/2023]
Abstract
The Tara Microplastics mission was conducted for 7 months to investigate plastic pollution along nine major rivers in Europe-Thames, Elbe, Rhine, Seine, Loire, Garonne, Ebro, Rhone, and Tiber. An extensive suite of sampling protocols was applied at four to five sites on each river along a salinity gradient from the sea and the outer estuary to downstream and upstream of the first heavily populated city. Biophysicochemical parameters including salinity, temperature, irradiance, particulate matter, large and small microplastics (MPs) concentration and composition, prokaryote and microeukaryote richness, and diversity on MPs and in the surrounding waters were routinely measured onboard the French research vessel Tara or from a semi-rigid boat in shallow waters. In addition, macroplastic and microplastic concentrations and composition were determined on river banks and beaches. Finally, cages containing either pristine pieces of plastics in the form of films or granules, and others containing mussels were immersed at each sampling site, 1 month prior to sampling in order to study the metabolic activity of the plastisphere by meta-OMICS and to run toxicity tests and pollutants analyses. Here, we fully described the holistic set of protocols designed for the Mission Tara Microplastics and promoted standard procedures to achieve its ambitious goals: (1) compare traits of plastic pollution among European rivers, (2) provide a baseline of the state of plastic pollution in the Anthropocene, (3) predict their evolution in the frame of the current European initiatives, (4) shed light on the toxicological effects of plastic on aquatic life, (5) model the transport of microplastics from land towards the sea, and (6) investigate the potential impact of pathogen or invasive species rafting on drifting plastics from the land to the sea through riverine systems.
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Affiliation(s)
- Jean-François Ghiglione
- CNRS, Sorbonne Université, Laboratoire d'Océanographie Microbienne (LOMIC)/UMR 7621, Observatoire Océanologique de Banyuls, Laboratoire d'Océanographie Microbienne, 1 Avenue Fabre, F-66650, Banyuls sur mer, France.
- Research Federation for the Study of Global Ocean Systems Ecology and Evolution, R2022/Tara Oceans-GOSEE, Paris, France.
| | - Valérie Barbe
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - Stéphane Bruzaud
- UMR CNRS 6027, IRDL, Université Bretagne Sud, 56100, Lorient, France
| | - Gaëtan Burgaud
- Univ Brest, INRAE, Laboratoire Universitaire de Biodiversité Et Écologie Microbienne, 29280, Plouzané, France
| | - Jérôme Cachot
- Université Bordeaux, EPOC CNRS, EPHE, Université de Bordeaux, UMR 5805, 33600, Pessac, France
| | - Boris Eyheraguibel
- CNRS, Université Clermont Auvergne, Institut de Chimie de Clermont-Ferrand (ICCF), UMR6296, Clermont-Ferrand, France
| | - Franck Lartaud
- CNRS, Sorbonne Université, Laboratoire d'Ecogéochimie des Environnements Benthiques (LECOB)/UMR 8222, Observatoire Océanologique de Banyuls, Banyuls Sur Mer, France
| | - Wolfgang Ludwig
- CEFREM, UMR 5110, University of Perpignan - CNRS, 66860, Perpignan Cedex, France
| | | | - Ika Paul-Pont
- Ifremer, CNRS, IRD, LEMAR, Univ Brest, F-29280, Plouzané, France
| | - Stéphane Pesant
- Research Federation for the Study of Global Ocean Systems Ecology and Evolution, R2022/Tara Oceans-GOSEE, Paris, France
- European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
| | - Alexandra Ter Halle
- CNRS, Laboratoire des InteractionsMoléculaires EtRéactivité Chimique Et Photochimique (IMRCP), UMR 5623, Université de Toulouse, Toulouse, France
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23
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Sun Y, Wu M, Zang J, Du L, Huang M, Chen C, Wang J. Plastisphere microbiome: Methodology, diversity, and functionality. IMETA 2023; 2:e101. [PMID: 38868423 PMCID: PMC10989970 DOI: 10.1002/imt2.101] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/10/2023] [Revised: 03/11/2023] [Accepted: 03/16/2023] [Indexed: 06/14/2024]
Abstract
Broad topics of the plastisphere in various environments are reviewed, including its methodologies, diversity, functionality, and outlook.
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Affiliation(s)
- Yuanze Sun
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental SciencesChina Agricultural UniversityBeijingChina
| | - Mochen Wu
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental SciencesChina Agricultural UniversityBeijingChina
| | - Jingxi Zang
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental SciencesChina Agricultural UniversityBeijingChina
| | - Linna Du
- College of Advanced Materials EngineeringJiaxing Nanhu UniverisityJiaxingChina
| | - Muke Huang
- China International Engineering Consulting CorporationBeijingChina
| | - Cheng Chen
- China International Engineering Consulting CorporationBeijingChina
| | - Jie Wang
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental SciencesChina Agricultural UniversityBeijingChina
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24
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Mineeva O, Danciu D, Schölkopf B, Ley RE, Rätsch G, Youngblut ND. ResMiCo: Increasing the quality of metagenome-assembled genomes with deep learning. PLoS Comput Biol 2023; 19:e1011001. [PMID: 37126495 PMCID: PMC10174551 DOI: 10.1371/journal.pcbi.1011001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Revised: 05/11/2023] [Accepted: 03/06/2023] [Indexed: 05/02/2023] Open
Abstract
The number of published metagenome assemblies is rapidly growing due to advances in sequencing technologies. However, sequencing errors, variable coverage, repetitive genomic regions, and other factors can produce misassemblies, which are challenging to detect for taxonomically novel genomic data. Assembly errors can affect all downstream analyses of the assemblies. Accuracy for the state of the art in reference-free misassembly prediction does not exceed an AUPRC of 0.57, and it is not clear how well these models generalize to real-world data. Here, we present the Residual neural network for Misassembled Contig identification (ResMiCo), a deep learning approach for reference-free identification of misassembled contigs. To develop ResMiCo, we first generated a training dataset of unprecedented size and complexity that can be used for further benchmarking and developments in the field. Through rigorous validation, we show that ResMiCo is substantially more accurate than the state of the art, and the model is robust to novel taxonomic diversity and varying assembly methods. ResMiCo estimated 7% misassembled contigs per metagenome across multiple real-world datasets. We demonstrate how ResMiCo can be used to optimize metagenome assembly hyperparameters to improve accuracy, instead of optimizing solely for contiguity. The accuracy, robustness, and ease-of-use of ResMiCo make the tool suitable for general quality control of metagenome assemblies and assembly methodology optimization.
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Affiliation(s)
- Olga Mineeva
- Department of Computer Science, ETH Zürich, Zürich, Switzerland
- Department of Empirical Inference, Max Planck Institute for Intelligent Systems, Tübingen, Germany
- Swiss Institute for Bioinformatics, Lausanne, Switzerland
| | - Daniel Danciu
- Department of Computer Science, ETH Zürich, Zürich, Switzerland
| | - Bernhard Schölkopf
- Department of Computer Science, ETH Zürich, Zürich, Switzerland
- Department of Empirical Inference, Max Planck Institute for Intelligent Systems, Tübingen, Germany
- ETH AI center, ETH Zürich, Zürich, Switzerland
| | - Ruth E Ley
- Department of Microbiome Science, Max Planck Institute for Biology, Tübingen, Germany
| | - Gunnar Rätsch
- Department of Computer Science, ETH Zürich, Zürich, Switzerland
- Swiss Institute for Bioinformatics, Lausanne, Switzerland
- ETH AI center, ETH Zürich, Zürich, Switzerland
- Department of Biology, ETH Zürich, Zürich, Switzerland
- Medical Informatics Unit, Zürich University Hospital, Zürich, Switzerland
| | - Nicholas D Youngblut
- Department of Microbiome Science, Max Planck Institute for Biology, Tübingen, Germany
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25
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Aquino VN, Plaul FE, Sanchez AD, Villagra S, Cappelletti NE. Microplastics and hydrocarbons in soils: Quantification as an anthropic carbon source. INTEGRATED ENVIRONMENTAL ASSESSMENT AND MANAGEMENT 2023; 19:698-705. [PMID: 36189835 DOI: 10.1002/ieam.4694] [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: 05/25/2022] [Revised: 08/27/2022] [Accepted: 09/29/2022] [Indexed: 06/16/2023]
Abstract
The literature on the presence of microplastics (MPs) and their potential impact on terrestrial ecosystems is still scarce. Interestingly, soil MPs are detected as organic carbon (SOC) using traditional quantification methods (e.g., loss on ignition [LOI]), although its dynamics in the environment will be different. The objective of this study was to quantify the carbon (C) contribution of MPs to the SOC in superficial soil samples from a coastal urban wetland (Avellaneda, Buenos Aires, Argentina) with the features of a humid subtropical forest and compare with hydrocarbon contribution. Soil samples were split for analysis of moisture content; texture (sieve and pipet method); organic matter as a LOI (8 h at 450 °C); total hydrocarbons (THCs; gravimetry of solvent extractable matter); n-alkanes (solvent extraction and gas chromatography-flame ionization detection analysis); and extraction of MPs (floatation in NaClaq , filtration, H2 O2 digestion, and visual sorting under a stereomicroscope). The superficial soil was a sandy clay loam with a large organic matter content (19%-30%). The THC averaged 2.5 ± 1.9 g kg and the marked predominance of odd-numbered carbon n-alkanes maximizing at C29 and C31 show the contribution of the terrestrial plant waxes. The average number of MPs was 587 ± 277 items kg of dry soil, predominantly fibers. Taking account of the C content, THCs and MPs add to the soil 1.23 ± 1.10 ton C ha and 0.10-0.97 ton C ha, respectively. Therefore, in this system with humid forest characteristics, the MPs represent between 0.12% and 1.25% of soil estimated carbon, in a magnitude similar to the C contribution of THCs (0.6%-4.2%). This preliminary study shows the relevance of discriminating MPs from other carbon sources and presents a description of their impact on soils to advance future research or tools for decision-makers. Integr Environ Assess Manag 2023;19:698-705. © 2022 SETAC.
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Affiliation(s)
- Victor N Aquino
- Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
- Departamento de Ambiente y Turismo, Universidad Nacional de Avellaneda (UNDAV), Avellaneda, Argentina
| | - Florencia E Plaul
- Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
- Departamento de Ambiente y Turismo, Universidad Nacional de Avellaneda (UNDAV), Avellaneda, Argentina
| | - Anabel D Sanchez
- Departamento de Ambiente y Turismo, Universidad Nacional de Avellaneda (UNDAV), Avellaneda, Argentina
| | - Sebastian Villagra
- Departamento de Ambiente y Turismo, Universidad Nacional de Avellaneda (UNDAV), Avellaneda, Argentina
| | - Natalia E Cappelletti
- Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
- Departamento de Ambiente y Turismo, Universidad Nacional de Avellaneda (UNDAV), Avellaneda, Argentina
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26
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Anju VT, Busi S, Mohan MS, Salim SA, Ar S, Imchen M, Kumavath R, Dyavaiah M, Prasad R. Surveillance and mitigation of soil pollution through metagenomic approaches. Biotechnol Genet Eng Rev 2023:1-34. [PMID: 36881114 DOI: 10.1080/02648725.2023.2186330] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2023] [Accepted: 02/23/2023] [Indexed: 03/08/2023]
Abstract
Soil pollution is one of the serious global threats causing risk to environment and humans. The major cause of accumulation of pollutants in soil are anthropogenic activities and some natural processes. There are several types of soil pollutants which deteriorate the quality of human life and animal health. They are recalcitrant hydrocarbon compounds, metals, antibiotics, persistent organic compounds, pesticides and different kinds of plastics. Due to the detrimental properties of pollutants present in soil on human life and ecosystem such as carcinogenic, genotoxic and mutagenic effects, alternate and effective methods to degrade the pollutants are recommended. Bioremediation is an effective and inexpensive method of biological degradation of pollutants using plants, microorganisms and fungi. With the advent of new detection methods, the identification and degradation of soil pollutants in different ecosystems were made easy. Metagenomic approaches are a boon for the identification of unculturable microorganisms and to explore the vast bioremediation potential for different pollutants. Metagenomics is a power tool to study the microbial load in polluted or contaminated land and its role in bioremediation. In addition, the negative ecosystem and health effect of pathogens, antibiotic and metal resistant genes found in the polluted area can be studied. Also, the identification of novel compounds/genes/proteins involved in the biotechnology and sustainable agriculture practices can be performed with the integration of metagenomics.
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Affiliation(s)
- V T Anju
- Department of Biochemistry and Molecular Biology, School of Life Sciences, Pondicherry University, Puducherry, India
| | - Siddhardha Busi
- Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, India
| | - Mahima S Mohan
- Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, India
| | - Simi Asma Salim
- Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, India
| | - Sabna Ar
- Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, India
| | - Madangchanok Imchen
- Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, India
| | - Ranjith Kumavath
- Department of Biotechnology, School of Life Sciences, Pondicherry University, Puducherry, India
- Department of Genomic Science, School of Biological Sciences, Central University of Kerala, Kerala, India
| | - Madhu Dyavaiah
- Department of Biochemistry and Molecular Biology, School of Life Sciences, Pondicherry University, Puducherry, India
| | - Ram Prasad
- Department of Botany, School of Life Sciences, Mahatma Gandhi Central University, Bihar, India
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27
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Surendran U, Jayakumar M, Raja P, Gopinath G, Chellam PV. Microplastics in terrestrial ecosystem: Sources and migration in soil environment. CHEMOSPHERE 2023; 318:137946. [PMID: 36708782 DOI: 10.1016/j.chemosphere.2023.137946] [Citation(s) in RCA: 26] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 01/10/2023] [Accepted: 01/22/2023] [Indexed: 06/18/2023]
Abstract
Plastics, especially microplastics in soils, are considered a severe environmental issue worldwide. However, globally, the main research focus is on microplastic pollution in the marine environment, the microplastic pollution on soils and sediments remains on the sideline so far. But the fact is that microplastics are omnipresent in terrestrial systems in the form of microbeads in industrial systems and in sewage sludge. Their presence in agricultural soils and sediments is enormously increased due to plastic mulching, plastic greenhouses and compost and extensive use of controlled release fertilizers. Therefore, this review outlines the global scenario regarding plastics and microplastics production, consumption, and possible pathways of penetration into the soil environment. Various mechanisms to restrict and manage the pathways of plastics and microplastics into the soil environment are also discussed. This review also focuses on the challenges and limitations on the use of plastic alternates such as bioplastics and oxo plastics. Also, the knowledge gaps on the source of microplastics in the environment and their deleterious effects on properties of soil, soil health and focused light on their soil trophic transfer in food chains via plants. This review provides a detailed insight on the management and possible control measures to alleviate the potential risk caused by microplastics pollution in the soil environment and the overall ecosystem's health. In spite of the occurrence and fate of microplastics on terrestrial environment, knowledge gaps and challenges for tackling this contamination are also explored which facilitates the policy makers to develop regulatory measures towards the containment of microplastics in living ecosystem.
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Affiliation(s)
- U Surendran
- Centre for Water Resources Development and Management, Kozhikode, Kerala, India.
| | - M Jayakumar
- Central Coffee Research Institute , Coffee Research Station, Chikmagaluru, Karnataka, India
| | - P Raja
- ICAR-Indian Institute of Soil and Water Conservation, Research Centre, Ooty, Tamil Nadu, India
| | - Girish Gopinath
- Kerala University of Fisheries and Ocean Studies, Kochi, Kerala, India
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28
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Johannesson K, Leder EH, André C, Dupont S, Eriksson SP, Harding K, Havenhand JN, Jahnke M, Jonsson PR, Kvarnemo C, Pavia H, Rafajlović M, Rödström EM, Thorndyke M, Blomberg A. Ten years of marine evolutionary biology-Challenges and achievements of a multidisciplinary research initiative. Evol Appl 2023; 16:530-541. [PMID: 36793681 PMCID: PMC9923476 DOI: 10.1111/eva.13389] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2022] [Revised: 03/08/2022] [Accepted: 04/21/2022] [Indexed: 11/26/2022] Open
Abstract
The Centre for Marine Evolutionary Biology (CeMEB) at the University of Gothenburg, Sweden, was established in 2008 through a 10-year research grant of 8.7 m€ to a team of senior researchers. Today, CeMEB members have contributed >500 scientific publications, 30 PhD theses and have organised 75 meetings and courses, including 18 three-day meetings and four conferences. What are the footprints of CeMEB, and how will the centre continue to play a national and international role as an important node of marine evolutionary research? In this perspective article, we first look back over the 10 years of CeMEB activities and briefly survey some of the many achievements of CeMEB. We furthermore compare the initial goals, as formulated in the grant application, with what has been achieved, and discuss challenges and milestones along the way. Finally, we bring forward some general lessons that can be learnt from a research funding of this type, and we also look ahead, discussing how CeMEB's achievements and lessons can be used as a springboard to the future of marine evolutionary biology.
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Affiliation(s)
- Kerstin Johannesson
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden
| | - Erica H Leder
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden.,Natural History Museum University of Oslo Oslo Norway
| | - Carl André
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden
| | - Sam Dupont
- Department of Biology and Environmental Science University of Gothenburg, Kristineberg Marine Research Station Fiskebäckskil Sweden.,International Atomic Energy Agency Principality of Monaco Monaco
| | - Susanne P Eriksson
- Department of Biology and Environmental Science University of Gothenburg, Kristineberg Marine Research Station Fiskebäckskil Sweden
| | - Karin Harding
- Department of Biology and Environmental Science University of Gothenburg Gothenburg Sweden
| | - Jonathan N Havenhand
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden
| | - Marlene Jahnke
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden
| | - Per R Jonsson
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden
| | - Charlotta Kvarnemo
- Department of Biology and Environmental Science University of Gothenburg Gothenburg Sweden
| | - Henrik Pavia
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden
| | - Marina Rafajlović
- Department of Marine Sciences University of Gothenburg Gothenburg Sweden
| | - Eva Marie Rödström
- Tjärnö Marine Laboratory, Department of Marine Sciences University of Gothenburg Strömstad Sweden
| | - Michael Thorndyke
- Department of Biology and Environmental Science University of Gothenburg, Kristineberg Marine Research Station Fiskebäckskil Sweden.,Department of Genomics Research in Ecology & Evolution in Nature (GREEN) Groningen Institute for Evolutionary Life Sciences (GELIFES) De Rijksuniversiteit Groningen Groningen The Netherlands
| | - Anders Blomberg
- Department of Chemistry and Molecular Biology University of Gothenburg Gothenburg Sweden
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Yin M, Yan B, Wang H, Wu Y, Wang X, Wang J, Zhu Z, Yan X, Liu Y, Liu M, Fu C. Effects of microplastics on nitrogen and phosphorus cycles and microbial communities in sediments. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 318:120852. [PMID: 36509346 DOI: 10.1016/j.envpol.2022.120852] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Revised: 12/06/2022] [Accepted: 12/08/2022] [Indexed: 06/17/2023]
Abstract
Sediments are the long-term sinks of microplastics (MPs) and nutrients in freshwater ecosystems. Therefore, understanding the effect of MPs on sediment nutrients is crucial. However, few studies have discussed the effects of MPs on nitrogen and phosphorus cycles in freshwater sediments. Herein, 0.5% (w/w) polyvinyl chloride (PVC), polylactic acid (PLA), and polypropylene (PP) MPs were added to freshwater sediments to evaluate their effects on microbial communities and nitrogen and phosphorus release. The potential biochemical functions of the bacterial communities in the sediments were predicted and assessed via 16S rRNA gene sequencing. The results showed that MPs significantly affected the microbial community composition and nutrient cycling in the sediments. PVC and PP MPs can promote microbial nitrification and nitrite oxidation, while PP can significantly promote alkaline phosphatase (ALP) activity and the abundance of the phosphorus-regulation (phoR) gene. PLA MPs had the potential to promote the abundance of microbial phosphorus transporter (ugpB), nitrogen fixation (nifD, nifH, and nifX), and denitrification (nirS, napA, and norB) genes and inhibit nitrification, resulting in massive accumulation and release of ammonia nitrogen. Although PLA MPs inhibited the activity of ALP and the abundance of the organophosphorus mineralization (phoD) gene, it could enhance dissimilatory iron and sulfite reduction, which may promote the release of sedimentary phosphorus. Our findings may help understand the mechanisms of nitrogen and phosphorus cycles and microbial communities driven by MPs in sediments and provide a basis for future assessments of the environmental behavior of MPs in freshwater ecosystems.
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Affiliation(s)
- Maoyun Yin
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Bin Yan
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Huan Wang
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing, 400716, China; Chongqing Landscape and Gardening Research Institute, Chongqing, 401329, China.
| | - Yan Wu
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China; College of Environmental Science and Engineering, Beijing Forestry University, Beijing, 100083, China.
| | - Xiang Wang
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Jueqiao Wang
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Zhihao Zhu
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Xixi Yan
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Yuting Liu
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Meijun Liu
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
| | - Chuan Fu
- Chongqing Key Laboratory of Water Environment Evolution and Pollution Control in Three Gorges Reservoir, Chongqing Three Gorges University, Wanzhou, 404020, China.
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30
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Nguyen NHA, Marlita M, El-Temsah YS, Hrabak P, Riha J, Sevcu A. Early stage biofilm formation on bio-based microplastics in a freshwater reservoir. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 858:159569. [PMID: 36272481 DOI: 10.1016/j.scitotenv.2022.159569] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Revised: 10/14/2022] [Accepted: 10/15/2022] [Indexed: 06/16/2023]
Abstract
Bio-based plastics (BP) produced from renewable biomass resources, such as high-density polyethylene (HDPE), polylactic acid (PLA) and poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV), is currently increasing in terms of both products and applications. However, their biodegradability and environmental fate are not yet fully understood, especially in freshwaters. Here, we present the results of an in-situ study in a freshwater reservoir, where we submerged HDPE, PLA and PHBV microscale BP (mBP) in dialysis bags to enable exchange of small organic and inorganic molecules, including nutrients, with the surrounding water. After one and two months, the bacterial biofilm that formed on each mBP was characterised by 16S rRNA amplicon sequencing. After two-months, Oxalobacteraceae, Pedosphaeraceae, Flavobacteriaceae (Flavobacterium) and Chitinophagaceae (Ferruginibacter) had increased by up to four times. Both these and other common members (≥1 % relative total biomass) of the microbial community were similarly abundant on all mBP. Low-abundance (0.3-1 %) bacterial taxa, however, were significantly more diverse and differed on each mBP. Notably, some low-abundance families and genera increased on specific materials, e.g. Sphingomonadaceae on HDPE, Sphingobacteriaceae on PHBV, Gemmatimonas and Crenothrix on PLA. Overall, abundant bacteria were regarded as a pioneering community, while low-abundance bacteria were more diverse and preferred mBP types in the early stages of biofilm formation on mBP. It could be influenced by the environmental conditions, where nutrient levels and low temperatures might shape the low-abundance of attached bacterial communities than the plastic material itself.
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Affiliation(s)
- Nhung H A Nguyen
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 1409/7, 461 17 Liberec, Czech Republic.
| | - Marlita Marlita
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 1409/7, 461 17 Liberec, Czech Republic; Faculty of Mechatronics, Informatics and Interdisciplinary Studies, Technical University of Liberec, Studentská 1402/2, 461 17 Liberec, Czech Republic
| | - Yehia S El-Temsah
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 1409/7, 461 17 Liberec, Czech Republic; Centre for Biosafety, Postboks 6418, 9294 Tromsø, Norway
| | - Pavel Hrabak
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 1409/7, 461 17 Liberec, Czech Republic; Faculty of Mechatronics, Informatics and Interdisciplinary Studies, Technical University of Liberec, Studentská 1402/2, 461 17 Liberec, Czech Republic
| | - Jakub Riha
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 1409/7, 461 17 Liberec, Czech Republic; Faculty of Mechatronics, Informatics and Interdisciplinary Studies, Technical University of Liberec, Studentská 1402/2, 461 17 Liberec, Czech Republic
| | - Alena Sevcu
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 1409/7, 461 17 Liberec, Czech Republic; Faculty of Science, Humanities and Education, Technical University of Liberec, Studentská 1402/2, 461 17 Liberec, Czech Republic.
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Wang H, Yang Q, Li D, Wu J, Yang S, Deng Y, Luo C, Jia W, Zhong Y, Peng P. Stable Isotopic and Metagenomic Analyses Reveal Microbial-Mediated Effects of Microplastics on Sulfur Cycling in Coastal Sediments. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:1167-1176. [PMID: 36599128 DOI: 10.1021/acs.est.2c06546] [Citation(s) in RCA: 17] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Microplastics are readily accumulated in coastal sediments, where active sulfur (S) cycling takes place. However, the effects of microplastics on S cycling in coastal sediments and their underlying mechanisms remain poorly understood. In this study, the transformation patterns of different S species in mangrove sediments amended with different microplastics and their associated microbial communities were investigated using stable isotopic analysis and metagenomic sequencing. Biodegradable poly(lactic acid) (PLA) microplastics treatment increased sulfate (SO42-) reduction to yield more acid-volatile S and elementary S, which were subsequently transformed to chromium-reducible S (CRS). The S isotope fractionation between SO42- and CRS in PLA treatment increased by 9.1‰ from days 0 to 20, which was greater than 6.8‰ in the control. In contrast, recalcitrant petroleum-based poly(ethylene terephthalate) (PET) and polyvinyl chloride (PVC) microplastics had less impact on the sulfate reduction, resulting in 7.6 and 7.7‰ of S isotope fractionation between SO42- and CRS from days 0 to 20, respectively. The pronounced S isotope fractionation in PLA treatment was associated with increased relative abundance of Desulfovibrio-related sulfate-reducing bacteria, which contributed a large proportion of the microbial genes responsible for dissimilatory sulfate reduction. Overall, these findings provide insights into the potential impacts of microplastics exposure on the biogeochemical S cycle in coastal sediments.
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Affiliation(s)
- Heli Wang
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
- Guangdong Key Laboratory of Environmental Protection and Resources and Utilization, Guangzhou510640, China
- University of Chinese Academy of Sciences, Beijing100049, China
| | - Qian Yang
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
- Guangdong Key Laboratory of Environmental Protection and Resources and Utilization, Guangzhou510640, China
- University of Chinese Academy of Sciences, Beijing100049, China
| | - Dan Li
- School of Environment and Civil Engineering, Dongguan University of Technology, Dongguan523808, China
| | - Junhong Wu
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
- Guangdong Key Laboratory of Environmental Protection and Resources and Utilization, Guangzhou510640, China
- University of Chinese Academy of Sciences, Beijing100049, China
| | - Sen Yang
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
- Guangdong Key Laboratory of Environmental Protection and Resources and Utilization, Guangzhou510640, China
- University of Chinese Academy of Sciences, Beijing100049, China
| | - Yirong Deng
- Guangdong Key Laboratory of Contaminated Sites Environmental Management and Remediation, Guangdong Provincial Academy of Environmental Science, Guangzhou510045, China
| | - Chunling Luo
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
- Guangdong Key Laboratory of Environmental Protection and Resources and Utilization, Guangzhou510640, China
| | - Wanglu Jia
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
| | - Yin Zhong
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
- Guangdong Key Laboratory of Environmental Protection and Resources and Utilization, Guangzhou510640, China
| | - Ping'an Peng
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Maco Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou510640, China
- CAS Center for Excellence in Deep Earth Science, Guangzhou510640, China
- Guangdong Key Laboratory of Environmental Protection and Resources and Utilization, Guangzhou510640, China
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32
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Wani AK, Akhtar N, Naqash N, Rahayu F, Djajadi D, Chopra C, Singh R, Mulla SI, Sher F, Américo-Pinheiro JHP. Discovering untapped microbial communities through metagenomics for microplastic remediation: recent advances, challenges, and way forward. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023:1-24. [PMID: 36637649 PMCID: PMC9838310 DOI: 10.1007/s11356-023-25192-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Accepted: 01/04/2023] [Indexed: 06/01/2023]
Abstract
Microplastics (MPs) are ubiquitous pollutants persisting almost everywhere in the environment. With the increase in anthropogenic activities, MP accumulation is increasing enormously in aquatic, marine, and terrestrial ecosystems. Owing to the slow degradation of plastics, MPs show an increased biomagnification probability of persistent, bioaccumulative, and toxic substances thereby creating a threat to environmental biota. Thus, remediation of MP-pollutants requires efficient strategies to circumvent the mobilization of contaminants leaching into the water, soil, and ultimately to human beings. Over the years, several microorganisms have been characterized by the potential to degrade different plastic polymers through enzymatic actions. Metagenomics (MGs) is an effective way to discover novel microbial communities and access their functional genetics for the exploration and characterization of plastic-degrading microbial consortia and enzymes. MGs in combination with metatranscriptomics and metabolomics approaches are a powerful tool to identify and select remediation-efficient microbes in situ. Advancement in bioinformatics and sequencing tools allows rapid screening, mining, and prediction of genes that are capable of polymer degradation. This review comprehensively summarizes the growing threat of microplastics around the world and highlights the role of MGs and computational biology in building effective response strategies for MP remediation.
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Affiliation(s)
- Atif Khurshid Wani
- School of Bioengineering and Biosciences, Lovely Professional University, Punjab, 144411, India
| | - Nahid Akhtar
- School of Bioengineering and Biosciences, Lovely Professional University, Punjab, 144411, India
| | - Nafiaah Naqash
- School of Bioengineering and Biosciences, Lovely Professional University, Punjab, 144411, India
| | - Farida Rahayu
- Research Center for Applied Microbiology, National Research and Innovation Agency, Bogor, 16911, Indonesia
| | - Djajadi Djajadi
- Research Center for Horticulture and Plantation, National Research Innovation Agency, Bogor, 16111, Indonesia
| | - Chirag Chopra
- School of Bioengineering and Biosciences, Lovely Professional University, Punjab, 144411, India
| | - Reena Singh
- School of Bioengineering and Biosciences, Lovely Professional University, Punjab, 144411, India
| | - Sikandar I Mulla
- Department of Biochemistry, School of Allied Health Sciences, REVA University, Bengaluru, 560064, Karnataka, India
| | - Farooq Sher
- Department of Engineering, School of Science and Technology, Nottingham Trent University, Nottingham, NG11 8NS, UK
| | - Juliana Heloisa Pinê Américo-Pinheiro
- Department of Forest Science, Soils and Environment, School of Agronomic Sciences, São Paulo State University (UNESP), Ave. Universitária, 3780, Botucatu, SP, 18610-034, Brazil.
- Graduate Program in Environmental Sciences, Brazil University, Street Carolina Fonseca, 584, São Paulo, SP, 08230-030, Brazil.
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33
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Zhang C, Mu Y, Li T, Jin FJ, Jin CZ, Oh HM, Lee HG, Jin L. Assembly strategies for polyethylene-degrading microbial consortia based on the combination of omics tools and the "Plastisphere". Front Microbiol 2023; 14:1181967. [PMID: 37138608 PMCID: PMC10150012 DOI: 10.3389/fmicb.2023.1181967] [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: 03/08/2023] [Accepted: 03/31/2023] [Indexed: 05/05/2023] Open
Abstract
Numerous microorganisms and other invertebrates that are able to degrade polyethylene (PE) have been reported. However, studies on PE biodegradation are still limited due to its extreme stability and the lack of explicit insights into the mechanisms and efficient enzymes involved in its metabolism by microorganisms. In this review, current studies of PE biodegradation, including the fundamental stages, important microorganisms and enzymes, and functional microbial consortia, were examined. Considering the bottlenecks in the construction of PE-degrading consortia, a combination of top-down and bottom-up approaches is proposed to identify the mechanisms and metabolites of PE degradation, related enzymes, and efficient synthetic microbial consortia. In addition, the exploration of the plastisphere based on omics tools is proposed as a future principal research direction for the construction of synthetic microbial consortia for PE degradation. Combining chemical and biological upcycling processes for PE waste could be widely applied in various fields to promote a sustainable environment.
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Affiliation(s)
- Chengxiao Zhang
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China
| | - Yulin Mu
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China
| | - Taihua Li
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China
| | - Feng-Jie Jin
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China
| | - Chun-Zhi Jin
- Cell Factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, Daejeon, Republic of Korea
| | - Hee-Mock Oh
- Cell Factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, Daejeon, Republic of Korea
| | - Hyung-Gwan Lee
- Cell Factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, Daejeon, Republic of Korea
- Hyung-Gwan Lee,
| | - Long Jin
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China
- *Correspondence: Long Jin,
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Gaur VK, Sirohi R, Bhat MI, Gautam K, Sharma P, Srivastava JK, Pandey A. A review on the effect of micro- and nano-plastics pollution on the emergence of antimicrobial resistance. CHEMOSPHERE 2023; 311:136877. [PMID: 36257395 DOI: 10.1016/j.chemosphere.2022.136877] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Revised: 09/26/2022] [Accepted: 10/11/2022] [Indexed: 06/16/2023]
Abstract
The recent upsurge in the studies on micro/nano plastics and antimicrobial resistance genes has proven their deleterious effects on the environmental and human health. Till-date, there is a scarcity of studies on the interactions of these two factors and their combined influence. The interaction of microplastics has led to the formation of new plastics namely plastiglomerates, pyroplastics. and anthropoquinas. It has long been ignored that the occurrence of microplastics has become a breeding ground for the emergence of antimicrobial resistance genes. Evidently microplastics are also associated with the occurrence of other pollutants such as polyaromatic hydrocarbons and pesticides. The increased use of antibiotics (after Covid breakout) has further elevated the detrimental effects on human health. Therefore, this study highlights the relation of microplastics with antibiotic resistance generation. The factors such as uncontrolled use of antibiotics and negligent plastic consumption has been evaluated. Furthermore, the future research prospective was provided that can be helpful in correctly identifying the seriousness of the environmental occurrence of these pollutants.
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Affiliation(s)
- Vivek Kumar Gaur
- Centre for Energy and Environmental Sustainability, Lucknow, 226 029, India; Amity Institute of Biotechnology, Amity University Uttar Pradesh, Lucknow Campus, Lucknow, India; School of Energy and Chemical Engineering, Ulsan National Institute for Science and Technology, Ulsan, 44919, Republic of Korea
| | - Ranjna Sirohi
- Department of Food Technology, School of Health Sciences and Technology, University of Petroleum and Energy Studies, Dehradun, 248 007, Uttarakhand, India
| | - Mohd Ishfaq Bhat
- Department of Post-Harvest Process and Food Engineering, Govind Ballabh Pant University of Agriculture and Technology, Pantnagar, 263145, India
| | - Krishna Gautam
- Centre for Energy and Environmental Sustainability, Lucknow, 226 029, India
| | - Poonam Sharma
- Department of Bioengineering, Integral University, Lucknow, India
| | | | - Ashok Pandey
- Centre for Energy and Environmental Sustainability, Lucknow, 226 029, India; Sustainability Cluster, School of Engineering, University of Petroleum and Energy Studies, Dehradun, 248 007, India; Centre for Innovation and Translational Research, CSIR-Indian Institute of Toxicology Research, Lucknow, 226 001, India.
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35
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Gomez NCF, Onda DFL. Potential of sediment bacterial communities from Manila Bay (Philippines) to degrade low-density polyethylene (LDPE). Arch Microbiol 2022; 205:38. [PMID: 36565350 DOI: 10.1007/s00203-022-03366-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Revised: 02/02/2022] [Accepted: 12/02/2022] [Indexed: 12/25/2022]
Abstract
The persistence of plastics and its effects in different environments where they accumulate, particularly in coastal areas, is of serious concern. These plastics exhibit signs of degradation, possibly mediated by microorganisms. In this study, we investigated the potential of sediment microbial communities from Manila Bay, Philippines, which has a severe plastics problem, to degrade low-density polyethylene (LDPE). Plastics in selected sites were quantified and sediment samples from sites with the lowest and highest plastic accumulation were collected. These sediments were then introduced and incubated with LDPE in vitro for a period of 91 days. Fourier transform infrared spectroscopy detected the appearance of carbonyl and vinyl products on the plastic surface, indicating structural surface modifications attributed to polymer degradation. Communities attached to the plastics were profiled using high-throughput sequencing of the V4-V5 region of the 16S rRNA gene. Members of the phylum Proteobacteria dominated the plastic surface throughout the experiment. Several bacterial taxa associated with hydrocarbon degradation were also enriched, with some taxa positively correlating with the biodegradation indices, suggesting potential active roles in the partial biodegradation of plastics. Other taxa were also present, which might be consuming by-products or providing nourishment for other groups, indicating synergy in utilizing the plastic as the main carbon source and creation of a microenvironment within the plastics biofilm. This study showed that sediment microbes from Manila Bay may have naturally occurring microbial groups potentially capable of partially degrading plastics, supporting previous studies that the biodegradation potential for plastics is ubiquitously present in marine microbial assemblages.
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Affiliation(s)
- Norchel Corcia F Gomez
- Microbial Oceanography Laboratory, The Marine Science Institute, University of the Philippines Diliman, Velasquez St., 1101, Quezon City, Philippines
| | - Deo Florence L Onda
- Microbial Oceanography Laboratory, The Marine Science Institute, University of the Philippines Diliman, Velasquez St., 1101, Quezon City, Philippines.
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36
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Edet UO, Joseph AP, Nwaokorie FO, Okoroiwu HU, Udofia UU, Ibor OR, Bassey IU, Atim AD, Edet BO, Bassey DE, Nkang A. Impact of “sachet water” microplastic on agricultural soil physicochemistry, antibiotics resistance, bacteria diversity and function. SN APPLIED SCIENCES 2022. [DOI: 10.1007/s42452-022-05206-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
AbstractNigeria's most consumed potable water plastic wastes are indiscriminately dumped into agricultural soil despite their ability to become microplastics. The study evaluates the potential impacts of these microplastics on soil physico-chemical parameters, soil bacterial diversity and functions as well as antibiotic resistance. Soil sample was collected using a sterile hand-held auger and its physico-chemical parameters evaluated. Baseline microplastic concentration was determined via the flotation method while microbial isolates were obtained from the test (enriched with microplastics) and control samples using cultural technique and metagenomics. Metagenomic next-generation sequencing (mNGS) was done using the Illumina Miseq platform. The cluster of orthologous genes (COG) tool was used in the prediction of bacterial functional roles. Replicate readings were analysed using analysis of variance (ANOVA) and means compared using the student’s t test. Observed baseline microplastic concentration was 0.08 particles/g of soil. The addition of the microplastics to the soil sample decreased the concentrations of some metals (iron, zinc, lead and nickel) while cobalt concentration, pH level and microbial counts increased. Microbial count and pH clustered together while iron, magnesium, nitrate, nitrite, chromium, cobalt, total organic carbon, zinc, lead, and nickel showed positive loading values suggesting that the addition of microplastics could alter them. Dominant taxa were proteobacteria, unknown, firmicutes at the phyla level. At the level of species, Pseudomonas species dominated microplastics incubated soil while potential pathogenic species such as Klebsiella dominated the control sample. A higher level of multi-drug resistance and altered metabolisms was observed in the test sample. Sachet water microplastics could have serious implications for public health and food security.
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From microbes to ecosystems: a review of the ecological effects of biodegradable plastics. Emerg Top Life Sci 2022; 6:423-433. [PMID: 36069649 DOI: 10.1042/etls20220015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 08/23/2022] [Accepted: 08/23/2022] [Indexed: 12/30/2022]
Abstract
Biodegradable plastics have been proposed as a potential solution to plastic pollution, as they can be biodegraded into their elemental components by microbial action. However, the degradation rate of biodegradable plastics is highly variable across environments, leading to the potential for accumulation of plastic particles, chemical co-contaminants and/or degradation products. This paper reviews the toxicological effects of biodegradable plastics on species and ecosystems, and contextualises these impacts with those previously reported for conventional polymers. While the impacts of biodegradable plastics and their co-contaminants across levels of biological organisation are poorly researched compared with conventional plastics, evidence suggests that individual-level effects could be broadly similar. Where differences in the associated toxicity may arise is due to the chemical structure of biodegradable polymers which should facilitate enzymatic depolymerisation and the utilisation of the polymer carbon by the microbial community. The input of carbon can alter microbial composition, causing an enrichment of carbon-degrading bacteria and fungi, which can have wider implications for carbon and nitrogen dynamics. Furthermore, there is the potential for toxic degradation products to form during biodegradation, however understanding the environmental concentration and effects of degradation products are lacking. As global production of biodegradable polymers continues to increase, further evaluation of their ecotoxicological effects on organisms and ecosystem function are required.
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Entezari S, Al MA, Mostashari A, Ganjidoust H, Ayati B, Yang J. Microplastics in urban waters and its effects on microbial communities: a critical review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:88410-88431. [PMID: 36327084 DOI: 10.1007/s11356-022-23810-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Accepted: 10/20/2022] [Indexed: 06/16/2023]
Abstract
Microplastic (MP) pollution is one of the emerging threats to the water and terrestrial environment, forcing a new environmental challenge due to the growing trend of plastic released into the environment. Synthetic and non-synthetic plastic components can be found in rivers, lakes/reservoirs, oceans, mountains, and even remote areas, such as the Arctic and Antarctic ice sheets. MPs' main challenge is identifying, measuring, and evaluating their impacts on environmental behaviors, such as carbon and nutrient cycles, water and wastewater microbiome, and the associated side effects. However, until now, no standardized methodical protocols have been proposed for comparing the results of studies in different environments, especially in urban water and wastewater. This review briefly discusses MPs' sources, fate, and transport in urban waters and explains methodological uncertainty. The effects of MPs on urban water microbiomes, including urban runoff, sewage wastewater, stagnant water in plumbing networks, etc., are also examined in depth. Furthermore, this study highlights the pathway of MPs and their transport vectors to different parts of ecosystems and human life, particularly through mediating microbial communities, antibiotic-resistant genes, and biogeochemical cycles. Overall, we have briefly highlighted the present research gaps, the lack of appropriate policy for evaluating microplastics and their interactions with urban water microbiomes, and possible future initiatives.
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Affiliation(s)
- Saber Entezari
- Environmental Engineering Division, Faculty of Civil & Env. Eng., TMU, Tehran, Iran
| | - Mamun Abdullah Al
- Aquatic Eco-Health Group, Fujian Key Laboratory of Watershed Ecology, Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, 1799 Jimei Road, Xiamen, 361021, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Amir Mostashari
- Environmental Engineering Division, Faculty of Civil & Env. Eng., TMU, Tehran, Iran
| | - Hossein Ganjidoust
- Environmental Engineering Division, Faculty of Civil & Env. Eng., TMU, Tehran, Iran.
| | - Bita Ayati
- Environmental Engineering Division, Faculty of Civil & Env. Eng., TMU, Tehran, Iran
| | - Jun Yang
- Aquatic Eco-Health Group, Fujian Key Laboratory of Watershed Ecology, Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, 1799 Jimei Road, Xiamen, 361021, China
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Eronen-Rasimus EL, Näkki PP, Kaartokallio HP. Degradation Rates and Bacterial Community Compositions Vary among Commonly Used Bioplastic Materials in a Brackish Marine Environment. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:15760-15769. [PMID: 36269217 PMCID: PMC9671047 DOI: 10.1021/acs.est.2c06280] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Plastic pollution threatens both terrestrial and aquatic ecosystems. As a result of the pressures of replacing oil-based materials and reducing the accumulation of litter in the environment, the use of bioplastics is increasing, despite little being known about their accurate biodegradation in natural conditions. Here, we investigated the weight attrition and degradation behavior of four different bioplastic materials compared to conventional oil-based polyethylene during a 1-year in situ incubation in the brackish Baltic Sea and in controlled 1 month biodegradation experiments in the laboratory. Bacterial communities were also investigated to verify whether putative plastic-degrading bacteria are enriched on bioplastics. Poly-l-lactic acid showed no signs of degradation, whereas poly(3-hydroxybutyrate/3-hydroxyvalerate) (PHB/HV), plasticized starch (PR), and cellulose acetate (CA) degraded completely or almost completely during 1-year in situ incubations. In accordance, bacterial taxa potentially capable of using complex carbon substrates and belonging, e.g., to class Gammaproteobacteria were significantly enriched on PHB/HV, PR, and CA. An increase in gammaproteobacterial abundance was also observed in the biodegradation experiments. The results show substantial differences in the persistence and biodegradation rates among bioplastics, thus highlighting the need for carefully selecting materials for applications with risk of becoming marine litter.
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Affiliation(s)
- Eeva L. Eronen-Rasimus
- Department
of Microbiology, University of Helsinki, Viikinkaari 9, 00790 Helsinki, Finland
- Marine
Research Centre, Finnish Environment Institute, Agnes Sjöbergin katu 2, 00790 Helsinki, Finland
- E-mail:
| | - Pinja P. Näkki
- Marine
Research Centre, Finnish Environment Institute, Agnes Sjöbergin katu 2, 00790 Helsinki, Finland
| | - Hermanni P. Kaartokallio
- Marine
Research Centre, Finnish Environment Institute, Agnes Sjöbergin katu 2, 00790 Helsinki, Finland
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Kim DW, Ahn JH, Cha CJ. Biodegradation of plastics: mining of plastic-degrading microorganisms and enzymes using metagenomics approaches. J Microbiol 2022; 60:969-976. [DOI: 10.1007/s12275-022-2313-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2022] [Revised: 09/15/2022] [Accepted: 09/15/2022] [Indexed: 11/29/2022]
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Zhang H, Quan H, Zhou S, Sun L, Lu H. Enhanced performance and electron transfer of sulfur-mediated biological process under polyethylene terephthalate microplastics exposure. WATER RESEARCH 2022; 223:119038. [PMID: 36067605 DOI: 10.1016/j.watres.2022.119038] [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: 05/07/2022] [Revised: 08/24/2022] [Accepted: 08/28/2022] [Indexed: 06/15/2023]
Abstract
Microplastics are ubiquitous in estuaries, coasts, sewage and wastewater treatment plants (WWTPs), which could arouse unexpected effects on critical microbial processes in wastewater treatment. In this study, polyethylene terephthalate microplastics (PET-MPs) were selected to investigate the mechanism of its influence on the performance of sulfur-mediated biological process from the perspective of microbial metabolic activity, electron transfer capacity and microbial community. The results indicated that the exposure of 50 particles/L PET-MPs improved the chemical oxygen demand (COD) and sulfate removal efficiencies by 6.6 ± 0.5% and 4.5 ± 0.3%, respectively, due to the stimulation of microbial metabolic activity and the enrichment of sulfate-reducing bacteria (SRB) species, such as Desulfobacter. In addition, we found that the PET-MPs promoted Cytochrome C (Cyt C) production and improved the direct electron transfer (DET) capacity mediated by Cyt C. The long-term presence of PET-MPs stimulated the secretion of extracellular polymeric substance (EPS), especially the proteins and humic substances, which have been verified to be electroactive polymers to act as electron shuttles to promote the interspecies electron transfer pathway in sulfur-mediated biological process. Meanwhile, the transformation products (bis-(2-hydroxyethyl) terephthalate (BHET) and Mono (2-hydroxyethyl) terephthalic acid (MHET) of PET-MPs were detected in sulfur-mediated biological process. These findings indicate that the sulfur-mediated biological process has good adaptability to the toxicity of PET-MPs, which strengthens a deeper understanding of the dual function of microplastics in WWTPs.
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Affiliation(s)
- Huiqun Zhang
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, 510275, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology (Sun Yat-sen University), Guangzhou, 510275, China; Guangdong Yuehai Water Investment Co., Ltd., Shenzhen, 518021, PR China
| | - Haoting Quan
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, 510275, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology (Sun Yat-sen University), Guangzhou, 510275, China
| | - Sining Zhou
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, 510275, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology (Sun Yat-sen University), Guangzhou, 510275, China
| | - Lianpeng Sun
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, 510275, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology (Sun Yat-sen University), Guangzhou, 510275, China
| | - Hui Lu
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, 510275, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology (Sun Yat-sen University), Guangzhou, 510275, China.
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Su X, Yuan J, Lu Z, Xu J, He Y. An enlarging ecological risk: Review on co-occurrence and migration of microplastics and microplastic-carrying organic pollutants in natural and constructed wetlands. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 837:155772. [PMID: 35533864 DOI: 10.1016/j.scitotenv.2022.155772] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Revised: 04/28/2022] [Accepted: 05/04/2022] [Indexed: 06/14/2023]
Abstract
Wetlands are a key hub for the accumulation of microplastics (MPs) and have great load capacity to organic pollutants (OPs), thus, have been a hot research topic. It has shown that OPs adsorbed on MPs could be transported to anywhere and MP-associated biofilms also affects the co-occurrence of MPs and OPs. This would induce the desorption of MP-carrying OPs into environment again, increasing latent migration and convergence of MPs and OPs in wetlands. Considering MPs vector effect and MP-associated biofilms, it is necessary to integrate MPs information on its occurrence characteristics and migration behavior for an improved assessment of ecological risk brought by MPs and MP-carrying OPs to whole wetland ecosystems. In this review, we studied papers published from 2010 to 2020, focused on the interaction of MPs with OPs and the role of their co-occurrence and migration on ecological risk to wetlands. Results suggested the interaction between MPs and OPs dominated by adsorption altered their toxicity and environmental behavior, and the corresponding ecological risk induced by their co-occurrence to wetlands is various and complicated. Especially, constructed wetlands as the special hub for the migration of MPs and MP-carrying OPs might facilitate their convergence between natural and constructed wetlands, posing a potential enlarging ecological risk to whole wetlands. Since the study of MPs in wetlands has still been in a primary stage, we hope to provide a new sight to set forth the potential harm of MPs and MP-carrying OPs to wetlands and useful information for follow-up study.
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Affiliation(s)
- Xin Su
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Jing Yuan
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Zhijiang Lu
- Department of Environmental Science and Geology, Wayne State University, Detroit, MI 48201, United States
| | - Jianming Xu
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yan He
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, Hangzhou 310058, China.
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Chen H, Ji C, Hu H, Hu S, Yue S, Zhao M. Bacterial community response to chronic heavy metal contamination in marine sediments of the East China Sea. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 307:119280. [PMID: 35500712 DOI: 10.1016/j.envpol.2022.119280] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Revised: 04/01/2022] [Accepted: 04/06/2022] [Indexed: 06/14/2023]
Abstract
Marine sediments act as a sink for various heavy metals, which may have profound impact on sedimentary microbiota. However, our knowledge about the collaborative response of bacterial community to chronic heavy metal contamination remains little. In this study, concentrations of seven heavy metals (As, Cd, Cr, Cu, Hg, Pb, and Zn) in sediments collected from the East China Sea were analyzed and Illumina Miseq 16 S rRNA sequencing was applied to characterize the structure of bacterial community. Microbiota inhabiting sediments in the East China Sea polluted with heavy metals showed different community composition from relatively pristine sites. The response of bacterial community to heavy metal stress was further interrogated with weighted correlation network analysis (WGCNA). WGCNA revealed ten bacterial modules exhibiting distinct co-occurrence patterns and among them, five modules were related to heavy metal pollution. Three of them were positively correlated with an increase in at least one heavy metal concentration, hubs (more influential bacterial taxa) of which were previously reported to be involved in the geochemical cycling of heavy metals or possess tolerance to heavy metals, while another two modules showed opposite patterns. Our research suggested that ecological functional transition might have occurred in East China Sea sediments by shifts of community composition with sensitive modules majorly involved in the meaningful global biogeochemical cycling of carbon, sulfur, and nitrogen replaced by more tolerant groups of bacteria due to long-term exposure to low-concentration heavy metals. Hubs may serve as indicators of perturbations of benthic bacterial community caused by heavy metal pollution and support monitoring remediation of polluted sites in marine environments.
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Affiliation(s)
- Haofeng Chen
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Chenyang Ji
- Zhejiang Provincial Key Laboratory of Pollution Exposure and Health Intervention Technology, Interdisciplinary Research Academy, Zhejiang Shuren University, Hangzhou, 310015, China
| | - Hongmei Hu
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China; Key Laboratory of Sustainable Utilization of Technology Research for Fisheries Resources of Zhejiang Province, Zhejiang Marine Fisheries Research Institute, Zhoushan, 316021, China
| | - Shilei Hu
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Siqing Yue
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Meirong Zhao
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China.
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Zhang W, Liu X, Liu L, Lu H, Wang L, Tang J. Effects of microplastics on greenhouse gas emissions and microbial communities in sediment of freshwater systems. JOURNAL OF HAZARDOUS MATERIALS 2022; 435:129030. [PMID: 35525011 DOI: 10.1016/j.jhazmat.2022.129030] [Citation(s) in RCA: 26] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Revised: 04/13/2022] [Accepted: 04/26/2022] [Indexed: 06/14/2023]
Abstract
Microplastics can regulate greenhouse gas emissions from environmental systems and affect microbes in the environment. However, the effect of microplastics in freshwater sediment system is still not well studied. In this paper, polyethylene terephthalate (PET) particles with six different diameters of 5-2000 µm were added to freshwater sediment, PET exposing for 90 days was carried out and its effect on greenhouse gas emissions, nutrients cycle and microbial communities were studied. In the 5 µm experimental group, carbon dioxide (CO2) emissions were significantly promoted in the 7-30 days and nitrogen monoxide (N2O) emissions were significantly promoted in the 7 days after cultivation. Microplastics in the range of 300-800 µm significantly promoted CO2 emissions after three days of culture. In addition, microplastics increased the total organic carbon (TOC) content in freshwater sediment and changed microbial diversity, especially increased the microorganisms capable of degrading complex organics such as Saprospiraceae. There was a positive correlation between N2O emission and nitrate (NO3-) content in sediment after 3 days of culture, while greenhouse gas emission was mainly related to TOC content after 90 days of culture. These results showed that microplastics could affect the carbon and nitrogen cycling process of shallow lake ecosystem.
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Affiliation(s)
- Wenzhu Zhang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Xiaomei Liu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Linan Liu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Huixia Lu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Lan Wang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Jingchun Tang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Engineering Center of Environmental Diagnosis and Contamination Remediation, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China.
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45
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Yang X, Zhang L, Chen Y, He Q, Liu T, Zhang G, Yuan L, Peng H, Wang H, Ju F. Micro(nano)plastic size and concentration co-differentiate nitrogen transformation, microbiota dynamics, and assembly patterns in constructed wetlands. WATER RESEARCH 2022; 220:118636. [PMID: 35623147 DOI: 10.1016/j.watres.2022.118636] [Citation(s) in RCA: 30] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2022] [Revised: 05/06/2022] [Accepted: 05/17/2022] [Indexed: 06/15/2023]
Abstract
Micro/nano-sized plastics (MPs/NPs) existing in wastewater system are the potential threats to nitrogen (N) biotransformation. Constructed wetlands (CWs) as wastewater treatment systems are considered the important barriers preventing MPs/NPs from entering the open water. However, little is known about how the accumulation of MPs/NPs affects microbial N transformation, dynamics, assembly, and metabolism of wetland microbiota. Herein, we constructed 12 wetland systems to address the above knowledge gaps over 300-day exposure to different sizes (3 mm - 60 nm) and concentrations (10 - 1000 μg/L) of MPs/NPs. The results showed that MPs/NPs accumulation caused decrease in NH4+-N removal (by 7.6% - 71.2%) and microbial diversity and intriguingly altered microbiota composition (especially in the high-concentration groups) without damage on the high removal efficiency of NO3--N and NO2--N (66.2% - 99.8%) in all except for the nano-sized plastic-exposed wetlands. Moreover, MPs/NPs exposure induced shift in the strengths of non-random species aggregation and segregation patterns co-differentiated by the size and concentration of MPs/NPs, and MPs/NPs accumulation created size-differentiated alternative niches for nitrogen-transforming bacteria, e.g., canonical nitrifiers (Nitrospira and Nitrosomonas) and denitrifiers (Thauera, Comamonas, and Aquabacterium), which were enriched in MPs groups where denitrifying enzyme-coding genes were also enriched, suggesting potential positive impact of larger plastics on denitrification. Our study highlights MPs/NPs-induced divergence in microbiota dynamics and nitrogen transformation in CWs, and provides important insights into how microbiota structurally and functionally respond to long-term MPs/NPs disturbance.
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Affiliation(s)
- Xiangyu Yang
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China; Institute of Advanced Technology, Westlake Institute for Advanced Study, 18 Shilongshan Road, Hangzhou 310024, China; Key Laboratory of the Three Gorges Region's Eco-Environment, Ministry of Education, College of Environment and Ecology, Chongqing University, Campus B 83 shabeijie, Shapingba, Chongqing 400044, China; National Centre for International Research of Low-carbon and Green Buildings, Chongqing University, Chongqing 400044, China
| | - Lu Zhang
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China; Institute of Advanced Technology, Westlake Institute for Advanced Study, 18 Shilongshan Road, Hangzhou 310024, China
| | - Yi Chen
- Key Laboratory of the Three Gorges Region's Eco-Environment, Ministry of Education, College of Environment and Ecology, Chongqing University, Campus B 83 shabeijie, Shapingba, Chongqing 400044, China; National Centre for International Research of Low-carbon and Green Buildings, Chongqing University, Chongqing 400044, China.
| | - Qiang He
- Key Laboratory of the Three Gorges Region's Eco-Environment, Ministry of Education, College of Environment and Ecology, Chongqing University, Campus B 83 shabeijie, Shapingba, Chongqing 400044, China; National Centre for International Research of Low-carbon and Green Buildings, Chongqing University, Chongqing 400044, China
| | - Tao Liu
- Key Laboratory of the Three Gorges Region's Eco-Environment, Ministry of Education, College of Environment and Ecology, Chongqing University, Campus B 83 shabeijie, Shapingba, Chongqing 400044, China; National Centre for International Research of Low-carbon and Green Buildings, Chongqing University, Chongqing 400044, China
| | - Guoqing Zhang
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China; Institute of Advanced Technology, Westlake Institute for Advanced Study, 18 Shilongshan Road, Hangzhou 310024, China
| | - Ling Yuan
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China; Institute of Advanced Technology, Westlake Institute for Advanced Study, 18 Shilongshan Road, Hangzhou 310024, China
| | - Haoran Peng
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China; Institute of Advanced Technology, Westlake Institute for Advanced Study, 18 Shilongshan Road, Hangzhou 310024, China
| | - Hui Wang
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China; Institute of Advanced Technology, Westlake Institute for Advanced Study, 18 Shilongshan Road, Hangzhou 310024, China
| | - Feng Ju
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China; Institute of Advanced Technology, Westlake Institute for Advanced Study, 18 Shilongshan Road, Hangzhou 310024, China.
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Delangiz N, Aliyar S, Pashapoor N, Nobaharan K, Asgari Lajayer B, Rodríguez-Couto S. Can polymer-degrading microorganisms solve the bottleneck of plastics' environmental challenges? CHEMOSPHERE 2022; 294:133709. [PMID: 35074325 DOI: 10.1016/j.chemosphere.2022.133709] [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: 08/16/2021] [Revised: 11/27/2021] [Accepted: 01/18/2022] [Indexed: 06/14/2023]
Abstract
Increasing world population and industrial activities have enhanced anthropogenic pollution, plastic pollution being especially alarming. So, plastics should be recycled and/or make them biodegradable. Chemical and physical remediating methods are usually energy consuming and costly. In addition, they are not ecofriendly and usually produce toxic byproducts. Bioremediation is a proper option as it is cost-efficient and environmentally friendly. Plastic production and consumption are increasing daily, and, as a consequence, more microorganisms are exposed to these nonbiodegradable polymers. Therefore, investigating new efficient microorganisms and increasing the knowledge about their biology can pave the way for efficient and feasible plastic bioremediation processes. In this sense, omics, systems biology and bioinformatics are three important fields to analyze the biodegradation pathways in microorganisms. Based on the above-mentioned technologies, researchers can engineer microorganisms with specific desired properties to make bioremediation more efficient.
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Affiliation(s)
- Nasser Delangiz
- Department of Plant Biotechnology and Breeding, Faculty of Agriculture, University of Tabriz, Tabriz, Iran.
| | - Sajad Aliyar
- Department of Soil Science, Faculty of Agriculture, University of Tabriz, Tabriz, Iran
| | - Neda Pashapoor
- Department of Soil Science, Faculty of Agriculture, Urmia University, Urmia, Iran
| | | | - Behnam Asgari Lajayer
- Department of Soil Science, Faculty of Agriculture, University of Tabriz, Tabriz, Iran.
| | - Susana Rodríguez-Couto
- Department of Separation Science, LUT School of Engineering Science, LUT University, Sammonkatu 12, FI-50130 Mikkeli, Finland
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Tiwari N, Bansal M, Santhiya D, Sharma JG. Insights into microbial diversity on plastisphere by multi-omics. Arch Microbiol 2022; 204:216. [PMID: 35316402 DOI: 10.1007/s00203-022-02806-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2021] [Revised: 02/13/2022] [Accepted: 02/14/2022] [Indexed: 12/20/2022]
Abstract
Plastic pollution is a major concern in marine environment as it takes many years to degrade and is one of the greatest threats to marine life. Plastic surface, referred to as plastisphere, provides habitat for growth and proliferation of various microorganisms. The discovery of these microbes is necessary to identify significant genes, enzymes and bioactive compounds that could help in bioremediation and other commercial applications. Conventional culture techniques have been successful in identifying few microbes from these habitats, leaving majority of them yet to be explored. As such, to recognize the vivid genetic diversity of microbes residing in plastisphere, their structure and corresponding ecological roles within the ecosystem, an emerging technique, called metagenomics has been explored. The technique is expected to provide hitherto unknown information on microbes from the plastisphere. Metagenomics along with next generation sequencing provides comprehensive knowledge on microbes residing in plastisphere that identifies novel microbes for plastic bioremediation, bioactive compounds and other potential benefits. The following review summarizes the efficiency of metagenomics and next generation sequencing technology over conventionally used methods for culturing microbes. It attempts to illustrate the workflow mechanism of metagenomics to elucidate diverse microbial profiles. Further, importance of integrated multi-omics techniques has been highlighted in discovering microbial ecology residing on plastisphere for wider applications.
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Affiliation(s)
- Neha Tiwari
- Department of Biotechnology, Delhi Technological University, Delhi, India
| | - Megha Bansal
- Department of Biotechnology, Delhi Technological University, Delhi, India
| | - Deenan Santhiya
- Department of Applied Chemistry, Delhi Technological University, Shahbad Daulatpur, Main Bawana Road, Delhi, 110042, India.
| | - Jai Gopal Sharma
- Department of Biotechnology, Delhi Technological University, Delhi, India
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Plankton under Pressure: How Water Conditions Alter the Phytoplankton–Zooplankton Link in Coastal Lagoons. WATER 2022. [DOI: 10.3390/w14060974] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Transitional waters (TWs), such as coastal lagoons, are bodies of surface water at the transition between saline and freshwater domains. These environments play a vital role in guaranteeing ecosystem services, including provision of food, protection against meteorological events, as anthropogenic carbon sinks, and in filtering of pollutants. Due to the escalating overpopulation characterising coastlines worldwide, transitional systems are over-exploited, degraded, and reduced in their macroscopic features. However, information on the impact of anthropogenic pressures on planktonic organisms in these systems is still scanty and fragmented. Herein, we summarise the literature, with a special focus on coastal lagoons undergoing anthropogenic pressure. Specifically, we report on the implications of human impacts on the ecological state of plankton, i.e., a fundamental ecological component of aquatic ecosystems. Literature information indicates that human forces may alter ecosystem structures and functions in coastal lagoons, as in other TWs such as estuaries, hampering the phytoplankton–zooplankton link, i.e., the main trophic process occurring in those communities, and which sustains aquatic productivity. Changes in the dominance and lifestyle of key planktonic players, plus the invasion of ‘alien’ species, and consequent regime shifts, are among the most common outcomes of human disturbance.
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Skariyachan S, Taskeen N, Kishore AP, Krishna BV. Recent advances in plastic degradation - From microbial consortia-based methods to data sciences and computational biology driven approaches. JOURNAL OF HAZARDOUS MATERIALS 2022; 426:128086. [PMID: 34933258 DOI: 10.1016/j.jhazmat.2021.128086] [Citation(s) in RCA: 30] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2021] [Revised: 12/11/2021] [Accepted: 12/13/2021] [Indexed: 06/14/2023]
Abstract
The conventional methods of plastic waste management such as mechanical and chemical recycling, landfill complemented by incineration and pyrosis have limited scope. Thus, microbiological-based approaches by the application of microbial consortia or cocultures are appropriate, cost-effective, and eco-friendly to manage plastic wastes. Screening of novel plastic degrading microorganisms, the formulation of microbial consortia, and utilisation of their enzymes probably play a role in plastic waste management. The by-products of microbial degradation of plastic waste can be used as bio-energy sources, that aids in the development of cost-effective bio-digesters. The recent advancements in computational biology and bioinformatics play a vital role in understanding the molecular basis of enzymatic degradation of plastic polymers by microorganisms. Understanding the three-dimensional structures of plastic degrading enzymes and their metabolic pathways play a vital role in studying the microbial degradation of plastics. The present review highlights the scope of various microorganisms and their enzymes in plastic degradation. The review emphasizes the applications of co-cultures or microbial consortia-based approaches for the enhanced degradation of plastic polymers and the production of value-added end products that can be used as the prototypes of bioenergy sources. The review also provides a comprehensive outlook on the applications of data sciences, computational biology, and bioinformatics resources, and web-based tools towards the study of microbial degradation of plastic polymers.
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Affiliation(s)
| | - Neha Taskeen
- Department of Biotechnology, Dayananda Sagar College of Engineering, Bangalore, Karnataka, Pin 560078, India
| | - Alice Preethi Kishore
- Department of Biotechnology, Dayananda Sagar College of Engineering, Bangalore, Karnataka, Pin 560078, India
| | - Bhavya Venkata Krishna
- Department of Biotechnology, Dayananda Sagar College of Engineering, Bangalore, Karnataka, Pin 560078, India
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Metcalf R, Oliver DM, Moresco V, Quilliam RS. Quantifying the importance of plastic pollution for the dissemination of human pathogens: The challenges of choosing an appropriate 'control' material. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 810:152292. [PMID: 34896491 DOI: 10.1016/j.scitotenv.2021.152292] [Citation(s) in RCA: 24] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Revised: 11/26/2021] [Accepted: 12/05/2021] [Indexed: 06/14/2023]
Abstract
Discarded plastic wastes in the environment are serious challenges for sustainable waste management and for the delivery of environmental and public health. Plastics in the environment become rapidly colonised by microbial biofilm, and importantly this so-called 'plastisphere' can also support, or even enrich human pathogens. The plastisphere provides a protective environment and could facilitate the increased survival, transport and dissemination of human pathogens and thus increase the likelihood of pathogens coming into contact with humans, e.g., through direct exposure at beaches or bathing waters. However, much of our understanding about the relative risks associated with human pathogens colonising environmental plastic pollution has been inferred from taxonomic identification of pathogens in the plastisphere, or laboratory experiments on the relative behaviour of plastics colonised by human pathogens. There is, therefore, a pressing need to understand whether plastics play a greater role in promoting the survival and dispersal of human pathogens within the environment compared to other substrates (either natural materials or other pollutants). In this paper, we consider all published studies that have detected human pathogenic bacteria on the surfaces of environmental plastic pollution and critically discuss the challenges of selecting an appropriate control material for plastisphere experiments. Whilst it is clear there is no 'perfect' control material for all plastisphere studies, understanding the context-specific role plastics play compared to other substrates for transferring human pathogens through the environment is important for quantifying the potential risk that colonised plastic pollution may have for environmental and public health.
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Affiliation(s)
- Rebecca Metcalf
- Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, FK9 4LA, UK.
| | - David M Oliver
- Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, FK9 4LA, UK
| | - Vanessa Moresco
- Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, FK9 4LA, UK
| | - Richard S Quilliam
- Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, FK9 4LA, UK
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