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Tedesco P, Balzano S, Coppola D, Esposito FP, de Pascale D, Denaro R. Bioremediation for the recovery of oil polluted marine environment, opportunities and challenges approaching the Blue Growth. MARINE POLLUTION BULLETIN 2024; 200:116157. [PMID: 38364643 DOI: 10.1016/j.marpolbul.2024.116157] [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: 12/22/2023] [Revised: 02/08/2024] [Accepted: 02/09/2024] [Indexed: 02/18/2024]
Abstract
The Blue Growth strategy promises a sustainable use of marine resources for the benefit of the society. However, oil pollution in the marine environment is still a serious issue for human, animal, and environmental health; in addition, it deprives citizens of the potential economic and recreational advantages in the affected areas. Bioremediation, that is the use of bio-resources for the degradation of pollutants, is one of the focal themes on which the Blue Growth aims to. A repertoire of marine-derived bio-products, biomaterials, processes, and services useful for efficient, economic, low impact, treatments for the recovery of oil-polluted areas has been demonstrated in many years of research around the world. Nonetheless, although bioremediation technology is routinely applied in soil, this is not still standardized in the marine environment and the potential market is almost underexploited. This review provides a summary of opportunities for the exploiting and addition of value to research products already validated. Moreover, the review discusses challenges that limit bioremediation in marine environment and actions that can facilitate the conveying of valuable products/processes towards the market.
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Affiliation(s)
- Pietro Tedesco
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton, 55, 80133 Naples, Italy
| | - Sergio Balzano
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton, 55, 80133 Naples, Italy
| | - Daniela Coppola
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton, 55, 80133 Naples, Italy
| | - Fortunato Palma Esposito
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton, 55, 80133 Naples, Italy
| | - Donatella de Pascale
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton, 55, 80133 Naples, Italy; Institute of Biochemistry and Cellular Biology, National Research Council, Via Pietro Castellino 111, 80131 Naples, Italy.
| | - Renata Denaro
- Water Research Institute (IRSA), National Research Council (CNR), 00010 Montelibretti Rome, Italy.
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2
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Châtillon E, Cébron A, Rigal F, Cagnon C, Lorgeoux C, Faure P, Duran R, Cravo-Laureau C. Functional redundancy in response to runoff input upholds microbial community in hydrocarbon-contaminated land-sea continuum. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 335:122330. [PMID: 37572846 DOI: 10.1016/j.envpol.2023.122330] [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: 06/19/2023] [Revised: 08/01/2023] [Accepted: 08/05/2023] [Indexed: 08/14/2023]
Abstract
An experimental approach mimicking the land-sea continuum in microcosms was developed in order to determine the effect of the terrigenous inputs by soil runoff on the microbial functional potential in hydrocarbon (HC) contaminated marine coastal sediment. We hypothesized that the coalescent event increases the functional potential of microbial communities in marine coastal sediments, influencing the fate of HC in marine coastal ecosystems. The microbial functional potential including the HC degradation ability was assessed by DNA-array to compare the sediment receiving or not terrigenous inputs. The removal of HC and the functional gene richness in sediment was unchanged with the terrigenous inputs. However, the gene variants (GVs) composition was modified indicating functional redundancy. In addition, functional indicators including GVs related to sulfite reduction, denitrification and polyaromatic degradation were identified in higher proportion in sediment receiving terrigenous inputs. The terrigenous inputs modified the functional co-occurrence networks, showing a reorganization of the GVs associations with an increase of the network complexity. Different keystone GVs ensuring similar functions were identified in networks with or without terrigenous inputs, further confirming functional redundancy. We argue that functional redundancy maintains the structure of microbial community in hydrocarbon-contaminated land-sea continuum mixing zone. Our results provide helpful functional information for the monitoring and management of coastal environment affected by human land-based activities.
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Affiliation(s)
- Elise Châtillon
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Aurélie Cébron
- Université de Lorraine, CNRS, GeoRessources, F-54000, Nancy, France
| | - François Rigal
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Christine Cagnon
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | | | - Pierre Faure
- Université de Lorraine, CNRS, LIEC, F-54000, Nancy, France
| | - Robert Duran
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
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3
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Hellal J, Barthelmebs L, Bérard A, Cébron A, Cheloni G, Colas S, Cravo-Laureau C, De Clerck C, Gallois N, Hery M, Martin-Laurent F, Martins J, Morin S, Palacios C, Pesce S, Richaume A, Vuilleumier S. Unlocking secrets of microbial ecotoxicology: recent achievements and future challenges. FEMS Microbiol Ecol 2023; 99:fiad102. [PMID: 37669892 PMCID: PMC10516372 DOI: 10.1093/femsec/fiad102] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2023] [Revised: 07/21/2023] [Accepted: 09/04/2023] [Indexed: 09/07/2023] Open
Abstract
Environmental pollution is one of the main challenges faced by humanity. By their ubiquity and vast range of metabolic capabilities, microorganisms are affected by pollution with consequences on their host organisms and on the functioning of their environment. They also play key roles in the fate of pollutants through the degradation, transformation, and transfer of organic or inorganic compounds. Thus, they are crucial for the development of nature-based solutions to reduce pollution and of bio-based solutions for environmental risk assessment of chemicals. At the intersection between microbial ecology, toxicology, and biogeochemistry, microbial ecotoxicology is a fast-expanding research area aiming to decipher the interactions between pollutants and microorganisms. This perspective paper gives an overview of the main research challenges identified by the Ecotoxicomic network within the emerging One Health framework and in the light of ongoing interest in biological approaches to environmental remediation and of the current state of the art in microbial ecology. We highlight prevailing knowledge gaps and pitfalls in exploring complex interactions among microorganisms and their environment in the context of chemical pollution and pinpoint areas of research where future efforts are needed.
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Affiliation(s)
| | - Lise Barthelmebs
- Université de Perpignan Via Domitia, Biocapteurs – Analyse-Environnement, Perpignan, France
- Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France
| | - Annette Bérard
- UMR EMMAH INRAE/AU – équipe SWIFT, 228, route de l'Aérodrome, 84914 Avignon Cedex 9, France
| | | | - Giulia Cheloni
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Sète, France
| | - Simon Colas
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | | | - Caroline De Clerck
- AgricultureIsLife, Gembloux Agro-Bio Tech (Liege University), Passage des Déportés 2, 5030 Gembloux, Belgium
| | | | - Marina Hery
- HydroSciences Montpellier, Université de Montpellier, CNRS, IRD, Montpellier, France
| | - Fabrice Martin-Laurent
- Institut Agro Dijon, INRAE, Université de Bourgogne, Université de Bourgogne Franche-Comté, Agroécologie, 21065 Dijon, France
| | - Jean Martins
- IGE, UMR 5001, Université Grenoble Alpes, CNRS, G-INP, INRAE, IRD Grenoble, France
| | | | - Carmen Palacios
- Université de Perpignan Via Domitia, CEFREM, F-66860 Perpignan, France
- CNRS, CEFREM, UMR5110, F-66860 Perpignan, France
| | | | - Agnès Richaume
- Université de Lyon, Université Claude Bernard Lyon 1, CNRS, UMR 5557, Ecologie Microbienne, Villeurbanne, France
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4
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Mazière C, Duran R, Dupuy C, Cravo-Laureau C. Microbial mats as model to decipher climate change effect on microbial communities through a mesocosm study. Front Microbiol 2023; 14:1039658. [PMID: 37396368 PMCID: PMC10308941 DOI: 10.3389/fmicb.2023.1039658] [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: 09/08/2022] [Accepted: 05/30/2023] [Indexed: 07/04/2023] Open
Abstract
Marine environments are expected to be one of the most affected ecosystems by climate change, notably with increasing ocean temperature and ocean acidification. In marine environments, microbial communities provide important ecosystem services ensuring biogeochemical cycles. They are threatened by the modification of environmental parameters induced by climate change that, in turn, affect their activities. Microbial mats, ensuring important ecosystem services in coastal areas, are well-organized communities of diverse microorganisms representing accurate microbial models. It is hypothesized that their microbial diversity and metabolic versatility will reveal various adaptation strategies in response to climate change. Thus, understanding how climate change affects microbial mats will provide valuable information on microbial behaviour and functioning in changed environment. Experimental ecology, based on mesocosm approaches, provides the opportunity to control physical-chemical parameters, as close as possible to those observed in the environment. The exposure of microbial mats to physical-chemical conditions mimicking the climate change predictions will help to decipher the modification of the microbial community structure and function in response to it. Here, we present how to expose microbial mats, following a mesocosm approach, to study the impact of climate change on microbial community.
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Affiliation(s)
- C. Mazière
- Université de Pau et des Pays de l’Adour, E2S UPPA, CNRS, IPREM UMR 525—Bât. IBEAS, BP1155, Pau, France
- La Rochelle Université, CNRS, UMR 7266 LIENSs (Littoral Environnement et Sociétés)—2, rue Olympe de Gouges, Bât. ILE, La Rochelle, France
| | - R. Duran
- Université de Pau et des Pays de l’Adour, E2S UPPA, CNRS, IPREM UMR 525—Bât. IBEAS, BP1155, Pau, France
| | - C. Dupuy
- La Rochelle Université, CNRS, UMR 7266 LIENSs (Littoral Environnement et Sociétés)—2, rue Olympe de Gouges, Bât. ILE, La Rochelle, France
| | - C. Cravo-Laureau
- Université de Pau et des Pays de l’Adour, E2S UPPA, CNRS, IPREM UMR 525—Bât. IBEAS, BP1155, Pau, France
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5
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Hafez T, Ortiz-Zarragoitia M, Cagnon C, Cravo-Laureau C, Duran R. Cold sediment microbial community shifts in response to crude oil water-accommodated fraction with or without dispersant: a microcosm study. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:44640-44656. [PMID: 36694068 DOI: 10.1007/s11356-023-25264-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Accepted: 01/07/2023] [Indexed: 06/17/2023]
Abstract
In cold environments, the low temperature slows down microbial metabolisms, such as the biodegradation processes of hydrocarbons, which are often stimulated by the addition of dispersants in oil spill disasters. In this study, we investigated the effects of hydrocarbon water-accommodated fraction (WAF) prepared with and without dispersant on benthic microbial communities in a microcosm experiment in which hydrocarbon removal was observed. Both WAFs contained similar polycyclic aromatic hydrocarbon (PAH) content. The microcosm experiment, set up with either pristine or contaminated sediments, was conducted for 21 days at 4 °C under WAF and WAF + dispersant conditions. The behavior of bacterial communities in response to WAF and WAF + dispersant was examined at both DNA and RNA levels, revealing the effect of WAF and WAF + dispersant on the resident and active communities respectively. The contaminated sediment showed less taxa responsive to the addition of both WAF and WAF + dispersant than the pristine sediment, indicating the legacy effect by the presence hydrocarbon-degrading and dispersant-resistant taxa inhabiting the contaminated sediment.
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Affiliation(s)
- Tamer Hafez
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS IPREM, Pau, France
- CBET Research Group, Department of Zoology and Cell Biology, Faculty of Science and Technology and Research Center for Marine Biology and Biotechnology (PiE-UPV/EHU), University of the Basque Country, Areatza Z/G, 48620, Plentzia (Bizkaia), Basque Country, Spain
| | - Maren Ortiz-Zarragoitia
- CBET Research Group, Department of Zoology and Cell Biology, Faculty of Science and Technology and Research Center for Marine Biology and Biotechnology (PiE-UPV/EHU), University of the Basque Country, Areatza Z/G, 48620, Plentzia (Bizkaia), Basque Country, Spain
| | - Christine Cagnon
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS IPREM, Pau, France
| | | | - Robert Duran
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS IPREM, Pau, France.
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6
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Châtillon E, Duran R, Rigal F, Cagnon C, Cébron A, Cravo-Laureau C. New insights into microbial community coalescence in the land-sea continuum. Microbiol Res 2022; 267:127259. [PMID: 36436444 DOI: 10.1016/j.micres.2022.127259] [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: 05/13/2022] [Revised: 10/30/2022] [Accepted: 11/13/2022] [Indexed: 11/23/2022]
Abstract
The land-sea continuum constitutes a mixing zone where soil microbial communities encounter, via runoff, those inhabiting marine coastal sediment resulting in community coalescence. Here, we propose an experimental approach, mimicking the land-sea continuum, to study the microbial community coalescence events in different situations, by 16S and 18S rRNA genes metabarcoding. The microbial community structure of sediment diverged with the soil inputs. For prokaryotes, phylogenetic enrichment and amplicon sequence variants (ASVs) replacements characterized the community changes in sediment receiving soil inputs. For fungi, despite phylogenetic enrichment was not observed, the fungal ASVs richness was maintained by soil inputs. Comparison of microbial communities revealed ASVs specific to sediment receiving soil inputs, and also ASVs shared with soil and/or runoff. Among these specific ASVs, four bacterial and one fungal ASVs were identified as indicators of coalescence. Our study provides evidences that coalescence involves the mixing of microorganisms and of the environment.
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Affiliation(s)
- Elise Châtillon
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Robert Duran
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - François Rigal
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Christine Cagnon
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Aurélie Cébron
- Université de Lorraine, CNRS, LIEC, F-54000 Nancy, France
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7
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Potts L, Douglas A, Perez Calderon LJ, Anderson JA, Witte U, Prosser JI, Gubry-Rangin C. Chronic Environmental Perturbation Influences Microbial Community Assembly Patterns. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:2300-2311. [PMID: 35103467 PMCID: PMC9007448 DOI: 10.1021/acs.est.1c05106] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]
Abstract
Acute environmental perturbations are reported to induce deterministic microbial community assembly, while it is hypothesized that chronic perturbations promote development of alternative stable states. Such acute or chronic perturbations strongly impact on the pre-adaptation capacity to the perturbation. To determine the importance of the level of microbial pre-adaptation and the community assembly processes following acute or chronic perturbations in the context of hydrocarbon contamination, a model system of pristine and polluted (hydrocarbon-contaminated) sediments was incubated in the absence or presence (discrete or repeated) of hydrocarbon amendment. The community structure of the pristine sediments changed significantly following acute perturbation, with selection of different phylotypes not initially detectable. Conversely, historically polluted sediments maintained the initial community structure, and the historical legacy effect of chronic pollution likely facilitated community stability. An alternative stable state was also reached in the pristine sediments following chronic perturbation, further demonstrating the existence of a legacy effect. Finally, ecosystem functional resilience was demonstrated through occurrence of hydrocarbon degradation by different communities in the tested sites, but the legacy effect of perturbation also strongly influenced the biotic response. This study therefore demonstrates the importance of perturbation chronicity on microbial community assembly processes and reveals ecosystem functional resilience following environmental perturbation.
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Affiliation(s)
- Lloyd
D. Potts
- School
of Biological Sciences, University of Aberdeen, Aberdeen AB24 3FX, U.K.
- Materials
and Chemical Engineering, School of Engineering, University of Aberdeen, Aberdeen AB24 3FX, U.K.
| | - Alex Douglas
- School
of Biological Sciences, University of Aberdeen, Aberdeen AB24 3FX, U.K.
| | - Luis J. Perez Calderon
- School
of Biological Sciences, University of Aberdeen, Aberdeen AB24 3FX, U.K.
- Materials
and Chemical Engineering, School of Engineering, University of Aberdeen, Aberdeen AB24 3FX, U.K.
| | - James A. Anderson
- Materials
and Chemical Engineering, School of Engineering, University of Aberdeen, Aberdeen AB24 3FX, U.K.
| | - Ursula Witte
- School
of Biological Sciences, University of Aberdeen, Aberdeen AB24 3FX, U.K.
| | - James I. Prosser
- School
of Biological Sciences, University of Aberdeen, Aberdeen AB24 3FX, U.K.
| | - Cécile Gubry-Rangin
- School
of Biological Sciences, University of Aberdeen, Aberdeen AB24 3FX, U.K.
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8
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Mazière C, Bodo M, Perdrau MA, Cravo-Laureau C, Duran R, Dupuy C, Hubas C. Climate change influences chlorophylls and bacteriochlorophylls metabolism in hypersaline microbial mat. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 802:149787. [PMID: 34464796 DOI: 10.1016/j.scitotenv.2021.149787] [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: 05/03/2021] [Revised: 08/05/2021] [Accepted: 08/16/2021] [Indexed: 06/13/2023]
Abstract
This study aimed to determine the effect of the climatic change on the phototrophic communities of hypersaline microbial mats. Ocean acidification and warming were simulated alone and together on microbial mats placed into mesocosms. As expected, the temperature in the warming treatments increased by 4 °C from the initial temperature. Surprisingly, no significance difference was observed between the water pH of the different treatments despite of a decrease of 0.4 unit pH in the water reserves of acidification treatments. The salinity increased on the warming treatments and the dissolved oxygen concentration increased and was higher on the acidification treatments. A total of 37 pigments were identified belonging to chlorophylls, carotenes and xanthophylls families. The higher abundance of unknown chlorophyll molecules called chlorophyll derivatives was observed in the acidification alone treatment with a decrease in chlorophyll a abundance. This change in pigmentary composition was accompanied by a higher production of bound extracellular carbohydrates but didn't affect the photosynthetic efficiency of the microbial mats. A careful analysis of the absorption properties of these molecules indicated that these chlorophyll derivatives were likely bacteriochlorophyll c contained in the chlorosomes of green anoxygenic phototroph bacteria. Two hypotheses can be drawn from these results: 1/ the phototrophic communities of the microbial mats were modified under acidification treatment leading to a higher relative abundance of green anoxygenic bacteria, or 2/ the highest availability of CO2 in the environment has led to a shift in the metabolism of green anoxygenic bacteria being more competitive than other phototrophs.
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Affiliation(s)
- C Mazière
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM UMR 525, Bât. IBEAS, BP1155, 64013 Pau cedex, France; La Rochelle Université, CNRS, UMR 7266 LIENSs (Littoral Environnement et Sociétés), 2, rue Olympe de Gouges, Bât. ILE, 17000 La Rochelle, France.
| | - M Bodo
- Muséum National d'Histoire Naturelle, UMR BOREA 8067, MNHN-IRD-CNRS-SU-UCN-UA, Station Marine de Concarneau, 29900 Concarneau, France
| | - M A Perdrau
- La Rochelle Université, CNRS, UMR 7266 LIENSs (Littoral Environnement et Sociétés), 2, rue Olympe de Gouges, Bât. ILE, 17000 La Rochelle, France
| | - C Cravo-Laureau
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM UMR 525, Bât. IBEAS, BP1155, 64013 Pau cedex, France
| | - R Duran
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM UMR 525, Bât. IBEAS, BP1155, 64013 Pau cedex, France
| | - C Dupuy
- La Rochelle Université, CNRS, UMR 7266 LIENSs (Littoral Environnement et Sociétés), 2, rue Olympe de Gouges, Bât. ILE, 17000 La Rochelle, France
| | - C Hubas
- Muséum National d'Histoire Naturelle, UMR BOREA 8067, MNHN-IRD-CNRS-SU-UCN-UA, Station Marine de Concarneau, 29900 Concarneau, France
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9
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Sánchez-Soto MF, Cerqueda-García D, Alcántara-Hernández RJ, Falcón LI, Pech D, Árcega-Cabrera F, Aguirre-Macedo ML, García-Maldonado JQ. Assessing the Diversity of Benthic Sulfate-Reducing Microorganisms in Northwestern Gulf of Mexico by Illumina Sequencing of dsrB Gene. MICROBIAL ECOLOGY 2021; 81:908-921. [PMID: 33196853 DOI: 10.1007/s00248-020-01631-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Accepted: 10/21/2020] [Indexed: 06/11/2023]
Abstract
This study investigates the community composition, structure, and abundance of sulfate-reducing microorganisms (SRM) in surficial sediments of the Northwestern Gulf of Mexico (NWGoM) along a bathymetric gradient. For these purposes, Illumina sequencing and quantitative PCR (qPCR) of the dissimilatory sulfite reductase gene beta subunit (dsrB gene) were performed. Bioinformatic analyses indicated that SRM community was predominantly composed by members of Proteobacteria and Firmicutes across all the samples. However, Actinobacteria, Thermodesulfobacteria, and Chlorobi were also detected. Phylogenetic analysis indicated that unassigned dsrB sequences were related to Deltaproteobacteria and Nitrospirota superclusters, Euryarchaeota, and to environmental clusters. PCoA ordination revealed that samples clustered in three different groups. PERMANOVA indicated that water depth, temperature, redox, and nickel and cadmium content were the main environmental drivers for the SRM communities in the studied sites. Alpha diversity and abundance of SRM were lower for deeper sites, suggesting decreasing sulfate reduction activity with respect to water depth. This study contributes with the understanding of distribution and composition of dsrAB-containing microorganisms involved in sulfur transformations that may contribute to the resilience and stability of the benthic microbial communities facing metal and hydrocarbon pollution in the NWGoM, a region of recent development for oil and gas drilling.
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Affiliation(s)
- Ma Fernanda Sánchez-Soto
- Departamento de Recursos del Mar, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Mérida, Yucatán, Mexico
| | - Daniel Cerqueda-García
- Consorcio de Investigación del Golfo de México (CIGOM), Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Mérida, Yucatán, Mexico
| | | | - Luisa I Falcón
- Instituto de Ecología, Universidad Nacional Autónoma de México, Parque Científico y Tecnológico de Yucatán, Sierra Papacal, Mexico
| | - Daniel Pech
- Laboratorio de Biodiversidad Marina y Cambio Climático, El Colegio de la Frontera Sur, Campeche, Mexico
| | - Flor Árcega-Cabrera
- Unidad de Química en Sisal, Facultad de Química, Universidad Nacional Autónoma de México, Sisal, Yucatán, Mexico
| | - Ma Leopoldina Aguirre-Macedo
- Departamento de Recursos del Mar, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Mérida, Yucatán, Mexico.
| | - José Q García-Maldonado
- CONACYT-Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Mérida, Yucatán, México.
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10
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Cervantes-Avilés P, Caretta CA, Brito EMS, Bertin P, Cuevas-Rodríguez G, Duran R. Changes in bacterial diversity of activated sludge exposed to titanium dioxide nanoparticles. Biodegradation 2021; 32:313-326. [PMID: 33811584 DOI: 10.1007/s10532-021-09939-w] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2020] [Accepted: 03/24/2021] [Indexed: 11/29/2022]
Abstract
The rapid growth of the use of nanomaterials in different modern industrial branches makes the study of the impact of nanoparticles on the human health and environment an urgent matter. For instance, it has been reported that titanium dioxide nanoparticles (TiO2 NPs) can be found in wastewater treatment plants. Previous studies have found contrasting effects of these nanoparticles over the activated sludge process, including negative effects on the oxygen uptake. The non-utilization of oxygen reflects that aerobic bacteria were inhibited or decayed. The aim of this work was to study how TiO2 NPs affect the bacterial diversity and metabolic processes on an activated sludge. First, respirometry assays of 8 h were carried out at different concentrations of TiO2 NPs (0.5-2.0 mg/mL) to measure the oxygen uptake by the activated sludge. The bacterial diversity of these assays was determined by sequencing the amplified V3-V4 region of the 16S rRNA gene using Illumina MiSeq. According to the respirometry assays, the aerobic processes were inhibited in a range from 18.5 ± 4.8% to 37.5 ± 2.0% for concentrations of 0.5-2.0 mg/mL TiO2 NPs. The oxygen uptake rate was affected mainly after 4.5 h for concentrations higher than 1.0 mg/mL of these nanoparticles. Results indicated that, in the presence of TiO2 NPs, the bacterial community of activated sludge was altered mainly in the genera related to nitrogen removal (nitrogen assimilation, nitrification and denitrification). The metabolic pathways prediction suggested that genes related to biofilm formation were more sensitive than genes directly related to nitrification-denitrification and N-assimilation processes. These results indicated that TiO2 NPs might modify the bacteria diversity in the activated sludge according to their concentration and time of exposition, which in turn impact in the performance of the wastewater treatment processes.
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Affiliation(s)
- Pabel Cervantes-Avilés
- Departamento de Ingeniería Civil and Ambiental, DI-CGT, Universidad de Guanajuato, Av. Juárez 77, Col. Centro, 36000, Guanajuato, Gto, Mexico.,Escuela de Ingeniería y Ciencias, Tecnologico de Monterrey, Reserva Territorial Atlixcayotl, vía Atlixcayotl 5718, 72453, Puebla, Pue, Mexico
| | - César Augusto Caretta
- Departamento de Astronomía, DCNE-CGT, Universidad de Guanajuato, Callejón de Jalisco S/N, Col. Valenciana, 36023, Guanajuato, Gto, Mexico
| | - Elcia Margareth Souza Brito
- Departamento de Ingeniería Civil and Ambiental, DI-CGT, Universidad de Guanajuato, Av. Juárez 77, Col. Centro, 36000, Guanajuato, Gto, Mexico.
| | - Pierre Bertin
- Institut de Biologie Intégrative de la Cellule, Université Paris Sud, Batiment 400, 91400, Orsay, France
| | - Germán Cuevas-Rodríguez
- Departamento de Ingeniería Civil and Ambiental, DI-CGT, Universidad de Guanajuato, Av. Juárez 77, Col. Centro, 36000, Guanajuato, Gto, Mexico
| | - Robert Duran
- Equipe Environment et Microbiologie, MELODY Group, IPREM UMR CNRS 5254, Université de pau et des pays de l'Adour, BP 1155, 64013, Pau Cedex, France
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11
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Yan L, Hui N, Simpanen S, Tudeer L, Romantschuk M. Simulation of Microbial Response to Accidental Diesel Spills in Basins Containing Brackish Sea Water and Sediment. Front Microbiol 2020; 11:593232. [PMID: 33424796 PMCID: PMC7785775 DOI: 10.3389/fmicb.2020.593232] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Accepted: 12/02/2020] [Indexed: 11/26/2022] Open
Abstract
The brackish Baltic Sea is under diesel oil pollution risk due to heavy ship traffic. The situation is exasperated by densely distributed marinas and a vigorous although seasonal recreational boating. The seasonality and physical environmental variations hamper the monitoring of microbial communities in response to diesel oil spills. Hence, an 8-week simulation experiment was established in metal basins (containing 265 L sea water and 18 kg quartz sand or natural shore sand as the littoral sediment) to study the effect of accidental diesel oil spills on microbial communities. Our results demonstrated that microbial communities in the surface water responded to diesel oil contamination, whereas those in the littoral sediment did not, indicating that diesel oil degradation mainly happened in the water. Diesel oil decreased the abundance of bacteria and fungi, but increased bacterial diversity in the water. Time was the predominant driver of microbial succession, attributable to the adaption strategies of microbes. Bacteria were more sensitive to diesel oil contamination than fungi and archaea. Diesel oil increased relative abundances of bacterial phyla, Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, Flavobacteriia and Cytophagia, and fungal phylum Ascomycota in the surface water. Overall, this study improves the understanding of the immediate ecological impact of accidental diesel oil contamination, providing insights into risk management at the coastal area.
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Affiliation(s)
- Lijuan Yan
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, China
- Faculty of Biological and Environmental Sciences, University of Helsinki, Lahti, Finland
| | - Nan Hui
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, China
- Faculty of Biological and Environmental Sciences, University of Helsinki, Lahti, Finland
| | - Suvi Simpanen
- Faculty of Biological and Environmental Sciences, University of Helsinki, Lahti, Finland
| | - Laura Tudeer
- Faculty of Biological and Environmental Sciences, University of Helsinki, Lahti, Finland
| | - Martin Romantschuk
- Faculty of Biological and Environmental Sciences, University of Helsinki, Lahti, Finland
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12
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Benedek T, Szentgyörgyi F, Szabó I, Farkas M, Duran R, Kriszt B, Táncsics A. Aerobic and oxygen-limited naphthalene-amended enrichments induced the dominance of Pseudomonas spp. from a groundwater bacterial biofilm. Appl Microbiol Biotechnol 2020; 104:6023-6043. [PMID: 32415320 PMCID: PMC7306034 DOI: 10.1007/s00253-020-10668-y] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2020] [Revised: 04/29/2020] [Accepted: 05/04/2020] [Indexed: 12/20/2022]
Abstract
In this study, we aimed at determining the impact of naphthalene and different oxygen levels on a biofilm bacterial community originated from a petroleum hydrocarbon-contaminated groundwater. By using cultivation-dependent and cultivation-independent approaches, the enrichment, identification, and isolation of aerobic and oxygen-limited naphthalene degraders was possible. Results indicated that, regardless of the oxygenation conditions, Pseudomonas spp. became the most dominant in the naphthalene-amended selective enrichment cultures. Under low-oxygen conditions, P. veronii/P. extremaustralis lineage affiliating bacteria, and under full aerobic conditions P. laurentiana-related isolates were most probably capable of naphthalene biodegradation. A molecular biological tool has been developed for the detection of naphthalene 1,2-dioxygenase-related 2Fe-2S reductase genes of Gram-negative bacteria. The newly developed COnsensus DEgenerate Hybrid Oligonucleotide Primers (CODEHOP-PCR) technique may be used in the monitoring of the natural attenuation capacity of PAH-contaminated sites. A bacterial strain collection with prolific biofilm-producing and effective naphthalene-degrading organisms was established. The obtained strain collection may be applicable in the future for the development of biofilm-based bioremediation systems for the elimination of PAHs from groundwater (e.g., biofilm-based biobarriers).
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Affiliation(s)
- Tibor Benedek
- Regional University Centre of Excellence in Environmental Industry, Szent István University, Páter K. u. 1, Gödöllő, H-2100, Hungary.
| | - Flóra Szentgyörgyi
- Department of Environmental Protection and Safety, Szent István University, Páter K. u. 1, Gödöllő, H-2100, Hungary
| | - István Szabó
- Department of Environmental Protection and Safety, Szent István University, Páter K. u. 1, Gödöllő, H-2100, Hungary
| | - Milán Farkas
- Department of Environmental Protection and Safety, Szent István University, Páter K. u. 1, Gödöllő, H-2100, Hungary
| | - Robert Duran
- IPREM UMR CNRS 5254, Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, Pau, France
| | - Balázs Kriszt
- Department of Environmental Protection and Safety, Szent István University, Páter K. u. 1, Gödöllő, H-2100, Hungary
| | - András Táncsics
- Regional University Centre of Excellence in Environmental Industry, Szent István University, Páter K. u. 1, Gödöllő, H-2100, Hungary
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13
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Kezrane I, Harouna BM, Hamadache M, Benkortbi O, Amrane A. Use of hydrocarbons sludge as a substrate for the production of biosurfactants by Pseudomonas aeruginosa ATCC 27853. ENVIRONMENTAL MONITORING AND ASSESSMENT 2020; 192:287. [PMID: 32296943 DOI: 10.1007/s10661-020-08269-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Accepted: 03/31/2020] [Indexed: 06/11/2023]
Abstract
The purpose of this study was to elucidate the capacity of a Pseudomonas aeruginosa strain to metabolize hydrocarbons sludge in the production of biosurfactants to fight against environmental threats. The performance of the treatment consisted in monitoring the inductive metabolism of the strain during 48 h at a temperature of 37 °C which constitutes an opportunity of treatment of various hydrocarbons contained in crude oil and spilled in the ecosystem to prevent pollution and damage. The results showed that a treatment rate of 96,8% and an emulsification index of 71.8% were obtained corresponding to a phosphate buffer concentration of 30 mmol/L. The main role of the biosurfactants produced was to emulsify the medium and to absorb the oils contained in the hydrocarbons sludge. This allowed to stabilize hydrocarbon oils and favored the inductive metabolism of P. aeruginosa. Furthermore, physicochemical and Fourier transform infrared spectroscopy (FTIR) analysis showed that the produced biosurfactants were of rhamnolipid type. They showed promising surfactant properties, such as a strong reduction in the surface tension of water from 72 to 40.52 mN/m, a high reactivity in the culture medium at pH 7, a high osmotolerance up to 150 g/L of salt, and a critical micellar concentration of 21 mg/L.
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Affiliation(s)
- Imane Kezrane
- Biomaterials and Transport Phenomena Laboratory (LBMPT), Department of Engineering Process and Environment, Faculty of Technology, University of Medea, Medea, Algeria
| | - Bassirou Mahamadou Harouna
- Biomaterials and Transport Phenomena Laboratory (LBMPT), Department of Engineering Process and Environment, Faculty of Technology, University of Medea, Medea, Algeria
- Industrial Process Engineering and Control Analysis Laboratory (GEPICA), Ecole des Hautes Etudes en Génie de l'Eau, des Procédés Industriels et de l'Environnement (HEGEPRINE), Niamey, Niger
| | - Mabrouk Hamadache
- Biomaterials and Transport Phenomena Laboratory (LBMPT), Department of Engineering Process and Environment, Faculty of Technology, University of Medea, Medea, Algeria
| | - Othmane Benkortbi
- Biomaterials and Transport Phenomena Laboratory (LBMPT), Department of Engineering Process and Environment, Faculty of Technology, University of Medea, Medea, Algeria.
| | - Abdeltif Amrane
- Univ. Rennes, Ecole Nationale Supérieure de Chimie de Rennes, CNRS, ISCR - UMR6226, 35000, Rennes, France
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14
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Ahmad M, Yang Q, Zhang Y, Ling J, Sajjad W, Qi S, Zhou W, Zhang Y, Lin X, Zhang Y, Dong J. The distinct response of phenanthrene enriched bacterial consortia to different PAHs and their degradation potential: a mangrove sediment microcosm study. JOURNAL OF HAZARDOUS MATERIALS 2019; 380:120863. [PMID: 31401251 DOI: 10.1016/j.jhazmat.2019.120863] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Revised: 05/28/2019] [Accepted: 07/02/2019] [Indexed: 06/10/2023]
Abstract
Understanding the microbial community succession to polycyclic aromatic hydrocarbons (PAHs) and identification of important degrading microbial groups are crucial for the designing of appropriate bioremediation strategies. In the present study, two distinct phenanthrene enriched bacterial consortia were treated against high molecular weight (Pyrene, Benzo (a) pyrene and Benzo (a) fluoranthene) and the response was studied in term of taxonomic variations by using High Throughput Illumina sequencing and qPCR analysis. Overall, the type of PAHs significantly affected the composition and the relative abundance of bacterial communities while no obvious difference was detected between bacterial communities of benzo (a) pyrene and benzo (a) fluoranthene treatments. Genera, Novosphingobium, Pseudomonas, Flavobacterium, Mycobacterium, Hoeflae, and Algoriphagus dominated all PAHs treatment groups indicating that they could be the key PAHs degrading phylotypes. Due to the higher abundance of gram-negative PAH-ring hydroxylating dioxygenase gene than that of gram-positive bacteria in all treated groups, we speculated that gram-negative bacteria may contribute more in the PAH degradation. The studied sediments harbored rich PAHs degrading bacterial assemblages involved in both low and high molecular weight PAHs and these findings provided new insight into the perspective of microbial PAHs bioremediation in the mangrove ecosystem.
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Affiliation(s)
- Manzoor Ahmad
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Qingsong Yang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Yanying Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; Tropical Marine Biological Research station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 572000 Sanya, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Juan Ling
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; Tropical Marine Biological Research station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 572000 Sanya, China; University of Chinese Academy of Sciences, 100049 Beijing, China.
| | - Wasim Sajjad
- Department of Biological Sciences, National University of Medical Sciences, 46000 Rawalpindi, Pakistan
| | - Shuhua Qi
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China
| | - Weiguo Zhou
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Ying Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Xiancheng Lin
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Yuhang Zhang
- Guangdong Pharmaceutical University, 510006 Guangzhou, China
| | - Junde Dong
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; Tropical Marine Biological Research station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 572000 Sanya, China; University of Chinese Academy of Sciences, 100049 Beijing, China.
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15
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Ben Salem F, Ben Said O, Cravo-Laureau C, Mahmoudi E, Bru N, Monperrus M, Duran R. Bacterial community assemblages in sediments under high anthropogenic pressure at Ichkeul Lake/Bizerte Lagoon hydrological system, Tunisia. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2019; 252:644-656. [PMID: 31185353 DOI: 10.1016/j.envpol.2019.05.146] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2019] [Revised: 05/27/2019] [Accepted: 05/28/2019] [Indexed: 06/09/2023]
Abstract
Bacterial communities inhabiting sediments in coastal areas endure the effect of strong anthropogenic pressure characterized by the presence of multiple contaminants. Understanding the effect of pollutants on the organization of bacterial communities is of paramount importance in order to unravel bacterial assemblages colonizing specific ecological niches. Here, chemical and molecular approaches were combined to investigate the bacterial communities inhabiting the sediments of the Ichkeul Lake/Bizerte Lagoon, a hydrological system under anthropogenic pressure. Although the microbial community of the Ichkeul Lake sediment was different to that of the Bizerte Lagoon, common bacterial genera were identified suggesting a lake-lagoon continuum probably due to the hydrology of the system exchanging waters according to the season. These genera represent bacterial "generalists" maintaining probably general biogeochemical functions. Linear discriminant analysis effect size (LEfSe) showed significant differential abundance distribution of bacterial genera according to the habitat, the pollution type and level. Further, correlation analyses identified specific bacterial genera which abundance was linked with pesticides concentrations in the lake, while in the lagoon the abundance of specific bacterial genera was found linked with the concentrations of PAHs (Polycyclic aromatic hydrocarbons) and organic forms of Sn. As well, bacterial genera which abundance was not correlated with the concentrations of pollutants were identified in both lake and lagoon. These findings represent valuable information, pointing out specific bacterial genera associated with pollutants, which represent assets for developing bacterial tools for the implementation, the management, and monitoring of bioremediation processes to mitigate the effect of pollutants in aquatic ecosystems.
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Affiliation(s)
- Fida Ben Salem
- Laboratoire de Biosurveillance de l'Environment, Faculté des Sciences de Bizerte, Tunisia; MELODY Group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, Pau Cedex, 64013, France; Fédération de recherche MIRA, Université de Pau et des Pays de l'Adour, E2S-UPPA, France
| | - Olfa Ben Said
- Laboratoire de Biosurveillance de l'Environment, Faculté des Sciences de Bizerte, Tunisia; MELODY Group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, Pau Cedex, 64013, France; Fédération de recherche MIRA, Université de Pau et des Pays de l'Adour, E2S-UPPA, France
| | - Cristiana Cravo-Laureau
- MELODY Group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, Pau Cedex, 64013, France; Fédération de recherche MIRA, Université de Pau et des Pays de l'Adour, E2S-UPPA, France
| | - Ezzeddine Mahmoudi
- Laboratoire de Biosurveillance de l'Environment, Faculté des Sciences de Bizerte, Tunisia
| | - Noëlle Bru
- Laboratoire de Mathématiques et de leurs Applications, PAU UMR CNRS 5142, Université de Pau et des Pays de l'Adour, E2S-UPPA, France; Fédération de recherche MIRA, Université de Pau et des Pays de l'Adour, E2S-UPPA, France
| | - Mathilde Monperrus
- MELODY Group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, Pau Cedex, 64013, France; Fédération de recherche MIRA, Université de Pau et des Pays de l'Adour, E2S-UPPA, France
| | - Robert Duran
- MELODY Group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, Pau Cedex, 64013, France; Fédération de recherche MIRA, Université de Pau et des Pays de l'Adour, E2S-UPPA, France.
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16
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Liu JL, Yao J, Lu C, Li H, Li ZF, Duran R, Sunahara G, Mihucz VG. Microbial activity and biodiversity responding to contamination of metal(loid) in heterogeneous nonferrous mining and smelting areas. CHEMOSPHERE 2019; 226:659-667. [PMID: 30959450 DOI: 10.1016/j.chemosphere.2019.03.051] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2018] [Revised: 02/28/2019] [Accepted: 03/10/2019] [Indexed: 06/09/2023]
Abstract
The combined contamination of nonferrous metal(loid) mining and smelting areas is a global issue, in need of urgent management. To our knowledge, this is the first report of microbial activities by microcalorimetry in specific nonferrous metal(loid) tailings with oligonutrition and high contents of toxic metal(loid)s. Dynamics of bacterial diversity were also characterized. Here we show that tailings had low microbial activities (Pmax = 64.1-331 μW g-1), which were accelerated by the presence of dipotassium phosphate (Pmax = 346-856 μW g-1), as measured by microcalorimetry. Frequent detection of S- and metal-resistant related genera and differences of Thiobacillus and Acidithiobacillus abundances indicated that the tailings were in an early stage of acidification. It has been further confirmed by the presence of a weak acid environment and secondary sulfur associated minerals, such as Sb2S3, FeAsS, FeS2, and CuFeS2. During the acidification process, phosphate, metal(loid)s, and microbial activity were correlated to the bacterial communities. It is suggested that the bacterial communities have metabolic capacities with a high potential for the use in management processes of multi-contaminated nonferrous metalliferous tailings.
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Affiliation(s)
- Jian-Li Liu
- School of Energy and Environment Engineering, University of Science and Technology Beijing, Beijing, 100083, China
| | - Jun Yao
- School of Water Resource and Environment Engineering, Research Center of Environmental Sciences and Engineering, China University of Geosciences (Beijing), 100083, China.
| | - Chao Lu
- School of Water Resource and Environment Engineering, Research Center of Environmental Sciences and Engineering, China University of Geosciences (Beijing), 100083, China
| | - Hao Li
- School of Water Resource and Environment Engineering, Research Center of Environmental Sciences and Engineering, China University of Geosciences (Beijing), 100083, China
| | - Zi-Fu Li
- School of Energy and Environment Engineering, University of Science and Technology Beijing, Beijing, 100083, China.
| | - Robert Duran
- School of Water Resource and Environment Engineering, Research Center of Environmental Sciences and Engineering, China University of Geosciences (Beijing), 100083, China; Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
| | - Geoffrey Sunahara
- School of Water Resource and Environment Engineering, Research Center of Environmental Sciences and Engineering, China University of Geosciences (Beijing), 100083, China; Department of Natural Resource Sciences, McGill University, 21111, Lakeshore Drive, Ste-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
| | - Victor G Mihucz
- Sino-Hungarian Joint Research Laboratory for Environmental Sciences and Health, ELTE -Eötvös Loránd University, H-1117, Budapest, Pázmány Péter stny. 1/A, Hungary
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17
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Muñoz-García A, Mestanza O, Isaza JP, Figueroa-Galvis I, Vanegas J. Influence of salinity on the degradation of xenobiotic compounds in rhizospheric mangrove soil. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2019; 249:750-757. [PMID: 30933772 DOI: 10.1016/j.envpol.2019.03.056] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Revised: 02/25/2019] [Accepted: 03/15/2019] [Indexed: 06/09/2023]
Abstract
Mangroves are highly productive tropical ecosystems influenced by seasonal and daily salinity changes, often exposed to sewage contamination, oil spills and heavy metals, among others. There is limited knowledge of the influence of salinity on the ability of microorganisms to degrade xenobiotic compounds. The aim of this study were to determine the salinity influence on the degradation of xenobiotic compounds in a semi-arid mangrove in La Guajira-Colombia and establish the more abundant genes and degradation pathways. In this study, rhizospheric soil of Avicennia germinans was collected in three points with contrasting salinity (4H, 2 M and 3 L). Total DNA extraction was performed and shotgun sequenced using the Illumina HiSeq technology. We annotated 507,343 reads associated with 21 pathways and detected 193 genes associated with the degradation of xenobiotics using orthologous genes from the KEGG Orthology (KO) database, of which 16 pathways and 113 genes were influenced by salinity. The highest abundances were found in high salinity. The degradation of benzoate showed the highest abundance, followed by the metabolism of the drugs and the degradation of chloroalkane and chloroalkene. The majority of genes were associated with phase I degradation of xenobiotics. The most abundant genes were acetyl-CoA C-acetyltransferase (atoB), catalase-peroxidase (katG) and GMP synthase (glutamine-hydrolysing) (guaA). In conclusion, the metagenomic analysis detected all the degradation pathways of xenobiotics of KEGG and 59% of the genes associated with these pathways were influenced by salinity.
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Affiliation(s)
- Andrea Muñoz-García
- Universidad Antonio Nariño, Sede Circunvalar, Cra 3 Este No. 47 A 15, Bogotá, Colombia.
| | - Orson Mestanza
- Universidad Nacional de Colombia, Carrera 45 No. 26-85, Bogotá, Colombia.
| | - Juan Pablo Isaza
- Universidad Antonio Nariño, Sede Circunvalar, Cra 3 Este No. 47 A 15, Bogotá, Colombia.
| | | | - Javier Vanegas
- Universidad Antonio Nariño, Sede Circunvalar, Cra 3 Este No. 47 A 15, Bogotá, Colombia.
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18
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Oil-Spill Triggered Shift in Indigenous Microbial Structure and Functional Dynamics in Different Marine Environmental Matrices. Sci Rep 2019; 9:1354. [PMID: 30718727 PMCID: PMC6361881 DOI: 10.1038/s41598-018-37903-x] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2018] [Accepted: 12/10/2018] [Indexed: 12/21/2022] Open
Abstract
Microbial degradation has long been recognized as the key rescue mechanism in shaping the oil polluted marine environments and the role of indigenous populations or their functional genomics have never been explored from Indian marine environments, post an oil spill event. In the current study, high throughput metagenomic analysis, PLFA profiling and mass spectrophotometric analysis was performed in combination with metabolomics to capture signature variations among the microbial communities in sediment, water and laboratory enrichments. Contrary to the previous reports, the bloom of Pseudomonadales (specifically genus Acinetobacter) in oiled sediment and Methylococcales in oiled water outnumbered the relative abundance of Alcanivorax in response to hydrocarbon contamination. Overall enhancement of xenobiotic degradation was suggested by metabolomic analysis in sediment and water post the spill event and varying quantitative assemblage of enzymes were found to be involved in hydrocarbon utilization. Laboratory enrichments revealed the competitive advantage of sediment communities over the water communities although unique taxa belonging to the later were also found to be enriched under in vitro conditions. Simultaneous analysis of sediment and water in the study provided explicit evidences on existence of differential microbial community dynamics, offering insight into possibilities of formulating nature identical solutions for hydrocarbon pollution.
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19
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Temerdashev ZA, Pavlenko LF, Korpakova IG, Ermakova YS. Analytical Aspects of the Determination of the Total Concentration and Differentiation of Anthropogenic and Biogenic Hydrocarbons in Aquatic Ecosystems. JOURNAL OF ANALYTICAL CHEMISTRY 2018. [DOI: 10.1134/s1061934818120092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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20
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Cabral L, Pereira de Sousa ST, Júnior GVL, Hawley E, Andreote FD, Hess M, de Oliveira VM. Microbial functional responses to long-term anthropogenic impact in mangrove soils. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2018; 160:231-239. [PMID: 29807296 DOI: 10.1016/j.ecoenv.2018.04.050] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2018] [Revised: 04/23/2018] [Accepted: 04/26/2018] [Indexed: 06/08/2023]
Abstract
Mangroves are coastal ecosystems of transition between terrestrial and marine environments, that have been particularly contaminated in the last decades. Organic compounds are part of these contaminants, which have increased in the environment due to industrial activities and accidental oil spills. These contaminants are toxic to higher organisms, but microorganisms can metabolize most of these compounds and thus offer a tool for bioremediation purposes. The aim of the present study was to characterize the microbial potential and activity for degradation of aromatic compounds in sediment samples from mangroves using metagenomic and metatranscriptomic approaches. Sediment samples were collected for DNA and RNA extraction from each of the mangrove sites: highly oil-impacted (Oil Mgv), anthropogenically impacted (Ant Mgv) and pristine (Prs Mgv) mangrove. Hydrocarbon concentrations in Oil Mgv sediments were higher than those observed in Ant Mgv and Prs Mgv. Genes and transcripts associated with aromatic compound degradation, particularly the meta and ortho-pathways, were more abundant in Oil Mgv and Ant Mgv suggesting that many of the aromatic compounds are being aerobically degraded by the microbiome in these sites. Functions involved in the degradation of aromatic compounds were also found in pristine site, although in lower abundance. Members of the genera Aromatoleum, Desulfococcus, Desulfatibacillum, Desulfitobacterium and Vibrio were actively involved in the detoxification of sediments affected by the oil spill. Results obtained from this study provided strong evidence that microbial degradation of aromatic compounds plays an active role in the biological response to mangrove sediment pollution and subsequent ecosystem recovery.
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Affiliation(s)
- Lucélia Cabral
- Research Center for Chemistry, Biology and Agriculture (CPQBA), University of Campinas (UNICAMP), Campinas, São Paulo, Brazil.
| | - Sanderson Tarciso Pereira de Sousa
- Research Center for Chemistry, Biology and Agriculture (CPQBA), University of Campinas (UNICAMP), Campinas, São Paulo, Brazil; Institute of Biology (IB) - University of Campinas (UNICAMP), Campinas, São Paulo, Brazil
| | - Gileno Vieira Lacerda Júnior
- Research Center for Chemistry, Biology and Agriculture (CPQBA), University of Campinas (UNICAMP), Campinas, São Paulo, Brazil; Institute of Biology (IB) - University of Campinas (UNICAMP), Campinas, São Paulo, Brazil
| | - Erik Hawley
- Washington State University, Pullman, WA, USA
| | - Fernando Dini Andreote
- Department of Soil Science, ''Luiz de Queiroz'' College of Agriculture, University of Sao Paulo, Piracicaba, São Paulo, Brazil
| | - Matthias Hess
- University of California, Davis, Department of Animal Science, Davis, CA, USA
| | - Valéria Maia de Oliveira
- Research Center for Chemistry, Biology and Agriculture (CPQBA), University of Campinas (UNICAMP), Campinas, São Paulo, Brazil
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21
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Espínola F, Dionisi HM, Borglin S, Brislawn CJ, Jansson JK, Mac Cormack WP, Carroll J, Sjöling S, Lozada M. Metagenomic Analysis of Subtidal Sediments from Polar and Subpolar Coastal Environments Highlights the Relevance of Anaerobic Hydrocarbon Degradation Processes. MICROBIAL ECOLOGY 2018; 75:123-139. [PMID: 28702706 DOI: 10.1007/s00248-017-1028-5] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2017] [Accepted: 06/27/2017] [Indexed: 06/07/2023]
Abstract
In this work, we analyzed the community structure and metabolic potential of sediment microbial communities in high-latitude coastal environments subjected to low to moderate levels of chronic pollution. Subtidal sediments from four low-energy inlets located in polar and subpolar regions from both Hemispheres were analyzed using large-scale 16S rRNA gene and metagenomic sequencing. Communities showed high diversity (Shannon's index 6.8 to 10.2), with distinct phylogenetic structures (<40% shared taxa at the Phylum level among regions) but similar metabolic potential in terms of sequences assigned to KOs. Environmental factors (mainly salinity, temperature, and in less extent organic pollution) were drivers of both phylogenetic and functional traits. Bacterial taxa correlating with hydrocarbon pollution included families of anaerobic or facultative anaerobic lifestyle, such as Desulfuromonadaceae, Geobacteraceae, and Rhodocyclaceae. In accordance, biomarker genes for anaerobic hydrocarbon degradation (bamA, ebdA, bcrA, and bssA) were prevalent, only outnumbered by alkB, and their sequences were taxonomically binned to the same bacterial groups. BssA-assigned metagenomic sequences showed an extremely wide diversity distributed all along the phylogeny known for this gene, including bssA sensu stricto, nmsA, assA, and other clusters from poorly or not yet described variants. This work increases our understanding of microbial community patterns in cold coastal sediments, and highlights the relevance of anaerobic hydrocarbon degradation processes in subtidal environments.
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Affiliation(s)
- Fernando Espínola
- Laboratorio de Microbiología Ambiental, Centro para el Estudio de Sistemas Marinos (CESIMAR, CONICET), Centro Nacional Patagónico, Blvd. Brown 2915, U9120ACD, Puerto Madryn, Chubut, Argentina
| | - Hebe M Dionisi
- Laboratorio de Microbiología Ambiental, Centro para el Estudio de Sistemas Marinos (CESIMAR, CONICET), Centro Nacional Patagónico, Blvd. Brown 2915, U9120ACD, Puerto Madryn, Chubut, Argentina
| | - Sharon Borglin
- Energy Geosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Colin J Brislawn
- Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Janet K Jansson
- Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Walter P Mac Cormack
- Instituto Nanobiotec, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, CONICET, Buenos Aires, Argentina
- Instituto Antártico Argentino, Buenos Aires, Argentina
| | - JoLynn Carroll
- Akvaplan-niva, Fram-High North Research Centre for Climate and the Environment, and ARCEx-Research Centre for Arctic Petroleum Exploration, Department of Geosciences, UiT The Arctic University of Norway, N-9037, Tromsø, Norway
| | - Sara Sjöling
- School of Natural Sciences and Environmental Studies, Södertörn University, Huddinge, Sweden
| | - Mariana Lozada
- Laboratorio de Microbiología Ambiental, Centro para el Estudio de Sistemas Marinos (CESIMAR, CONICET), Centro Nacional Patagónico, Blvd. Brown 2915, U9120ACD, Puerto Madryn, Chubut, Argentina.
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22
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Terrisse F, Cravo-Laureau C, Noël C, Cagnon C, Dumbrell AJ, McGenity TJ, Duran R. Variation of Oxygenation Conditions on a Hydrocarbonoclastic Microbial Community Reveals Alcanivorax and Cycloclasticus Ecotypes. Front Microbiol 2017; 8:1549. [PMID: 28861063 PMCID: PMC5562018 DOI: 10.3389/fmicb.2017.01549] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2017] [Accepted: 07/31/2017] [Indexed: 12/26/2022] Open
Abstract
Deciphering the ecology of marine obligate hydrocarbonoclastic bacteria (MOHCB) is of crucial importance for understanding their success in occupying distinct niches in hydrocarbon-contaminated marine environments after oil spills. In marine coastal sediments, MOHCB are particularly subjected to extreme fluctuating conditions due to redox oscillations several times a day as a result of mechanical (tide, waves and currents) and biological (bioturbation) reworking of the sediment. The adaptation of MOHCB to the redox oscillations was investigated by an experimental ecology approach, subjecting a hydrocarbon-degrading microbial community to contrasting oxygenation regimes including permanent anoxic conditions, anoxic/oxic oscillations and permanent oxic conditions. The most ubiquitous MOHCB, Alcanivorax and Cycloclasticus, showed different behaviors, especially under anoxic/oxic oscillation conditions, which were more favorable for Alcanivorax than for Cycloclasticus. The micro-diversity of 16S rRNA gene transcripts from these genera revealed specific ecotypes for different oxygenation conditions and their dynamics. It is likely that such ecotypes allow the colonization of distinct ecological niches that may explain the success of Alcanivorax and Cycloclasticus in hydrocarbon-contaminated coastal sediments during oil-spills.
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Affiliation(s)
- Fanny Terrisse
- IPREM UMR CNRS 5254, Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'AdourPau, France
| | - Cristiana Cravo-Laureau
- IPREM UMR CNRS 5254, Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'AdourPau, France
| | - Cyril Noël
- IPREM UMR CNRS 5254, Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'AdourPau, France
| | - Christine Cagnon
- IPREM UMR CNRS 5254, Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'AdourPau, France
| | - Alex J Dumbrell
- School of Biological Sciences, University of EssexColchester, United Kingdom
| | - Terry J McGenity
- School of Biological Sciences, University of EssexColchester, United Kingdom
| | - Robert Duran
- IPREM UMR CNRS 5254, Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'AdourPau, France
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23
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Ferguson RMW, Gontikaki E, Anderson JA, Witte U. The Variable Influence of Dispersant on Degradation of Oil Hydrocarbons in Subarctic Deep-Sea Sediments at Low Temperatures (0-5 °C). Sci Rep 2017; 7:2253. [PMID: 28533547 PMCID: PMC5440406 DOI: 10.1038/s41598-017-02475-9] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2017] [Accepted: 04/11/2017] [Indexed: 01/23/2023] Open
Abstract
The microbial degradation of petroleum hydrocarbons at low temperatures was investigated in subarctic deep-sea sediments in the Faroe Shetland Channel (FSC). The effect of the marine oil dispersant, Superdispersant 25 on hydrocarbon degradation was also examined. Sediments collected at 500 and 1000 m depth were spiked with a model oil containing 20 hydrocarbons and incubated at ambient temperature (5 and 0 °C, respectively) with and without marine dispersant. Treatment of sediments with hydrocarbons resulted in the enrichment of Gammaproteobacteria, and specifically the genera Pseudoalteromonas, Pseudomonas, Halomonas, and Cobetia. Hydrocarbon degradation was faster at 5 °C (500 m) with 65–89% of each component degraded after 50 days compared to 0–47% degradation at 0 °C (1000 m), where the aromatic hydrocarbons fluoranthene, anthracene, and Dibenzothiophene showed no degradation. Dispersant significantly increased the rate of degradation at 1000 m, but had no effect at 500 m. There was no statistically significant effect of Superdispersant 25 on the bacterial community structure at either station. These results show that the indigenous bacterial community in the FSC has the capacity to mitigate some of the effects of a potential oil spill, however, the effect of dispersant is ambiguous and further research is needed to understand the implications of its use.
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Affiliation(s)
- Robert M W Ferguson
- Institute of Biological and Environmental Science, Oceanlab, University of Aberdeen, Newburgh, AB41 6AA, UK. .,Department of Biological Sciences, University of Essex, Wivenhoe Park, Colchester, CO4 3SQ, UK.
| | - Evangelia Gontikaki
- Institute of Biological and Environmental Science, Oceanlab, University of Aberdeen, Newburgh, AB41 6AA, UK
| | - James A Anderson
- Surface Chemistry and Catalysis Group, School of Engineering, University of Aberdeen, Aberdeen, AB24 3UE, UK
| | - Ursula Witte
- Institute of Biological and Environmental Science, Oceanlab, University of Aberdeen, Newburgh, AB41 6AA, UK
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24
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Bacterial diversity in fumarole environments of the Paricutín volcano, Michoacán (Mexico). Extremophiles 2017; 21:499-511. [DOI: 10.1007/s00792-017-0920-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2016] [Accepted: 02/13/2017] [Indexed: 10/20/2022]
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25
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Evans M, Liu J, Bacosa H, Rosenheim BE, Liu Z. Petroleum hydrocarbon persistence following the Deepwater Horizon oil spill as a function of shoreline energy. MARINE POLLUTION BULLETIN 2017; 115:47-56. [PMID: 27894726 DOI: 10.1016/j.marpolbul.2016.11.022] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2016] [Revised: 11/06/2016] [Accepted: 11/10/2016] [Indexed: 06/06/2023]
Abstract
An important aspect of oil spill science is understanding how the compounds within spilled oil, especially toxic components, change with weathering. In this study we follow the evolution of petroleum hydrocarbons, including n-alkanes, polycyclic aromatic hydrocarbons (PAHs) and alkylated PAHs, on a Louisiana beach and salt marsh for three years following the Deepwater Horizon spill. Relative to source oil, we report overall depletion of low molecular weight n-alkanes and PAHs in all locations with time. The magnitude of depletion, however, depends on the sampling location, whereby sites with highest wave energy have highest compound depletion. Oiled sediment from an enclosed bay shows high enrichment of high molecular weight PAHs relative to 17α(H),21β(H)-hopane, suggesting the contribution from sources other than the Deepwater Horizon spill, such as fossil fuel burning. This insight into hydrocarbon persistence as a function of hydrography and hydrocarbon source can inform policy and response for future spills.
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Affiliation(s)
- Meredith Evans
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373-5015, United States
| | - Jiqing Liu
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373-5015, United States
| | - Hernando Bacosa
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373-5015, United States
| | - Brad E Rosenheim
- College of Marine Science, University of South Florida, 830 1st St. SE, Saint Petersburg, Florida 33701-5921, United States
| | - Zhanfei Liu
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373-5015, United States.
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26
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Bacterial community structure and function shift along a successional series of tidal flats in the Yellow River Delta. Sci Rep 2016; 6:36550. [PMID: 27824160 PMCID: PMC5099912 DOI: 10.1038/srep36550] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2016] [Accepted: 10/18/2016] [Indexed: 11/19/2022] Open
Abstract
Coastal ecosystems play significant ecological and economic roles but are threatened and facing decline. Microbes drive various biogeochemical processes in coastal ecosystems. Tidal flats are critical components of coastal ecosystems; however, the structure and function of microbial communities in tidal flats are poorly understood. Here we investigated the seasonal variations of bacterial communities along a tidal flat series (subtidal, intertidal and supratidal flats) and the factors affecting the variations. Bacterial community composition and diversity were analyzed over four seasons by 16S rRNA genes using the Ion Torrent PGM platform. Bacterial community composition differed significantly along the tidal flat series. Bacterial phylogenetic diversity increased while phylogenetic turnover decreased from subtidal to supratidal flats. Moreover, the bacterial community structure differed seasonally. Canonical correspondence analysis identified salinity as a major environmental factor structuring the microbial community in the sediment along the successional series. Meanwhile, temperature and nitrite concentration were major drivers of seasonal microbial changes. Despite major compositional shifts, nitrogen, methane and energy metabolisms predicted by PICRUSt were inhibited in the winter. Taken together, this study indicates that bacterial community structure changed along the successional tidal flat series and provides new insights on the characteristics of bacterial communities in coastal ecosystems.
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27
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Duran R, Cravo-Laureau C. Role of environmental factors and microorganisms in determining the fate of polycyclic aromatic hydrocarbons in the marine environment. FEMS Microbiol Rev 2016; 40:814-830. [PMID: 28201512 PMCID: PMC5091036 DOI: 10.1093/femsre/fuw031] [Citation(s) in RCA: 133] [Impact Index Per Article: 16.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Revised: 12/28/2015] [Accepted: 07/24/2016] [Indexed: 11/14/2022] Open
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are widespread in marine ecosystems and originate from natural sources and anthropogenic activities. PAHs enter the marine environment in two main ways, corresponding to chronic pollution or acute pollution by oil spills. The global PAH fluxes in marine environments are controlled by the microbial degradation and the biological pump, which plays a role in particle settling and in sequestration through bioaccumulation. Due to their low water solubility and hydrophobic nature, PAHs tightly adhere to sediments leading to accumulation in coastal and deep sediments. Microbial assemblages play an important role in determining the fate of PAHs in water and sediments, supporting the functioning of biogeochemical cycles and the microbial loop. This review summarises the knowledge recently acquired in terms of both chronic and acute PAH pollution. The importance of the microbial ecology in PAH-polluted marine ecosystems is highlighted as well as the importance of gaining further in-depth knowledge of the environmental services provided by microorganisms.
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Affiliation(s)
- Robert Duran
- Equipe Environnement et Microbiologie, MELODY group, Université de Pau et des Pays de l'Adour, Pau Cedex, France
| | - Cristiana Cravo-Laureau
- Equipe Environnement et Microbiologie, MELODY group, Université de Pau et des Pays de l'Adour, Pau Cedex, France
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28
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Ghosal D, Ghosh S, Dutta TK, Ahn Y. Current State of Knowledge in Microbial Degradation of Polycyclic Aromatic Hydrocarbons (PAHs): A Review. Front Microbiol 2016; 7:1369. [PMID: 27630626 PMCID: PMC5006600 DOI: 10.3389/fmicb.2016.01369] [Citation(s) in RCA: 238] [Impact Index Per Article: 29.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2016] [Accepted: 08/18/2016] [Indexed: 12/22/2022] Open
Abstract
Polycyclic aromatic hydrocarbons (PAHs) include a group of organic priority pollutants of critical environmental and public health concern due to their toxic, genotoxic, mutagenic and/or carcinogenic properties and their ubiquitous occurrence as well as recalcitrance. The increased awareness of their various adverse effects on ecosystem and human health has led to a dramatic increase in research aimed toward removing PAHs from the environment. PAHs may undergo adsorption, volatilization, photolysis, and chemical oxidation, although transformation by microorganisms is the major neutralization process of PAH-contaminated sites in an ecologically accepted manner. Microbial degradation of PAHs depends on various environmental conditions, such as nutrients, number and kind of the microorganisms, nature as well as chemical property of the PAH being degraded. A wide variety of bacterial, fungal and algal species have the potential to degrade/transform PAHs, among which bacteria and fungi mediated degradation has been studied most extensively. In last few decades microbial community analysis, biochemical pathway for PAHs degradation, gene organization, enzyme system, genetic regulation for PAH degradation have been explored in great detail. Although, xenobiotic-degrading microorganisms have incredible potential to restore contaminated environments inexpensively yet effectively, but new advancements are required to make such microbes effective and more powerful in removing those compounds, which were once thought to be recalcitrant. Recent analytical chemistry and genetic engineering tools might help to improve the efficiency of degradation of PAHs by microorganisms, and minimize uncertainties of successful bioremediation. However, appropriate implementation of the potential of naturally occurring microorganisms for field bioremediation could be considerably enhanced by optimizing certain factors such as bioavailability, adsorption and mass transfer of PAHs. The main purpose of this review is to provide an overview of current knowledge of bacteria, halophilic archaea, fungi and algae mediated degradation/transformation of PAHs. In addition, factors affecting PAHs degradation in the environment, recent advancement in genetic, genomic, proteomic and metabolomic techniques are also highlighted with an aim to facilitate the development of a new insight into the bioremediation of PAH in the environment.
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Affiliation(s)
- Debajyoti Ghosal
- Environmental Engineering Laboratory, Department of Civil Engineering, Yeungnam UniversityGyeongsan, South Korea
| | - Shreya Ghosh
- Disasters Prevention Research Institute, Yeungnam UniversityGyeongsan, South Korea
| | - Tapan K. Dutta
- Department of Microbiology, Bose InstituteKolkata, India
| | - Youngho Ahn
- Environmental Engineering Laboratory, Department of Civil Engineering, Yeungnam UniversityGyeongsan, South Korea
- Disasters Prevention Research Institute, Yeungnam UniversityGyeongsan, South Korea
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29
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Kaci A, Petit F, Fournier M, Cécillon S, Boust D, Lesueur P, Berthe T. Diversity of active microbial communities subjected to long-term exposure to chemical contaminants along a 40-year-old sediment core. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:4095-4110. [PMID: 25934230 DOI: 10.1007/s11356-015-4506-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2015] [Accepted: 04/06/2015] [Indexed: 06/04/2023]
Abstract
In estuarine ecosystems, metallic and organic contaminants are mainly associated with fine grain sediments which settle on mudflats. Over time, the layers of sediment accumulate and are then transformed by diagenetic processes mainly controlled by microbial activity, recording the history of the estuary's chemical contamination. In an environment of this specific type, we investigated the evolution of the chemical contamination and the structure of both total and active microbial communities, based on PhyloChip analysis of a 4.6-m core corresponding to a 40-year sedimentary record. While the archaeal abundance remained constant along the core, a decrease by one order of magnitude in the bacterial abundance was observed with depth. Both total and active microbial communities were dominated by Proteobacteria, Actinobacteria, and Firmicutes in all sediment samples. Among Proteobacteria, alpha-Proteobacteria dominated both total (from 37 to 60 %) and metabolically active (from 19.7 to 34.6 %) communities, including the Rhizobiales, Rhodobacter, Caulobacterales, and Sphingomonadales orders. Co-inertia analysis revealed a relationship between polycyclic aromatic hydrocarbons, zinc and some polychlorobiphenyls concentrations, and the structure of total and active microbial communities in the oldest and most contaminated sediments (from 1970 to 1975), suggesting that long-term exposure to chemicals shaped the structure of the microbial community.
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Affiliation(s)
- Assia Kaci
- Normandie Université, UR, UMR CNRS 6143 M2C, FED 4116, 76821, Mont Saint Aignan, France
| | - Fabienne Petit
- Normandie Université, UR, UMR CNRS 6143 M2C, FED 4116, 76821, Mont Saint Aignan, France
| | - Matthieu Fournier
- Normandie Université, UR, UMR CNRS 6143 M2C, FED 4116, 76821, Mont Saint Aignan, France
| | - Sébastien Cécillon
- Environmental Microbial Genomics Group, Ecole Centrale de Lyon, Laboratoire Ampère UMR5005 CNRS, Ecully, France
| | - Dominique Boust
- IRSN, Laboratoire de Radioécologie de Cherbourg-Octeville (LRC), 50130, Cherbourg-Octeville, France
| | - Patrick Lesueur
- Normandie Université, UR, UMR CNRS 6143 M2C, FED 4116, 76821, Mont Saint Aignan, France
| | - Thierry Berthe
- Normandie Université, UR, UMR CNRS 6143 M2C, FED 4116, 76821, Mont Saint Aignan, France.
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30
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Acosta-González A, Marqués S. Bacterial diversity in oil-polluted marine coastal sediments. Curr Opin Biotechnol 2016; 38:24-32. [PMID: 26773654 DOI: 10.1016/j.copbio.2015.12.010] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2015] [Revised: 12/15/2015] [Accepted: 12/16/2015] [Indexed: 11/27/2022]
Abstract
Marine environments harbour a persistent microbial seed which can be shaped by changes of the environmental conditions such as contamination by petroleum components. Oil spills, together with small but continuous discharges of oil from transportation and recreational activities, are important sources of hydrocarbon pollution within the marine realm. Consequently, prokaryotic communities have become well pre-adapted toward oil pollution, and many microorganisms that are exposed to its presence develop an active degradative response. The natural attenuation of oil pollutants, as has been demonstrated in many sites, is modulated according to the intrinsic environmental properties such as the availability of terminal electron acceptors and elemental nutrients, together with the degree of pollution and the type of hydrocarbon fractions present. Whilst dynamics in the bacterial communities in the aerobic zones of coastal sediments are well characterized and the key players in hydrocarbon biodegradation have been identified, the subtidal ecology of the anaerobic community is still not well understood. However, current data suggest common patterns of response in these ecosystems.
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Affiliation(s)
- Alejandro Acosta-González
- Grupo de Investigación en Bioprospección (GIBP), Facultad de Ingeniería, Universidad de La Sabana, Autopista Norte km 7, Chía, Cundinamarca, Colombia
| | - Silvia Marqués
- Consejo Superior de Investigaciones Científicas, Estación Experimental del Zaidín, Department of Environmental Protection, Profesor Albareda 1, E-18008 Granada, Spain.
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31
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Horel A, Mortazavi B, Sobecky PA. Input of organic matter enhances degradation of weathered diesel fuel in sub-tropical sediments. THE SCIENCE OF THE TOTAL ENVIRONMENT 2015; 533:82-90. [PMID: 26151652 DOI: 10.1016/j.scitotenv.2015.06.102] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2015] [Revised: 06/22/2015] [Accepted: 06/24/2015] [Indexed: 06/04/2023]
Abstract
We investigated different types of biostimulation practices to enhance degradation of weathered conventional diesel fuel in sandy beach sediments from coastal Alabama. Biodegradation rates were measured following the addition of either inorganic nutrients, or organic matter derived from either plant material (Spartina alterniflora) or fish tissue (Chloroscombrus chrysurus) both common to the region. The greatest hydrocarbon degradation rates were observed in the C. chrysurus amended treatments (k=0.0119 d(-1)). Treatment with fish-derived organic matter increased the degradation rates by 104% as compared to control treatments, while inorganic nutrient addition increased the degradation rates by 57%. The addition of plant derived organic matter, however, only marginally enhanced the degradation rates (~7%) during the course of the study. Bacterial 16S rRNA analyses revealed that most sediment microorganisms belonged to the classes; Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, and Bacteroidetes. The most frequently abundant hydrocarbon degraders were mostly similar to Achromobater sp., Microbulbifer sp., Ruegeria sp., and Pseudomonas sp.
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Affiliation(s)
- Agota Horel
- University of Alabama, Department of Biological Sciences, Tuscaloosa, AL 35487, USA; Dauphin Island Sea Lab, 101 Bienville Blvd, Dauphin Island, AL 36528, USA; Institute of Soil Sciences and Agricultural Chemistry, Center for Agricultural Research, Hungarian Academy of Sciences, Herman O. St. 15, Budapest 1022, Hungary.
| | - Behzad Mortazavi
- University of Alabama, Department of Biological Sciences, Tuscaloosa, AL 35487, USA; Dauphin Island Sea Lab, 101 Bienville Blvd, Dauphin Island, AL 36528, USA
| | - Patricia A Sobecky
- University of Alabama, Department of Biological Sciences, Tuscaloosa, AL 35487, USA
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32
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Louati H, Said OB, Soltani A, Cravo-Laureau C, Duran R, Aissa P, Mahmoudi E, Pringault O. Responses of a free-living benthic marine nematode community to bioremediation of a PAH mixture. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:15307-15318. [PMID: 25103943 DOI: 10.1007/s11356-014-3343-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2014] [Accepted: 07/13/2014] [Indexed: 06/03/2023]
Abstract
The objectives of this study were (1) to assess the responses of benthic nematodes to a polycyclic aromatic hydrocarbon (PAH) contamination and (2) to test bioremediation techniques for their efficiency in PAH degradation and their effects on nematodes. Sediments with their natural nematofauna communities from Bizerte lagoon (Tunisia) were subjected to a PAH mixture (100 ppm) of phenanthrene, fluoranthene, and pyrene during 30 days. Nematode abundance and diversity significantly decreased, and the taxonomic structure was altered. Results from multivariate analyses of the species abundance data revealed that PAH treatments were significantly different from the control. Spirinia parasitifera became the dominant species (70 % relative abundance) and appeared to be an "opportunistic" species to PAH contamination while Oncholaimus campylocercoides and Neochromadora peocilosoma were strongly inhibited. Biostimulation (addition of mineral salt medium) and bioaugmentation (inoculation of a hydrocarbonoclastic bacterium) were used as bioremediation techniques. Bioremediation treatments enhanced degradation of all three PAHs, with up to 96 % degradation for phenanthrene resulting in a significant stimulation of nematode abundance relative to control microcosms. Nevertheless, these treatments, especially the biostimulation provoked a weak impact on the community structure and diversity index relative to the control microcosms suggesting their feasibility in biorestoration of contaminated sediments.
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Affiliation(s)
- Hela Louati
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia.
- Laboratoire Ecosystèmes Marins Côtiers, UMR 5119 CNRS-UM2-IFREMER- IRD-ECOSYM, Université Montpellier 2, 34090, Montpellier, France.
| | - Olfa Ben Said
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
- Equipe Environnement et Microbiologie-UMR CNRS IPREM 5254, IBEAS, Université de Pau et des Pays de l'Adour, Avenue de l'Université, 64012, Pau, France
| | - Amel Soltani
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
- Equipe Environnement et Microbiologie-UMR CNRS IPREM 5254, IBEAS, Université de Pau et des Pays de l'Adour, Avenue de l'Université, 64012, Pau, France
| | - Cristiana Cravo-Laureau
- Equipe Environnement et Microbiologie-UMR CNRS IPREM 5254, IBEAS, Université de Pau et des Pays de l'Adour, Avenue de l'Université, 64012, Pau, France
| | - Robert Duran
- Equipe Environnement et Microbiologie-UMR CNRS IPREM 5254, IBEAS, Université de Pau et des Pays de l'Adour, Avenue de l'Université, 64012, Pau, France
| | - Patricia Aissa
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
| | - Ezzeddine Mahmoudi
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
| | - Olivier Pringault
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
- Laboratoire Ecosystèmes Marins Côtiers, UMR 5119 CNRS-UM2-IFREMER- IRD-ECOSYM, Université Montpellier 2, 34090, Montpellier, France
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Duran R, Cuny P, Bonin P, Cravo-Laureau C. Microbial ecology of hydrocarbon-polluted coastal sediments. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:15195-15199. [PMID: 26381785 DOI: 10.1007/s11356-015-5373-y] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2015] [Accepted: 09/04/2015] [Indexed: 06/05/2023]
Affiliation(s)
- Robert Duran
- Equipe Environnement et Microbiologie, MELODY group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France.
| | - Philippe Cuny
- Aix Marseille Université, CNRS/INSU, Université de Toulon, IRD, Mediterranean Institute of Oceanography UM 110, 13288, Marseille, France
| | - Patricia Bonin
- Aix Marseille Université, CNRS/INSU, Université de Toulon, IRD, Mediterranean Institute of Oceanography UM 110, 13288, Marseille, France
| | - Cristiana Cravo-Laureau
- Equipe Environnement et Microbiologie, MELODY group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
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Stauffert M, Cravo-Laureau C, Duran R. Dynamic of sulphate-reducing microorganisms in petroleum-contaminated marine sediments inhabited by the polychaete Hediste diversicolor. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:15273-15284. [PMID: 25256587 DOI: 10.1007/s11356-014-3624-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2014] [Accepted: 09/16/2014] [Indexed: 06/03/2023]
Abstract
The behaviour of sulphate-reducing microbial community was investigated at the oxic-anoxic interface (0-2 cm) of marine sediments when submitted to oil and enhanced bioturbation activities by the addition of Hediste diversicolor. Although total hydrocarbon removal was not improved by the addition of H. diversicolor, terminal restriction fragment length polymorphism (T-RFLP) analyses based on dsrAB (dissimilatory sulphite reductase) genes and transcripts showed different patterns according to the presence of H. diversicolor which favoured the abundance of dsrB genes during the early stages of incubation. Complementary DNA (cDNA) dsrAB libraries revealed that in presence of H. diversicolor, most dsrAB sequences belonged to hydrocarbonoclastic Desulfobacteraceae, suggesting that sulphate-reducing microorganisms (SRMs) may play an active role in hydrocarbon biodegradation in sediments where the reworking activity is enhanced. Furthermore, the presence of dsrAB sequences related to sequences found associated to environments with high dinitrogen fixation activity suggested potential N2 fixation by SRMs in bioturbated-polluted sediments.
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Affiliation(s)
- Magalie Stauffert
- Equipe Environnement et Microbiologie, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
| | - Cristiana Cravo-Laureau
- Equipe Environnement et Microbiologie, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France.
| | - Robert Duran
- Equipe Environnement et Microbiologie, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
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Duran R, Bonin P, Jezequel R, Dubosc K, Gassie C, Terrisse F, Abella J, Cagnon C, Militon C, Michotey V, Gilbert F, Cuny P, Cravo-Laureau C. Effect of physical sediments reworking on hydrocarbon degradation and bacterial community structure in marine coastal sediments. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:15248-15259. [PMID: 25847440 DOI: 10.1007/s11356-015-4373-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2014] [Accepted: 03/12/2015] [Indexed: 06/04/2023]
Abstract
The present study aimed to examine whether the physical reworking of sediments by harrowing would be suitable for favouring the hydrocarbon degradation in coastal marine sediments. Mudflat sediments were maintained in mesocosms under conditions as closer as possible to those prevailing in natural environments with tidal cycles. Sediments were contaminated with Ural blend crude oil, and in half of them, harrowing treatment was applied in order to mimic physical reworking of surface sediments. Hydrocarbon distribution within the sediment and its removal was followed during 286 days. The harrowing treatment allowed hydrocarbon compounds to penetrate the first 6 cm of the sediments, and biodegradation indexes (such as n-C18/phytane) indicated that biodegradation started 90 days before that observed in untreated control mesocosms. However, the harrowing treatment had a severe impact on benthic organisms reducing drastically the macrofaunal abundance and diversity. In the harrowing-treated mesocosms, the bacterial abundance, determined by 16S rRNA gene Q-PCR, was slightly increased; and terminal restriction fragment length polymorphism (T-RFLP) analyses of 16S rRNA genes showed distinct and specific bacterial community structure. Co-occurrence network and canonical correspondence analyses (CCA) based on T-RFLP data indicated the main correlations between bacterial operational taxonomic units (OTUs) as well as the associations between OTUs and hydrocarbon compound contents further supported by clustered correlation (ClusCor) analysis. The analyses highlighted the OTUs constituting the network structural bases involved in hydrocarbon degradation. Negative correlations indicated the possible shifts in bacterial communities that occurred during the ecological succession.
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Affiliation(s)
- Robert Duran
- Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France.
- Université de Pau et des Pays de l'Adour, Bâtiment IBEAS, BP 1155, 64013, Pau Cedex, France.
| | - Patricia Bonin
- Aix Marseille Université, CNRS, IRD, MIO UM 110, 13288, Marseille, France
| | - Ronan Jezequel
- Centre de Documentation, de Recherche et d'Expérimentations sur les pollutions accidentelles des Eaux, 715 rue Alain Colas, CS 41836, Brest, France
| | - Karine Dubosc
- Centre de Documentation, de Recherche et d'Expérimentations sur les pollutions accidentelles des Eaux, 715 rue Alain Colas, CS 41836, Brest, France
| | - Claire Gassie
- Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
| | - Fanny Terrisse
- Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
| | - Justine Abella
- Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
| | - Christine Cagnon
- Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
| | - Cecile Militon
- Aix Marseille Université, CNRS, IRD, MIO UM 110, 13288, Marseille, France
| | - Valérie Michotey
- Aix Marseille Université, CNRS, IRD, MIO UM 110, 13288, Marseille, France
| | - Franck Gilbert
- Université de Toulouse; INP, UPS; EcoLab (Laboratoire écologie fonctionnelle et environnement), 118 Route de Narbonne, 31062, Toulouse, France
- CNRS; EcoLab, 31062, Toulouse, France
| | - Philippe Cuny
- Aix Marseille Université, CNRS, IRD, MIO UM 110, 13288, Marseille, France
| | - Cristiana Cravo-Laureau
- Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
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Ben Said O, Louati H, Soltani A, Preud'homme H, Cravo-Laureau C, Got P, Pringault O, Aissa P, Duran R. Changes of benthic bacteria and meiofauna assemblages during bio-treatments of anthracene-contaminated sediments from Bizerta lagoon (Tunisia). ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:15319-15331. [PMID: 25618309 DOI: 10.1007/s11356-015-4105-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2014] [Accepted: 01/11/2015] [Indexed: 06/04/2023]
Abstract
Sediments from Bizerta lagoon were used in an experimental microcosm setup involving three scenarios for the bioremediation of anthracene-polluted sediments, namely bioaugmentation, biostimulation, and a combination of both bioaugmentation and biostimulation. In order to investigate the effect of the biotreatments on the benthic biosphere, 16S rRNA gene-based T-RFLP bacterial community structure and the abundance and diversity of the meiofauna were determined throughout the experiment period. Addition of fresh anthracene drastically reduced the benthic bacterial and meiofaunal abundances. The treatment combining biostimulation and bioaugmentation was most efficient in eliminating anthracene, resulting in a less toxic sedimentary environment, which restored meiofaunal abundance and diversity. Furthermore, canonical correspondence analysis showed that the biostimulation treatment promoted a bacterial community favorable to the development of nematodes while the treatment combining biostimulation and bioaugmentation resulted in a bacterial community that advantaged the development of the other meiofauna taxa (copepods, oligochaetes, polychaetes, and other) restoring thus the meiofaunal structure. The results highlight the importance to take into account the bacteria/meiofauna interactions during the implementation of bioremediation treatment.
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Affiliation(s)
- Olfa Ben Said
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia.
- Equipe Environnement et Microbiologie-MELODY Group-UMR CNRS IPREM 5254-IBEAS, Université de Pau et des Pays de l'Adour, Pau, France.
- Faculty of Sciences of Bizerte, Laboratory of Environment Biomonitoring, Coastal Ecology and Ecotoxicology Unit, University of Carthage, 7021, Zarzouna, Tunisia.
| | - Hela Louati
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
- Laboratoire Ecosystèmes Marins Côtiers, UMR 5119 CNRS-UM2-IFREMER-IRD-ECOSYM, Université Montpellier 2, Montpellier, France
| | - Amel Soltani
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
- Equipe Environnement et Microbiologie-MELODY Group-UMR CNRS IPREM 5254-IBEAS, Université de Pau et des Pays de l'Adour, Pau, France
| | - Hugues Preud'homme
- Laboratoire Chimie Analytique BioInorganique Environnement-UMR CNRS IPREM 5254-Helioparc, Université de Pau et des Pays de l'Adour, Pau, France
| | - Cristiana Cravo-Laureau
- Equipe Environnement et Microbiologie-MELODY Group-UMR CNRS IPREM 5254-IBEAS, Université de Pau et des Pays de l'Adour, Pau, France
| | - Patrice Got
- Laboratoire Ecosystèmes Marins Côtiers, UMR 5119 CNRS-UM2-IFREMER-IRD-ECOSYM, Université Montpellier 2, Montpellier, France
| | - Olivier Pringault
- Laboratoire Ecosystèmes Marins Côtiers, UMR 5119 CNRS-UM2-IFREMER-IRD-ECOSYM, Université Montpellier 2, Montpellier, France
| | - Patricia Aissa
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, 7021, Zarzouna, Tunisia
| | - Robert Duran
- Equipe Environnement et Microbiologie-MELODY Group-UMR CNRS IPREM 5254-IBEAS, Université de Pau et des Pays de l'Adour, Pau, France
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Cruz Viggi C, Presta E, Bellagamba M, Kaciulis S, Balijepalli SK, Zanaroli G, Petrangeli Papini M, Rossetti S, Aulenta F. The "Oil-Spill Snorkel": an innovative bioelectrochemical approach to accelerate hydrocarbons biodegradation in marine sediments. Front Microbiol 2015; 6:881. [PMID: 26388841 PMCID: PMC4559663 DOI: 10.3389/fmicb.2015.00881] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2015] [Accepted: 08/11/2015] [Indexed: 11/18/2022] Open
Abstract
This study presents the proof-of-concept of the “Oil-Spill Snorkel”: a novel bioelectrochemical approach to stimulate the oxidative biodegradation of petroleum hydrocarbons in sediments. The “Oil-Spill Snorkel” consists of a single conductive material (the snorkel) positioned suitably to create an electrochemical connection between the anoxic zone (the contaminated sediment) and the oxic zone (the overlying O2-containing water). The segment of the electrode buried within the sediment plays a role of anode, accepting electrons deriving from the oxidation of contaminants. Electrons flow through the snorkel up to the part exposed to the aerobic environment (the cathode), where they reduce oxygen to form water. Here we report the results of lab-scale microcosms setup with marine sediments and spiked with crude oil. Microcosms containing one or three graphite snorkels and controls (snorkel-free and autoclaved) were monitored for over 400 days. Collectively, the results of this study confirmed that the snorkels accelerate oxidative reactions taking place within the sediment, as documented by a significant 1.7-fold increase (p = 0.023, two-tailed t-test) in the cumulative oxygen uptake and 1.4-fold increase (p = 0.040) in the cumulative CO2 evolution in the microcosms containing three snorkels compared to snorkel-free controls. Accordingly, the initial rate of total petroleum hydrocarbons (TPH) degradation was also substantially enhanced. Indeed, while after 200 days of incubation a negligible degradation of TPH was noticed in snorkel-free controls, a significant reduction of 12 ± 1% (p = 0.004) and 21 ± 1% (p = 0.001) was observed in microcosms containing one and three snorkels, respectively. Although, the “Oil-Spill Snorkel” potentially represents a groundbreaking alternative to more expensive remediation options, further research efforts are needed to clarify factors and conditions affecting the snorkel-driven biodegradation processes and to identify suitable configurations for field applications.
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Affiliation(s)
| | - Enrica Presta
- Water Research Institute, National Research Council Rome, Italy
| | | | - Saulius Kaciulis
- Institute for the Study of Nanostructured Materials, National Research Council Rome, Italy
| | - Santosh K Balijepalli
- Institute for the Study of Nanostructured Materials, National Research Council Rome, Italy
| | - Giulio Zanaroli
- Department of Civil, Chemical, Environmental and Materials Engineering, University of Bologna Bologna, Italy
| | | | - Simona Rossetti
- Water Research Institute, National Research Council Rome, Italy
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Horel A, Schiewer S, Misra D. Effect of concentration gradients on biodegradation in bench-scale sand columns with HYDRUS modeling of hydrocarbon transport and degradation. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:13251-13262. [PMID: 25940478 DOI: 10.1007/s11356-015-4576-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2014] [Accepted: 04/21/2015] [Indexed: 06/04/2023]
Abstract
The present research investigated to what extent results obtained in small microcosm experiments can be extrapolated to larger settings with non-uniform concentrations. Microbial hydrocarbon degradation in sandy sediments was compared for column experiments versus homogenized microcosms with varying concentrations of diesel, Syntroleum, and fish biodiesel as contaminants. Syntroleum and fish biodiesel had higher degradation rates than diesel fuel. Microcosms showed significantly higher overall hydrocarbon mineralization percentages (p < 0.006) than columns. Oxygen levels and moisture content were likely not responsible for that difference, which could, however, be explained by a strong gradient of fuel and nutrient concentrations through the column. The mineralization percentage in the columns was similar to small-scale microcosms at high fuel concentrations. While absolute hydrocarbon degradation increased, mineralization percentages decreased with increasing fuel concentration which was corroborated by saturation kinetics; the absolute CO2 production reached a steady plateau value at high substrate concentrations. Numerical modeling using HYDRUS 2D/3D simulated the transport and degradation of the investigated fuels in vadose zone conditions similar to those in laboratory column experiments. The numerical model was used to evaluate the impact of different degradation rate constants from microcosm versus column experiments.
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Affiliation(s)
- Agota Horel
- Civil and Environmental Engineering Department, Water and Environmental Research Center, University of Alaska Fairbanks, PO Box 755900, Fairbanks, AK, 99775-5900, USA
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Ferreira L, Rosales E, Sanromán MÁ, Pazos MM. Scale-up of removal process using a remediating-bacterium isolated from marine coastal sediment. RSC Adv 2015. [DOI: 10.1039/c5ra01888a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Nowadays, a wide variety of pollutants are discharged to different water sources and become water contaminants.
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Affiliation(s)
- Laura Ferreira
- Department of Chemical Engineering
- Campus As Lagoas Marcosende
- University of Vigo
- Vigo 36310
- Spain
| | - Emilio Rosales
- Department of Chemical Engineering
- Campus As Lagoas Marcosende
- University of Vigo
- Vigo 36310
- Spain
| | - M. Ángeles Sanromán
- Department of Chemical Engineering
- Campus As Lagoas Marcosende
- University of Vigo
- Vigo 36310
- Spain
| | - Marta M. Pazos
- Department of Chemical Engineering
- Campus As Lagoas Marcosende
- University of Vigo
- Vigo 36310
- Spain
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40
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Huang Q, Briggs BR, Dong H, Jiang H, Wu G, Edwardson C, De Vlaminck I, Quake S. Taxonomic and functional diversity provides insight into microbial pathways and stress responses in the saline Qinghai Lake, China. PLoS One 2014; 9:e111681. [PMID: 25365331 PMCID: PMC4218802 DOI: 10.1371/journal.pone.0111681] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2014] [Accepted: 09/29/2014] [Indexed: 11/19/2022] Open
Abstract
Microbe-mediated biogeochemical cycles contribute to the global climate system and have sensitive responses and feedbacks to environmental stress caused by climate change. Yet, little is known about the effects of microbial biodiversity (i.e., taxonmic and functional diversity) on biogeochemical cycles in ecosytems that are highly sensitive to climate change. One such sensitive ecosystem is Qinghai Lake, a high-elevation (3196 m) saline (1.4%) lake located on the Tibetan Plateau, China. This study provides baseline information on the microbial taxonomic and functional diversity as well as the associated stress response genes. Illumina metagenomic and metatranscriptomic datasets were generated from lake water samples collected at two sites (B and E). Autotrophic Cyanobacteria dominated the DNA samples, while heterotrophic Proteobacteria dominated the RNA samples at both sites. Photoheterotrophic Loktanella was also present at both sites. Photosystem II was the most active pathway at site B; while, oxidative phosphorylation was most active at site E. Organisms that expressed photosystem II or oxidative phosphorylation also expressed genes involved in photoprotection and oxidative stress, respectively. Assimilatory pathways associated with the nitrogen cycle were dominant at both sites. Results also indicate a positive relationship between functional diversity and the number of stress response genes. This study provides insight into the stress resilience of microbial metabolic pathways supported by greater taxonomic diversity, which may affect the microbial community response to climate change.
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Affiliation(s)
- Qiuyuan Huang
- Department of Geology and Environmental Earth Science, Miami University, Oxford, Ohio, United States of America
- Department of Microbiology, University of Georgia, Athens, Georgia, United States of America
| | - Brandon R. Briggs
- Department of Geology and Environmental Earth Science, Miami University, Oxford, Ohio, United States of America
| | - Hailiang Dong
- Department of Geology and Environmental Earth Science, Miami University, Oxford, Ohio, United States of America
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Beijing, China
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Hongchen Jiang
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Geng Wu
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Christian Edwardson
- Department of Microbiology, University of Georgia, Athens, Georgia, United States of America
| | - Iwijn De Vlaminck
- Departments of Bioengineering and Applied Physics, Stanford University and the Howard Hughes Medical Institute, Stanford, California, United States of America
| | - Stephen Quake
- Departments of Bioengineering and Applied Physics, Stanford University and the Howard Hughes Medical Institute, Stanford, California, United States of America
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Kostka JE, Teske AP, Joye SB, Head IM. The metabolic pathways and environmental controls of hydrocarbon biodegradation in marine ecosystems. Front Microbiol 2014; 5:471. [PMID: 25237309 PMCID: PMC4154464 DOI: 10.3389/fmicb.2014.00471] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2014] [Accepted: 08/19/2014] [Indexed: 11/20/2022] Open
Affiliation(s)
- Joel E Kostka
- School of Biology and Earth and Atmospheric Sciences, Georgia Institute of Technology Atlanta, GA, USA
| | - Andreas P Teske
- Department of Marine Sciences, University of North Carolina Chapel Hill, NC, USA
| | - Samantha B Joye
- Department of Marine Sciences, University of Georgia Athens, GA, USA
| | - Ian M Head
- School of Civil Engineering and Geosciences, Newcastle University Newcastle upon Tyne, UK
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42
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Stauffert M, Cravo-Laureau C, Duran R. Structure of hydrocarbonoclastic nitrate-reducing bacterial communities in bioturbated coastal marine sediments. FEMS Microbiol Ecol 2014; 89:580-93. [DOI: 10.1111/1574-6941.12359] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2014] [Revised: 05/13/2014] [Accepted: 05/19/2014] [Indexed: 11/28/2022] Open
Affiliation(s)
- Magalie Stauffert
- Equipe Environnement et Microbiologie; IPREM UMR CNRS 5254; Université de Pau et des Pays de l'Adour; Pau Cedex France
| | - Cristiana Cravo-Laureau
- Equipe Environnement et Microbiologie; IPREM UMR CNRS 5254; Université de Pau et des Pays de l'Adour; Pau Cedex France
| | - Robert Duran
- Equipe Environnement et Microbiologie; IPREM UMR CNRS 5254; Université de Pau et des Pays de l'Adour; Pau Cedex France
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