Methods for visualising active microbial benzene degraders in in situ microcosms
Natural attenuation maybe a cost-efficient option for bioremediation of contaminated sites but requires knowledge about the activity of degrading microbes under in situ conditions. In order to link microbial activity to the spatial distribution of contaminant degraders, we combined the recently impr...
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| Veröffentlicht in: | Applied microbiology and biotechnology 2015-01, Vol.99 (2), p.957-968 |
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| creator | Schurig, Christian Mueller, Carsten W Höschen, Carmen Prager, Andrea Kothe, Erika Beck, Henrike Miltner, Anja Kästner, Matthias |
| description | Natural attenuation maybe a cost-efficient option for bioremediation of contaminated sites but requires knowledge about the activity of degrading microbes under in situ conditions. In order to link microbial activity to the spatial distribution of contaminant degraders, we combined the recently improved in situ microcosm approach, so-called ‘direct-push bacterial trap’ (DP-BACTRAP), with nano-scale secondary ion mass spectrometry (NanoSIMS) analysis on samples from contaminated constructed wetlands. This approach is based on initially sterile microcosms amended with¹³C-labelled benzene as a source of carbon and energy for microorganisms. The microcosms were introduced directly in the constructed wetland, where they were colonised by indigenous microorganisms from the sediment. After incubation in the field, the samples were analysed by NanoSIMS, scanning electron microscopy (SEM) and fluorescence microscopy in order to visualise¹³C-labelled microbial biomass on undisturbed samples from the microcosms. With the approach developed, we successfully visualised benzene-degrading microbes on solid materials with high surface area by means of NanoSIMS. Moreover, we could demonstrate the feasibility of NanoSIMS analysis of unembedded porous media with a highly complex topography, which was frequently reasoned to not lead to sufficient results. |
| doi_str_mv | 10.1007/s00253-014-6037-4 |
| format | Article |
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In order to link microbial activity to the spatial distribution of contaminant degraders, we combined the recently improved in situ microcosm approach, so-called ‘direct-push bacterial trap’ (DP-BACTRAP), with nano-scale secondary ion mass spectrometry (NanoSIMS) analysis on samples from contaminated constructed wetlands. This approach is based on initially sterile microcosms amended with¹³C-labelled benzene as a source of carbon and energy for microorganisms. The microcosms were introduced directly in the constructed wetland, where they were colonised by indigenous microorganisms from the sediment. After incubation in the field, the samples were analysed by NanoSIMS, scanning electron microscopy (SEM) and fluorescence microscopy in order to visualise¹³C-labelled microbial biomass on undisturbed samples from the microcosms. With the approach developed, we successfully visualised benzene-degrading microbes on solid materials with high surface area by means of NanoSIMS. Moreover, we could demonstrate the feasibility of NanoSIMS analysis of unembedded porous media with a highly complex topography, which was frequently reasoned to not lead to sufficient results.</description><identifier>ISSN: 0175-7598</identifier><identifier>EISSN: 1432-0614</identifier><identifier>DOI: 10.1007/s00253-014-6037-4</identifier><identifier>PMID: 25194840</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer-Verlag</publisher><subject>Activated carbon ; Aquifers ; Artificial wetlands ; Bacteria - metabolism ; Benzene ; Benzene - chemistry ; Biodegradation, Environmental ; Biomarkers ; Biomass ; Biomedical and Life Sciences ; Bioremediation ; Biotechnology ; Carbon ; Chemical properties ; Chemical reactions ; constructed wetlands ; Contaminants ; cost effectiveness ; energy ; Environmental aspects ; Environmental Biotechnology ; Environmental cleanup ; Fluorescence microscopy ; Hydrocarbons ; In Situ Hybridization, Fluorescence ; Laboratories ; Life Sciences ; Mass spectrometry ; Metabolism ; Methods ; Microbial activity ; microbial biomass ; Microbial colonies ; Microbial Genetics and Genomics ; Microbiology ; Microcosms ; Microorganisms ; Natural attenuation ; Observations ; Phylogenetics ; Porous media ; Scanning electron microscopy ; Scientific imaging ; Sediments ; Spatial distribution ; Studies ; surface area ; Topography ; Wetlands</subject><ispartof>Applied microbiology and biotechnology, 2015-01, Vol.99 (2), p.957-968</ispartof><rights>Springer-Verlag Berlin Heidelberg 2014</rights><rights>COPYRIGHT 2015 Springer</rights><rights>Springer-Verlag Berlin Heidelberg 2015</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c668t-b0444b8d4aea05355842cc1ff89521bb9262955bf6fcdda25af041a941213a6c3</citedby><cites>FETCH-LOGICAL-c668t-b0444b8d4aea05355842cc1ff89521bb9262955bf6fcdda25af041a941213a6c3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00253-014-6037-4$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00253-014-6037-4$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,778,782,27907,27908,41471,42540,51302</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/25194840$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Schurig, Christian</creatorcontrib><creatorcontrib>Mueller, Carsten W</creatorcontrib><creatorcontrib>Höschen, Carmen</creatorcontrib><creatorcontrib>Prager, Andrea</creatorcontrib><creatorcontrib>Kothe, Erika</creatorcontrib><creatorcontrib>Beck, Henrike</creatorcontrib><creatorcontrib>Miltner, Anja</creatorcontrib><creatorcontrib>Kästner, Matthias</creatorcontrib><title>Methods for visualising active microbial benzene degraders in in situ microcosms</title><title>Applied microbiology and biotechnology</title><addtitle>Appl Microbiol Biotechnol</addtitle><addtitle>Appl Microbiol Biotechnol</addtitle><description>Natural attenuation maybe a cost-efficient option for bioremediation of contaminated sites but requires knowledge about the activity of degrading microbes under in situ conditions. In order to link microbial activity to the spatial distribution of contaminant degraders, we combined the recently improved in situ microcosm approach, so-called ‘direct-push bacterial trap’ (DP-BACTRAP), with nano-scale secondary ion mass spectrometry (NanoSIMS) analysis on samples from contaminated constructed wetlands. This approach is based on initially sterile microcosms amended with¹³C-labelled benzene as a source of carbon and energy for microorganisms. The microcosms were introduced directly in the constructed wetland, where they were colonised by indigenous microorganisms from the sediment. After incubation in the field, the samples were analysed by NanoSIMS, scanning electron microscopy (SEM) and fluorescence microscopy in order to visualise¹³C-labelled microbial biomass on undisturbed samples from the microcosms. With the approach developed, we successfully visualised benzene-degrading microbes on solid materials with high surface area by means of NanoSIMS. Moreover, we could demonstrate the feasibility of NanoSIMS analysis of unembedded porous media with a highly complex topography, which was frequently reasoned to not lead to sufficient results.</description><subject>Activated carbon</subject><subject>Aquifers</subject><subject>Artificial wetlands</subject><subject>Bacteria - metabolism</subject><subject>Benzene</subject><subject>Benzene - chemistry</subject><subject>Biodegradation, Environmental</subject><subject>Biomarkers</subject><subject>Biomass</subject><subject>Biomedical and Life Sciences</subject><subject>Bioremediation</subject><subject>Biotechnology</subject><subject>Carbon</subject><subject>Chemical properties</subject><subject>Chemical reactions</subject><subject>constructed wetlands</subject><subject>Contaminants</subject><subject>cost effectiveness</subject><subject>energy</subject><subject>Environmental aspects</subject><subject>Environmental Biotechnology</subject><subject>Environmental 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for visualising active microbial benzene degraders in in situ microcosms</title><author>Schurig, Christian ; Mueller, Carsten W ; Höschen, Carmen ; Prager, Andrea ; Kothe, Erika ; Beck, Henrike ; Miltner, Anja ; Kästner, Matthias</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c668t-b0444b8d4aea05355842cc1ff89521bb9262955bf6fcdda25af041a941213a6c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Activated carbon</topic><topic>Aquifers</topic><topic>Artificial wetlands</topic><topic>Bacteria - metabolism</topic><topic>Benzene</topic><topic>Benzene - chemistry</topic><topic>Biodegradation, Environmental</topic><topic>Biomarkers</topic><topic>Biomass</topic><topic>Biomedical and Life Sciences</topic><topic>Bioremediation</topic><topic>Biotechnology</topic><topic>Carbon</topic><topic>Chemical properties</topic><topic>Chemical reactions</topic><topic>constructed 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| source | MEDLINE; SpringerLink Journals - AutoHoldings |
| subjects | Activated carbon Aquifers Artificial wetlands Bacteria - metabolism Benzene Benzene - chemistry Biodegradation, Environmental Biomarkers Biomass Biomedical and Life Sciences Bioremediation Biotechnology Carbon Chemical properties Chemical reactions constructed wetlands Contaminants cost effectiveness energy Environmental aspects Environmental Biotechnology Environmental cleanup Fluorescence microscopy Hydrocarbons In Situ Hybridization, Fluorescence Laboratories Life Sciences Mass spectrometry Metabolism Methods Microbial activity microbial biomass Microbial colonies Microbial Genetics and Genomics Microbiology Microcosms Microorganisms Natural attenuation Observations Phylogenetics Porous media Scanning electron microscopy Scientific imaging Sediments Spatial distribution Studies surface area Topography Wetlands |
| title | Methods for visualising active microbial benzene degraders in in situ microcosms |
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