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window.loswp.translateUrl = "https://www.academia.edu/login?post_login_redirect_url=https%3A%2F%2Fwww.academia.edu%2F18458465%2FCommunity_structure_and_activity_of_sulfate_reducing_bacteria_in_an_intertidal_surface_sediment_a_multi_method_approach%3Fshow_translation%3Dtrue"; window.loswp.previewableAttachments = [{"id":40074573,"identifier":"Attachment_40074573","shouldShowBulkDownload":false}]; window.loswp.shouldDetectTimezone = true; window.loswp.shouldShowBulkDownload = true; window.loswp.showSignupCaptcha = false window.loswp.willEdgeCache = false; window.loswp.work = {"work":{"id":18458465,"created_at":"2015-11-16T11:14:19.142-08:00","from_world_paper_id":144565765,"updated_at":"2024-11-18T01:07:24.998-08:00","_data":{"grobid_abstract":"The community structure of sulfate-reducing bacteria (SRB) in an intertidal mud flat of the German Wadden Sea (Site Dangast, Jade Bay) was studied and related to sedimentary biogeochemical gradients and processes. Below the penetration depths of oxygen (~3 mm) and nitrate (~4 mm), the presence of dissolved iron and manganese and the absence of dissolved sulfide indicated suboxic conditions within the top 10 cm of the sediment. Moderate to high bacterial sulfate reduction rates were measured with radiotracers throughout the sediment, and dissimilatory sulfate reduction was also demonstrated by the presence of acid-volatile sulfides (AVS, essentially iron monosulfide). Stable sulfur isotope discrimination between dissolved sulfate and AVS was dominated by sulfate reduction. The diversity of SRB was studied using denaturant gradient gel electrophoresis of 16S rDNA, phospholipid fatty acid analysis and counting viable cells with the most probable number technique. Phylogenetic groups of SRB identified with these techniques were almost evenly distributed throughout the top 20 cm of the sediment. Application of fluorescence in situ hybridization, however, demonstrated a maximum of active members of the Desulfovibrio and Desulfosarcina-Desulfococcus-Desulfofrigus groups between 2 and 3 cm depth. These 2 groups encompass acetate and lactate utilizing SRB. The coincidence of this SRB maximum with a local maximum of sulfate reduction rates and the depletion of acetate and lactate reflects the microbiological processes related to sulfate reduction.","publication_date":"2002,,","publication_name":"Aquatic Microbial Ecology","grobid_abstract_attachment_id":"40074573"},"document_type":"paper","pre_hit_view_count_baseline":null,"quality":"high","language":"en","title":"Community structure and activity of sulfate-reducing bacteria in an intertidal surface sediment: a multi-method approach","broadcastable":false,"draft":null,"has_indexable_attachment":true,"indexable":true,"seo_quality":null}}["work"]; window.loswp.workCoauthors = [32681744,38621311,38469597]; window.loswp.locale = "en"; window.loswp.countryCode = "SG"; window.loswp.cwvAbTestBucket = ""; window.loswp.designVariant = "ds_vanilla"; window.loswp.fullPageMobileSutdModalVariant = "control"; window.loswp.useOptimizedScribd4genScript = false; window.loginModal = {}; window.loginModal.appleClientId = 'edu.academia.applesignon'; window.userInChina = "false";</script><script defer="" src="https://accounts.google.com/gsi/client"></script><div class="ds-loswp-container"><div class="ds-work-card--grid-container"><div class="ds-work-card--container js-loswp-work-card"><div class="ds-work-card--cover"><div class="ds-work-cover--wrapper"><div class="ds-work-cover--container"><button class="ds-work-cover--clickable js-swp-download-button" data-signup-modal="{"location":"swp-splash-paper-cover","attachmentId":40074573,"attachmentType":"pdf"}"><img alt="First page of “Community structure and activity of sulfate-reducing bacteria in an intertidal surface sediment: a multi-method approach”" class="ds-work-cover--cover-thumbnail" src="https://0.academia-photos.com/attachment_thumbnails/40074573/mini_magick20190221-6043-o5mirc.png?1550819630" /><img alt="PDF Icon" class="ds-work-cover--file-icon" src="//a.academia-assets.com/images/single_work_splash/adobe_icon.svg" /><div class="ds-work-cover--hover-container"><span class="material-symbols-outlined" style="font-size: 20px" translate="no">download</span><p>Download Free PDF</p></div><div class="ds-work-cover--ribbon-container">Download Free PDF</div><div class="ds-work-cover--ribbon-triangle"></div></button></div></div></div><div class="ds-work-card--work-information"><h1 class="ds-work-card--work-title">Community structure and activity of sulfate-reducing bacteria in an intertidal surface sediment: a multi-method approach</h1><div class="ds-work-card--work-authors ds-work-card--detail"><a class="ds-work-card--author js-wsj-grid-card-author ds2-5-body-md ds2-5-body-link" data-author-id="32681744" href="https://independent.academia.edu/NikoFinke"><img alt="Profile image of Niko Finke" class="ds-work-card--author-avatar" src="//a.academia-assets.com/images/s65_no_pic.png" />Niko Finke</a><a class="ds-work-card--author js-wsj-grid-card-author ds2-5-body-md ds2-5-body-link" data-author-id="38621311" href="https://independent.academia.edu/MK%C3%B6nneke"><img alt="Profile image of M. Könneke" class="ds-work-card--author-avatar" src="//a.academia-assets.com/images/s65_no_pic.png" />M. Könneke</a><a class="ds-work-card--author js-wsj-grid-card-author ds2-5-body-md ds2-5-body-link" data-author-id="38469597" href="https://io-warnemuende.academia.edu/MichaelEB%C3%B6ttcher"><img alt="Profile image of Michael E. Böttcher" class="ds-work-card--author-avatar" src="//a.academia-assets.com/images/s65_no_pic.png" />Michael E. Böttcher</a></div><div class="ds-work-card--detail"><p class="ds-work-card--detail ds2-5-body-sm">2002, Aquatic Microbial Ecology</p><div class="ds-work-card--work-metadata"><div class="ds-work-card--work-metadata__stat"><span class="material-symbols-outlined" style="font-size: 20px" translate="no">visibility</span><p class="ds2-5-body-sm" id="work-metadata-view-count">…</p></div><div class="ds-work-card--work-metadata__stat"><span class="material-symbols-outlined" style="font-size: 20px" translate="no">description</span><p class="ds2-5-body-sm">16 pages</p></div><div class="ds-work-card--work-metadata__stat"><span class="material-symbols-outlined" style="font-size: 20px" translate="no">link</span><p class="ds2-5-body-sm">1 file</p></div></div><script>(async () => { const workId = 18458465; const worksViewsPath = "/v0/works/views?subdomain_param=api&work_ids%5B%5D=18458465"; const getWorkViews = async (workId) => { const response = await fetch(worksViewsPath); if (!response.ok) { throw new Error('Failed to load work views'); } const data = await response.json(); return data.views[workId]; }; // Get the view count for the work - we send this immediately rather than waiting for // the DOM to load, so it can be available as soon as possible (but without holding up // the backend or other resource requests, because it's a bit expensive and not critical). const viewCount = await getWorkViews(workId); const updateViewCount = (viewCount) => { try { const viewCountNumber = parseInt(viewCount, 10); if (viewCountNumber === 0) { // Remove the whole views element if there are zero views. document.getElementById('work-metadata-view-count')?.parentNode?.remove(); return; } const commaizedViewCount = viewCountNumber.toLocaleString(); const viewCountBody = document.getElementById('work-metadata-view-count'); if (!viewCountBody) { throw new Error('Failed to find work views element'); } viewCountBody.textContent = `${commaizedViewCount} views`; } catch (error) { // Remove the whole views element if there was some issue parsing. document.getElementById('work-metadata-view-count')?.parentNode?.remove(); throw new Error(`Failed to parse view count: ${viewCount}`, error); } }; // If the DOM is still loading, wait for it to be ready before updating the view count. if (document.readyState === "loading") { document.addEventListener('DOMContentLoaded', () => { updateViewCount(viewCount); }); // Otherwise, just update it immediately. } else { updateViewCount(viewCount); } })();</script></div><p class="ds-work-card--work-abstract ds-work-card--detail ds2-5-body-md">The community structure of sulfate-reducing bacteria (SRB) in an intertidal mud flat of the German Wadden Sea (Site Dangast, Jade Bay) was studied and related to sedimentary biogeochemical gradients and processes. Below the penetration depths of oxygen (~3 mm) and nitrate (~4 mm), the presence of dissolved iron and manganese and the absence of dissolved sulfide indicated suboxic conditions within the top 10 cm of the sediment. Moderate to high bacterial sulfate reduction rates were measured with radiotracers throughout the sediment, and dissimilatory sulfate reduction was also demonstrated by the presence of acid-volatile sulfides (AVS, essentially iron monosulfide). Stable sulfur isotope discrimination between dissolved sulfate and AVS was dominated by sulfate reduction. The diversity of SRB was studied using denaturant gradient gel electrophoresis of 16S rDNA, phospholipid fatty acid analysis and counting viable cells with the most probable number technique. Phylogenetic groups of SRB identified with these techniques were almost evenly distributed throughout the top 20 cm of the sediment. Application of fluorescence in situ hybridization, however, demonstrated a maximum of active members of the Desulfovibrio and Desulfosarcina-Desulfococcus-Desulfofrigus groups between 2 and 3 cm depth. These 2 groups encompass acetate and lactate utilizing SRB. The coincidence of this SRB maximum with a local maximum of sulfate reduction rates and the depletion of acetate and lactate reflects the microbiological processes related to sulfate reduction.</p><div class="ds-work-card--button-container"><div class="primary-buttons cite-share-variant"><button class="ds2-5-button js-swp-download-button" data-signup-modal="{"location":"continue-reading-button--work-card","attachmentId":40074573,"attachmentType":"pdf","workUrl":"https://www.academia.edu/18458465/Community_structure_and_activity_of_sulfate_reducing_bacteria_in_an_intertidal_surface_sediment_a_multi_method_approach"}"><span class="material-symbols-outlined" style="font-size: 20px" translate="no">description</span>See full PDF</button><button class="ds2-5-button ds2-5-button--secondary js-swp-download-button" data-signup-modal="{"location":"download-pdf-button--work-card","attachmentId":40074573,"attachmentType":"pdf","workUrl":"https://www.academia.edu/18458465/Community_structure_and_activity_of_sulfate_reducing_bacteria_in_an_intertidal_surface_sediment_a_multi_method_approach"}"><span class="material-symbols-outlined" style="font-size: 20px" translate="no">download</span>Download PDF</button><div id="js-react-on-rails-context" style="display:none" data-rails-context="{"inMailer":false,"i18nLocale":"en","i18nDefaultLocale":"en","href":"https://www.academia.edu/18458465/Community_structure_and_activity_of_sulfate_reducing_bacteria_in_an_intertidal_surface_sediment_a_multi_method_approach","location":"/18458465/Community_structure_and_activity_of_sulfate_reducing_bacteria_in_an_intertidal_surface_sediment_a_multi_method_approach","scheme":"https","host":"www.academia.edu","port":null,"pathname":"/18458465/Community_structure_and_activity_of_sulfate_reducing_bacteria_in_an_intertidal_surface_sediment_a_multi_method_approach","search":null,"httpAcceptLanguage":null,"serverSide":false}"></div> <div class="js-react-on-rails-component" style="display:none" data-component-name="CitationButton" data-props="{"entity_id":18458465,"citations":[{"name":"MLA","citation":"Finke, Niko, et al. “Community Structure and Activity of Sulfate-Reducing Bacteria in an Intertidal Surface Sediment: a Multi-Method Approach.” Aquatic Microbial Ecology, 2002."},{"name":"APA","citation":"Finke, N., Könneke, M., \u0026 Böttcher, M. E. (2002). Community structure and activity of sulfate-reducing bacteria in an intertidal surface sediment: a multi-method approach. Aquatic Microbial Ecology."},{"name":"Chicago","citation":"Finke, Niko, M. Könneke, and Michael E. Böttcher. “Community Structure and Activity of Sulfate-Reducing Bacteria in an Intertidal Surface Sediment: a Multi-Method Approach.” Aquatic Microbial Ecology, 2002."},{"name":"Vancouver","citation":"Finke N, Könneke M, Böttcher ME. Community structure and activity of sulfate-reducing bacteria in an intertidal surface sediment: a multi-method approach. Aquatic Microbial Ecology. 2002; "},{"name":"Harvard","citation":"Finke, N., Könneke, M. and Böttcher, M. E. 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Presumably abundant SRB from different sediment layers between 0.5 and 4 m depth were selectively enriched in up to million-fold diluted cultures supplemented with lactate, acetate or hydrogen. Partial 16S rRNA gene sequences obtained from highest dilution steps showing sulfide formation indicated growth of deltaproteobacterial SRB belonging to the Desulfobulbaceae and the Desulfobacteraceae as well as of members of the Firmicutes. Subsequent isolation resulted in 10 novel phylotypes of both litho- and organotrophic sulfate-reducing Deltaproteobacteria. Molecular pre-screening identified six isolates as members of the Desulfobulbaceae, sharing highest identities with either candidatus ‘Desulfobacterium corrodens’ (95–97%) or Desulfobacterium catecholicum (98%), and four isolates as members of Desulfobacteraceae, being related to either Desulfobacter psychrotolerans (98%) or Desulfobacula phenolica (95–97%). Relatives of D. phenolica were exlusively isolated from 50 and 100 cm deep sediments with 10 and 2 mM of pore water sulfate respectively. In contrast, relatives of D. corrodens, D. psychrotolerans and D. catecholicum were also obtained from layers deeper than 100 cm and with less than 2 mM sulfate. The high in situ abundance of members of both families in sediment layers beneath 50 cm could be confirmed via CARD-FISH analysis performed with a set of six SRB-specific oligonucleotide probes. Moreover, SRB represented a numerically significant fraction of the microbial community throughout the sediment (up to 7%) and reached even higher cell numbers in deep, sulfate-poor layers than in the sulfate-rich surface sediment. This relatively large community size of potentially active SRB in deep sandy sediments might on the one hand be a result of their syntrophic association with other anaerobes. Our results furthermore support the hypothesis that enhanced advective pore water transport might supply nutrients to microbial communities in deep sandy sediments and point to their so far unrecognized contribution to biogeochemical processes in Wadden Sea sediments.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"Identity and abundance of active sulfate-reducing bacteria in deep tidal flat sediments determined by directed cultivation and CARD-FISH analysis","attachmentId":49961514,"attachmentType":"pdf","work_url":"https://www.academia.edu/4282075/Identity_and_abundance_of_active_sulfate_reducing_bacteria_in_deep_tidal_flat_sediments_determined_by_directed_cultivation_and_CARD_FISH_analysis","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/4282075/Identity_and_abundance_of_active_sulfate_reducing_bacteria_in_deep_tidal_flat_sediments_determined_by_directed_cultivation_and_CARD_FISH_analysis"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="1" data-entity-id="102436226" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/102436226/Distribution_of_Sulfate_Reducing_Communities_from_Estuarine_to_Marine_Bay_Waters">Distribution of Sulfate-Reducing Communities from Estuarine to Marine Bay Waters</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="269572034" href="https://independent.academia.edu/elisabethCarlier">elisabeth Carlier</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Microbial Ecology, 2016</p><p class="ds-related-work--abstract ds2-5-body-sm">Estuaries are highly dynamic ecosystems in which freshwater and seawater mix together. Depending on tide and river inflows, particles originating from rivers or from the remobilization of sediments accumulate in the water column. Due to the salinity gradient and the high heterotrophic activity in the estuarine plume, hypoxic and anoxic microniches may form in oxygenated waters, sustaining favorable conditions for resuspended anaerobic microorganisms. In this context, we tested the hypothesis that anaerobic sulfate-reducing prokaryotes may occur in the water column of the Adour River. Using 16S ribosomal RNA (rRNA) and dsrAB-based terminal restriction fragment length polymorphism (T-RFLP) techniques, we characterized total prokaryotic and sulfatereducing communities along a gradient from estuarine to marine bay waters. Sulfate-reducing prokaryotes were further characterized by the description of dsrB genes and the cultivation of sulfidogenic anaerobic microorganisms. As a result, physical-chemical parameters had a significant effect on water bacterial diversity and community structure along the studied gradient. The concentration of cultured sulfidogenic microorganisms ranged from 1 to 60 × 10 3 cells l −1 in the water column. Sulfate-reducing prokaryotes occurring in estuarine waters were closely related to microorganisms previously detected in freshwater sediments, suggesting an estuarine origin, mainly by the remobilization of the sediments. In the marine bay station, sediment-derived sulfate-reducing prokaryotes were not cultured anymore, probably due to freshwater dilution, increasing salinity and extended oxic stress. Nevertheless, isolates related to the type strain Desulfovibrio oceani were cultured from the diluted plume and deep marine waters, indicating the occurrence of autochthonous sulfatereducing bacteria offshore.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"Distribution of Sulfate-Reducing Communities from Estuarine to Marine Bay Waters","attachmentId":102707713,"attachmentType":"pdf","work_url":"https://www.academia.edu/102436226/Distribution_of_Sulfate_Reducing_Communities_from_Estuarine_to_Marine_Bay_Waters","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/102436226/Distribution_of_Sulfate_Reducing_Communities_from_Estuarine_to_Marine_Bay_Waters"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="2" data-entity-id="21145421" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/21145421/The_distribution_and_activity_of_sulphate_reducing_bacteria_in_estuarine_and_coastal_marine_sediments">The distribution and activity of sulphate reducing bacteria in estuarine and coastal marine sediments</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="42331215" href="https://independent.academia.edu/DNedwell">D. Nedwell</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Antonie van Leeuwenhoek, 2002</p><p class="ds-related-work--abstract ds2-5-body-sm">Sulphate-reducing bacteria (SRB) play a vital role both the carbon and sulphur cycles and thus are extremely important components of the global microbial community. However, it is clear that the ecology, the distribution and activity of different SRB groups is poorly understood. Probing of rRNA suggests that different sediments have distinctly different patterns of SRB with complex factors controlling the activity of these organisms. The linking of community structure and function using sediment slurry microcosms suggests that certain groups of SRB, e.g., Desulfobacter and Desulfobulbus, can be linked to the use of specific substrates in situ. However, it is still unclear what environmental substrates are utilised by the majority of known SRBs. The work to date has greatly enhanced our understanding of the ecology of these organisms and is beginning to suggest patterns in their distribution and activity that may be relevant to understanding microbial ecology in general.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"The distribution and activity of sulphate reducing bacteria in estuarine and coastal marine sediments","attachmentId":41735320,"attachmentType":"pdf","work_url":"https://www.academia.edu/21145421/The_distribution_and_activity_of_sulphate_reducing_bacteria_in_estuarine_and_coastal_marine_sediments","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/21145421/The_distribution_and_activity_of_sulphate_reducing_bacteria_in_estuarine_and_coastal_marine_sediments"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="3" data-entity-id="20412233" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/20412233/Sulfate_reducing_bacteria_in_marine_sediment_Aarhus_Bay_Denmark_abundance_and_diversity_related_to_geochemical_zonation">Sulfate-reducing bacteria in marine sediment (Aarhus Bay, Denmark): abundance and diversity related to geochemical zonation</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="41803858" href="https://independent.academia.edu/LarsHolmkvist">Lars Holmkvist</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Environmental Microbiology, 2009</p><p class="ds-related-work--abstract ds2-5-body-sm">In order to better understand the main factors that influence the distribution of sulfate-reducing bacteria (SRB), their population size and their metabolic activity in high-and low-sulfate zones, we studied the SRB diversity in 3-to 5-m-deep sediment cores, which comprised the entire sulfate reduction zone and the upper methanogenic zone. By combining EMA (ethidium monoazide that can only enter damaged/ dead cells and may also bind to free DNA) treatment with real-time PCR, we determined the distributions of total intact bacteria (16S rDNA genes) and intact SRB (dsrAB gene), their relative population sizes, and the proportion of dead cells or free DNA with depth. The abundance of SRB corresponded in average to 13% of the total bacterial community in the sulfate zone, 22% in the sulfate-methane transition zone and 8% in the methane zone. Compared with the total bacterial community, there were relatively less dead/damaged cells and free DNA present than among the SRB and this fraction did not change systematically with depth. By DGGE analysis, based on the amplification of the dsrA gene (400 bp), we found that the richness of SRB did not change with depth through the geochemical zones; but the clustering was related to the chemical zonation. A full-length clone library of the dsrAB gene (1900 bp) was constructed from four different depths (20, 110, 280 and 500 cm), and showed that the dsrAB genes in the near-surface sediment (20 cm) was mainly composed of sequences close to the Desulfobacteraceae, including marine complete and incomplete oxidizers such as Desulfosarcina, Desulfobacterium and Desulfococcus. The three other libraries were predominantly composed of Gram-positive SRB.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"Sulfate-reducing bacteria in marine sediment (Aarhus Bay, Denmark): abundance and diversity related to geochemical zonation","attachmentId":41351691,"attachmentType":"pdf","work_url":"https://www.academia.edu/20412233/Sulfate_reducing_bacteria_in_marine_sediment_Aarhus_Bay_Denmark_abundance_and_diversity_related_to_geochemical_zonation","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/20412233/Sulfate_reducing_bacteria_in_marine_sediment_Aarhus_Bay_Denmark_abundance_and_diversity_related_to_geochemical_zonation"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="4" data-entity-id="5221607" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/5221607/Molecular_quantification_of_sulfate_reducing_microorganisms_carrying_dsrAB_genes_by_competitive_PCR_in_estuarine_sediments">Molecular quantification of sulfate-reducing microorganisms (carrying dsrAB genes) by competitive PCR in estuarine sediments</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="7120974" href="https://independent.academia.edu/LaurentQuillet">Laurent Quillet</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Fems Microbiology Ecology, 2004</p><p class="ds-related-work--abstract ds2-5-body-sm">The diversity of sulfate-reducing microorganisms was investigated in two contrasting mudflats of the Seine estuary, by PCR amplification, cloning and sequencing of the genes coding for parts of the alpha and beta subunits of dissimilatory sulfite reductase (dsrAB). One site is located in the mixing-zone and shows marine characteristics, with high salinity and sulfate concentration, whereas the other site shows freshwater characteristics, with low salinity and sulfate concentration. Diversity and abundance of dsrAB genes differed between the two sites. In the mixing-zone sediments, most of the dsrAB sequences were affiliated to those of marine Gram-negative bacteria belonging to the order of Desulfobacterales, whereas in the freshwater sediments, a majority of dsrAB sequences was related to those of the Gram-positive bacteria belonging to the genus Desulfotomaculum. It is speculated that this is related to the salinity and the sulfate concentration in the two mudflats.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"Molecular quantification of sulfate-reducing microorganisms (carrying dsrAB genes) by competitive PCR in estuarine sediments","attachmentId":49394053,"attachmentType":"pdf","work_url":"https://www.academia.edu/5221607/Molecular_quantification_of_sulfate_reducing_microorganisms_carrying_dsrAB_genes_by_competitive_PCR_in_estuarine_sediments","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/5221607/Molecular_quantification_of_sulfate_reducing_microorganisms_carrying_dsrAB_genes_by_competitive_PCR_in_estuarine_sediments"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="5" data-entity-id="13453574" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/13453574/Molecular_Diversity_of_Sulfate_Reducing_Bacteria_from_Two_Different_Continental_Margin_Habitats">Molecular Diversity of Sulfate-Reducing Bacteria from Two Different Continental Margin Habitats</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="32680735" href="https://independent.academia.edu/AllanDevol">Allan Devol</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Applied and Environmental Microbiology, 2003</p><p class="ds-related-work--abstract ds2-5-body-sm">This study examined the natural diversity and distributions of sulfate-reducing bacteria along a natural carbon gradient extending down the shelf-slope transition zone of the eastern Pacific continental margin. Dissimilatory (bi)sulfite reductase gene sequences (dsrAB) were PCR amplified and cloned from five different sampling sites, each at a discrete depth, from two different margin systems, one off the Pacific coast of Mexico and another off the coast of Washington State. A total of 1,762 clones were recovered and evaluated by restriction fragment length polymorphism (RFLP) analysis. The majority of the gene sequences recovered showed site and depth restricted distributions; however, a limited number of gene sequences were widely distributed within and between the margin systems. Cluster analysis identified 175 unique RFLP patterns, and nucleotide sequences were determined for corresponding clones. Several different continental margin DsrA sequences clustered with those from formally characterized taxa belonging to the delta subdivision of the class Proteobacteria (Desulfobulbus propionicus, Desulfosarcina variabilis) and the Bacillus-Clostridium (Desulfotomaculum putei) divisions, although the majority of the recovered sequences were phylogenetically divergent relative to all of the other DsrA sequences available for comparison. This study revealed extensive new genetic diversity among sulfate-reducing bacteria in continental margin sedimentary habitats, which appears to be tightly coupled to slope depth, specifically carbon bioavailability.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"Molecular Diversity of Sulfate-Reducing Bacteria from Two Different Continental Margin Habitats","attachmentId":45331069,"attachmentType":"pdf","work_url":"https://www.academia.edu/13453574/Molecular_Diversity_of_Sulfate_Reducing_Bacteria_from_Two_Different_Continental_Margin_Habitats","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/13453574/Molecular_Diversity_of_Sulfate_Reducing_Bacteria_from_Two_Different_Continental_Margin_Habitats"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="6" data-entity-id="92662589" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/92662589/Stratification_of_Sulfur_Species_and_Microbial_Community_in_Launched_Marine_Sediment_by_an_Improved_Sulfur_Fractionation_Method_and_16S_rRNA_Gene_Sequencing">Stratification of Sulfur Species and Microbial Community in Launched Marine Sediment by an Improved Sulfur-Fractionation Method and 16S rRNA Gene Sequencing</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="33010774" href="https://independent.academia.edu/TomoyukiHori">Tomoyuki Hori</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Microbes and Environments, 2019</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"Stratification of Sulfur Species and Microbial Community in Launched Marine Sediment by an Improved Sulfur-Fractionation Method and 16S rRNA Gene Sequencing","attachmentId":95611734,"attachmentType":"pdf","work_url":"https://www.academia.edu/92662589/Stratification_of_Sulfur_Species_and_Microbial_Community_in_Launched_Marine_Sediment_by_an_Improved_Sulfur_Fractionation_Method_and_16S_rRNA_Gene_Sequencing","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/92662589/Stratification_of_Sulfur_Species_and_Microbial_Community_in_Launched_Marine_Sediment_by_an_Improved_Sulfur_Fractionation_Method_and_16S_rRNA_Gene_Sequencing"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="7" data-entity-id="12986243" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/12986243/Community_Structure_Cellular_rRNA_Content_and_Activity_of_Sulfate_Reducing_Bacteria_in_Marine_Arctic_Sediments">Community Structure, Cellular rRNA Content, and Activity of Sulfate-Reducing Bacteria in Marine Arctic Sediments</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="32199525" href="https://mpi-bremen.academia.edu/RudolfAmann">Rudolf Amann</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Applied and Environmental Microbiology, 2000</p><p class="ds-related-work--abstract ds2-5-body-sm">The community structure of sulfate-reducing bacteria (SRB) of a marine Arctic sediment (Smeerenburgfjorden, Svalbard) was characterized by both fluorescence in situ hybridization (FISH) and rRNA slot blot hybridization by using group-and genus-specific 16S rRNA-targeted oligonucleotide probes. The SRB community was dominated by members of the Desulfosarcina-Desulfococcus group. This group accounted for up to 73% of the SRB detected and up to 70% of the SRB rRNA detected. The predominance was shown to be a common feature for different stations along the coast of Svalbard. In a top-to-bottom approach we aimed to further resolve the composition of this large group of SRB by using probes for cultivated genera. While this approach failed, directed cloning of probe-targeted genes encoding 16S rRNA was successful and resulted in sequences which were all affiliated with the Desulfosarcina-Desulfococcus group. A group of clone sequences (group SVAL1) most closely related to Desulfosarcina variabilis (91.2% sequence similarity) was dominant and was shown to be most abundant in situ, accounting for up to 54.8% of the total SRB detected. A comparison of the two methods used for quantification showed that FISH and rRNA slot blot hybridization gave comparable results. Furthermore, a combination of the two methods allowed us to calculate specific cellular rRNA contents with respect to localization in the sediment profile. The rRNA contents of Desulfosarcina-Desulfococcus cells were highest in the first 5 mm of the sediment (0.9 and 1.4 fg, respectively) and decreased steeply with depth, indicating that maximal metabolic activity occurred close to the surface. Based on SRB cell numbers, cellular sulfate reduction rates were calculated. The rates were highest in the surface layer (0.14 fmol cell ؊1 day ؊1 ), decreased by a factor of 3 within the first 2 cm, and were relatively constant in deeper layers.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"Community Structure, Cellular rRNA Content, and Activity of Sulfate-Reducing Bacteria in Marine Arctic Sediments","attachmentId":45800219,"attachmentType":"pdf","work_url":"https://www.academia.edu/12986243/Community_Structure_Cellular_rRNA_Content_and_Activity_of_Sulfate_Reducing_Bacteria_in_Marine_Arctic_Sediments","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/12986243/Community_Structure_Cellular_rRNA_Content_and_Activity_of_Sulfate_Reducing_Bacteria_in_Marine_Arctic_Sediments"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="8" data-entity-id="22959524" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/22959524/DIVERSITY_OF_SULFATE_REDUCING_GENES_dsrAB_IN_SEDIMENTS_FROM_PUGET_SOUND">DIVERSITY OF SULFATE-REDUCING GENES (dsrAB) IN SEDIMENTS FROM PUGET SOUND</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="42857770" href="https://umd-umich.academia.edu/SoniaTiquiaArashiro">Sonia Tiquia-Arashiro</a></div><p class="ds-related-work--abstract ds2-5-body-sm">The aims of this study were to characterize the population structure and diversity of sulfate-reducing bacteria (SRB) from three distinct sites at Puget Sound, and relate the biogeochemical properties of the sediments to the sulfate-reducer communities. The population composition and diversity of sulfate-reducing bacteria carrying dsr AB genes from surface Puget Sound sediments was investigated using a polymerase chain reaction-based cloning approach. Sediment cores were collected from three different locations: Carr Inlet (C1A), Shallow Bud Inlet (S1A), and Turning Basin (T1A). A total of 498 dsr AB clones were sequenced from the three sites. Ecological indices indicated that T1A had the highest diversity and evenness values and C1A had the lowest. Correlations were also found between diversity indices and geochemical parameters. The diversity of the SRB decreased with decreasing carbon concentrations and sulfate reduction rates, and increasing levels of oxygen. A phylogenetic comparison revealed that the majority of the dsr AB sequences were associated with the delta-proteobacterial phylotypes Desulfonema , Desulfococcus and Desulfosarcina , suggesting that complete oxidizers with high substrate versatility dominate in the sediments. The environmental conditions and energy sources available in the sediments may have dictated microbial community structure and diversity of SRBs. Distinctive community structures of SRBs in Puget Sound sediments were found to vary at different sites with different redox profiles. The dominance of the Desulfobacteraceae -like sequences may be due to the presence of a diverse spectrum of substrates in the sediments. This study represents one of the first efforts to characterize the population of sulfate-reducing microbes in the oxygenated regions of Puget Sound sediments. The phylogenetic identification of dsr AB genes in the sediment samples allows the composition of sulfate-reducing prokaryotic communities to be inferred, and working hypotheses about their likely carbon substrates to be formed.</p><div class="ds-related-work--ctas"><button class="ds2-5-text-link ds2-5-text-link--inline js-swp-download-button" data-signup-modal="{"location":"wsj-grid-card-download-pdf-modal","work_title":"DIVERSITY OF SULFATE-REDUCING GENES (dsrAB) IN SEDIMENTS FROM PUGET SOUND","attachmentId":43480624,"attachmentType":"pdf","work_url":"https://www.academia.edu/22959524/DIVERSITY_OF_SULFATE_REDUCING_GENES_dsrAB_IN_SEDIMENTS_FROM_PUGET_SOUND","alternativeTracking":true}"><span class="material-symbols-outlined" style="font-size: 18px" translate="no">download</span><span class="ds2-5-text-link__content">Download free PDF</span></button><a class="ds2-5-text-link ds2-5-text-link--inline js-wsj-grid-card-view-pdf" href="https://www.academia.edu/22959524/DIVERSITY_OF_SULFATE_REDUCING_GENES_dsrAB_IN_SEDIMENTS_FROM_PUGET_SOUND"><span class="ds2-5-text-link__content">View PDF</span><span class="material-symbols-outlined" style="font-size: 18px" translate="no">chevron_right</span></a></div></div><div class="ds-related-work--container js-wsj-grid-card" data-collection-position="9" data-entity-id="48327319" data-sort-order="default"><a class="ds-related-work--title js-wsj-grid-card-title ds2-5-body-md ds2-5-body-link" href="https://www.academia.edu/48327319/34S_32S_fractionation_by_sulfate_reducing_microbial_communities_in_estuarine_sediments">34S/32S fractionation by sulfate-reducing microbial communities in estuarine sediments</a><div class="ds-related-work--metadata"><a class="js-wsj-grid-card-author ds2-5-body-sm ds2-5-body-link" data-author-id="111880114" href="https://ucberkeley.academia.edu/CelinePallud">Celine Pallud</a></div><p class="ds-related-work--metadata ds2-5-body-xs">Geochimica et Cosmochimica Acta, 2011</p><p class="ds-related-work--abstract ds2-5-body-sm">Sulfur isotope fractionation during microbial sulfate reduction in brackish estuarine sediments was studied using an experimental flow-through reactor approach designed to preserve the in situ physical, geochemical and microbial structure of the sediment. Concurrent measurements of potential sulfate reduction rates and 34 S/ 32 S fractionations were carried out using intact sediment slices (2 cm thick, 4.2 cm diameter) from unvegetated, intertidal sites adjoining a salt marsh along the Scheldt estuary, The Netherlands. A total of 30 reactor experiments were performed with sediments collected in February, May and October 2006. The effects of incubation temperature (10, 20, 30 and 50°C) and sediment depth (0-2, 4-6 and 8-10 cm) were investigated. Sulfate was supplied in non-limiting concentrations via the reactor inflow solutions; no external electron donor was supplied. Isotope fractionations (e values) were calculated from the measured differences in sulfate d 34 S between in-and outflow solutions of the reactors, under quasi-steady state conditions. Potential sulfate reduction rates (SRR) varied over one order of magnitude (5-49 nmol cm À3 h À1) and were highest in the 30°C incubations. They decreased systematically with depth, and were highest in the sediments collected closest to the vegetated marsh. Isotope fractionations ranged from 9& to 34& and correlated inversely with SRR, as predicted by the standard fractionation model for enzymatic sulfate reduction of Rees (1973). The e versus SRR relationship, however, varied between sampling times, with higher e values measured in February, at comparable SRRs, than in May and October. The observed e versus SRR relationships also deviated from the previously reported inverse trend for sediments collected in a marine lagoon in Denmark (Canfield, 2001b). Thus, isotope fractionation during sulfate reduction is not uniquely determined by SRR, but is site-and time-dependent. Factors that may affect the e versus SRR relationship include the structure and size of the sulfate-reducing community, and the nature and accessibility of organic substrates. 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