Publications (22)121.45 Total impact
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Article: Microbial community analysis of deeply buried marine sediments of the New Jersey shallow shelf (IODP Expedition 313).
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ABSTRACT: The investigated deeply buried marine sediments of the shallow shelf off New Jersey, USA, are characterized by low organic carbon content and total cell counts of less than 10(7) cells/ mL sediment. The qPCR data for Bacteria and Archaea were in the same orders of magnitude as the total cell counts. Archaea and Bacteria occurred in similar 16S rRNA gene copy numbers in the upper part of the sediments, but Bacteria dominated in the lowermost part of the analyzed sediment cores down to a maximum analyzed depth of ~ 50 meters below seafloor (mbsf). The bacterial candidate division JS1 and the classes Anaerolineae and Caldinilineae of the Chloroflexi were almost as highly abundant as the total Bacteria. Similarly high dsrA gene copy numbers were found for sulfate reducers. The abundance of the Fe(III)- and Mn(IV)-reducers comprising Geobacteraceae in the upper ~ 15 mbsf correlated with concentrations of manganese and iron in the pore water. The isolated 16S rRNA gene sequences of Archaea in clone libraries could be allocated to the phyla Thaumarchaeota, Euryarchaeota and Crenarchaeota with 1%, 14% and 85%, respectively. The typical deep subsurface sediment associated groups MBG-B, MBG-D, MCG, and SAGMEG were represented in the sediment community. MCG was the dominant group with a high diversity of the isolated 16S rRNA gene sequences. This article is protected by copyright. All rights reserved.FEMS Microbiology Ecology 05/2013; · 3.41 Impact Factor -
Article: Quantification of Microbial Communities in Subsurface Marine Sediments of the Black Sea and off Namibia.
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ABSTRACT: Organic-rich subsurface marine sediments were taken by gravity coring up to a depth of 10 m below seafloor at six stations from the anoxic Black Sea and the Benguela upwelling system off Namibia during the research cruises Meteor 72-5 and 76-1, respectively. The quantitative microbial community composition at various sediment depths was analyzed using total cell counting, catalyzed reporter deposition - fluorescence in situ hybridization (CARD-FISH) and quantitative real-time PCR (Q-PCR). Total cell counts decreased with depths from 10(9) to 10(10) cells/mL at the sediment surface to 10(7)-10(9) cells/mL below one meter depth. Based on CARD-FISH and Q-PCR analyses overall similar proportions of Bacteria and Archaea were found. The down-core distribution of prokaryotic and eukaryotic small subunit ribosomal RNA genes (16S and 18S rRNA) as well as functional genes involved in different biogeochemical processes was quantified using Q-PCR. Crenarchaeota and the bacterial candidate division JS-1 as well as the classes Anaerolineae and Caldilineae of the phylum Chloroflexi were highly abundant. Less abundant but detectable in most of the samples were Eukarya as well as the metal and sulfate-reducing Geobacteraceae (only in the Benguela upwelling influenced sediments). The functional genes cbbL, encoding for the large subunit of RuBisCO, the genes dsrA and aprA, indicative of sulfate-reducers as well as the mcrA gene of methanogens were detected in the Benguela upwelling and Black Sea sediments. Overall, the high organic carbon content of the sediments goes along with high cell counts and high gene copy numbers, as well as an equal abundance of Bacteria and Archaea.Frontiers in microbiology. 01/2012; 3:16. -
Article: Real-Time PCR Quantification and Diversity Analysis of the Functional Genes aprA and dsrA of Sulfate-Reducing Prokaryotes in Marine Sediments of the Peru Continental Margin and the Black Sea.
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ABSTRACT: Sulfate-reducing prokaryotes (SRP) are ubiquitous and quantitatively important members in many ecosystems, especially in marine sediments. However their abundance and diversity in subsurface marine sediments is poorly understood. In this study, the abundance and diversity of the functional genes for the enzymes adenosine 5'-phosphosulfate reductase (aprA) and dissimilatory sulfite reductase (dsrA) of SRP in marine sediments of the Peru continental margin and the Black Sea were analyzed, including samples from the deep biosphere (ODP site 1227). For aprA quantification a Q-PCR assay was designed and evaluated. Depth profiles of the aprA and dsrA copy numbers were almost equal for all sites. Gene copy numbers decreased concomitantly with depth from around 10(8)/g sediment close to the sediment surface to less than 10(5)/g sediment at 5 mbsf. The 16S rRNA gene copy numbers of total bacteria were much higher than those of the functional genes at all sediment depths and used to calculate the proportion of SRP to the total Bacteria. The aprA and dsrA copy numbers comprised in average 0.5-1% of the 16S rRNA gene copy numbers of total bacteria in the sediments up to a depth of ca. 40 mbsf. In the zone without detectable sulfate in the pore water from about 40-121 mbsf (Peru margin ODP site 1227), only dsrA (but not aprA) was detected with copy numbers of less than 10(4)/g sediment, comprising ca. 14% of the 16S rRNA gene copy numbers of total bacteria. In this zone, sulfate might be provided for SRP by anaerobic sulfide oxidation. Clone libraries of aprA showed that all isolated sequences originate from SRP showing a close relationship to aprA of characterized species or form a new cluster with only distant relation to aprA of isolated SRP. For dsrA a high diversity was detected, even up to 121 m sediment depth in the deep biosphere.Frontiers in microbiology. 01/2011; 2:253. -
Article: Anaerobic Oxidation of Methane at a Marine Methane Seep in a Forearc Sediment Basin off Sumatra, Indian Ocean.
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ABSTRACT: A cold methane seep was discovered in a forearc sediment basin off the island Sumatra, exhibiting a methane-seep adapted microbial community. A defined seep center of activity, like in mud volcanoes, was not discovered. The seep area was rather characterized by a patchy distribution of active spots. The relevance of anaerobic oxidation of methane (AOM) was reflected by (13)C-depleted isotopic signatures of dissolved inorganic carbon. The anaerobic conversion of methane to CO(2) was confirmed in a (13)C-labeling experiment. Methane fueled a vital microbial community with cell numbers of up to 4 × 10(9) cells cm(-3) sediment. The microbial community was analyzed by total cell counting, catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH), quantitative real-time PCR (qPCR), and denaturing gradient gel electrophoresis (DGGE). CARD-FISH cell counts and qPCR measurements showed the presence of Bacteria and Archaea, but only small numbers of Eukarya. The archaeal community comprised largely members of ANME-1 and ANME-2. Furthermore, members of the Crenarchaeota were frequently detected in the DGGE analysis. Three major bacterial phylogenetic groups (δ-Proteobacteria, candidate division OP9, and Anaerolineaceae) were abundant across the study area. Several of these sequences were closely related to the genus Desulfococcus of the family Desulfobacteraceae, which is in good agreement with previously described AOM sites. In conclusion, the majority of the microbial community at the seep consisted of AOM-related microorganisms, while the relevance of higher hydrocarbons as microbial substrates was negligible.Frontiers in microbiology. 01/2011; 2:249. -
Article: The deep biosphere in terrestrial sediments in the chesapeake bay area, virginia, USA.
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ABSTRACT: For the first time quantitative data on the abundance of Bacteria, Archaea, and Eukarya in deep terrestrial sediments are provided using multiple methods (total cell counting, quantitative real-time PCR, Q-PCR and catalyzed reporter deposition-fluorescence in situ hybridization, CARD-FISH). The oligotrophic (organic carbon content of ∼0.2%) deep terrestrial sediments in the Chesapeake Bay area at Eyreville, Virginia, USA, were drilled and sampled up to a depth of 140 m in 2006. The possibility of contamination during drilling was checked using fluorescent microspheres. Total cell counts decreased from 10(9) to 10(6) cells/g dry weight within the uppermost 20 m, and did not further decrease with depth below. Within the top 7 m, a significant proportion of the total cell counts could be detected with CARD-FISH. The CARD-FISH numbers for Bacteria were about an order of magnitude higher than those for Archaea. The dominance of Bacteria over Archaea was confirmed by Q-PCR. The down core quantitative distribution of prokaryotic and eukaryotic small subunit ribosomal RNA genes as well as functional genes involved in different biogeochemical processes was revealed by Q-PCR for the uppermost 10 m and for 80-140 m depth. Eukarya and the Fe(III)- and Mn(IV)-reducing bacterial group Geobacteriaceae were almost exclusively found in the uppermost meter (arable soil), where reactive iron was detected in higher amounts. The bacterial candidate division JS-1 and the classes Anaerolineae and Caldilineae of the phylum Chloroflexi, highly abundant in marine sediments, were found up to the maximum sampling depth in high copy numbers at this terrestrial site as well. A similar high abundance of the functional gene cbbL encoding for the large subunit of RubisCO suggests that autotrophic microorganisms could be relevant in addition to heterotrophs. The functional gene aprA of sulfate reducing bacteria was found within distinct layers up to ca. 100 m depth in low copy numbers. The gene mcrA of methanogens was not detectable. Cloning and sequencing data of 16S rRNA genes revealed sequences of typical soil Bacteria. The closest relatives of the archaeal sequences were Archaea recovered from terrestrial and marine environments. Phylogenetic analysis of the Crenarchaeota and Euryarchaeota revealed new members of the uncultured South African Gold Mine Group, Deep Sea Hydrothermal Vent Euryarchaeotal Group 6, and Miscellaneous Crenarcheotic Group clusters.Frontiers in microbiology. 01/2011; 2:156. -
Article: High abundance of JS-1- and Chloroflexi-related Bacteria in deeply buried marine sediments revealed by quantitative, real-time PCR.
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ABSTRACT: Sequences of members of the bacterial candidate division JS-1 and the classes Anaerolineae and Caldilineae of the phylum Chloroflexi are frequently found in 16S rRNA gene clone libraries obtained from marine sediments. Using a newly designed quantitative, real-time PCR assay, these bacterial groups were jointly quantified in samples from near-surface and deeply buried marine sediments from the Peru margin, the Black Sea, and a forearc basin off the island of Sumatra. In near-surface sediments, sequences of the JS-1 as well as Anaerolineae- and Caldilineae-related Bacteria were quantified with significantly lower 16S rRNA gene copy numbers than the sequences of total Bacteria. In contrast, in deeply buried sediments below approximately 1 m depth, similar quantities of the 16S rRNA gene copies of these specific groups and Bacteria were found. This finding indicates that JS-1 and Anaerolineae- and Caldilineae-related Bacteria might dominate the bacterial community in deeply buried marine sediments and thus seem to play an important ecological role in the deep biosphere.FEMS Microbiology Ecology 01/2010; 72(2):198-207. · 3.41 Impact Factor -
Article: Subseafloor microbial communities associated with rapid turbidite deposition in the Gulf of Mexico continental slope (IODP Expedition 308).
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ABSTRACT: The subseafloor microbial communities in the turbidite depositional basins Brazos-Trinity Basin IV (BT Basin) and the Mars-Ursa Basin (Ursa Basin) on the Gulf of Mexico continental slope (IODP holes U1319A, U1320A, U1322B and U1324B) were investigated by PCR-dependent molecular analyses targeted to the small subunit (SSU) rRNA genes, dsrA and mcrA, and hydrogenase activity measurements. Biomass at both basins was very low, with the maximum cell or the SSU rRNA gene copy number <1 x 10(7) cells mL(-1) or copies g(-1) sediments, respectively. Hydrogenase activity correlated with biomass estimated by SSU rRNA gene copy number when all data sets were combined. We detected differences in the SSU rRNA gene community structures and SSU rRNA gene copy numbers between the basin-fill and basement sediments in the BT Basin. Examination of microbial communities and hydrogenase activity in the context of geochemical and geophysical parameters and sediment depositional environments revealed that differences in microbial community composition between the basin-fill and basement sediments in the BT Basin were associated with sedimentation regimes tied to the sea-level change. This may also explain the distributions of relatively similar archaeal communities in the Ursa Basin sediments and basement sediments in the BT Basin.FEMS Microbiology Ecology 08/2009; 69(3):410-24. · 3.41 Impact Factor -
Article: Subsurface microbiology and biogeochemistry of a deep, cold-water carbonate mound from the Porcupine Seabight (IODP Expedition 307).
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ABSTRACT: The Porcupine Seabight Challenger Mound is the first carbonate mound to be drilled (approximately 270 m) and analyzed in detail microbiologically and biogeochemically. Two mound sites and a non-mound Reference site were analyzed with a range of molecular techniques [catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH), quantitative PCR (16S rRNA and functional genes, dsrA and mcrA), and 16S rRNA gene PCR-DGGE] to assess prokaryotic diversity, and this was compared with the distribution of total and culturable cell counts, radiotracer activity measurements and geochemistry. There was a significant and active prokaryotic community both within and beneath the carbonate mound. Although total cell numbers at certain depths were lower than the global average for other subseafloor sediments and prokaryotic activities were relatively low (iron and sulfate reduction, acetate oxidation, methanogenesis) they were significantly enhanced compared with the Reference site. In addition, there was some stimulation of prokaryotic activity in the deepest sediments (Miocene, > 10 Ma) including potential for anaerobic oxidation of methane activity below the mound base. Both Bacteria and Archaea were present, with neither dominant, and these were related to sequences commonly found in other subseafloor sediments. With an estimate of some 1600 mounds in the Porcupine Basin alone, carbonate mounds may represent a significant prokaryotic subseafloor habitat.Environmental Microbiology 10/2008; 11(1):239-57. · 5.84 Impact Factor -
Article: Microbial Methane Formation from Hard Coal and Timber in an Abandoned Coal Mine
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ABSTRACT: About 7% of the global annual methane emissions originate from coal mining. Also, mine gas has come into focus of the power industry and is being used increasingly for heat and power production. In many coal deposits worldwide, stable carbon and hydrogen isotopic signatures of methane indicate a mixed thermogenic and biogenic origin. In this study, we have measured in an abandoned coal mine methane fluxes and isotopic signatures of methane and carbon dioxide, and collected samples for microbiological and phylogenetic investigations. Mine timber and hard coal showed an in-situ production of methane with isotopic signatures similar to those of the methane in the mine atmosphere. Enrichment cultures amended with mine timber or hard coal as sole carbon sources formed methane over a period of nine months. Predominantly, acetoclastic methanogenesis was stimulated in enrichments containing acetate or hydrogen/carbon dioxide. Molecular techniques revealed that the archaeal community in enrichment cultures and unamended samples was dominated by members of the Methanosarcinales. The combined geochemical and microbiological investigations identify microbial methanogenesis as a recent source of methane in abandoned coal mines.Geomicrobiology 09/2008; 25(6):315-321. · 2.02 Impact Factor -
Article: Quantitative microbial community analysis of three different sulfidic mine tailing dumps generating acid mine drainage.
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ABSTRACT: The microbial communities of three different sulfidic and acidic mine waste tailing dumps located in Botswana, Germany, and Sweden were quantitatively analyzed using quantitative real-time PCR (Q-PCR), fluorescence in situ hybridization (FISH), catalyzed reporter deposition-FISH (CARD-FISH), Sybr green II direct counting, and the most probable number (MPN) cultivation technique. Depth profiles of cell numbers showed that the compositions of the microbial communities are greatly different at the three sites and also strongly varied between zones of oxidized and unoxidized tailings. Maximum cell numbers of up to 10(9) cells g(-1) dry weight were determined in the pyrite or pyrrhotite oxidation zones, whereas cell numbers in unoxidized tailings were significantly lower. Bacteria dominated over Archaea and Eukarya at all tailing sites. The acidophilic Fe(II)- and/or sulfur-oxidizing Acidithiobacillus spp. dominated over the acidophilic Fe(II)-oxidizing Leptospirillum spp. among the Bacteria at two sites. The two genera were equally abundant at the third site. The acidophilic Fe(II)- and sulfur-oxidizing Sulfobacillus spp. were generally less abundant. The acidophilic Fe(III)-reducing Acidiphilium spp. could be found at only one site. The neutrophilic Fe(III)-reducing Geobacteraceae as well as the dsrA gene of sulfate reducers were quantifiable at all three sites. FISH analysis provided reliable data only for tailing zones with high microbial activity, whereas CARD-FISH, Q-PCR, Sybr green II staining, and MPN were suitable methods for a quantitative microbial community analysis of tailings in general.Applied and environmental microbiology 07/2008; 74(16):5211-9. · 3.69 Impact Factor -
Article: Inorganic carbon fixation by sulfate-reducing bacteria in the Black Sea water column.
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ABSTRACT: The Black Sea is the largest anoxic water basin on Earth and its stratified water column comprises an upper oxic, middle suboxic and a lower permanently anoxic, sulfidic zone. The abundance of sulfate-reducing bacteria (SRB) in water samples was determined by quantifying the copy number of the dsrA gene coding for the alpha subunit of the dissimilatory (bi)sulfite reductase using real-time polymerase chain reaction. The dsrA gene was detected throughout the whole suboxic and anoxic zones. The maximum dsrA copy numbers were 5 x 10(2) and 6.3 x 10(2) copies ml(-1) at 95 m in the suboxic and at 150 m in the upper anoxic zone, respectively. The proportion of SRB to total Bacteria was 0.1% in the oxic, 0.8-1.9% in the suboxic and 1.2-4.7% in the anoxic zone. A phylogenetic analysis of 16S rDNA clones showed that most clones from the anoxic zone formed a coherent cluster within the Desulfonema-Desulfosarcina group. A similar depth profile as for dsrA copy numbers was obtained for the concentration of non-isoprenoidal dialkyl glycerol diethers (DGDs), which are most likely SRB-specific lipid biomarkers. Three different DGDs were found to be major components of the total lipid fractions from the anoxic zone. The DGDs were depleted in (13)C relative to the delta(13)C values of dissolved CO(2) (delta(13)C(CO2)) by 14-19 per thousand. Their delta(13)C values [delta(13)C(DGD(II-III))] co-varied with depth showing the least (13)C-depleted values in the top of the sulfidic, anoxic zone and the most (13)C-depleted values in the deep anoxic waters at 1500 m. This co-variation provides evidence for CO(2) incorporation by the DGD(II-III)-producing SRB, while the 1:2 relationship between delta(13)C(CO2) and delta(13)C(DGD(II-III)) indicates the use of an additional organic carbon source.Environmental Microbiology 01/2008; 9(12):3019-24. · 5.84 Impact Factor -
Article: Aerobic and anaerobic methanotrophs in the Black Sea water column.
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ABSTRACT: Inputs of CH(4) from sediments, including methane seeps on the continental margin and methane-rich mud volcanoes on the abyssal plain, make the Black Sea the world's largest surface water reservoir of dissolved methane and drive a high rate of aerobic and anaerobic oxidation of methane in the water column. Here we present the first combined organic geochemical and molecular ecology data on a water column profile of the western Black Sea. We show that aerobic methanotrophs type I are responsible for methane oxidation in the oxic water column and ANME-1- and ANME-2-related organisms for anaerobic methane oxidation. The occurrence of methanotrophs type I cells in the anoxic zone suggests that inactive cells settle to deeper waters. Molecular and biomarker results suggest that a clear distinction between the occurrence of ANME-1- and ANME-2-related lineages exists, i.e. ANME-1-related organisms are responsible for anaerobic methane oxidation below 600 m water depth, whereas ANME-2-related organisms are responsible for this process in the anoxic water column above approximately 600 m water depth.Environmental Microbiology 11/2006; 8(10):1844-56. · 5.84 Impact Factor -
Article: Quantification of microbial communities in near-surface and deeply buried marine sediments on the Peru continental margin using real-time PCR.
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ABSTRACT: Deeply buried marine sediments harbour a large fraction of all prokaryotes on Earth but it is still unknown which phylogenetic and physiological microbial groups dominate the deep biosphere. In this study real-time PCR allowed a comparative quantitative microbial community analysis in near-surface and deeply buried marine sediments from the Peru continental margin. The 16S rRNA gene copy numbers of prokaryotes and Bacteria were almost identical with a maximum of 10(8)-10(10) copies cm(-3) in the near-surface sediments. Archaea exhibited one to three orders of magnitude lower 16S rRNA gene copy numbers. The 18S rRNA gene of Eukarya was always at least three orders of magnitude less abundant than the 16S rRNA gene of prokaryotes. The 16S rRNA gene of the Fe(III)- and Mn(IV)-reducing bacterial family Geobacteraceae and the dissimilatory (bi)sulfite reductase gene (dsrA) of sulfate-reducing prokaryotes were abundant with 10(6)-10(8) copies cm(-3) in near-surface sediments but showed lower numbers and an irregular distribution in the deep sediments. The copy numbers of all genes decreased with sediment depth exponentially. The depth gradients were steeper for the gene copy numbers than for numbers of total prokaryotes (acridine orange direct counts), which reflects the ongoing degradation of the high-molecular-weight DNA with sediment age and depth. The occurrence of eukaryotic DNA also suggests DNA preservation in the deeply buried sediments.Environmental Microbiology 08/2006; 8(7):1251-60. · 5.84 Impact Factor -
Article: Nocardioides oleivorans sp. nov., a novel crude-oil-degrading bacterium.
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ABSTRACT: The crude-oil-degrading strain BAS3(T) represents a novel Nocardioides species, according to a taxonomic study. The 16S rRNA gene sequence of strain BAS3(T) was most similar to that of Nocardioides ganghwensis (IMSNU 14028(T); 99% similarity), but the DNA-DNA relatedness to this type strain was only 32%. The physiological properties of strain BAS3(T) differ from those of N. ganghwensis (IMSNU 14028(T)) and other species of Nocardioides. The diamino acid in the cell-wall peptidoglycan of strain BAS3(T) is LL-diaminopimelic acid and the major menaquinone is MK-8(H(4)). The name Nocardioides oleivorans sp. nov. is proposed for the novel Nocardioides species, since its type strain, BAS3(T) (=DSM 16090(T)=NCIMB 14004(T)), is able to degrade crude oil.International journal of systematic and evolutionary microbiology 08/2005; 55(Pt 4):1501-4. · 2.27 Impact Factor -
Article: Microbacterium oleivorans sp. nov. and Microbacterium hydrocarbonoxydans sp. nov., novel crude-oil-degrading Gram-positive bacteria.
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ABSTRACT: A taxonomic study of two crude-oil-degrading, Gram-positive bacterial strains, designated BAS69(T) and BNP48(T), revealed that they represent two novel Microbacterium species. 16S rRNA gene sequence similarity to their closest phylogenetic neighbours was 98.5 % for BAS69(T) (Microbacterium paraoxydans DSM 15019(T) and Microbacterium saperdae DSM 20169(T)) and 99 % for BNP48(T) (Microbacterium luteolum DSM 20143(T)). Levels of DNA-DNA relatedness to the closest phylogenetic neighbours of both strains were between 11 and 38 %. According to phylogenetic analysis, the two strains are distinguishable from all recognized species of Microbacterium. Morphological and physiological characteristics of strains BAS69(T) and BNP48(T) were different from those of phylogenetically closely related Microbacterium species. The diamino acid in the cell-wall peptidoglycan of BAS69(T) is lysine and of BNP48(T) is ornithine. The major menaquinones are MK-11 and MK-12 for both strains. Based on their ability to degrade crude oil, the name Microbacterium oleivorans sp. nov. is proposed for strain BAS69(T) (=DSM 16091(T)=NCIMB 14003(T)) and Microbacterium hydrocarbonoxydans is proposed for strain BNP48(T) (=DSM 16089(T)=NCIMB 14002(T)).International journal of systematic and evolutionary microbiology 04/2005; 55(Pt 2):655-60. · 2.27 Impact Factor -
Article: Prokaryotic cells of the deep sub-seafloor biosphere identified as living bacteria.
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ABSTRACT: Chemical analyses of the pore waters from hundreds of deep ocean sediment cores have over decades provided evidence for ongoing processes that require biological catalysis by prokaryotes. This sub-seafloor activity of microorganisms may influence the surface Earth by changing the chemistry of the ocean and by triggering the emission of methane, with consequences for the marine carbon cycle and even the global climate. Despite the fact that only about 1% of the total marine primary production of organic carbon is available for deep-sea microorganisms, sub-seafloor sediments harbour over half of all prokaryotic cells on Earth. This estimation has been calculated from numerous microscopic cell counts in sediment cores of the Ocean Drilling Program. Because these counts cannot differentiate between dead and alive cells, the population size of living microorganisms is unknown. Here, using ribosomal RNA as a target for the technique known as catalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH), we provide direct quantification of live cells as defined by the presence of ribosomes. We show that a large fraction of the sub-seafloor prokaryotes is alive, even in very old (16 million yr) and deep (> 400 m) sediments. All detectable living cells belong to the Bacteria and have turnover times of 0.25-22 yr, comparable to surface sediments.Nature 03/2005; 433(7028):861-4. · 36.28 Impact Factor -
Article: Distributions of microbial activities in deep subseafloor sediments.
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ABSTRACT: Diverse microbial communities and numerous energy-yielding activities occur in deeply buried sediments of the eastern Pacific Ocean. Distributions of metabolic activities often deviate from the standard model. Rates of activities, cell concentrations, and populations of cultured bacteria vary consistently from one subseafloor environment to another. Net rates of major activities principally rely on electron acceptors and electron donors from the photosynthetic surface world. At open-ocean sites, nitrate and oxygen are supplied to the deepest sedimentary communities through the underlying basaltic aquifer. In turn, these sedimentary communities may supply dissolved electron donors and nutrients to the underlying crustal biosphere.Science 01/2005; 306(5705):2216-21. · 31.20 Impact Factor -
Article: Quantification of dissimilatory (bi)sulphite reductase gene expression in Desulfobacterium autotrophicum using real-time RT-PCR.
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ABSTRACT: We developed a real-time RT-PCR method for the quantification of dissimilatory (bi)sulphite reductase (DSR) mRNA in Desulfobacterium autotrophicum cells. The amount of DSR mRNA was determined relative to the amount of 16S rRNA at different growth conditions during transition from exponential to stationary phase: sulphate respiration with lactate, thiosulphate respiration with lactate, sulphate respiration with H2 and pyruvate fermentation. The dsr gene was expressed constitutively, although DSR mRNA content per-cell varied under different growth conditions. The maximum DSR mRNA per-cell content was 2.0 to 4.1-fold higher during sulphate or thiosulphate respiration than during pyruvate fermentation. After transfer of a pyruvate-fermenting culture into sulphate-rich medium, upregulation of the DSR mRNA content was observed. Irrespective of the mode of metabolism the per-cell DSR mRNA content changed significantly during growth (up to 310-fold from the early to the late exponential phase during respiration with thiosulphate). The maximum DSR mRNA per-cell contents correlated with cell-specific sulphate reduction rates for all experiments. Environmental applications for the quantification of DSR mRNA are discussed.Environmental Microbiology 09/2003; 5(8):660-71. · 5.84 Impact Factor -
Article: Nocardiopsis metallicus sp. nov., a metal-leaching actinomycete isolated from an alkaline slag dump.
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ABSTRACT: A taxonomic study was carried out on a metal-mobilizing, alkaliphilic bacterium from an alkaline slag dump, strain KBS6(T). The strain produced substrate and aerial mycelia. Growth occurred in the pH range 7.0-10.5, with an optimum at pH 8.5. A salt concentration of up to 10% was tolerated, and various organic substrates were used for growth. The results of a 16S rDNA sequence comparison revealed that strain KBS6(T) belongs to the genus Nocardiopsis. DNA-DNA hybridization with the two closest relatives, Nocardiopsis exhalans and Nocardiopsis prasina, gave similarity values of 18.2 and 44.1%, respectively, which indicated that strain KBS6(T) represents a novel species of the genus Nocardiopsis. This is consistent with the morphological, physiological and chemotaxonomic data. Because of the ability of this micro-organism to solubilize metals, the name Nocardiopsis metallicus sp. nov. is proposed for strain KBS6(T) (= DSM 44598(T) = NRRL B-24159(T)), this being the type strain.International journal of systematic and evolutionary microbiology 12/2002; 52(Pt 6):2291-5. · 2.27 Impact Factor -
Article: Manganese(II) oxidation driven by lateral oxygen intrusions in the western Black Sea
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ABSTRACT: Mn(II) oxidation in the suboxic zone of the water column was studied at four stations in the western Black Sea. We measured Mn(II) oxidation rates using 54Mn tracer and tested the hypothesis of alternative oxidants for Mn(II) other than dissolved oxygen. In anoxic incubation experiments with water from different depths of the chemocline, Mn(II) was not oxidized by nitrite, nitrate, or iodate. In the presence of light, Mn(II) also was not oxidized under anoxic conditions as well. Anaerobic Mn(II) oxidizing microorganisms could not be enriched. In oxic incubation experiments, the addition of alternative oxidants did not significantly increase the Mn(II) oxidation rate. The lack of an anaerobic Mn(II) oxidation in our experiments does not unambiguously prove the absence of anaerobic Mn(II) oxidation in the Black Sea but suggests that dissolved oxygen is the only oxidant for biologically catalyzed Mn(II) oxidation. Lateral intrusions of modified Bosphorus water were shown to be the main mechanism providing dissolved oxygen in the suboxic and the upper anoxic zones and explaining observed Mn(II) oxidation rates. Maximum in situ Mn(II) oxidation rates in the suboxic zone were 1.1 nM Mn(II) per h in the central Black Sea, 25 nM Mn(II) per h on the Romanian continental slope and 60 nM Mn(II) per h on the Anatolian continental slope. These rates correlate with the amount of particulate Mn and the number of Mn-oxide particles and are in agreement with rates measured 13 yr before. Our study highlights the importance of lateral intrusions of oxygen for the ventilation of the suboxic zone and the anoxic interior and for the regulation of different oxidation-reduction processes in the chemocline, including Mn(II) oxidation, which may be significant for other anoxic basins as well.Geochimica et Cosmochimica Acta.
Top co-authors
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Institutions
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2002–2012
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Bundesanstalt für Geowissenschaften und Rohstoffe
Hannover, Lower Saxony, Germany
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2011
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Leibniz Universität Hannover
- Faculty of Natural Sciences
Hannover, Lower Saxony, Germany
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