Bacterial sulfur cycle shapes microbial communities in surface sediments of an ultramafic hydrothermal vent field

DEFF Research Database (Denmark)

Schauer, Regina; Røy, Hans; Augustin, Nico

2011-01-01

RNA sequence analysis, was characterized by the capability to metabolize sulfur components. High sulfate reduction rates as well as sulfide depleted in (34)S further confirmed the importance of the biogeochemical sulfur cycle. In contrast, methane was found to be of minor relevance for microbial life in mat......, these sediments were investigated in order to determine biogeochemical processes and key organisms relevant for primary production. Temperature profiling at two mat-covered sites showed a conductive heating of the sediments. Elemental sulfur was detected in the overlying mat and metal-sulfides in the upper...

Biomediated Precipitation of Calcium Carbonate in a Slightly Acidic Hot Spring

Science.gov (United States)

Jiang, L.

2015-12-01

A slightly acidic hot spring named "Female Tower" (T=73.5 °C, pH=6.64) is located in the Jifei Geothermal Field, Yunnan Province, Southwest China. The precipitates in the hot spring are composed of large amounts of calcite, aragonite, and sulfur. Scanning electron microscopy (SEM) analyses revealed that the microbial mats were formed of various coccoid, rod-shaped, and filamentous microbes. Transmission electron microscopy (TEM) showed that the intracellular sulfur granules were commonly associated with these microbes. A culture-independent molecular phylogenetic analysis demonstrated that the majority of the bacteria in the spring were sulfur-oxidizing bacteria. In the spring water, H2S concentration was up to 60 ppm, while SO42- concentration was only about 10 ppm. We speculated that H2S might be utilized by sulfur-oxidizing bacteria in this hot spring water, leading to the intracellular formation of sulfur granules. In the meantime, this reaction increased the pH in the micron-scale microdomains, which fostered the precipitation of calcium carbonate in the microbial mats. The results of this study indicated that the sulfur-oxidizing bacteria could play an important role in calcium carbonate precipitation in slightly acidic hot spring environments.

Molecular ecology of microbial mats

NARCIS (Netherlands)

Bolhuis, H.; Cretoiu, M.S.; Stal, L.J.

2014-01-01

Phototrophic microbial mats are ideal model systems for ecological and evolutionary analysis of highly diverse microbial communities. Microbial mats are small-scale, nearly closed, and self-sustaining benthic ecosystems that comprise the major element cycles, trophic levels, and food webs. The steep

Microbial Diversity and Lipid Abundance in Microbial Mats from a Sulfidic, Saline, Warm Spring in Utah, USA

Science.gov (United States)

Gong, J.; Edwardson, C.; Mackey, T. J.; Dzaugis, M.; Ibarra, Y.; Course 2012, G.; Frantz, C. M.; Osburn, M. R.; Hirst, M.; Williamson, C.; Hanselmann, K.; Caporaso, J.; Sessions, A. L.; Spear, J. R.

2012-12-01

The microbial diversity of Stinking Springs, a sulfidic, saline, warm spring northeast of the Great Salt Lake was investigated. The measured pH, temperature, salinity, and sulfide concentration along the flow path ranged from 6.64-7.77, 40-28° C, 2.9-2.2%, and 250 μM to negligible, respectively. Five sites were selected along the flow path and within each site microbial mats were dissected into depth profiles based on the color and texture of the mat layers. Genomic DNA was extracted from each layer, and the 16S rRNA gene was amplified and sequenced on the Roche 454 Titanium platform. Fatty acids were also extracted from the mat layers and analyzed by liquid chromatography and mass spectrometry. The mats at Stinking Springs were classified into roughly two morphologies with respect to their spatial distribution: loose, sometimes floating mats proximal to the spring source; and thicker, well-laminated mats distal to the spring source. Loosely-laminated mats were found in turbulent stream flow environments, whereas well-laminated mats were common in less turbulent sheet flows. Phototrophs, sulfur oxidizers, sulfate reducers, methanogens, other bacteria and archaea were identified by 16S rRNA gene sequences. Diatoms, identified by microscopy and lipid analysis were found to increase in abundance with distance from the source. Methanogens were generally more abundant in deeper mat laminae. Photoheterotrophs were found in all mat layers. Microbial diversity increased significantly with depth at most sites. In addition, two distinct microbial streamers were identified and characterized at the two fast flowing sites. These two streamer varieties were dominated by either cyanobacteria or flavobacteria. Overall, our genomic and lipid analysis suggest that the physical and chemical environment is more predictive of the community composition than mat morphology. Site Map

Community Structure of Lithotrophically-Driven Hydrothermal Microbial Mats from the Mariana Arc and Back-Arc

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Kevin W. Hager

2017-08-01

Full Text Available The Mariana region exhibits a rich array of hydrothermal venting conditions in a complex geological setting, which provides a natural laboratory to study the influence of local environmental conditions on microbial community structure as well as large-scale patterns in microbial biogeography. We used high-throughput amplicon sequencing of the bacterial small subunit (SSU rRNA gene from 22 microbial mats collected from four hydrothermally active locations along the Mariana Arc and back-arc to explore the structure of lithotrophically-based microbial mat communities. The vent effluent was classified as iron- or sulfur-rich corresponding with two distinct community types, dominated by either Zetaproteobacteria or Epsilonproteobacteria, respectively. The Zetaproteobacterial-based communities had the highest richness and diversity, which supports the hypothesis that Zetaproteobacteria function as ecosystem engineers creating a physical habitat within a chemical environment promoting enhanced microbial diversity. Gammaproteobacteria were also high in abundance within the iron-dominated mats and some likely contribute to primary production. In addition, we also compare sampling scale, showing that bulk sampling of microbial mats yields higher diversity than micro-scale sampling. We present a comprehensive analysis and offer new insights into the community structure and diversity of lithotrophically-driven microbial mats from a hydrothermal region associated with high microbial biodiversity. Our study indicates an important functional role of for the Zetaproteobacteria altering the mat habitat and enhancing community interactions and complexity.

Low-Light Anoxygenic Photosynthesis and Fe-S-Biogeochemistry in a Microbial Mat

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Sebastian Haas

2018-04-01

Full Text Available We report extremely low-light-adapted anoxygenic photosynthesis in a thick microbial mat in Magical Blue Hole, Abaco Island, The Bahamas. Sulfur cycling was reduced by iron oxides and organic carbon limitation. The mat grows below the halocline/oxycline at 30 m depth on the walls of the flooded sinkhole. In situ irradiance at the mat surface on a sunny December day was between 0.021 and 0.084 μmol photons m-2 s-1, and UV light (<400 nm was the most abundant part of the spectrum followed by green wavelengths (475–530 nm. We measured a light-dependent carbon uptake rate of 14.5 nmol C cm-2 d-1. A 16S rRNA clone library of the green surface mat layer was dominated (74% by a cluster (>97% sequence identity of clones affiliated with Prosthecochloris, a genus within the green sulfur bacteria (GSB, which are obligate anoxygenic phototrophs. Typical photopigments of brown-colored GSB, bacteriochlorophyll e and (β-isorenieratene, were abundant in mat samples and their absorption properties are well-adapted to harvest light in the available green and possibly even UV-A spectra. Sulfide from the water column (3–6 μmol L-1 was the main source of sulfide to the mat as sulfate reduction rates in the mats were very low (undetectable-99.2 nmol cm-3 d-1. The anoxic water column was oligotrophic and low in dissolved organic carbon (175–228 μmol L-1. High concentrations of pyrite (FeS2; 1–47 μmol cm-3 together with low microbial process rates (sulfate reduction, CO2 fixation indicate that the mats function as net sulfide sinks mainly by abiotic processes. We suggest that abundant Fe(III (4.3–22.2 μmol cm-3 is the major source of oxidizing power in the mat, and that abiotic Fe-S-reactions play the main role in pyrite formation. Limitation of sulfate reduction by low organic carbon availability along with the presence of abundant sulfide-scavenging iron oxides considerably slowed down sulfur cycling in these mats.

Effect of salinity on carbon and sulfur cycles in Umm Alhool sabkha microbial mat ecosystem in Qatar

KAUST Repository

Alnajjar, Mohammad Ahmad

2012-10-19

Microbial mats are only present under extreme conditions, where grazing by higher organisms is limited. Therefore, microbial mats may provide insight into extraterrestrial life, due to their adaptations to extreme temperatures, desiccation or salinity. They are faced with a diurnal cycle with variable length based on their location, which exposes them to extreme salinity conditions (i.e., water withdrawal and high evaporation). Cyanobacteria in the photic zone of a mat ecosystem supply the other microorganism with the required organic material to produce energy and grow. Subsequently, this will reproduce the nutrients needed by the phototrophs through elemental re-mineralization. In this work, we investigated the effect of water salinity that covers the microbial mat ecosystem of Umm Alhool sabkha, Qatar, regarding the most important processes within microbial mats: photosynthesis and sulfate reduction (SR). Our results showed that both photosynthetic and sulfate reduction rates decreased with increasing the salinity. The microbial community structure, assessed by 454 pyro-sequencing, revealed that the cyanobacterial community structure changed in response to the change in salinity. This was not the case for the sulfate reducer community structure, which stayed as it is in the mats incubated at different salinities. Therefore, we speculate that salinity affects the photosynthetic community structure, and consequently affects the photosynthetic activity of the whole ecosystem. However, sulfate reduction rates decreased due to less organic material supply from the upper layers and not due to change in microbial community structure of SR. Other factors such as the activity of the enzymes could also have an effect on SRR, but it was not investigated in this study.

Microbial mat of the thermal springs Kuchiger Republic of Buryatia: species composition, biochemical properties and electrogenic activity in biofuel cell

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Aleksandrovich Yuriev, Denis; Viktorovna Zaitseva, Svetlana; Olegovna Zhdanova, Galina; Yurievich Tolstoy, Mikhail; Dondokovna Barkhutova, Darima; Feodorovna Vyatchina, Olga; Yuryevna Konovalova, Elena; Iosifovich Stom, Devard

2018-02-01

Electrogenic, molecular and some other properties of a microbial mat isolated from the Kuchiger hot spring (Kurumkansky District, Republic of Buryatia) were studied. Molecular analysis showed that representatives of Proteobacteria (85.5 % of the number of classified bacterial sequences) prevailed in the microbial mat of the Kuchiger springs, among which sulfur bacteria of the genus Thiothrix were the most numerous. In the microbial mat there were bacteria from the families Rhodocyclaceae, Comamonadaceae and Flavobacteriaceae. Phylum Bacteroidetes, Cyanobacteria/Chloroplast, Fusobacteria, Fibrobacteres, Acidobacteria, Chlorobi, Spirochaetes, Verrucomicrobia, Firmicutes, Deinococcus-Thermus, Chloroflexi and Actinobacteria are also noted in the composition of the microbial mat. Under the experimental conditions using Kuchiger-mat 16 as bioagents, glucose and peptone as substrates, the power of BFC was 240 and 221 mW / m2, respectively. When replacing the substrate with sodium acetate, the efficiency of the BFC was reduced by a factor of 10 (20 mW / m2). The prospects of using a microbial mat “Kuchiger-16” as an electrogen in BFC when utilizing alkaline waste water components to generate electricity are discussed.

Microbial mats in Antarctica as models for the search of life on the Jovian moon Europa

International Nuclear Information System (INIS)

Dudeja, S.; Bhattacherjee, A.B.; Chela-Flores, J.

2008-06-01

The possibility of sulfur patches on the Jovian satellite Europa being of biogenic origin is discussed. The presence of microbial mats and the accumulation of sulfur on the surface of some Antarctic subglacial lakes are correlated with the sulfur traces found on Europa by means of microbiological processes. Special attention has been paid to the influence of temperature and radiation on the icy surface of this Jovian satellite. An optimum penetration depth to look for biomarkers is proposed based on biogeochemical parameters. (author)

Microbial diversity in sediment ecosystems (evaporites domes, microbial mats and crusts of hypersaline Laguna Tebenquiche, Salar de Atacama, Chile

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Ana Beatriz Fernandez

2016-08-01

Full Text Available We combined nucleic acid-based molecular methods, biogeochemical measurements and physicochemical characteristics to investigate microbial sedimentary ecosystems of Laguna Tebenquiche, Atacama Desert, Chile. Molecular diversity and biogeochemistry of hypersaline microbial mats, rhizome-associated concretions and an endoevaporite were compared with: The V4 hypervariable region of the 16S rRNA gene was amplified by pyrosequencing to analyze the total microbial diversity (i.e., bacteria and archaea in bulk samples and, in addition, in detail on a millimeter scale in one microbial mat and in one evaporite. Archaea were more abundant than bacteria. Euryarchaeota was one of the most abundant phyla in all samples, and particularly dominant (97% of total diversity in the most lithified ecosystem, the evaporite. Most of the euryarchaeal OTUs could be assigned to the class Halobacteria or anaerobic and methanogenic archaea. Planctomycetes potentially also play a key role in mats and rhizome-associated concretions, notably the aerobic organoheterotroph members of the class Phycisphaerae. In addition to cyanobacteria, members of Chromatiales and possibly the candidate family Chlorotrichaceae contributed to photosynthetic carbon fixation. Other abundant uncultured taxa such as the candidate division MSBL1, the uncultured MBGB and the phylum Acetothermia potentially play an important metabolic role in these ecosystems. Lithifying microbial mats contained calcium carbonate precipitates, whereas endoevoporites consisted of gypsum and halite. Biogeochemical measurements revealed that based on depth profiles of O2 and sulfide, metabolic activities were much higher in the non-lithifying mat (peaking in the least lithified systems than in lithifying mats with the lowest activity in endoevaporites. This trend in decreasing microbial activity reflects the increase in salinity, which may play an important role in the biodiversity.

Calcium dynamics in microbialite-forming exopolymer-rich mats on the atoll of Kiritimati, Republic of Kiribati, Central Pacific.

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Ionescu, D; Spitzer, S; Reimer, A; Schneider, D; Daniel, R; Reitner, J; de Beer, D; Arp, G

2015-03-01

Microbialite-forming microbial mats in a hypersaline lake on the atoll of Kiritimati were investigated with respect to microgradients, bulk water chemistry, and microbial community composition. O2, H2S, and pH microgradients show patterns as commonly observed for phototrophic mats with cyanobacteria-dominated primary production in upper layers, an intermediate purple layer with sulfide oxidation, and anaerobic bottom layers with sulfate reduction. Ca(2+) profiles, however, measured in daylight showed an increase of Ca(2+) with depth in the oxic zone, followed by a sharp decline and low concentrations in anaerobic mat layers. In contrast, dark measurements show a constant Ca(2+) concentration throughout the entire measured depth. This is explained by an oxygen-dependent heterotrophic decomposition of Ca(2+)-binding exopolymers. Strikingly, the daylight maximum in Ca(2+) and subsequent drop coincides with a major zone of aragonite and gypsum precipitation at the transition from the cyanobacterial layer to the purple sulfur bacterial layer. Therefore, we suggest that Ca(2+) binding exopolymers function as Ca(2+) shuttle by their passive downward transport through compression, triggering aragonite precipitation in the mats upon their aerobic microbial decomposition and secondary Ca(2+) release. This precipitation is mediated by phototrophic sulfide oxidizers whose action additionally leads to the precipitation of part of the available Ca(2+) as gypsum. © 2014 John Wiley & Sons Ltd.

A Modeling Comparison of Methanogenesis from Noncompetitive vs Competitive Substrates in a Simulated Hypersaline Microbial Mat

Science.gov (United States)

Decker, K. L.; Potter, C.; Hoehler, T.

2005-12-01

The well-documented assumption about methanogens that co-occur in hypersaline mat communities with sulfate-reducing bacteria (SRB) is that they rely entirely on non-competitive substrates for methanogenesis. The reason for this is that during sulfate reduction, sulfur-reducing bacteria efficiently utilize H2, leaving a concentration too low for methanogenesis. Early results from recent work on a hypersaline microbial mat from salt evaporation ponds of Guerrero Negro, Baja, Mexico cast doubt that methanogenesis only occurs via non-competitive substrates, because it shows an excess of H2 in the mat rather than a paucity. We explore the use of our simulation model of the microbial biogeochemistry of a hypersaline mat (named MBGC) to compare methane production rates in a 1 cm thick mat when the methanogens use competitive substrates versus noncompetitive substrates. In the `non-competitive substrate' version of the model, methanogens rely exclusively on methylated amines that are accumulated as compatible solutes in cyanobacteria and released after lysis. In contrast, the `competitive substrate' models examine methanogen use of substrates (such as H2 + acetate) with different SRB population sizes (from absent to low). The comparison of these models of methane and sulfide biogeochemistry of a hypersaline mat has both ecological and geobiological significance, as one hypothesis of Archean microbial mats is that they existed in a low sulfate environment.

Spatial structure and activity of sedimentary microbial communities underlying a Beggiatoa spp. mat in a Gulf of Mexico hydrocarbon seep.

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Karen G Lloyd

Full Text Available BACKGROUND: Subsurface fluids from deep-sea hydrocarbon seeps undergo methane- and sulfur-cycling microbial transformations near the sediment surface. Hydrocarbon seep habitats are naturally patchy, with a mosaic of active seep sediments and non-seep sediments. Microbial community shifts and changing activity patterns on small spatial scales from seep to non-seep sediment remain to be examined in a comprehensive habitat study. METHODOLOGY/PRINCIPAL FINDINGS: We conducted a transect of biogeochemical measurements and gene expression related to methane- and sulfur-cycling at different sediment depths across a broad Beggiatoa spp. mat at Mississippi Canyon 118 (MC118 in the Gulf of Mexico. High process rates within the mat ( approximately 400 cm and approximately 10 cm from the mat's edge contrasted with sharply diminished activity at approximately 50 cm outside the mat, as shown by sulfate and methane concentration profiles, radiotracer rates of sulfate reduction and methane oxidation, and stable carbon isotopes. Likewise, 16S ribosomal rRNA, dsrAB (dissimilatory sulfite reductase and mcrA (methyl coenzyme M reductase mRNA transcripts of sulfate-reducing bacteria (Desulfobacteraceae and Desulfobulbaceae and methane-cycling archaea (ANME-1 and ANME-2 were prevalent at the sediment surface under the mat and at its edge. Outside the mat at the surface, 16S rRNA sequences indicated mostly aerobes commonly found in seawater. The seep-related communities persisted at 12-20 cm depth inside and outside the mat. 16S rRNA transcripts and V6-tags reveal that bacterial and archaeal diversity underneath the mat are similar to each other, in contrast to oxic or microoxic habitats that have higher bacterial diversity. CONCLUSIONS/SIGNIFICANCE: The visual patchiness of microbial mats reflects sharp discontinuities in microbial community structure and activity over sub-meter spatial scales; these discontinuities have to be taken into account in geochemical and

Photosynthetic Microbial Mats are Exemplary Sources of Diverse Biosignatures (Invited)

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Des Marais, D. J.; Jahnke, L. L.

2013-12-01

microorganisms as well as networks of C flow within mats; thus they offer insights about community structure. For example, relative 13C/12C values of individual lipid biosignatures can indicate trophic relationships between key groups of microorganisms. Mat microenvironments can affect the stability of authigenic minerals and alter the chemical compositions and crystal forms of carbonate, sulfate and metal oxide minerals. Interactions between low molecular weight organic compounds and sulfides in mat pore waters can produce alkyl sulfide gases. Processes associated with these physically coherent biofilms can trap and bind detrital grains, enhance mineral precipitation or dissolution, and stabilize sediment surfaces. Accordingly mats can create distinctive sedimentary fabrics and structures. Stromatolites are the most ancient, widespread examples of such fabrics and structures. Thus photosynthetic microbial mats create diverse biosignatures that, when preserved in the geologic record, can help to identify the former presence of key populations of microorganisms and reveal key processes that occurred within ancient mats as well as the interactions between those ecosystems and their environment.

Phylogenetic analysis of a microbialite-forming microbial mat from a hypersaline lake of the Kiritimati atoll, Central Pacific.

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Schneider, Dominik; Arp, Gernot; Reimer, Andreas; Reitner, Joachim; Daniel, Rolf

2013-01-01

On the Kiritimati atoll, several lakes exhibit microbial mat-formation under different hydrochemical conditions. Some of these lakes trigger microbialite formation such as Lake 21, which is an evaporitic, hypersaline lake (salinity of approximately 170‰). Lake 21 is completely covered with a thick multilayered microbial mat. This mat is associated with the formation of decimeter-thick highly porous microbialites, which are composed of aragonite and gypsum crystals. We assessed the bacterial and archaeal community composition and its alteration along the vertical stratification by large-scale analysis of 16S rRNA gene sequences of the nine different mat layers. The surface layers are dominated by aerobic, phototrophic, and halotolerant microbes. The bacterial community of these layers harbored Cyanobacteria (Halothece cluster), which were accompanied with known phototrophic members of the Bacteroidetes and Alphaproteobacteria. In deeper anaerobic layers more diverse communities than in the upper layers were present. The deeper layers were dominated by Spirochaetes, sulfate-reducing bacteria (Deltaproteobacteria), Chloroflexi (Anaerolineae and Caldilineae), purple non-sulfur bacteria (Alphaproteobacteria), purple sulfur bacteria (Chromatiales), anaerobic Bacteroidetes (Marinilabiacae), Nitrospirae (OPB95), Planctomycetes and several candidate divisions. The archaeal community, including numerous uncultured taxonomic lineages, generally changed from Euryarchaeota (mainly Halobacteria and Thermoplasmata) to uncultured members of the Thaumarchaeota (mainly Marine Benthic Group B) with increasing depth.

Phylogenetic analysis of a microbialite-forming microbial mat from a hypersaline lake of the Kiritimati atoll, Central Pacific.

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Dominik Schneider

Full Text Available On the Kiritimati atoll, several lakes exhibit microbial mat-formation under different hydrochemical conditions. Some of these lakes trigger microbialite formation such as Lake 21, which is an evaporitic, hypersaline lake (salinity of approximately 170‰. Lake 21 is completely covered with a thick multilayered microbial mat. This mat is associated with the formation of decimeter-thick highly porous microbialites, which are composed of aragonite and gypsum crystals. We assessed the bacterial and archaeal community composition and its alteration along the vertical stratification by large-scale analysis of 16S rRNA gene sequences of the nine different mat layers. The surface layers are dominated by aerobic, phototrophic, and halotolerant microbes. The bacterial community of these layers harbored Cyanobacteria (Halothece cluster, which were accompanied with known phototrophic members of the Bacteroidetes and Alphaproteobacteria. In deeper anaerobic layers more diverse communities than in the upper layers were present. The deeper layers were dominated by Spirochaetes, sulfate-reducing bacteria (Deltaproteobacteria, Chloroflexi (Anaerolineae and Caldilineae, purple non-sulfur bacteria (Alphaproteobacteria, purple sulfur bacteria (Chromatiales, anaerobic Bacteroidetes (Marinilabiacae, Nitrospirae (OPB95, Planctomycetes and several candidate divisions. The archaeal community, including numerous uncultured taxonomic lineages, generally changed from Euryarchaeota (mainly Halobacteria and Thermoplasmata to uncultured members of the Thaumarchaeota (mainly Marine Benthic Group B with increasing depth.

Diazotrophic microbial mats

NARCIS (Netherlands)

Severin, I.; Stal, L.J.; Seckbach, J.; Oren, A.

2010-01-01

Microbial mats have been the focus of scientific research for a few decades. These small-scale ecosystems are examples of versatile benthic communities of microorganisms, usually dominated by phototrophic bacteria (e.g., Krumbein et al., 1977; Jørgensen et al., 1983). They develop as vertically

Microbial mat ecosystems: Structure types, functional diversity, and biotechnological application

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Cristina M. Prieto-Barajas

2018-01-01

Full Text Available Microbial mats are horizontally stratified microbial communities, exhibiting a structure defined by physiochemical gradients, which models microbial diversity, physiological activities, and their dynamics as a whole system. These ecosystems are commonly associated with aquatic habitats, including hot springs, hypersaline ponds, and intertidal coastal zones and oligotrophic environments, all of them harbour phototrophic mats and other environments such as acidic hot springs or acid mine drainage harbour non-photosynthetic mats. This review analyses the complex structure, diversity, and interactions between the microorganisms that form the framework of different types of microbial mats located around the globe. Furthermore, the many tools that allow studying microbial mats in depth and their potential biotechnological applications are discussed.

Microbial mat structures in profile: The Neoproterozoic Sonia Sandstone, Rajasthan, India

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Samanta, Pradip; Mukhopadhyay, Soumik; Mondal, Anudeb; Sarkar, Subir

2011-01-01

Ubiquitous microorganisms, especially cyanobacteria preferably grow on the sediment surface thereby producing microbial mats. In the absence of grazers and bioturbators, microbial mat is a unique feature of the Proterozoic. Most of the papers so far published described a wide variety of bed surface microbial mat structures with rare illustrations from sections perpendicular to bedding. Nonetheless, bed surface exposures are relatively rare in rock records. This limitation of bed surface exposures in rock records suggest that a study of microbial mats in bed-across sections is needed. The 60 m thick coastal marine interval of the Sonia Sandstone Formation is bounded between two terrestrial intervals, a transgressive lag at the base and an unconformity at the top, and has been chosen for exploration of microbial mat structures in bed-across sections. A wide variety of microbial mat-induced structures in bed-across sections are preserved within the coastal interval of the Sonia Sandstone. Though many of these structures are similar in some aspects with bed surface structures, some of those presented here are new. The palaeogeographic range of these microbial structures extends from supralittoral to neritic. Diagenetic alterations of microbial mats produce pyrite and those zones are suitable for the preservation of microbial remains. SEM and EDAX analyses show fossil preservation of filamentous microbial remains that confirm the presence of microbial mats within the coastal interval of the Sonia Sandstone. Effects of proliferation of microbial mats in the siliciclastic depositional setting are numerous. The mat-cover on sediment surfaces hinders reworking and/or erosion of the sediments thereby increases the net sedimentation rate. Successive deposition and preservation of thick microbial mat layer under reducing environments should have a great potential for hydrocarbon production and preservation and therefore these Proterozoic formations could be a target for

Studying Microbial Mat Functioning Amidst "Unexpected Diversity": Methodological Approaches and Initial Results from Metatranscriptomes of Mats Over Diel cycles, iTags from Long Term Manipulations, and Biogeochemical Cycling in Simplified Microbial Mats Constructed from Cultures

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Bebout, B.; Bebout, L. E.; Detweiler, A. M.; Everroad, R. C.; Lee, J.; Pett-Ridge, J.; Weber, P. K.

2014-12-01

Microbial mats are famously amongst the most diverse microbial ecosystems on Earth, inhabiting some of the most inclement environments known, including hypersaline, dry, hot, cold, nutrient poor, and high UV environments. The high microbial diversity of microbial mats makes studies of microbial ecology notably difficult. To address this challenge, we have been using a combination of metagenomics, metatranscriptomics, iTags and culture-based simplified microbial mats to study biogeochemical cycling (H2 production, N2 fixation, and fermentation) in microbial mats collected from Elkhorn Slough, Monterey Bay, California. Metatranscriptomes of microbial mats incubated over a diel cycle have revealed that a number of gene systems activate only during the day in Cyanobacteria, while the remaining appear to be constitutive. The dominant cyanobacterium in the mat (Microcoleus chthonoplastes) expresses several pathways for nitrogen scavenging undocumented in cultured strains, as well as the expression of two starch storage and utilization cycles. Community composition shifts in response to long term manipulations of mats were assessed using iTags. Changes in community diversity were observed as hydrogen fluxes increased in response to a lowering of sulfate concentrations. To produce simplified microbial mats, we have isolated members of 13 of the 15 top taxa from our iTag libraries into culture. Simplified microbial mats and simple co-cultures and consortia constructed from these isolates reproduce many of the natural patterns of biogeochemical cycling in the parent natural microbial mats, but against a background of far lower overall diversity, simplifying studies of changes in gene expression (over the short term), interactions between community members, and community composition changes (over the longer term), in response to environmental forcing.

Biodiversity of the microbial mat of the Garga hot spring.

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Rozanov, Alexey Sergeevich; Bryanskaya, Alla Victorovna; Ivanisenko, Timofey Vladimirovich; Malup, Tatyana Konstantinovna; Peltek, Sergey Evgenievich

2017-12-28

Microbial mats are a good model system for ecological and evolutionary analysis of microbial communities. There are more than 20 alkaline hot springs on the banks of the Barguzin river inflows. Water temperature reaches 75 °C and pH is usually 8.0-9.0. The formation of microbial mats is observed in all hot springs. Microbial communities of hot springs of the Baikal rift zone are poorly studied. Garga is the biggest hot spring in this area. In this study, we investigated bacterial and archaeal diversity of the Garga hot spring (Baikal rift zone, Russia) using 16S rRNA metagenomic sequencing. We studied two types of microbial communities: (i) small white biofilms on rocks in the points with the highest temperature (75 °C) and (ii) continuous thick phototrophic microbial mats observed at temperatures below 70 °C. Archaea (mainly Crenarchaeota; 19.8% of the total sequences) were detected only in the small biofilms. The high abundance of Archaea in the sample from hot springs of the Baikal rift zone supplemented our knowledge of the distribution of Archaea. Most archaeal sequences had low similarity to known Archaea. In the microbial mats, primary products were formed by cyanobacteria of the genus Leptolyngbya. Heterotrophic microorganisms were mostly represented by Actinobacteria and Proteobacteria in all studied samples of the microbial mats. Planctomycetes, Chloroflexi, and Chlorobi were abundant in the middle layer of the microbial mats, while heterotrophic microorganisms represented mostly by Firmicutes (Clostridia, strict anaerobes) dominated in the bottom part. Besides prokaryotes, we detect some species of Algae with help of detection their chloroplasts 16 s rRNA. High abundance of Archaea in samples from hot springs of the Baikal rift zone supplemented our knowledge of the distribution of Archaea. Most archaeal sequences had low similarity to known Archaea. Metagenomic analysis of microbial communities of the microbial mat of Garga hot spring showed that

Unravelling core microbial metabolisms in the hypersaline microbial mats of Shark Bay using high-throughput metagenomics

Energy Technology Data Exchange (ETDEWEB)

Ruvindy, Rendy; White III, Richard Allen; Neilan, Brett Anthony; Burns, Brendan Paul

2015-05-29

Modern microbial mats are potential analogues of some of Earth’s earliest ecosystems. Excellent examples can be found in Shark Bay, Australia, with mats of various morphologies. To further our understanding of the functional genetic potential of these complex microbial ecosystems, we conducted for the first time shotgun metagenomic analyses. We assembled metagenomic nextgeneration sequencing data to classify the taxonomic and metabolic potential across diverse morphologies of marine mats in Shark Bay. The microbial community across taxonomic classifications using protein-coding and small subunit rRNA genes directly extracted from the metagenomes suggests that three phyla Proteobacteria, Cyanobacteria and Bacteriodetes dominate all marine mats. However, the microbial community structure between Shark Bay and Highbourne Cay (Bahamas) marine systems appears to be distinct from each other. The metabolic potential (based on SEED subsystem classifications) of the Shark Bay and Highbourne Cay microbial communities were also distinct. Shark Bay metagenomes have a metabolic pathway profile consisting of both heterotrophic and photosynthetic pathways, whereas Highbourne Cay appears to be dominated almost exclusively by photosynthetic pathways. Alternative non-rubisco-based carbon metabolism including reductive TCA cycle and 3-hydroxypropionate/4-hydroxybutyrate pathways is highly represented in Shark Bay metagenomes while not represented in Highbourne Cay microbial mats or any other mat forming ecosystems investigated to date. Potentially novel aspects of nitrogen cycling were also observed, as well as putative heavy metal cycling (arsenic, mercury, copper and cadmium). Finally, archaea are highly represented in Shark Bay and may have critical roles in overall ecosystem function in these modern microbial mats.

The development of stromatolitic features from laminated microbial mats in the coastal sabkha of Abu Dhabi (UAE)

Science.gov (United States)

Paul, Andreas; Lessa Andrade, Luiza; Dutton, Kirsten E.; Sherry, Angela; Court, Wesley M.; Van der Land, Cees; Lokier, Stephen W.; Head, Ian M.

2017-04-01

Stromatolitic features are documented from both marine and terrestrial environments worldwide. These features form through a combination of trapping and binding of allochthonous grains, and through microbially mediated and/or controlled precipitation of carbonate minerals. The combined effects of these processes result in the continuous vertical and lateral growth of stromatolites. While the Abu Dhabi coastal sabkha is well known for a vast microbial mat belt that is dominated by continuous polygonal and internally-laminated microbial mats, no stromatolitic features have been reported from this area so far. In this study, we report evidence for stromatolitic features from the coastal sabkha of Abu Dhabi, based on observations in an intertidal but permanently submerged pool. This pool lies embedded within the laminated microbial mat zone, and is marked by the development of true laminated stromatolite at its margins and microbial build-ups at its centre. In order to characterise processes that lead to the formation of these stromatolitic features, and to develop a conceptual model that describes their development in the context of variations in sea level, tidal energy and other environmental factors, we employ a multitude of environmental, sedimentological, mineralogical and geochemical methods. These methods include the analysis of water data in terms of temporal variations in temperature, salinity, dissolved oxygen and water level, the analysis of petrographic thin sections of both lithified and unlithified features as well as an analysis of the stromatolites' mineralogical composition, and the amounts of incorporated organic carbon and calcium carbonate. Initial results suggest that the development of the observed stromatolitic features in the coastal sabkha of Abu Dhabi is the result of a complex interplay between simultaneous erosion of laminated microbial mat, and biotic/abiotic lithification processes. Initially, the location of this pool was characterised by

Microbial Mats on the Orkney Islands Revisited: Microenvironment and Microbial Community Composition

DEFF Research Database (Denmark)

Wieland, A.; Kühl, M.; McGowan, L.

2003-01-01

of these sediments. High amounts of algal lipids and slightly higher numbers (genera, abundances) of cyanobacteria were found in Waulkmill Bay mats. However, overall only a few genera and low numbers of unicellular and filamentous cyanobacteria were present in mats from Waulkmill and Swanbister beach, as deduced...... fragment length polymorphism) analysis in Swanbister beach mats, the depth distribution of different populations of purple and sulfate-reducing bacteria could be related to the microenvironmental conditions. Oxygen, but also sulfide and other (inorganic and organic) sulfur compounds, seems to play...

Coastal microbial mats: the physiology of a small-scale ecosystem

NARCIS (Netherlands)

Stal, L.J.

2001-01-01

Coastal inter-tidal sandy sediments, salt marshes and mangrove forests often support the development of microbial mats. Microbial mats are complex associations of one or several functional groups of microorganisms and their formation usually starts with the growth of a cyanobacterial population on a

Sequester of metals and mineralization of organic contaminants with microbial mats

International Nuclear Information System (INIS)

Bender, J.; Phillips, P.; Gould, J.P.

1995-01-01

Several recalcitrant organic contaminants are completely mineralized to simple products by microbial mats. Contaminants include chlordane, PCB, TNT, petroleum distillates, BM compounds and TCE in a mixed contaminant solution containing Zn. Degradation rates are relatively rapid under both dark and light conditions. In addition to complete degradation of organic materials, mats have been used to reduce selenate to elemental selenium, remove Pb, Cd, Cu, Zn, Co, Cr, Fe and Mn from water and sequester uranium (U 238 ) at a rate of 3.19 mg/m 2 /h. Results of three pilot projects, including field pond treatment of mine drainage and bioreactor treatment of BTEX compounds will be reported. Microbial mats are natural heterotrophic and autotrophic communities dominated by cyanobacteria (blue-green algae). They are self-organized laminated structures annealed fightly together by slimy secretions from various microbial components. The surface slime of the mats effectively immobilizes the ecosystem to a variety of substrates, thereby stabilizing the most efficient internal microbial structure. Cyanobacteria mats are generated for bioremediation applications by enriching a water surface with ensiled grass clippings together with mat inocula developed in the laboratory

The contribution of microbial mats to the arsenic geochemistry of an ancient gold mine

International Nuclear Information System (INIS)

Drewniak, Lukasz; Maryan, Natalia; Lewandowski, Wiktor; Kaczanowski, Szymon; Sklodowska, Aleksandra

2012-01-01

The ancient Zloty Stok (SW Poland) gold mine is such an environment, where different microbial communities, able to utilize inorganic arsenic species As(III) and As(V), are found. The purpose of the present study was to (i) estimate prokaryotic diversity in the microbial mats in bottom sediments of this gold mine, (ii) identify microorganisms that can metabolize arsenic, and (iii) estimate their potential role in the arsenic geochemistry of the mine and in the environment. The oxidation/reduction experiments showed that the microbial mat community may significantly contribute to arsenic contamination in groundwater. The presence of both arsenite oxidizing and dissimilatory arsenate reducing bacteria in the mat was confirmed by the detection of arsenite oxidase and dissimilatory arsenate reductase genes, respectively. This work also demonstrated that microorganisms utilizing other compounds that naturally co-occur with arsenic are present within the microbial mat community and may contribute to the arsenic geochemistry in the environment. - Highlights: ► The microbial mats from this ancient gold mine are highly diverse community. ► As(III) oxidizing and As(V) reducing bacteria are present in the mats. ► As redox transformations are linked to the metabolism of microbial mats bacteria. ► Microbial mats play a crucial role in the As biogeochemical cycle within the mine. - The microbial mats from this ancient gold mine can mediate oxidation/reduction reaction of arsenic and in this way may significantly contribute to arsenic contamination in groundwater.

Electron microscopy study of microbial mat in the North Fiji basin hydrothermal vent

Science.gov (United States)

Park, H.; Kim, J. W.; Lee, J. W.

2017-12-01

Hydrothermal vent systems consisting of hydrothermal vent, hydrothermal sediment and microbial mat are widely spread around the ocean, particularly spreading axis, continental margin and back-arc basin. Scientists have perceived that the hydrothermal systems, which reflect the primeval earth environment, are one of the best places to reveal the origin of life and extensive biogeochemical process of microbe-mineral interaction. In the present study multiline of analytical methods (X-Ray Diffraction (XRD), Scanning Electron Microscopy (SEM) and Transmission Electron Microscopy (TEM)) were utilized to investigate the mineralogy/chemistry of microbe-mineral interaction in hydrothermal microbial mat. Microbial mat samples were recovered by Canadian scientific submersible ROPOS on South Pacific North Fiji basin KIOST hydrothermal vent expedition 1602. XRD analysis showed that red-colored microbial mat contains Fe-oxides and Fe-oxyhydroxides. Various morphologies of minerals in the red-colored microbial mat observed by SEM are mainly showed sheath shaped, resembled with Leptothrix microbial structure, stalks shaped, similar with Marioprofundus microbial structure and globule shaped microbial structures. They are also detected with DNA analysis. The cross sectional observation of microbial structures encrusted with Fe-oxide and Fe-oxyhydroxide at a nano scale by Transmission Electron Microscopy (TEM) and Focused Ion Beam (FIB) technique was developed to verify the structural/biogeochemical properties in the microbe-mineral interaction. Systematic nano-scale measurements on the biomineralization in the microbial mat leads the understandings of biogeochemical environments around the hydrothermal vent.

Earth's Earliest Ecosystems in the C: The Use of Microbial Mats to Demonstrate General Principles of Scientific Inquiry and Microbial Ecology

Science.gov (United States)

Bebout, Brad M.; Bucaria, Robin

2006-01-01

Microbial mats are living examples of the most ancient biological communities on Earth. As Earth's earliest ecosystems, they are centrally important to understanding the history of life on our planet and are useful models for the search for life elsewhere. As relatively compact (but complete) ecosystems, microbial mats are also extremely useful for educational activities. Mats may be used to demonstrate a wide variety of concepts in general and microbial ecology, including the biogeochemical cycling of elements, photosynthesis and respiration, and the origin of the Earth's present oxygen containing atmosphere. Microbial mats can be found in a number of common environments accessible to teachers, and laboratory microbial mats can be constructed using materials purchased from biological supply houses. With funding from NASA's Exobiology program, we have developed curriculum and web-based activities centered on the use of microbial mats as tools for demonstrating general principles in ecology, and the scientific process. Our web site (http://microbes.arc.nasa.gov) includes reference materials, lesson plans, and a "Web Lab", featuring living mats maintained in a mini-aquarium. The site also provides information as to how research on microbial mats supports NASA's goals, and various NASA missions. A photo gallery contains images of mats, microscopic views of the organisms that form them, and our own research activities. An animated educational video on the web site uses computer graphic and video microscopy to take students on a journey into a microbial mat. These activities are targeted to a middle school audience and are aligned with the National Science Standards.

Counting viruses and bacteria in photosynthetic microbial mats

NARCIS (Netherlands)

Carreira, C; Staal, M.; Middelboe, M.; Brussaard, C.P.D.

2015-01-01

Viral abundances in benthic environments are the highest found in aquatic systems. Photosynthetic microbial mats represent benthic environments with high microbial activity and possibly high viral densities, yet viral abundances have not been examined in such systems. Existing extraction procedures

The life sulfuric: microbial ecology of sulfur cycling in marine sediments.

Science.gov (United States)

Wasmund, Kenneth; Mußmann, Marc; Loy, Alexander

2017-08-01

Almost the entire seafloor is covered with sediments that can be more than 10 000 m thick and represent a vast microbial ecosystem that is a major component of Earth's element and energy cycles. Notably, a significant proportion of microbial life in marine sediments can exploit energy conserved during transformations of sulfur compounds among different redox states. Sulfur cycling, which is primarily driven by sulfate reduction, is tightly interwoven with other important element cycles (carbon, nitrogen, iron, manganese) and therefore has profound implications for both cellular- and ecosystem-level processes. Sulfur-transforming microorganisms have evolved diverse genetic, metabolic, and in some cases, peculiar phenotypic features to fill an array of ecological niches in marine sediments. Here, we review recent and selected findings on the microbial guilds that are involved in the transformation of different sulfur compounds in marine sediments and emphasise how these are interlinked and have a major influence on ecology and biogeochemistry in the seafloor. Extraordinary discoveries have increased our knowledge on microbial sulfur cycling, mainly in sulfate-rich surface sediments, yet many questions remain regarding how sulfur redox processes may sustain the deep-subsurface biosphere and the impact of organic sulfur compounds on the marine sulfur cycle. © 2017 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd.

Microbial communities and exopolysaccharides from Polynesian mats.

Science.gov (United States)

Rougeaux, H; Guezennec, M; Che, L M; Payri, C; Deslandes, E; Guezennec, J

2001-03-01

Microbial mats present in two shallow atolls of French Polynesia were characterized by high amounts of exopolysaccharides associated with cyanobacteria as the predominating species. Cyanobacteria were found in the first centimeters of the gelatinous mats, whereas deeper layers showing the occurrence of the sulfate reducers Desulfovibrio and Desulfobacter species as determined by the presence of specific biomarkers. Exopolysaccharides were extracted from these mats and partially characterized. All fractions contained both neutral sugars and uronic acids with a predominance of the former. The large diversity in monosaccharides can be interpreted as the result of exopolymer biosynthesis by either different or unidentified cyanobacterial species.

Distribution of phototrophic populations and primary production in a microbial mat from the Ebro Delta, Spain.

Science.gov (United States)

Martínez-Alonso, Maira; Mir, Joan; Caumette, Pierre; Gaju, Núria; Guerrero, Ricardo; Esteve, Isabel

2004-03-01

Microbial mats arising in the sand flats of the Ebro Delta (Tarragona, Spain) were investigated during the summer season, when the community was highly developed. These mats are composed of three pigmented layers of phototrophic organisms, an upper brown layer mainly composed of Lyngbya aestuarii and diatoms, an intermediate green layer of the cyanobacterium Microcoleus chthonoplastes, and an underlying pink layer of a so-far unidentified purple sulfur bacterium. In the photic zone, oxygenic phototrophs constitute about 58% of total photosynthetic biomass, measured as biovolume, and anoxygenic phototrophs represent 42%. Diatoms constitute 11.8% of the oxygenic biomass, M. chthonoplastes 61.2%, and L. aestuarii and coccoid cyanobacteria 20.6 and 6.4%, respectively. In this laminated community, organic matter has an autochthonous origin, and photosynthesis is the most important source of organic carbon. Oxygen production reaches up to 27.2 mmol O(2) m(-2) h(-1), measured at 1000 microE m(-2) s(-1) light intensity, whereas oxidation of sulfide in the light has been calculated to be 18.6 mmol S m(-2) h(-1). This amount represents 26% of the total photosynthetic production in terms of photoassimilated carbon, demonstrating the important role of anoxygenic phototrophs as primary producers in the pink layer of Ebro Delta microbial mats.

A Nanoscale Study of Carbon and Nitrogen Fluxes in Mats of Purple Sulfur Bacteria: Implications for Carbon Cycling at the Surface of Coastal Sediments

Directory of Open Access Journals (Sweden)

Cédric Hubas

2017-10-01

Full Text Available Mass blooms of purple sulfur bacteria growing seasonally on green stranded macroalgae have a major impact on the microbial composition and functionality of intertidal mats. To explore the active anoxygenic phototrophic community in purple bacterial mats from the Roscoff Aber Bay (Brittany, France, we conducted a combined approach including molecular and high-resolution secondary ion mass spectrometry (NanoSIMS analyses. To investigate the dynamics of carbon and nitrogen assimilation activities, NanoSIMS was coupled with a stable isotope probing (SIP experiment and a compound specific isotope analysis (CSIA of fatty acid methyl ester (FAME. Sediment samples were incubated with 13C- and/or 15N-labeled acetate, pyruvate, bicarbonate and ammonium. NanoSIMS analysis of 13C - and 15N -incubated samples showed elevated incorporations of 13C - and 15N in the light and of 13C -acetate in the dark into dense populations of spherical cells that unambiguously dominated the mats. These results confirmed CSIA data that ranked vaccenic acid, an unambiguous marker of purple sulfur bacteria, as the most strongly enriched in the light after 13C -acetate amendment and indicated that acetate uptake, the most active in the mat, was not light-dependent. Analysis of DNA- and cDNA-derived pufM gene sequences revealed that Thiohalocapsa-related clones dominated both libraries and were the most photosynthetically active members of the mat samples. This study provides novel insights into the contribution of purple sulfur bacteria to the carbon cycle during their seasonal developments at the sediment surface in the intertidal zone.

Tracing biosignatures from the Recent to the Jurassic in sabkha-associated microbial mats

Science.gov (United States)

van der Land, Cees; Dutton, Kirsten; Andrade, Luiza; Paul, Andreas; Sherry, Angela; Fender, Tom; Hewett, Guy; Jones, Martin; Lokier, Stephen W.; Head, Ian M.

2017-04-01

Microbial mat ecosystems have been operating at the sediment-fluid interface for over 3400 million years, influencing the flux, transformation and preservation of carbon from the biosphere to the physical environment. These ecosystems are excellent recorders of rapid and profound changes in earth surface environments and biota as they often survive crisis-induced extreme paleoenvironmental conditions. Their biosignatures, captured in the preserved organic matter and the biominerals that form the microbialite rock, constitute a significant tool in understanding geobiological processes and the interactions of the microbial communities with sediments and with the prevailing physical chemical parameters, as well as the environmental conditions at a local and global scale. Nevertheless, the exact pathways of diagenetic organic matter transformation and early-lithification, essential for the accretion and preservation in the geological record as microbialites, are not well understood. The Abu Dhabi coastal sabkha system contains a vast microbial mat belt that is dominated by continuous polygonal and internally-laminated microbial mats across the upper and middle intertidal zones. This modern system is believed to be the best analogue for the Upper Jurassic Arab Formation, which is both a prolific hydrocarbon reservoir and source rock facies in the United Arab Emirates and in neighbouring countries. In order to characterise the processes that lead to the formation of microbialites we investigated the modern and Jurassic system using a multidisciplinary approach, including growth of field-sampled microbial mats under controlled conditions in the laboratory and field-based analysis of microbial communities, mat mineralogy and organic biomarker analysis. In this study, we focus on hydrocarbon biomarker data obtained from the surface of microbial mats actively growing in the intertidal zone of the modern system. By comparing these findings to data obtained from recently

Simulated Carbon Cycling in a Model Microbial Mat.

Science.gov (United States)

Decker, K. L.; Potter, C. S.

2006-12-01

We present here the novel addition of detailed organic carbon cycling to our model of a hypersaline microbial mat ecosystem. This ecosystem model, MBGC (Microbial BioGeoChemistry), simulates carbon fixation through oxygenic and anoxygenic photosynthesis, and the release of C and electrons for microbial heterotrophs via cyanobacterial exudates and also via a pool of dead cells. Previously in MBGC, the organic portion of the carbon cycle was simplified into a black-box rate of accumulation of simple and complex organic compounds based on photosynthesis and mortality rates. We will discuss the novel inclusion of fermentation as a source of carbon and electrons for use in methanogenesis and sulfate reduction, and the influence of photorespiration on labile carbon exudation rates in cyanobacteria. We will also discuss the modeling of decomposition of dead cells and the ultimate release of inorganic carbon. The detailed modeling of organic carbon cycling is important to the accurate representation of inorganic carbon flux through the mat, as well as to accurate representation of growth models of the heterotrophs under different environmental conditions. Because the model ecosystem is an analog of ancient microbial mats that had huge impacts on the atmosphere of early earth, this MBGC can be useful as a biological component to either early earth models or models of other planets that potentially harbor life.

Sulfur K-edge absorption spectroscopy on selected biological systems

International Nuclear Information System (INIS)

Lichtenberg, Henning

2008-07-01

Sulfur is an essential element in organisms. In this thesis investigations of sulfur compounds in selected biological systems by XANES (X-ray Absorption Near Edge Structure) spectroscopy are reported. XANES spectroscopy at the sulfur K-edge provides an excellent tool to gain information about the local environments of sulfur atoms in intact biological samples - no extraction processes are required. Spatially resolved measurements using a Kirkpatrick-Baez mirror focusing system were carried out to investigate the infection of wheat leaves by rust fungi. The results give information about changes in the sulfur metabolism of the host induced by the parasite and about the extension of the infection into visibly uninfected plant tissue. Furthermore, XANES spectra of microbial mats from sulfidic caves were measured. These mats are dominated by microbial groups involved in cycling sulfur. Additionally, the influence of sulfate deprivation and H 2 S exposure on sulfur compounds in onion was investigated. To gain an insight into the thermal degradation of organic material the influence of roasting of sulfur compounds in coffee beans was studied. (orig.)

A niche for cyanobacteria producing chlorophyll f within a microbial mat.

Science.gov (United States)

Ohkubo, Satoshi; Miyashita, Hideaki

2017-10-01

Acquisition of additional photosynthetic pigments enables photosynthetic organisms to survive in particular niches. To reveal the ecological significance of chlorophyll (Chl) f, we investigated the distribution of Chl and cyanobacteria within two microbial mats. In a 7-mm-thick microbial mat beneath the running water of the Nakabusa hot spring, Japan, Chl f was only distributed 4.0-6.5 mm below the surface, where the intensity of far-red light (FR) was higher than that of photosynthetically active radiation (PAR). In the same mat, two ecotypes of Synechococcus and two ecotypes of Chl f-producing Leptolyngbya were detected in the upper and deeper layers, respectively. Only the Leptolyngbya strains could grow when FR was the sole light source. These results suggest that the deeper layer of the microbial mat was a habitat for Chl f-producing cyanobacteria, and Chl f enabled them to survive in a habitat with little PAR.

Isotopic insights into microbial sulfur cycling in oil reservoirs

Directory of Open Access Journals (Sweden)

Christopher G Hubbard

2014-09-01

Full Text Available Microbial sulfate reduction in oil reservoirs (biosouring is often associated with secondary oil production where seawater containing high sulfate concentrations (~28 mM is injected into a reservoir to maintain pressure and displace oil. The sulfide generated from biosouring can cause corrosion of infrastructure, health exposure risks, and higher production costs. Isotope monitoring is a promising approach for understanding microbial sulfur cycling in reservoirs, enabling early detection of biosouring, and understanding the impact of souring. Microbial sulfate reduction is known to result in large shifts in the sulfur and oxygen isotope compositions of the residual sulfate, which can be distinguished from other processes that may be occurring in oil reservoirs, such as precipitation of sulfate and sulfide minerals. Key to the success of this method is using the appropriate isotopic fractionation factors for the conditions and processes being monitored. For a set of batch incubation experiments using a mixed microbial culture with crude oil as the electron donor, we measured a sulfur fractionation factor for sulfate reduction of -30‰. We have incorporated this result into a simplified 1D reservoir reactive transport model to highlight how isotopes can help discriminate between biotic and abiotic processes affecting sulfate and sulfide concentrations. Modeling results suggest that monitoring sulfate isotopes can provide an early indication of souring for reservoirs with reactive iron minerals that can remove the produced sulfide, especially when sulfate reduction occurs in the mixing zone between formation waters containing elevated concentrations of volatile fatty acids and injection water containing elevated sulfate. In addition, we examine the role of reservoir thermal, geochemical, hydrological, operational and microbiological conditions in determining microbial souring dynamics and hence the anticipated isotopic signatures.

High rates of sulfate reduction in a low-sulfate hot spring microbial mat are driven by a low level of diversity of sulfate-respiring microorganisms

DEFF Research Database (Denmark)

Dillon, Jesse G; Fishbain, Susan; Miller, Scott R

2007-01-01

The importance of sulfate respiration in the microbial mat found in the low-sulfate thermal outflow of Mushroom Spring in Yellowstone National Park was evaluated using a combination of molecular, microelectrode, and radiotracer studies. Despite very low sulfate concentrations, this mat community...... was shown to sustain a highly active sulfur cycle. The highest rates of sulfate respiration were measured close to the surface of the mat late in the day when photosynthetic oxygen production ceased and were associated with a Thermodesulfovibrio-like population. Reduced activity at greater depths...... was correlated with novel populations of sulfate-reducing microorganisms, unrelated to characterized species, and most likely due to both sulfate and carbon limitation....

Carbon cycling and calcification in hypersaline microbial mats

OpenAIRE

Ludwig, Rebecca

2004-01-01

Phototrophic microbial mats are laminated aggregations of microorganisms that thrive in extreme and oligotrophic environments. Primary production rates by oxygenic phototrophs are extremely high. Primary producers supply heterotrophic mat members with organic carbon, which in turn regenerate CO2 needed for autotrophic carbon fixation. Another potential source of CO2 is calcification, which is known to shift the carbonate equilibrium towards CO2. This thesis investigated the carbon cycle of mi...

Flow of light energy in benthic photosynthetic microbial mats

Energy Technology Data Exchange (ETDEWEB)

Al-Najjar, Mohammad Ahmad A.

2010-12-15

The work in this thesis demonstrates the assessment of the energy budget inside microbial mat ecosystems, and the factors affecting light utilization efficiency. It presents the first balanced light energy budget for benthic microbial mat ecosystems, and shows how the budget and the spatial distribution of the local photosynthetic efficiencies within the euphotic zone depend on the absorbed irradiance (Jabs). The energy budget was dominated by heat dissipation on the expense of photosynthesis. The maximum efficiency of photosynthesis was at light limiting conditions When comparing three different marine benthic photosynthetic ecosystems (originated from Abu-Dhabi, Arctic, and Exmouth Gulf in Western Australia), differences in the efficiencies were calculated. The results demonstrated that the maximum efficiency depended on mat characteristics affecting light absorption and scattering; such as, photopigments ratio and distribution, and the structural organization of the photosynthetic organisms relative to other absorbing components of the ecosystem (i.e., EPS, mineral particles, detritus, etc.). The maximum efficiency decreased with increasing light penetration depth, and increased with increasing the accessory pigments (phycocyanin and fucoxanthin)/chlorophyll ratio. Spatial heterogeneity in photosynthetic efficiency, pigment distribution, as well as light acclimation in microbial mats originating from different geographical locations was investigated. We used a combined pigment imaging approach (variable chlorophyll fluorescence and hyperspectral imaging), and fingerprinting approach. For each mat, the photosynthetic activity was proportional to the local pigment concentration in the photic zone, but not for the deeper layers and between different mats. In each mat, yield of PSII and E1/2 (light acclimation) generally decreased in parallel with depth, but the gradients in both parameters varied greatly between samples. This mismatch between pigments concentration

Lipid Biomarkers for a Hypersaline Microbial Mat Community

Science.gov (United States)

Jahnke, Linda L.; Embaye, Tsege; Turk, Kendra A.

2003-01-01

The use of lipid biomarkers and their carbon isotopic compositions are valuable tools for establishing links to ancient microbial ecosystems. As witnessed by the stromatolite record, benthic microbial mats grew in shallow water lagoonal environments where microorganisms had virtually no competition apart from the harsh conditions of hypersalinity, desiccation and intense light. Today, the modern counterparts of these microbial ecosystems find appropriate niches in only a few places where extremes eliminate eukaryotic grazers. Answers to many outstanding questions about the evolution of microorganisms and their environments on early Earth are best answered through study of these extant analogs. Lipids associated with various groups of bacteria can be valuable biomarkers for identification of specific groups of microorganisms both in ancient organic-rich sedimentary rocks (geolipids) and contemporary microbial communities (membrane lipids). Use of compound specific isotope analysis adds additional refinement to the identification of biomarker source, so that it is possible to take advantage of the 3C-depletions associated with various functional groups of organisms (i.e. autotrophs, heterotrophs, methanotrophs, methanogens) responsible for the cycling of carbon within a microbial community. Our recent work has focused on a set of hypersaline evaporation ponds at Guerrero Negro, Baja California Sur, Mexico which support the abundant growth of Microcoleus-dominated microbial mats. Specific biomarkers for diatoms, cyanobacteria, archaea, green nonsulfur (GNS), sulfate reducing, and methanotrophic bacteria have been identified. Analyses of the ester-bound fatty acids indicate a highly diverse microbial community, dominated by photosynthetic organisms at the surface.

Diversity and stratification of archaea in a hypersaline microbial mat.

Science.gov (United States)

Robertson, Charles E; Spear, John R; Harris, J Kirk; Pace, Norman R

2009-04-01

The Guerrero Negro (GN) hypersaline microbial mats have become one focus for biogeochemical studies of stratified ecosystems. The GN mats are found beneath several of a series of ponds of increasing salinity that make up a solar saltern fed from Pacific Ocean water pumped from the Laguna Ojo de Liebre near GN, Baja California Sur, Mexico. Molecular surveys of the laminated photosynthetic microbial mat below the fourth pond in the series identified an enormous diversity of bacteria in the mat, but archaea have received little attention. To determine the bulk contribution of archaeal phylotypes to the pond 4 study site, we determined the phylogenetic distribution of archaeal rRNA gene sequences in PCR libraries based on nominally universal primers. The ratios of bacterial/archaeal/eukaryotic rRNA genes, 90%/9%/1%, suggest that the archaeal contribution to the metabolic activities of the mat may be significant. To explore the distribution of archaea in the mat, sequences derived using archaeon-specific PCR primers were surveyed in 10 strata of the 6-cm-thick mat. The diversity of archaea overall was substantial albeit less than the diversity observed previously for bacteria. Archaeal diversity, mainly euryarchaeotes, was highest in the uppermost 2 to 3 mm of the mat and decreased rapidly with depth, where crenarchaeotes dominated. Only 3% of the sequences were specifically related to known organisms including methanogens. While some mat archaeal clades corresponded with known chemical gradients, others did not, which is likely explained by heretofore-unrecognized gradients. Some clades did not segregate by depth in the mat, indicating broad metabolic repertoires, undersampling, or both.

Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat.

Science.gov (United States)

Harris, J Kirk; Caporaso, J Gregory; Walker, Jeffrey J; Spear, John R; Gold, Nicholas J; Robertson, Charles E; Hugenholtz, Philip; Goodrich, Julia; McDonald, Daniel; Knights, Dan; Marshall, Paul; Tufo, Henry; Knight, Rob; Pace, Norman R

2013-01-01

The microbial mats of Guerrero Negro (GN), Baja California Sur, Mexico historically were considered a simple environment, dominated by cyanobacteria and sulfate-reducing bacteria. Culture-independent rRNA community profiling instead revealed these microbial mats as among the most phylogenetically diverse environments known. A preliminary molecular survey of the GN mat based on only ∼1500 small subunit rRNA gene sequences discovered several new phylum-level groups in the bacterial phylogenetic domain and many previously undetected lower-level taxa. We determined an additional ∼119,000 nearly full-length sequences and 28,000 >200 nucleotide 454 reads from a 10-layer depth profile of the GN mat. With this unprecedented coverage of long sequences from one environment, we confirm the mat is phylogenetically stratified, presumably corresponding to light and geochemical gradients throughout the depth of the mat. Previous shotgun metagenomic data from the same depth profile show the same stratified pattern and suggest that metagenome properties may be predictable from rRNA gene sequences. We verify previously identified novel lineages and identify new phylogenetic diversity at lower taxonomic levels, for example, thousands of operational taxonomic units at the family-genus levels differ considerably from known sequences. The new sequences populate parts of the bacterial phylogenetic tree that previously were poorly described, but indicate that any comprehensive survey of GN diversity has only begun. Finally, we show that taxonomic conclusions are generally congruent between Sanger and 454 sequencing technologies, with the taxonomic resolution achieved dependent on the abundance of reference sequences in the relevant region of the rRNA tree of life.

Rapid spectrofluorometric screening of poly-hydroxyalkanoate-producing bacteria from microbial mats.

Science.gov (United States)

Berlanga, Mercedes; Montero, M T; Fernández-Borrell, Jordi; Guerrero, Ricardo

2006-06-01

Microbial mat ecosystems are characterized by both seasonal and diel fluctuations in several physicochemical variables, so that resident microorganisms must frequently adapt to the changing conditions of their environment. It has been pointed out that, under stress conditions, bacterial cells with higher contents of poly-hydroxyalkanoates (PHA) survive longer than those with lower PHA content. In the present study, PHA-producing strains from Ebro Delta microbial mats were selected using the Nile red dying technique and the relative accumulation of PHA was monitored during further laboratory cultivation. The number of heterotrophic isolates in trypticase soy agar (TSA) was ca. 107 colony-forming units/g microbial mat. Of these, 100 randomly chosen colonies were replicated on mineral salt agar limited in nitrogen, and Nile red was added to the medium to detect PHA. Orange fluorescence, produced upon binding of the dye to polymer granules in the cell, was detected in approximately 10% of the replicated heterotrophic isolates. The kinetics of PHA accumulation in Pseudomonas putida, and P. oleovorans were compared with those of several of the environmental isolates spectrofluorometry. PHA accumulation, measured as relative fluorescence intensity, resulted in a steady-state concentration after 48 h of incubation in all strains assayed. At 72 h, the maximum fluorescence intensity of each strain incubated with glucose and fructose was usually similar. MAT-28 strain accumulated more PHA than the other isolates. The results show that data obtained from environmental isolates can highly improve studies based on modeling-simulation programs, and that microbial mats constitute an excellent source for the isolation of PHA-producing strains with industrial applications.

Structural and functional analysis of a microbial mat ecosystem from a unique permanent hypersaline inland lake: 'La Salada de Chiprana' (NE Spain).

Science.gov (United States)

Jonkers, Henk M; Ludwig, Rebecca; Wit, Rutger; Pringault, Olivier; Muyzer, Gerard; Niemann, Helge; Finke, Niko; Beer, Dirk

2003-05-01

The benthic microbial mat community of the only permanent hypersaline natural inland lake of Western Europe, 'La Salada de Chiprana', northeastern Spain, was structurally and functionally analyzed. The ionic composition of the lake water is characterized by high concentrations of magnesium and sulfate, which were respectively 0.35 and 0.5 M at the time of sampling while the total salinity was 78 g l(-1). Community composition was analyzed by microscopy, high-performance liquid chromatography (HPLC) pigment analyses and by studying culturable bacteria from different functional groups. Therefore, denaturing gradient gel electrophoresis (DGGE) was applied on most probable number (MPN) dilution cultures. Microscopy revealed that a thin layer of Chloroflexus-like bacteria overlaid various cyanobacteria-dominated layers each characterized by different morphotypes. DGGE analysis of MPN dilution cultures from distinct mat layers showed that various phylotypes of anoxygenic phototrophic, aerobic heterotrophic, colorless sulfur-, and sulfate-reducing bacteria were present. The mats were furthermore functionally studied and attention was focussed on the relationship between oxygenic primary production and the flow of carbon through the microbial community. Microsensor techniques, porewater and sediment photopigment analysis were applied in order to estimate oxygenic photosynthetic rates, daily dynamics of (in)organic carbon porewater concentration and migration behavior of phototrophs. Chiprana microbial mats produced dissolved organic carbon (DOC) both during the day and night. It was estimated that 14% of the mats gross photosynthetic production and 49% of the mats net photosynthetic production diffused out of the mat in the form of low molecular mass fatty acids, although these compounds made up only 2% of the total DOC pool. The high flux of dissolved fatty acids from the microbial mat to the water column may explain why in this system Chloroflexus-like bacteria

Total mercury and methyl-mercury contents and accumulation in polar microbial mats.

Science.gov (United States)

Camacho, Antonio; Rochera, Carlos; Hennebelle, Raphaëlle; Ferrari, Christophe; Quesada, Antonio

2015-03-15

Although polar regions are considered isolated and pristine areas, the organisms that inhabit these zones are exposed to global pollution. Heavy metals, such as mercury, are global pollutants and can reach almost any location on Earth. Mercury may come from natural, volcanic or geological sources, or result from anthropogenic sources, in particular industrial or mining activities. In this study, we have investigated one of the most prominent biological non-marine communities in both polar regions, microbial mats, in terms of their Hg and methyl-mercury (MeHg) concentrations and accumulation capacities. The main hypotheses posed argued on the importance of different factors, and to test them, we have measured Hg concentrations in microbial mats that were collected from 6 locations in different ecological situations. For this purpose, the direct anthropogenic impacts, volcanic influences, proximity to the seashore, latitudinal gradients and C contents were investigated. Our results show that, other than the direct anthropogenic influence, none of the other hypotheses alone satisfactorily explains the Hg content in microbial mats. In contrast, the MeHg contents were noticeably different between the investigated locations, with a higher proportion of MeHg on the McMurdo Ice Shelf (Antarctica) and a lower proportion on Ward Hunt Island (High Arctic). Furthermore, our results from in situ experiments indicated that the microbial mats from South Shetland Islands could quickly accumulate (48 h) Hg when Hg dissolved salts were supplied. Over short-term periods, these mats do not transform Hg into MeHg under field conditions. Copyright © 2014 Elsevier B.V. All rights reserved.

Microbial mat-induced sedimentary structures in siliciclastic sediments

Indian Academy of Sciences (India)

This paper addresses macroscopic signatures of microbial mat-related structures within the. 1.6Ga-old Chorhat Sandstone ... Sandstone differentiated in facies superposed one over the other and their respective structural assemblages (b). may be ..... within the classification of primary sedimentary struc- tures; J. Sed. Res.

Exploring ancient microbial community assemblages by creating complex lipid biomarker profiles for stromatolites and microbial mats in Hamelin Pool, Shark Bay, Australia

Science.gov (United States)

Myers, E.; Summons, R. E.; Schubotz, F.; Matys, E. D.

2015-12-01

Stromatolites that are biogenic in origin, a characteristic that can be determined by the coexistence of microbial mats (active microbial communities) and stromatolites (lithified structures) like in Hamelin Pool, comprise one of the best modern analogs to ancient microbial community assemblages. Comprehensive lipid biomarker profiles that include lipids of varying persistence in the rock record can help determine how previously living microbial communities are represented in lithified stromatolites. To create these profiles, the samples analyzed included non-lithified smooth, pustular, and colloform microbial mats, as well as smooth and colloform stromatolites. Select samples were separated into upper and lower layers of 5cm depth each. Intact polar lipids, glycerol dialkyl glycerol tetraethers, and bacteriohopanepolyols were analyzed via liquid chromatography-mass spectrometry (LC-MS) coupled to a Quadropole Time-of-Flight (QTOF) mass spectrometer; additionally, fatty acids from each sample were analyzed using gas chromatography-mass spectrometry (GC-MS) to prove consistent signatures with those determined by Allen et al. in 2010 for similar microbial mat samples. In accordance with those findings, 2-methylhopanoids were detected, as well as limited signals from higher (vascular) plants, the latter of which suggests terrestrial inputs, potentially from runoff. The rarely detected presence of 3-methylhopanoids appears in a significant portion of the samples, though further isolations of the molecule are needed to confirm. While all lipid profiles were relatively similar, certain differences in relative composition are likely attributable to morphological differences of the mats, some of which allow deeper oxygen and/or sunlight penetration, which influence the microbial community. However, overall similarities of transient and persistent lipids suggest that the microbial communities of both the non-lithified microbial mats and stromatolites are similar.

Fermentation couples Chloroflexi and sulfate-reducing bacteria to Cyanobacteria in hypersaline microbial mats

Directory of Open Access Journals (Sweden)

Jackson Z Lee

2014-02-01

Full Text Available Past studies of hydrogen cycling in hypersaline microbial mats have shown an active nighttime cycle, with production largely from Cyanobacteria and consumption from sulfate-reducing bacteria (SRB. However, the mechanisms and magnitude of hydrogen cycling have not been extensively studied. Two mats types near Guerrero Negro, Mexico -- permanently submerged Microcoleus microbial mats (GN-S, and intertidal Lyngbya microbial mats (GN-I -- were used in microcosm diel manipulation experiments with 3-(3,4-dichlorophenyl-1,1-dimethylurea (DCMU, molybdate, ammonium addition, and physical disruption to understand the processes responsible for hydrogen cycling between mat microbes. Across microcosms, H2 production occurred under dark anoxic conditions with simultaneous production of a suite of organic acids. H2 production was not significantly affected by inhibition of nitrogen fixation, but rather appears to result from constitutive fermentation of photosynthetic storage products by oxygenic phototrophs. Comparison to accumulated glycogen and to CO2 flux indicated that, in the GN-I mat, fermentation released almost all of the carbon fixed via photosynthesis during the preceding day, primarily as organic acids. Across mats, although oxygenic and anoxygenic phototrophs were detected, cyanobacterial [NiFe]-hydrogenase transcripts predominated. Molybdate inhibition experiments indicated that SRBs from a wide distribution of dsrA phylotypes were responsible for H2 consumption. Incubation with 13C-acetate and nanoSIMS (secondary ion mass-spectrometry indicated higher uptake in both Chloroflexi and SRBs relative to other filamentous bacteria. These manipulations and diel incubations confirm that Cyanobacteria were the main fermenters in Guerrero Negro mats and that the net flux of nighttime fermentation byproducts (not only hydrogen was largely regulated by the interplay between Cyanobacteria, SRBs, and Chloroflexi.

UV B-induced vertical migrations of cyanobacteria in a microbial mat

International Nuclear Information System (INIS)

Rebout, B.M.; Garcia-Pichel, F.

1995-01-01

Exposure to moderate doses of UV B (0.35 to 0.79 W m -2 s -1 or 0.98 to 2.2 μmol of photons m -2 s -1 at 310 nm) caused the surface layers of microbial mats from Solar Lake, Sinai, Egypt, to become visibly lighter green. Concurrent with the color change were rapid and dramatic reductions in gross photosynthesis and in the resultant high porewater oxygen concentrations in the surface layers of the mats. The depths at which both maximum gross photosynthesis and maximum oxygen concentrations occurred were displaced downward. In contrast, gross photosynthesis in the deeper layers of the mats increased in response to UV B incident upon the surface. The cessation of exposure to UV B partially reversed all of these changes. Taken together, these responses suggest that photoautotrophic members of the mat community, most likely the dominant cyanobacterium Microcoleus chthonoplastes, were migrating in response to the added UV B. The migration phenomenon was also observed in response to increases in visible radiation and UV A, but UV B was ca. 100-fold more effective than visible radiation and ca. 20-fold more effective than UV A in provoking the response. Migrating microorganisms within this mat are apparently able to sense UV B directly and respond behaviorally to limit their exposure to UV. Because of strong vertical gradients of light and dissolved substances in microbial mats, the migration and the resultant vertical redistribution of photosynthetic activity have important consequences for both the photobiology of the cyanobacteria and the net primary productivity of the mat ecosystem

Methylmercury enters an aquatic food web through acidophilic microbial mats in Yellowstone National Park, Wyoming.

Science.gov (United States)

Boyd, Eric S; King, Susan; Tomberlin, Jeffery K; Nordstrom, D Kirk; Krabbenhoft, David P; Barkay, Tamar; Geesey, Gill G

2009-04-01

Microbial mats are a visible and abundant life form inhabiting the extreme environments in Yellowstone National Park (YNP), WY, USA. Little is known of their role in food webs that exist in the Park's geothermal habitats. Eukaryotic green algae associated with a phototrophic green/purple Zygogonium microbial mat community that inhabits low-temperature regions of acidic (pH approximately 3.0) thermal springs were found to serve as a food source for stratiomyid (Diptera: Stratiomyidae) larvae. Mercury in spring source water was taken up and concentrated by the mat biomass. Monomethylmercury compounds (MeHg(+)), while undetectable or near the detection limit (0.025 ng l(-1)) in the source water of the springs, was present at concentrations of 4-7 ng g(-1) dry weight of mat biomass. Detection of MeHg(+) in tracheal tissue of larvae grazing the mat suggests that MeHg(+) enters this geothermal food web through the phototrophic microbial mat community. The concentration of MeHg(+) was two to five times higher in larval tissue than mat biomass indicating MeHg(+) biomagnification occurred between primary producer and primary consumer trophic levels. The Zygogonium mat community and stratiomyid larvae may also play a role in the transfer of MeHg(+) to species in the food web whose range extends beyond a particular geothermal feature of YNP.

Earth's Earliest Ecosystems in the Classroom: The Use of Microbial Mats to Teach General Principles in Microbial Ecology, and Scientific Inquiry

Science.gov (United States)

Beboutl, Brad M.; Bucaria, Robin

2004-01-01

Microbial mats are living examples of the most ancient biological communities on earth, and may also be useful models for the search for life elsewhere. They are centrally important to Astrobiology. In this lecture, we will present an introduction to microbial mats, as well as an introduction to our web-based educational module on the subject of microbial ecology, featuring living mats maintained in a mini "Web Lab" complete with remotely-operable instrumentation. We have partnered with a number of outreach specialists in order to produce an informative and educational web-based presentation, aspects of which will be exported to museum exhibits reaching a wide audience. On our web site, we will conduct regularly scheduled experimental manipulations, linking the experiments to our research activities, and demonstrating fundamental principles of scientific research.

Sulfur K-edge absorption spectroscopy on selected biological systems; Schwefel-K-Kanten-Absorptionsspektroskopie an ausgewaehlten biologischen Systemen

Energy Technology Data Exchange (ETDEWEB)

Lichtenberg, Henning

2008-07-15

Sulfur is an essential element in organisms. In this thesis investigations of sulfur compounds in selected biological systems by XANES (X-ray Absorption Near Edge Structure) spectroscopy are reported. XANES spectroscopy at the sulfur K-edge provides an excellent tool to gain information about the local environments of sulfur atoms in intact biological samples - no extraction processes are required. Spatially resolved measurements using a Kirkpatrick-Baez mirror focusing system were carried out to investigate the infection of wheat leaves by rust fungi. The results give information about changes in the sulfur metabolism of the host induced by the parasite and about the extension of the infection into visibly uninfected plant tissue. Furthermore, XANES spectra of microbial mats from sulfidic caves were measured. These mats are dominated by microbial groups involved in cycling sulfur. Additionally, the influence of sulfate deprivation and H{sub 2}S exposure on sulfur compounds in onion was investigated. To gain an insight into the thermal degradation of organic material the influence of roasting of sulfur compounds in coffee beans was studied. (orig.)

Marine Microbial Mats and the Search for Evidence of Life in Deep Time and Space

Science.gov (United States)

Des Marais, David J.

2011-01-01

Cyanobacterial mats in extensive seawater evaporation ponds at Guerrero Negro, Baja California, Mexico, have been excellent subjects for microbial ecology research. The studies reviewed here have documented the steep and rapidly changing environmental gradients experienced by mat microorganisms and the very high rates of biogeochemical processes that they maintained. Recent genetic studies have revealed an enormous diversity of bacteria as well as the spatial distribution of Bacteria, Archaea and Eukarya. These findings, together with emerging insights into the intimate interactions between these diverse populations, have contributed substantially to our understanding of the origins, environmental impacts, and biosignatures of photosynthetic microbial mats. The biosignatures (preservable cells, sedimentary fabrics, organic compounds, minerals, stable isotope patterns, etc.) potentially can serve as indicators of past life on early Earth. They also can inform our search for evidence of any life on Mars. Mars exploration has revealed evidence of evaporite deposits and thermal spring deposits; similar deposits on Earth once hosted ancient microbial mat ecosystems.

Effect of salinity on nitrogenase activity and composition of the active diazotrophic community in intertidal microbial mats

NARCIS (Netherlands)

Severin, I.; Confurius-Guns, V.; Stal, L.J.

2012-01-01

Microbial mats are often found in intertidal areas experiencing a large range of salinities. This study investigated the effect of changing salinities on nitrogenase activity and on the composition of the active diazotrophic community ( transcript libraries) of three types of microbial mats situated

Photosynthetic microbial mats today, on early Earth, (and on early Mars?)

Science.gov (United States)

Des Marais, D. J.

2008-05-01

Marine hypersaline cyanobacterial mats offer insights about their ancient ancestors, whose fossil record is 3.43 billion years old. Studies of mat microbiota have greatly expanded the known diversity of ancient microbial lineages. Their evolution was shaped by mat microenvironments, which can differ substantially from their surroundings. Oxygenic photosynthesis perhaps developed in microbial mats and probably triggered a major evolutionary transformation and diversification of the early biosphere. Gross primary production rates in cyanobacterial mats can rival the most productive ecosystems known. Sunlight changes in intensity and spectral composition as it penetrates mats, and counteracting gradients of O2 and sulfide shape the chemical microenvironment. A combination of benefits and hazards of light, O2 and sulfide promotes the allocation of the various essential mat processes between light and dark periods and to various depths in the mat. Close inspection has revealed surprises, for example: anoxygenic phototrophs inside cyanobacterial sheaths, record- high sulfate reduction rates in O2-saturated conditions, and high H2 fluxes into overlying waters. Diverse organic biomarker compounds have been documented that are amenable to long-term preservation. Such coordinated observations of populations, processes and products are making fundamental questions in ecology accessible. Cyanobacterial mats have robust fossil records in part because they populated stable continental platforms and margins, contributing to sediments having high preservation potential. Proterozoic cyanobacterial fossils and organic biomarkers are well documented. The 3.43 Ga Strelley Pool cherts, W. Australia, reveal diverse stromatolites that populated a partially restricted, low-energy shallow hypersaline basin. Molecular studies of extant bacteria hint that early chlorophyll-utilizing photosynthesizers required geochemical sources of reductants. Did these anoxygenic phototrophs once sustain an

Assembly and Succession of Iron Oxide Microbial Mat Communities in Acidic Geothermal Springs

Directory of Open Access Journals (Sweden)

Jacob P. Beam

2016-02-01

Full Text Available Biomineralized ferric oxide microbial mats are ubiquitous features on Earth, are common in hot springs of Yellowstone National Park (YNP, WY, USA, and form due to direct interaction between microbial and physicochemical processes. The overall goal of this study was to determine the contribution of different community members to the assembly and succession of acidic high-temperature Fe(III-oxide mat ecosystems. Spatial and temporal changes in Fe(III-oxide accretion and the abundance of relevant community members were monitored over 70 days using sterile glass microscope slides incubated in the outflow channels of two acidic geothermal springs (pH = 3 - 3.5; temperature = 68 - 75 °C in YNP. Hydrogenobaculum spp. were the most abundant taxon identified during early successional stages (4 - 40 d, and have been shown to oxidize arsenite, sulfide, and hydrogen coupled to oxygen reduction. Iron-oxidizing populations of Metallosphaera yellowstonensis were detected within 4 d, and reached steady-state levels within 14 - 30 d, corresponding to visible Fe(III-oxide accretion. Heterotrophic archaea colonized near 30 d, and emerged as the dominant functional guild after 70 d and in mature Fe(III-oxide mats (1 - 2 cm thick. First-order rate constants of Fe(III-oxide accretion ranged from 0.046 - 0.05 d-1, and in situ microelectrode measurements showed that the oxidation of Fe(II is limited by the diffusion of O2 into the Fe(III-oxide mat. The formation of microterracettes also implicated O2 as a major variable controlling microbial growth and subsequent mat morphology. The assembly and succession of Fe(III-oxide mat communities follows a repeatable pattern of colonization by lithoautotrophic organisms, and the subsequent growth of diverse organoheterotrophs. The unique geochemical signatures and micromorphology of extant biomineralized Fe(III-oxide mats are useful for understanding other Fe(II-oxidizing systems.

Spatial patterns and links between microbial community composition and function in cyanobacterial mats

KAUST Repository

Alnajjar, Mohammad Ahmad; Ramette, Alban; Kü hl, Michael; Hamza, Waleed; Klatt, Judith M.; Polerecky, Lubos

2014-01-01

We imaged reflectance and variable fluorescence in 25 cyanobacterial mats from four distant sites around the globe to assess, at different scales of resolution, spatial variabilities in the physiological parameters characterizing their photosynthetic capacity, including the absorptivity by chlorophyll a (Achl), maximum quantum yield of photosynthesis (Ymax), and light acclimation irradiance (Ik). Generally, these parameters significantly varied within individual mats on a sub-millimeter scale, with about 2-fold higher variability in the vertical than in the horizontal direction. The average vertical profiles of Ymax and Ik decreased with depth in the mat, while Achl exhibited a sub-surface maximum. The within-mat variability was comparable to, but often larger than, the between-sites variability, whereas the within-site variabilities (i.e., between samples from the same site) were generally lowest. When compared based on averaged values of their photosynthetic parameters, mats clustered according to their site of origin. Similar clustering was found when the community composition of the mats' cyanobacterial layers were compared by automated ribosomal intergenic spacer analysis (ARISA), indicating a significant link between the microbial community composition and function. Although this link is likely the result of community adaptation to the prevailing site-specific environmental conditions, our present data is insufficient to identify the main factors determining these patterns. Nevertheless, this study demonstrates that the spatial variability in the photosynthetic capacity and light acclimation of benthic phototrophic microbial communities is at least as large on a sub-millimeter scale as it is on a global scale, and suggests that this pattern of variability scaling is similar for the microbial community composition. © 2014 Al-Najjar, Ramette, Kühl, Hamza, Klatt and Polerecky.

Spatial patterns and links between microbial community composition and function in cyanobacterial mats

KAUST Repository

Alnajjar, Mohammad Ahmad

2014-08-06

We imaged reflectance and variable fluorescence in 25 cyanobacterial mats from four distant sites around the globe to assess, at different scales of resolution, spatial variabilities in the physiological parameters characterizing their photosynthetic capacity, including the absorptivity by chlorophyll a (Achl), maximum quantum yield of photosynthesis (Ymax), and light acclimation irradiance (Ik). Generally, these parameters significantly varied within individual mats on a sub-millimeter scale, with about 2-fold higher variability in the vertical than in the horizontal direction. The average vertical profiles of Ymax and Ik decreased with depth in the mat, while Achl exhibited a sub-surface maximum. The within-mat variability was comparable to, but often larger than, the between-sites variability, whereas the within-site variabilities (i.e., between samples from the same site) were generally lowest. When compared based on averaged values of their photosynthetic parameters, mats clustered according to their site of origin. Similar clustering was found when the community composition of the mats\\' cyanobacterial layers were compared by automated ribosomal intergenic spacer analysis (ARISA), indicating a significant link between the microbial community composition and function. Although this link is likely the result of community adaptation to the prevailing site-specific environmental conditions, our present data is insufficient to identify the main factors determining these patterns. Nevertheless, this study demonstrates that the spatial variability in the photosynthetic capacity and light acclimation of benthic phototrophic microbial communities is at least as large on a sub-millimeter scale as it is on a global scale, and suggests that this pattern of variability scaling is similar for the microbial community composition. © 2014 Al-Najjar, Ramette, Kühl, Hamza, Klatt and Polerecky.

Living Dendrolitic Microbial Mats in Hamelin Pool, Shark Bay, Western Australia

Directory of Open Access Journals (Sweden)

Erica P. Suosaari

2018-06-01

Full Text Available Hamelin Pool, Shark Bay, Western Australia, is home to the largest and most diverse assemblage of living marine stromatolites, with shapes and sizes comparable to ancient structures. A recent field-intensive program revealed seasonally ephemeral occurrences of modern dendrolitic microbial mats forming in intertidal, low energy settings. Dominated by filamentous cyanobacteria, dendrolitic microbial mats are formed when filaments provide a supporting framework as a result of gliding mobility, to build a shrubby morphology. Dendrolites, known throughout the rock record, refer to macroscopic microbialites with mesostuctures composed of unlaminated arborescent structures called shrubs. In these modern examples, thick filaments of Lyngbya aestuarii form the “trunk” of the bush, with finer filaments of Lyngbya fragilis, Phormidium sp. and Schizothrix sp. forming the “branches” These biologically-influenced dendrolitic structures provide insight into the complex interplay of microbial communities and the environment, broadening our understanding of shrub and dendrolite formation throughout the rock record.

Coastal Microbial Mat Diversity along a Natural Salinity Gradient

NARCIS (Netherlands)

Bolhuis, H.; Fillinger, L.; Stal, L.J.

2013-01-01

The North Sea coast of the Dutch barrier island of Schiermonnikoog is covered by microbial mats that initiate a succession of plant communities that eventually results in the development of a densely vegetated salt marsh. The North Sea beach has a natural elevation running from the low water mark to

Coastal microbial mat diversity along a natural salinity gradient.

Directory of Open Access Journals (Sweden)

Henk Bolhuis

Full Text Available The North Sea coast of the Dutch barrier island of Schiermonnikoog is covered by microbial mats that initiate a succession of plant communities that eventually results in the development of a densely vegetated salt marsh. The North Sea beach has a natural elevation running from the low water mark to the dunes resulting in gradients of environmental factors perpendicular to the beach. These gradients are due to the input of seawater at the low water mark and of freshwater from upwelling groundwater at the dunes and rainfall. The result is a natural and dynamic salinity gradient depending on the tide, rainfall and wind. We studied the microbial community composition in thirty three samples taken every ten meters along this natural salinity gradient by using denaturing gradient gel electrophoresis (DGGE of rRNA gene fragments. We looked at representatives from each Domain of life (Bacteria, Archaea and Eukarya and with a particular emphasis on Cyanobacteria. Analysis of the DGGE fingerprints together with pigment composition revealed three distinct microbial mat communities, a marine community dominated by diatoms as primary producers, an intermediate brackish community dominated by Cyanobacteria as primary producers and a freshwater community with Cyanobacteria and freshwater green algae.

Comparison of the active and resident community of a coastal microbial mat

OpenAIRE

Cardoso, Daniela Clara; Sandionigi, Anna; Cretoiu, Mariana Silvia; Casiraghi, Maurizio; Stal, Lucas; Bolhuis, Henk

2017-01-01

Coastal microbial mats form a nearly closed micro-scale ecosystem harboring a complex microbial community. Previous DNA based analysis did not necessarily provide information about the active fraction of the microbial community because it includes dormant, inactive cells as well as a potential stable pool of extracellular DNA. Here we focused on the active microbial community by comparing 16S rRNA sequences obtained from the ribosomal RNA pool with gene sequences obtained from the DNA fractio...

Controls on O2 Production in Cyanobacterial Mats and Implications for Earth's Oxygenation

Science.gov (United States)

Dick, Gregory J.; Grim, Sharon L.; Klatt, Judith M.

2018-05-01

Cyanobacterial mats are widely assumed to have been globally significant hot spots of biogeochemistry and evolution during the Archean and Proterozoic, but little is known about their quantitative contributions to global primary productivity or Earth's oxygenation. Modern systems show that mat biogeochemistry is the outcome of concerted activities and intimate interactions between various microbial metabolisms. Emerging knowledge of the regulation of oxygenic and sulfide-driven anoxygenic photosynthesis by versatile cyanobacteria, and their interactions with sulfur-oxidizing bacteria and sulfate-reducing bacteria, highlights how ecological and geochemical processes can control O2 production in cyanobacterial mats in unexpected ways. This review explores such biological controls on O2 production. We argue that the intertwined effects of light availability, redox geochemistry, regulation and competition of microbial metabolisms, and biogeochemical feedbacks result in emergent properties of cyanobacterial mat communities that are all critical yet largely overlooked mechanisms to potentially explain the protracted nature of Earth's oxygenation.

Diatom-driven recolonization of microbial mat-dominated siliciclastic tidal flat sediments.

Science.gov (United States)

Pan, Jerónimo; Cuadrado, Diana G; Bournod, Constanza N

2017-10-01

Modern microbial mats and biofilms play a paramount role in sediment biostabilization. When sporadic storms affect tidal flats of Bahía Blanca Estuary, the underlying siliciclastic sediment is exposed by physical disruption of the mat, and in a few weeks' lapse, a microbial community re-establishes. With the objective of studying colonization patterns and the ecological succession of microorganisms at the scale of these erosional structures, these were experimentally made and their biological recolonization followed for 8 weeks, with replication in winter and spring. Motile pennate diatoms led the initial colonization following two distinct patterns: a dominance by Cylindrotheca closterium in winter and by naviculoid and nitzschioid diatoms in spring. During the first 7 days, cell numbers increased 2- to 17-fold. Cell densities further increased exhibiting sigmoidal community growth, reaching 2.9-8.9 × 106 cells cm-3 maxima around day 30; centric diatoms maintained low densities throughout. In 56 days after removal of the original mat, filamentous cyanobacteria that dominate mature mats did not establish a significant biomass, leading to the rejection of the hypothesis that cyanobacteria would drive the colonization. The observed dominance of pennate diatoms is attributed to extrinsic factors determined by tidal flooding, and intrinsic ones, e.g. motility, nutrient affinity and high growth rate. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Characterization of Pustular Mats and Related Rivularia-Rich Laminations in Oncoids From the Laguna Negra Lake (Argentina

Directory of Open Access Journals (Sweden)

Estela C. Mlewski

2018-05-01

Full Text Available Stromatolites are organo-sedimentary structures that represent some of the oldest records of the early biosphere on Earth. Cyanobacteria are considered as a main component of the microbial mats that are supposed to produce stromatolite-like structures. Understanding the role of cyanobacteria and associated microorganisms on the mineralization processes is critical to better understand what can be preserved in the laminated structure of stromatolites. Laguna Negra (Catamarca, Argentina, a high-altitude hypersaline lake where stromatolites are currently formed, is considered as an analog environment of early Earth. This study aimed at characterizing carbonate precipitation within microbial mats and associated oncoids in Laguna Negra. In particular, we focused on carbonated black pustular mats. By combining Confocal Laser Scanning Microscopy, Scanning Electron Microscopy, Laser Microdissection and Whole Genome Amplification, Cloning and Sanger sequencing, and Focused Ion Beam milling for Transmission Electron Microscopy, we showed that carbonate precipitation did not directly initiate on the sheaths of cyanobacterial Rivularia, which dominate in the mat. It occurred via organo-mineralization processes within a large EPS matrix excreted by the diverse microbial consortium associated with Rivularia where diatoms and anoxygenic phototrophic bacteria were particularly abundant. By structuring a large microbial consortium, Rivularia should then favor the formation of organic-rich laminations of carbonates that can be preserved in stromatolites. By using Fourier Transform Infrared spectroscopy and Synchrotron-based deep UV fluorescence imaging, we compared laminations rich in structures resembling Rivularia to putatively chemically-precipitated laminations in oncoids associated with the mats. We showed that they presented a different mineralogy jointly with a higher content in organic remnants, hence providing some criteria of biogenicity to be searched

Metagenomic Assembly of the Dominant Zetaproteobacteria in an Iron-oxidizing Hydrothermal Microbial Mat

Science.gov (United States)

Moyer, C. L.; Fullerton, H.

2013-12-01

Iron is the fourth most abundant element in the Earth's crust and is potentially one of the most abundant energy sources on the earth as an electron donor for chemolithoautotrophic growth coupled to Fe(II) oxidation. Despite the rapid abiotic oxidation rate of iron, many microbes have adapted to feeding off this fleeting energy source. One such bacterial class is the Zetaproteobacteria. Iron-dominated microbial mat material was collected with a small-scale syringe sampler from Loihi Seamount, Hawaii. From this sample, gDNA was extracted and prepared for paired-end Illumina sequencing. Reconstruction of SSU rDNA genes using EMERGE allowed for comparison to previous SSU rDNA surveys. Clone libraries and qPCR show these microbial mats to be dominated by Zetaproteobacteria. Results from our in silico reconstruction confirm these initial findings. RDP classification of the EMERGE reconstructed sequences resulted in 44% of the community being identified as Zetaproteobacteria. The most abundant SSU rDNA has 99% similarity to Zeta OTU-2, and only a 94% similarity to M. ferrooxidans PV-1. Zeta OTU-2 has been shown to be the most cosmopolitan population in iron-dominated hydrothermal systems from across Pacific Ocean. Metagenomic assembly has resulted in many contigs with high identity to M. ferrooxidans as identified, by BLAST. However, with large differences in SSU rRNA similarity, M. ferrooxidans PV-1 is not an adequate reference. Current work is focusing on reconstruction of the dominant microbial mat member, without the use of a reference genome through an iterative assembly approach. The resulting 'pan-genome' will be compared to other Zetaproteobacteria (at the class level) and the functional ecology of this cosmopolitan microbial mat community member will be extrapolated. Thus far, we have detected multiple housekeeping genes involved in DNA replication, transcription and translation. The most abundant metabolic gene we have found is Aconitase, a key enzyme in the

Diatom, cyanobacterial and microbial mats as indicators of hydrocarbon contaminated Arctic streams and waters

Energy Technology Data Exchange (ETDEWEB)

Ziervogel, H.; Selann, J.; Adeney, B. [EBA Engineering Consultants Ltd., Edmonton, AB (Canada); Nelson, J.A. [J.B. Services, Sarnia, ON (Canada); Murdock, E. [Nunavut Power, Iqaluit (Canada)

2003-07-01

An environmental assessment conducted at Repulse Bay, Nunavut in the summer of 2001 revealed a recent diesel spill flowing from the groundwater into a creek. The spill had not been reported. When Arctic surface waters mix with hydrocarbon impacted groundwater and sediments, distinctive mats of diatom, cyanobacteria and other bacteria are formed. These mats have the potential for phytoremediation of hydrocarbons. This paper explained the apparent dominance of mats in contaminated Arctic waters and why they promote biodegradation of hydrocarbons. Hydrocarbon-contaminated soils and groundwater are generally anaerobic. The higher dissolved carbon dioxide in polluted soils and groundwater can benefit photosynthetic cyanobacteria and diatom found in oligotrophic, lower alkalinity Arctic waters. The anaerobic and aerobic bacteria can potentially take advantage of the hydrogen substrate and the nitrogen fixing abilities of the cyanobacteria. Zooplankton predators may be killed off by the toxicity of the polluted groundwater. The paper provides examples where a microbial mat reduced the sulfate content of a hydrocarbon-impacted Arctic stream by 100 ppm, and where a pond covered in a benthic microbial mat showed no evidence of hydrocarbons in the water overlying sediments contaminated with hydrocarbons at concentrations measured at 30,000 ppm. 19 refs., 3 tabs., 8 figs.

Microbial Character Related Sulfur Cycle under Dynamic Environmental Factors Based on the Microbial Population Analysis in Sewerage System.

Science.gov (United States)

Dong, Qian; Shi, Hanchang; Liu, Yanchen

2017-01-01

The undesired sulfur cycle derived by microbial population can ultimately causes the serious problems of sewerage systems. However, the microbial community characters under dynamic environment factors in actual sewerage system is still not enough. This current study aimed to character the distributions and compositions of microbial communities that participate in the sulfur cycle under the dynamic environmental conditions in a local sewerage system. To accomplish this, microbial community compositions were assessed using 454 high-throughput sequencing (16S rDNA) combined with dsrB gene-based denaturing gradient gel electrophoresis. The results indicated that a higher diversity of microbial species was present at locations in sewers with high concentrations of H 2 S. Actinobacteria and Proteobacteria were dominant in the sewerage system, while Actinobacteria alone were dominant in regions with high concentrations of H 2 S. Specifically, the unique operational taxonomic units could aid to characterize the distinct microbial communities within a sewerage manhole. The proportion of sulfate-reducing bacteria, each sulfur-oxidizing bacteria (SOB) were strongly correlated with the liquid parameters (DO, ORP, COD, Sulfide, NH 3 -N), while the Mycobacterium and Acidophilic SOB (M&A) was strongly correlated with gaseous factors within the sewer, such as H 2 S, CH 4 , and CO. Identifying the distributions and proportions of critical microbial communities within sewerage systems could provide insights into how the microbial sulfur cycle is affected by the dynamic environmental conditions that exist in sewers and might be useful for explaining the potential sewerage problems.

Dynamics of bacterial populations during bench-scale bioremediation of oily seawater and desert soil bioaugmented with coastal microbial mats.

Science.gov (United States)

Ali, Nidaa; Dashti, Narjes; Salamah, Samar; Sorkhoh, Naser; Al-Awadhi, Husain; Radwan, Samir

2016-03-01

This study describes a bench-scale attempt to bioremediate Kuwaiti, oily water and soil samples through bioaugmentation with coastal microbial mats rich in hydrocarbonoclastic bacterioflora. Seawater and desert soil samples were artificially polluted with 1% weathered oil, and bioaugmented with microbial mat suspensions. Oil removal and microbial community dynamics were monitored. In batch cultures, oil removal was more effective in soil than in seawater. Hydrocarbonoclastic bacteria associated with mat samples colonized soil more readily than seawater. The predominant oil degrading bacterium in seawater batches was the autochthonous seawater species Marinobacter hydrocarbonoclasticus. The main oil degraders in the inoculated soil samples, on the other hand, were a mixture of the autochthonous mat and desert soil bacteria; Xanthobacter tagetidis, Pseudomonas geniculata, Olivibacter ginsengisoli and others. More bacterial diversity prevailed in seawater during continuous than batch bioremediation. Out of seven hydrocarbonoclastic bacterial species isolated from those cultures, only one, Mycobacterium chlorophenolicum, was of mat origin. This result too confirms that most of the autochthonous mat bacteria failed to colonize seawater. Also culture-independent analysis of seawater from continuous cultures revealed high-bacterial diversity. Many of the bacteria belonged to the Alphaproteobacteria, Flavobacteria and Gammaproteobacteria, and were hydrocarbonoclastic. Optimal biostimulation practices for continuous culture bioremediation of seawater via mat bioaugmentation were adding the highest possible oil concentration as one lot in the beginning of bioremediation, addition of vitamins, and slowing down the seawater flow rate. © 2016 The Author. Microbial Biotechnology published by John Wiley & Sons Ltd and Society for Applied Microbiology.

Nitrification-driven forms of nitrogen metabolism in microbial mat communities thriving along an ammonium-enriched subsurface geothermal stream

Science.gov (United States)

Nishizawa, Manabu; Koba, Keisuke; Makabe, Akiko; Yoshida, Naohiro; Kaneko, Masanori; Hirao, Shingo; Ishibashi, Jun-ichiro; Yamanaka, Toshiro; Shibuya, Takazo; Kikuchi, Tohru; Hirai, Miho; Miyazaki, Junichi; Nunoura, Takuro; Takai, Ken

2013-07-01

We report here the concurrence and interaction among forms of nitrogen metabolism in thermophilic microbial mat communities that developed in an ammonium-abundant subsurface geothermal stream. First, the physical and chemical conditions of the stream water at several representative microbial mat habitats (including upper, middle and downstream sites) were characterized. A thermodynamic calculation using these physical and chemical conditions predicted that nitrification consisting of ammonia and nitrite oxidations would provide one of the largest energy yields of chemolithotrophic metabolisms. Second, near-complete prokaryotic 16S rRNA gene clone analysis was conducted for representative microbial mat communities at the upper, middle and downstream sites. The results indicated a dynamic shift in the 16S rRNA gene phylotype composition through physical and chemical variations of the stream water. The predominant prokaryotic components varied from phylotypes related to hydrogeno (H2)- and thio (S)-trophic Aquificales, thermophilic methanotrophs and putative ammonia-oxidizing Archaea (AOA) located upstream (72 °C) to the phylotypes affiliated with putative AOA and nitrite-oxidizing bacteria (NOB) located at the middle and downstream sites (65 and 57 °C, respectively). In addition, the potential in situ metabolic activities of different forms of nitrogen metabolism were estimated through laboratory experiments using bulk microbial mat communities. Finally, the compositional and isotopic variation in nitrogen compounds was investigated in the stream water flowing over the microbial mats and in the interstitial water inside the mats. Although the stream water was characterized by a gradual decrease in the total ammonia concentration (ΣNH3: the sum of ammonia and ammonium concentrations) and a gradual increase in the total concentration of nitrite and nitrate (NO2- + NO3-), the total inorganic nitrogen concentration (TIN: the sum of ΣNH3, NO2- and NO3- concentrations

Timescales of Growth Response of Microbial Mats to Environmental Change in an Ice-Covered Antarctic Lake

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Anne D. Jungblut

2013-01-01

Full Text Available Lake Vanda is a perennially ice-covered, closed-basin lake in the McMurdo Dry Valleys, Antarctica. Laminated photosynthetic microbial mats cover the floor of the lake from below the ice cover to >40 m depth. In recent decades, the water level of Lake Vanda has been rising, creating a “natural experiment” on development of mat communities on newly flooded substrates and the response of deeper mats to declining irradiance. Mats in recently flooded depths accumulate one lamina (~0.3 mm per year and accrue ~0.18 µg chlorophyll-a cm−2 y−1. As they increase in thickness, vertical zonation becomes evident, with the upper 2-4 laminae forming an orange-brown zone, rich in myxoxanthophyll and dominated by intertwined Leptolyngbya trichomes. Below this, up to six phycobilin-rich green/pink-pigmented laminae form a subsurface zone, inhabited by Leptolyngbya, Oscillatoria and Phormidium morphotypes. Laminae continued to increase in thickness for several years after burial, and PAM fluorometry indicated photosynthetic potential in all pigmented laminae. At depths that have been submerged for >40 years, mats showed similar internal zonation and formed complex pinnacle structures that were only beginning to appear in shallower mats. Chlorophyll-a did not change over time and these mats appear to represent resource-limited “climax” communities. Acclimation of microbial mats to changing environmental conditions is a slow process, and our data show how legacy effects of past change persist into the modern community structure.

Method for modeling the deposition of sulfur by precipitation over regional scales

International Nuclear Information System (INIS)

Hicks, B.B.; Shannon, J.D.

1979-01-01

Radioactive fallout data suggest that the concentration of pollutants in rainfall, while highly variable, might be described on the average by about an inverse half-power dependence on the amount of precipitation. Recent measurements of sulfur concentrations in summer rainfall collected at Argonne National Laboratory tend to support this contention, as do preliminary results derived from operations of the DOE precipitation chemistry network. The concept is extended to develop a bulk removal rate for airborne total sulfur by precipitation for use in regional dispersion modeling

Lava cave microbial communities within mats and secondary mineral deposits: implications for life detection on other planets.

Science.gov (United States)

Northup, D E; Melim, L A; Spilde, M N; Hathaway, J J M; Garcia, M G; Moya, M; Stone, F D; Boston, P J; Dapkevicius, M L N E; Riquelme, C

2011-09-01

Lava caves contain a wealth of yellow, white, pink, tan, and gold-colored microbial mats; but in addition to these clearly biological mats, there are many secondary mineral deposits that are nonbiological in appearance. Secondary mineral deposits examined include an amorphous copper-silicate deposit (Hawai'i) that is blue-green in color and contains reticulated and fuzzy filament morphologies. In the Azores, lava tubes contain iron-oxide formations, a soft ooze-like coating, and pink hexagons on basaltic glass, while gold-colored deposits are found in lava caves in New Mexico and Hawai'i. A combination of scanning electron microscopy (SEM) and molecular techniques was used to analyze these communities. Molecular analyses of the microbial mats and secondary mineral deposits revealed a community that contains 14 phyla of bacteria across three locations: the Azores, New Mexico, and Hawai'i. Similarities exist between bacterial phyla found in microbial mats and secondary minerals, but marked differences also occur, such as the lack of Actinobacteria in two-thirds of the secondary mineral deposits. The discovery that such deposits contain abundant life can help guide our detection of life on extraterrestrial bodies.

The cyanobacterium Mastigocladus fulfills the nitrogen demand of a terrestrial hot spring microbial mat.

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Estrella Alcamán, María; Fernandez, Camila; Delgado, Antonio; Bergman, Birgitta; Díez, Beatriz

2015-10-01

Cyanobacteria from Subsection V (Stigonematales) are important components of microbial mats in non-acidic terrestrial hot springs. Despite their diazotrophic nature (N2 fixers), their impact on the nitrogen cycle in such extreme ecosystems remains unknown. Here, we surveyed the identity and activity of diazotrophic cyanobacteria in the neutral hot spring of Porcelana (Northern Patagonia, Chile) during 2009 and 2011-2013. We used 16S rRNA and the nifH gene to analyze the distribution and diversity of diazotrophic cyanobacteria. Our results demonstrate the dominance of the heterocystous genus Mastigocladus (Stigonematales) along the entire temperature gradient of the hot spring (69-38 °C). In situ nitrogenase activity (acetylene reduction), nitrogen fixation rates (cellular uptake of (15)N2) and nifH transcription levels in the microbial mats showed that nitrogen fixation and nifH mRNA expression were light-dependent. Nitrogen fixation activities were detected at temperatures ranging from 58 °C to 46 °C, with maximum daily rates of 600 nmol C2H4 cm(-2) per day and 94.1 nmol N cm(-2) per day. These activity patterns strongly suggest a heterocystous cyanobacterial origin and reveal a correlation between nitrogenase activity and nifH gene expression during diurnal cycles in thermal microbial mats. N and C fixation in the mats contributed ~3 g N m(-2) per year and 27 g C m(-2) per year, suggesting that these vital demands are fully met by the diazotrophic and photoautotrophic capacities of the cyanobacteria in the Porcelana hot spring.

The Diffusive Boundary-Layer of Sediments - Oxygen Microgradients Over a Microbial Mat

DEFF Research Database (Denmark)

JØRGENSEN, BB; MARAIS, DJD

1990-01-01

Oxygen microelectrodes were used to analyze the distribution of the diffusive boundary layer (DBL) at the sedimen-water interface in relation to surface topography and flow velocity. The sediment, collected from saline ponds, was covered by a microbial mat that had high oxygen consumption rate...

Context, Biogeochemistry, and Morphology of Diverse and Spatially Extensive Microbial Mats, Little Ambergris Cay, Turks and Caicos Islands, B.W.I.

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Present, T. M.; Trower, L.; Stein, N.; Alleon, J.; Bahniuk, A.; Gomes, M. L.; Lingappa, U.; Metcalfe, K.; Orzechowski, E. A.; Riedman, L. A.; Sanders, C. B.; Morris, D. K.; O'Reilly, S.; Sibert, E. C.; Thorpe, M.; Tarika, M.; Fischer, W. W.; Knoll, A. H.; Grotzinger, J. P.

2017-12-01

Little Ambergris Cay (21.3° N, 71.7° W) was the site of an integrated geobiological study conducted in July 2016 and August 2017. The cay ( 6 km x 1.6 km) is developed on a broad bank influenced by strong easterly trade winds (avg. 7.5 m/s), where convergent ooid shoals culminate in a linear shoal extending almost 25 km westward from the cay. Lithified upper shoreface to eolian ooid grainstones form a 2 m high bedrock rim that protects an extensive interior tidal marsh with well-developed microbial mats. Local breaches in the rim allow tidal flows to inundate interior bays floored by microbial mats. Three mat types were observed based on texture: dark toned "blister mat" that flanks the bays where they intersect with the bedrock rim; light-toned "polygonal mat" that covers broad tracts of the bay and is exposed at low tide; and lighter-toned "EPS mat" that is generally submerged even at low tide. The millimeter-to decimeter-thick layered mats overlie laterally extensive ooid sands, generally unlithified except for a few hardgrounds. The mats and underlying sediments were sampled by vibracoring, push coring, and piezometers. Biogeochemical analyses include groundwater salinity, pH, DIC, alkalinity, cation composition, DNA content, photosynthetic efficiency, C and S isotope composition, lipid biomarkers, and taphonomic state. Groundwater and interstitial water chemical analyses were integrated with hydrologic observations of tidal channels' level and flow. Visible light UAV images from 350 m standoff distance were processed to generate a 15 cm/pixel mosaic of the island that was used in combination with a DGPS survey, multispectral Landsat images (m-scale resolution) and Worldview satellite images (30 cm resolution) to map the island's topography, mats, and sedimentologic facies. A UAV-based VNIR hyperspectral camera was used to quantify pigment concentrations in the mats at cm-resolution over decameter scales. Sub-cm-scale bed textures, including those expressed

A dynamic mathematical model for microbial removal of pyritic sulfur from coal.

Science.gov (United States)

Kargi, F; Weissman, J G

1984-06-01

A dynamic mathematical model has been developed to describe microbial desulfurization of coal by Thiobacillus ferrooxidans. The model considers adsorption and desorption of cells on coal particles and microbial oxidation of pyritic sulfur on particle surfaces. The influence of certain parameters, such as microbial growth rate constants, adsorption-description constants, pulp density, coal particle size, initial cell and solid phase substrate concentration on the maximum rate of pyritic sulfur removal, have been elucidated. The maximum rate of pyritic sulfur removal was strongly dependent upon the number of attached cells per coal particle. At sufficiently high initial cell concentrations, the surfaces of coal particles are nearly saturated by the cells and the maximum leaching rate is limited either by total external surface area of coal particles or by the concentration of pyritic sulfur in the coal phase. The maximum volumetric rate of pyritic sulfur removal (mg S/h cm(3) mixture) increases with the pulp density of coal and reaches a saturation level at high pulp densities (e.g. 45%). The maximum rate also increases with decreasing particle diameter in a hyperbolic form. Increases in adsorption coefficient or decreases in the desorption coefficient also result in considerable improvements in this rate. The model can be applied to other systems consisting of suspended solid substrate particles in liquid medium with microbial oxidation occurring on the particle surfaces (e.g., bacterial ore leaching). The results obtained from this model are in good agreement with published experimental data on microbial desulfurization of coal and bacterial ore leaching.

Groundwater mixing at fracture intersections triggers massive iron-rich microbial mats

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Bochet, O.; Le Borgne, T.; Bethencourt, L.; Aquilina, L.; Dufresne, A.; Pédrot, M.; Farasin, J.; Abbott, B. W.; Labasque, T.; Chatton, E.; Lavenant, N.; Petton, C.

2017-12-01

While most freshwater on Earth resides and flows in groundwater systems, these deep subsurface environments are often assumed to have little biogeochemical activity compared to surface environments. Here we report a massive microbial mat of iron-oxidizing bacteria, flourishing 60 meters below the surface, far below the mixing zone where most microbial activity is believed to occur. The abundance of microtubular structures in the mat hinted at the prevalence of of Leptothrix ochracea, but metagenomic analysis revealed a diverse consortium of iron-oxidizing bacteria dominated by unknown members of the Gallionellaceae family. This deep biogeochemical hot spot formed at the intersection of bedrock fractures, which maintain redox gradients by mixing water with different residence times and chemical compositions. Using measured fracture properties and hydrological conditions we developed a quantitative model to simulate the reactive zone where such deep hot spots could occur. While seasonal fluctuations are generally thought to decrease with depth, we found that meter-scale changes in water table level moved the depth of the reactive zone hundreds of meters because the microaerophilic threshold for ironoxidizers is highly sensitive to changes in mixing rates at fracture intersections. These results demonstrate that dynamic microbial communities can be sustained deep below the surface in bedrock fractures. Given the ubiquity of fractures at multiple scales in Earth's subsurface, such deep hot spots may strongly influence global biogeochemical cycles.

Insights into chemotaxonomic composition and carbon cycling of phototrophic communities in an artesian sulfur-rich spring (Zodletone, Oklahoma, USA), a possible analog for ancient microbial mat systems.

Science.gov (United States)

Bühring, S I; Sievert, S M; Jonkers, H M; Ertefai, T; Elshahed, M S; Krumholz, L R; Hinrichs, K-U

2011-03-01

Zodletone spring in Oklahoma is a unique environment with high concentrations of dissolved-sulfide (10 mm) and short-chain gaseous alkanes, exhibiting characteristics that are reminiscent of conditions that are thought to have existed in Earth's history, in particular the late Archean and early-to-mid Proterozoic. Here, we present a process-oriented investigation of the microbial community in two distinct mat formations at the spring source, (1) the top of the sediment in the source pool and (2) the purple streamers attached to the side walls. We applied a combination of pigment and lipid biomarker analyses, while functional activities were investigated in terms of oxygen production (microsensor analysis) and carbon utilization ((13)C incorporation experiments). Pigment analysis showed cyanobacterial pigments, in addition to pigments from purple sulfur bacteria (PSB), green sulfur bacteria (GSB) and Chloroflexus-like bacteria (CLB). Analysis of intact polar lipids (IPLs) in the source sediment confirmed the presence of phototrophic organisms via diacylglycerol phospholipids and betaine lipids, whereas glyceroldialkylglyceroltetraether additionally indicated the presence of archaea. No archaeal IPLs were found in the purple streamers, which were strongly dominated by betaine lipids. (13)C-bicarbonate- and -acetate-labeling experiments indicated cyanobacteria as predominant phototrophs in the source sediment, carbon was actively fixed by PSB/CLB/GSB in purple streamers by using near infrared light. Despite the presence of cyanobacteria, no oxygen could be detected in the presence of light, suggesting anoxygenic photosynthesis as the major metabolic process at this site. Our investigations furthermore indicated photoheterotrophy as an important process in both habitats. We obtained insights into a syntrophically operating phototrophic community in an ecosystem that bears resemblance to early Earth conditions, where cyanobacteria constitute an important contributor to

Isotopic composition of methane and inferred methanogenic substrates along a salinity gradient in a hypersaline microbial mat system.

Science.gov (United States)

Potter, Elyn G; Bebout, Brad M; Kelley, Cheryl A

2009-05-01

The importance of hypersaline environments over geological time, the discovery of similar habitats on Mars, and the importance of methane as a biosignature gas combine to compel an understanding of the factors important in controlling methane released from hypersaline microbial mat environments. To further this understanding, changes in stable carbon isotopes of methane and possible methanogenic substrates in microbial mat communities were investigated as a function of salinity here on Earth. Microbial mats were sampled from four different field sites located within salterns in Baja California Sur, Mexico. Salinities ranged from 50 to 106 parts per thousand (ppt). Pore water and microbial mat samples were analyzed for the carbon isotopic composition of dissolved methane, dissolved inorganic carbon (DIC), and mat material (particulate organic carbon or POC). The POC delta(13)C values ranged from -6.7 to -13.5 per thousand, and DIC delta(13)C values ranged from -1.4 to -9.6 per thousand. These values were similar to previously reported values. The delta(13)C values of methane ranged from -49.6 to -74.1 per thousand; the methane most enriched in (13)C was obtained from the highest salinity area. The apparent fractionation factors between methane and DIC, and between methane and POC, within the mats were also determined and were found to change with salinity. The apparent fractionation factors ranged from 1.042 to 1.077 when calculated using DIC and from 1.038 to 1.068 when calculated using POC. The highest-salinity area showed the least fractionation, the moderate-salinity area showed the highest fractionation, and the lower-salinity sites showed fractionations that were intermediate. These differences in fractionation are most likely due to changes in the dominant methanogenic pathways and substrates used at the different sites because of salinity differences.

Community structure and function of high-temperature chlorophototrophic microbial mats inhabiting diverse geothermal environments

DEFF Research Database (Denmark)

Klatt, Christian G.; Inskeep, William P.; Herrgard, Markus

2013-01-01

Six phototrophic microbial mat communities from different geothermal springs (YNP) were studied using metagenome sequencing and geochemical analyses. The primary goals of this work were to determine differences in community composition of high-temperature phototrophic mats distributed across...... the Yellowstone geothermal ecosystem, and to identify metabolic attributes of predominant organisms present in these communities that may correlate with environmental attributes important in niche differentiation. Random shotgun metagenome sequences from six phototrophic communities (average 53Mbp/site) were...

Formation of Microbial Mats and Salt in Radioactive Paddy Soils in Fukushima, Japan

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Kazue Tazaki

2015-12-01

Full Text Available Coastal areas in Minami-soma City, Fukushima, Japan, were seriously damaged by radioactive contamination from the Fukushima Daiichi Nuclear Power Plant (FDNPP accident that caused multiple pollution by tsunami and radionuclide exposure, after the Great East Japan Earthquake, on 11 March 2011. Some areas will remain no-go zones because radiation levels remain high. In Minami-soma, only 26 percent of decontamination work had been finished by the end of July in 2015. Here, we report the characterization of microbial mats and salt found on flooded paddy fields at Karasuzaki, Minami-soma City, Fukushima Prefecture, Japan which have been heavily contaminated by radionuclides, especially by Cs (134Cs, 137Cs, 40K, Sr (89Sr, 90Sr, and 91 or 95Zr even though it is more than 30 km north of the FDNPP. We document the mineralogy, the chemistry, and the micro-morphology, using a combination of micro techniques. The microbial mats were found to consist of diatoms with mineralized halite and gypsum by using X-ray diffraction (XRD. Particular elements concentrated in microbial mats were detected using scanning electron microscopy equipped with energy dispersive spectroscopy (SEM-EDS and X-ray fluorescence (XRF. The objective of this contribution is to illustrate the ability of various diatoms associated with minerals and microorganisms which are capable of absorbing both radionuclides and stable isotopes from polluted paddy soils in extreme conditions. Ge semiconductor analysis of the microbial mats detected 134Cs, 137Cs, and 40K without 131I in 2012 and in 2013. Quantitative analysis associated with the elemental content maps by SEM-EDS indicated the possibility of absorption of radionuclide and stable isotope elements from polluted paddy soils in Fukushima Prefecture. In addition, radionuclides were detected in solar salts made of contaminated sea water collected from the Karasuzaki ocean bath, Minami-soma, Fukushima in 2015, showing high Zr content associated

Free-living spirochetes from Cape Cod microbial mats detected by electron microscopy

Science.gov (United States)

Teal, T. H.; Chapman, M.; Guillemette, T.; Margulis, L.

1996-01-01

Spirochetes from microbial mats and anaerobic mud samples collected in salt marshes were studied by light microscopy, whole mount and thin section transmission electron microscopy. Enriched in cellobiose-rifampin medium, selective for Spirochaeta bajacaliforniensis, seven distinguishable spirochete morphotypes were observed. Their diameters ranged from 0.17 micron to > 0.45 micron. Six of these morphotypes came from southwest Cape Cod, Massachusetts: five from Microcoleus-dominated mat samples collected at Sippewissett salt marsh and one from anoxic mud collected at School Street salt marsh (on the east side of Eel Pond). The seventh morphotype was enriched from anoxic mud sampled from the north central Cape Cod, at the Sandy Neck salt marsh. Five of these morphotypes are similar or identical to previously described spirochetes (Leptospira, Spirochaeta halophila, Spirochaeta bajacaliforniensis, Spirosymplokos deltaeiberi and Treponema), whereas the other two have unique features that suggest they have not been previously described. One of the morphotypes resembles Spirosymplokos deltaeiberi (the largest free-living spirochete described), in its large variable diameter (0.4-3.0 microns), cytoplasmic granules, and spherical (round) bodies with composite structure. This resemblance permits its tentative identification as a Sippewissett strain of Spirosymplokos deltaeiberi. Microbial mats samples collected in sterile Petri dishes and stored dry for more than four years yielded many organisms upon rewetting, including small unidentified spirochetes in at least 4 out of 100 enrichments.

Characterizing Microbial Mat Morphology with Structure from Motion Techniques in Ice-Covered Lake Joyce, McMurdo Dry Valleys, Antarctica

Science.gov (United States)

Mackey, T. J.; Leidman, S. Z.; Allen, B.; Hawes, I.; Lawrence, J.; Jungblut, A. D.; Krusor, M.; Coleman, L.; Sumner, D. Y.

2015-12-01

Structure from Motion (SFM) techniques can provide quantitative morphological documentation of otherwise inaccessible benthic ecosystems such as microbial mats in Lake Joyce, a perennially ice-covered lake of the Antarctic McMurdo Dry Valleys (MDV). Microbial mats are a key ecosystem of MDV lakes, and diverse mat morphologies like pinnacles emerge from interactions among microbial behavior, mineralization, and environmental conditions. Environmental gradients can be isolated to test mat growth models, but assessment of mat morphology along these gradients is complicated by their inaccessibility: the Lake Joyce ice cover is 4-5 m thick, water depths containing diverse pinnacle morphologies are 9-14 m, and relevant mat features are cm-scale. In order to map mat pinnacle morphology in different sedimentary settings, we deployed drop cameras (SeaViewer and GoPro) through 29 GPS referenced drill holes clustered into six stations along a transect spanning 880 m. Once under the ice cover, a boom containing a second GoPro camera was unfurled and rotated to collect oblique images of the benthic mats within dm of the mat-water interface. This setup allowed imaging from all sides over a ~1.5 m diameter area of the lake bottom. Underwater lens parameters were determined for each camera in Agisoft Lens; images were reconstructed and oriented in space with the SFM software Agisoft Photoscan, using the drop camera axis of rotation as up. The reconstructions were compared to downward facing images to assess accuracy, and similar images of an object with known geometry provided a test for expected error in reconstructions. Downward facing images identify decreasing pinnacle abundance in higher sedimentation settings, and quantitative measurements of 3D reconstructions in KeckCAVES LidarViewer supplement these mat morphological facies with measurements of pinnacle height and orientation. Reconstructions also help isolate confounding variables for mat facies trends with measurements

Community Structure and Function of High-temperature Chlorophototrophic Microbial Mats Inhabiting Diverse Geothermal Environments

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William P. Inskeep

2013-06-01

Full Text Available Six phototrophic microbial mat communities from different geothermal springs (YNP were studied using metagenome sequencing and geochemical analyses. The primary goals of this work were to determine differences in community composition of high-temperature phototrophic mats distributed across the Yellowstone geothermal ecosystem, and to identify metabolic attributes of predominant organisms present in these communities that may correlate with environmental attributes important in niche differentiation. Random shotgun metagenome sequences from six phototrophic communities (average~ 53 Mbp/site were subjected to multiple taxonomic, phylogenetic and functional analyses. All methods, including G+C content distribution, MEGAN analyses and oligonucleotide frequency-based clustering, provided strong support for the dominant community members present in each site. Cyanobacteria were only observed in non-sulfidic sites; de novo assemblies were obtained for Synechococcus-like populations at Chocolate Pots (CP_7 and Fischerella-like populations at White Creek (WC_6. Chloroflexi-like sequences (esp. Roseiflexus and/or Chloroflexus spp. were observed in all six samples and contained genes involved in bacteriochlorophyll biosynthesis and the 3-hydroxypropionate carbon fixation pathway. Other major sequence assemblies were obtained for a Chlorobiales population from CP_7 (proposed family Thermochlorobacteriaceae, and an anoxygenic, sulfur-oxidizing Thermochromatium-like (Gamma-proteobacteria population from Bath Lake Vista Annex (BLVA_20. Additional sequence coverage is necessary to establish more complete assemblies of other novel bacteria in these sites (e.g., Bacteroidetes and Firmicutes; however, current assemblies suggested that several of these organisms play important roles in heterotrophic and fermentative metabolisms. Definitive linkages were established between several of the dominant phylotypes present in these habitats and important functional

The Dark Side of the Mushroom Spring Microbial Mat: Life in the Shadow of Chlorophototrophs. II. Metabolic Functions of Abundant Community Members Predicted from Metagenomic Analyses.

Science.gov (United States)

Thiel, Vera; Hügler, Michael; Ward, David M; Bryant, Donald A

2017-01-01

Microbial mat communities in the effluent channels of Octopus and Mushroom Springs within the Lower Geyser Basin of Yellowstone National Park have been extensively characterized. Previous studies have focused on the chlorophototrophic organisms of the phyla Cyanobacteria and Chloroflexi . However, the diversity and metabolic functions of the other portion of the community in the microoxic/anoxic region of the mat are poorly understood. We recently described the diverse but extremely uneven microbial assemblage in the undermat of Mushroom Spring based on 16S rRNA amplicon sequences, which was dominated by Roseiflexus members, filamentous anoxygenic chlorophototrophs. In this study, we analyzed the orange-colored undermat portion of the community of Mushroom Spring mats in a genome-centric approach and discuss the metabolic potentials of the major members. Metagenome binning recovered partial genomes of all abundant community members, ranging in completeness from ~28 to 96%, and allowed affiliation of function with taxonomic identity even for representatives of novel and Candidate phyla. Less complete metagenomic bins correlated with high microdiversity. The undermat portion of the community was found to be a mixture of phototrophic and chemotrophic organisms, which use bicarbonate as well as organic carbon sources derived from different cell components and fermentation products. The presence of rhodopsin genes in many taxa strengthens the hypothesis that light energy is of major importance. Evidence for the usage of all four bacterial carbon fixation pathways was found in the metagenome. Nitrogen fixation appears to be limited to Synechococcus spp. in the upper mat layer and Thermodesulfovibrio sp. in the undermat, and nitrate/nitrite metabolism was limited. A closed sulfur cycle is indicated by biological sulfate reduction combined with the presence of genes for sulfide oxidation mainly in phototrophs. Finally, a variety of undermat microorganisms have genes for

The Dark Side of the Mushroom Spring Microbial Mat: Life in the Shadow of Chlorophototrophs. II. Metabolic Functions of Abundant Community Members Predicted from Metagenomic Analyses

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Vera Thiel

2017-06-01

Full Text Available Microbial mat communities in the effluent channels of Octopus and Mushroom Springs within the Lower Geyser Basin of Yellowstone National Park have been extensively characterized. Previous studies have focused on the chlorophototrophic organisms of the phyla Cyanobacteria and Chloroflexi. However, the diversity and metabolic functions of the other portion of the community in the microoxic/anoxic region of the mat are poorly understood. We recently described the diverse but extremely uneven microbial assemblage in the undermat of Mushroom Spring based on 16S rRNA amplicon sequences, which was dominated by Roseiflexus members, filamentous anoxygenic chlorophototrophs. In this study, we analyzed the orange-colored undermat portion of the community of Mushroom Spring mats in a genome-centric approach and discuss the metabolic potentials of the major members. Metagenome binning recovered partial genomes of all abundant community members, ranging in completeness from ~28 to 96%, and allowed affiliation of function with taxonomic identity even for representatives of novel and Candidate phyla. Less complete metagenomic bins correlated with high microdiversity. The undermat portion of the community was found to be a mixture of phototrophic and chemotrophic organisms, which use bicarbonate as well as organic carbon sources derived from different cell components and fermentation products. The presence of rhodopsin genes in many taxa strengthens the hypothesis that light energy is of major importance. Evidence for the usage of all four bacterial carbon fixation pathways was found in the metagenome. Nitrogen fixation appears to be limited to Synechococcus spp. in the upper mat layer and Thermodesulfovibrio sp. in the undermat, and nitrate/nitrite metabolism was limited. A closed sulfur cycle is indicated by biological sulfate reduction combined with the presence of genes for sulfide oxidation mainly in phototrophs. Finally, a variety of undermat

Functional Stability and Community Dynamics during Spring and Autumn Seasons Over 3 Years in Camargue Microbial Mats

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Mercedes Berlanga

2017-12-01

Full Text Available Microbial mats are complex biofilms in which the major element cycles are represented at a millimeter scale. In this study, community variability within microbial mats from the Camargue wetlands (Rhone Delta, southern France were analyzed over 3 years during two different seasons (spring and autumn and at different layers of the mat (0–2, 2–4, and 4–6 mm. To assess bacterial diversity in the mats, amplicons of the V1–V2 region of the 16S rRNA gene were sequenced. The community’s functionality was characterized using two approaches: (i inferred functionality through 16S rRNA amplicons genes according to PICRUSt, and (ii a shotgun metagenomic analysis. Based on the reads distinguished, microbial communities were dominated by Bacteria (∼94%, followed by Archaea (∼4% and Eukarya (∼1%. The major phyla of Bacteria were Proteobacteria, Bacteroidetes, Spirochaetes, Actinobacteria, Firmicutes, and Cyanobacteria, which together represented 70–80% of the total population detected. The phylum Euryarchaeota represented ∼80% of the Archaea identified. These results showed that the total bacterial diversity from the Camargue microbial mats was not significantly affected by seasonal changes at the studied location; however, there were differences among layers, especially between the 0–2 mm layer and the other two layers. PICRUSt and shotgun metagenomic analyses revealed similar general biological processes in all samples analyzed, by season and depth, indicating that different layers were functionally stable, although some taxa changed during the spring and autumn seasons over the 3 years. Several gene families and pathways were tracked with the oxic-anoxic gradient of the layers. Genes directly involved in photosynthesis (KO, KEGG Orthology were significantly more abundant in the top layer (0–2 mm than in the lower layers (2–4 and 4–6 mm. In the anoxic layers, the presence of ferredoxins likely reflected the variation of redox

Microbial Diversity of a Heavily Polluted Microbial Mat and Its Community Changes following Degradation of Petroleum Compounds

Science.gov (United States)

Abed, Raeid M. M.; Safi, Nimer M. D.; Köster, Jürgen; de Beer, Dirk; El-Nahhal, Yasser; Rullkötter, Jürgen; Garcia-Pichel, Ferran

2002-01-01

We studied the microbial diversity of benthic cyanobacterial mats inhabiting a heavily polluted site in a coastal stream (Wadi Gaza) and monitored the microbial community response induced by exposure to and degradation of four model petroleum compounds in the laboratory. Phormidium- and Oscillatoria-like cyanobacterial morphotypes were dominant in the field. Bacteria belonging to different groups, mainly the Cytophaga-Flavobacterium-Bacteriodes group, the γ and β subclasses of the class Proteobacteria, and the green nonsulfur bacteria, were also detected. In slurry experiments, these communities efficiently degraded phenanthrene and dibenzothiophene completely in 7 days both in the light and in the dark. n-Octadecane and pristane were degraded to 25 and 34% of their original levels, respectively, within 7 days, but there was no further degradation until 40 days. Both cyanobacterial and bacterial communities exhibited noticeable changes concomitant with degradation of the compounds. The populations enriched by exposure to petroleum compounds included a cyanobacterium affiliated phylogenetically with Halomicronema. Bacteria enriched both in the light and in the dark, but not bacteria enriched in any of the controls, belonged to the newly described Holophaga-Geothrix-Acidobacterium phylum. In addition, another bacterial population, found to be a member of green nonsulfur bacteria, was detected only in the bacteria treated in the light. All or some of the populations may play a significant role in metabolizing the petroleum compounds. We concluded that the microbial mats from Wadi Gaza are rich in microorganisms with high biodegradative potential. PMID:11916684

Biomarkers at the microscopic range : ToF-SIMS molecular imaging of Archaea-derived lipids in a microbial mat

NARCIS (Netherlands)

Thiel, V.; Heim, C.; Arp, G.; Hahmann, U.; Sjovall, P.; Lausmaa, J.

2007-01-01

Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS) with a bismuth cluster primary ion source was used for analysing microbial lipid biomarkers in 10-mu m-thick microscopic cryosections of methanotrophic microbial mats from the Black Sea. Without further sample preparation, archaeal isopranyl

Organismal and spatial partitioning of energy and macronutrient transformations within a hypersaline mat

Energy Technology Data Exchange (ETDEWEB)

Mobberley, Jennifer M.; Lindemann, Stephen R.; Bernstein, Hans C.; Moran, James J.; Renslow, Ryan S.; Babauta, Jerome; Hu, Dehong; Beyenal, Haluk; Nelson, William C.

2017-03-21

Phototrophic mat communities are model ecosystems for studying energy cycling and elemental transformations because complete biogeochemical cycles occur over millimeter-to-centimeter scales. Characterization of energy and nutrient capture within hypersaline phototrophic mats has focused on specific processes and organisms, however little is known about community-wide distribution of and linkages between these processes. To investigate energy and macronutrient capture and flow through a structured community, the spatial and organismal distribution of metabolic functions within a compact hypersaline mat community from Hot Lake have been broadly elucidated through species-resolved metagenomics and geochemical, microbial diversity, and metabolic gradient measurements. Draft reconstructed genomes of abundant organisms revealed three dominant cyanobacterial populations differentially distributed across the top layers of the mat suggesting niche separation along light and oxygen gradients. Many organisms contained diverse functional profiles, allowing for metabolic response to changing conditions within the mat. Organisms with partial nitrogen and sulfur metabolisms were widespread indicating dependence upon metabolite exchange. In addition, changes in community spatial structure were observed over the diel. These results indicate that organisms within the mat community have adapted to the temporally dynamic environmental gradients in this hypersaline mat through metabolic flexibility and fluid syntrophic interactions, including shifts in spatial arrangements.

Phototrophs in high-iron-concentration microbial mats: physiological ecology of phototrophs in an iron-depositing hot spring

Science.gov (United States)

Pierson, B. K.; Parenteau, M. N.; Griffin, B. M.

1999-01-01

At Chocolate Pots Hot Springs in Yellowstone National Park the source waters have a pH near neutral, contain high concentrations of reduced iron, and lack sulfide. An iron formation that is associated with cyanobacterial mats is actively deposited. The uptake of [(14)C]bicarbonate was used to assess the impact of ferrous iron on photosynthesis in this environment. Photoautotrophy in some of the mats was stimulated by ferrous iron (1.0 mM). Microelectrodes were used to determine the impact of photosynthetic activity on the oxygen content and the pH in the mat and sediment microenvironments. Photosynthesis increased the oxygen concentration to 200% of air saturation levels in the top millimeter of the mats. The oxygen concentration decreased with depth and in the dark. Light-dependent increases in pH were observed. The penetration of light in the mats and in the sediments was determined. Visible radiation was rapidly attenuated in the top 2 mm of the iron-rich mats. Near-infrared radiation penetrated deeper. Iron was totally oxidized in the top few millimeters, but reduced iron was detected at greater depths. By increasing the pH and the oxygen concentration in the surface sediments, the cyanobacteria could potentially increase the rate of iron oxidation in situ. This high-iron-content hot spring provides a suitable model for studying the interactions of microbial photosynthesis and iron deposition and the role of photosynthesis in microbial iron cycling. This model may help clarify the potential role of photosynthesis in the deposition of Precambrian banded iron formations.

Regulation of electron transfer processes affects phototrophic mat structure and activity

OpenAIRE

Ha, Phuc T.; Renslow, Ryan S.; Atci, Erhan; Reardon, Patrick N.; Lindemann, Stephen R.; Fredrickson, James K.; Call, Douglas R.; Beyenal, Haluk

2015-01-01

Phototrophic microbial mats are among the most diverse ecosystems in nature. These systems undergo daily cycles in redox potential caused by variations in light energy input and metabolic interactions among the microbial species. In this work, solid electrodes with controlled potentials were placed under mats to study the electron transfer processes between the electrode and the microbial mat. The phototrophic microbial mat was harvested from Hot Lake, a hypersaline, epsomitic lake located ne...

Geochemical characterization of the hydrous pyrolysis products from a recent cyanobacteria-dominated microbial mat

Energy Technology Data Exchange (ETDEWEB)

Franco, N.; Mendoça-Filho, J.G.; Silva, T.F.; Stojanovic, K.; Fontana, L.F.; Carvalhal-Gomes, S.B.V.; Silva, F.S.; Furukawa, G.G.

2016-07-01

Hydrous pyrolysis experiments were performed on a recent microbial mat sample from Lagoa Vermelha, Brazil, to determine whether crude oil can be generated and expelled during artificial maturation of the Organic Matter (OM). The experiments were conducted at 280ºC, 330ºC and 350ºC during 20h. Two types of liquid pyrolysis products, assigned as free oil and bitumen, were isolated and analyzed. Free oil represents free organic phase released by hydrous pyrolysis, whereas bitumen was obtained by extraction from the solid pyrolysis residue with dichloromethane. Changes in the OM maturity were determined using Rock-Eval parameters and biomarker maturity ratios of original sample and pyrolysis products. Biomarker compositions of original sample extract and liquid pyrolysates were used for determination of dominant bacterial source. The yields of free oil and bitumen showed that a microbial mat OM has a high liquid hydrocarbons generation potential. Rock-Eval maturity parameters, biopolymer and biomarker compositions indicate a significant increase of the OM maturity during hydrous pyrolysis. At 280ºC the release of free, adsorbed and occluded compounds was observed; however, without a cracking of the OM. At 330ºC the generation of bitumen and free oil is mostly related to the OM cracking. The highest yield of free oil was recorded at this temperature. Distribution of biomarkers in the extract of original sample and liquid pyrolysates confirms cyanobacteria-dominated microbial mats, whereas the identification of long chain n-alkane series, with maximum at C26, and prominent C30 hop-17(21)-ene additionally suggest the presence of sulfate reducing bacteria. (Author)

Biogrout, ground improvement by microbial induced carbonate precipitation

NARCIS (Netherlands)

Van Paassen, L.A.

2009-01-01

Biogrout is a new ground improvement method based on microbially induced precipitation of calcium carbonate (MICP). When supplied with suitable substrates, micro-organisms can catalyze biochemical conversions in the subsurface resulting in precipitation of inorganic minerals, which change the

Involvement of microbial mats in early fossilization by decay delay and formation of impressions and replicas of vertebrates and invertebrates

Science.gov (United States)

Iniesto, Miguel; Buscalioni, Ángela D.; Carmen Guerrero, M.; Benzerara, Karim; Moreira, David; López-Archilla, Ana I.

2016-05-01

Microbial mats have been hypothesized to improve the persistence and the preservation of organic remains during fossilization processes. We test this hypothesis with long-term experiments (up to 5.5 years) using invertebrate and vertebrate corpses. Once placed on mats, the microbial community coats the corpses and forms a three-dimensional sarcophagus composed of microbial cells and exopolymeric substances (EPS). This coverage provides a template for i) moulding superficial features, resulting in negative impressions, and ii) generating replicas. The impressions of fly setulae, fish scales and frog skin verrucae are shaped mainly by small cells in an EPS matrix. Microbes also replicate delicate structures such as the three successive layers that compose a fish eye. The sarcophagus protects the body integrity, allowing the persistence of inner organs such as the ovaries and digestive apparatus in flies, the swim bladder and muscles in fish, and the bone marrow in frog legs. This study brings strong experimental evidence to the idea that mats favour metazoan fossilization by moulding, replicating and delaying decay. Rapid burial has classically been invoked as a mechanism to explain exceptional preservation. However, mats may play a similar role during early fossilization as they can preserve complex features for a long time.

Regulation of electron transfer processes affects phototrophic mat structure and activity

Science.gov (United States)

Ha, Phuc T.; Renslow, Ryan S.; Atci, Erhan; Reardon, Patrick N.; Lindemann, Stephen R.; Fredrickson, James K.; Call, Douglas R.; Beyenal, Haluk

2015-01-01

Phototrophic microbial mats are among the most diverse ecosystems in nature. These systems undergo daily cycles in redox potential caused by variations in light energy input and metabolic interactions among the microbial species. In this work, solid electrodes with controlled potentials were placed under mats to study the electron transfer processes between the electrode and the microbial mat. The phototrophic microbial mat was harvested from Hot Lake, a hypersaline, epsomitic lake located near Oroville (Washington, USA). We operated two reactors: graphite electrodes were polarized at potentials of -700 mVAg/AgCl [cathodic (CAT) mat system] and +300 mVAg/AgCl [anodic (AN) mat system] and the electron transfer rates between the electrode and mat were monitored. We observed a diel cycle of electron transfer rates for both AN and CAT mat systems. Interestingly, the CAT mats generated the highest reducing current at the same time points that the AN mats showed the highest oxidizing current. To characterize the physicochemical factors influencing electron transfer processes, we measured depth profiles of dissolved oxygen (DO) and sulfide in the mats using microelectrodes. We further demonstrated that the mat-to-electrode and electrode-to-mat electron transfer rates were light- and temperature-dependent. Using nuclear magnetic resonance (NMR) imaging, we determined that the electrode potential regulated the diffusivity and porosity of the microbial mats. Both porosity and diffusivity were higher in the CAT mats than in the AN mats. We also used NMR spectroscopy for high-resolution quantitative metabolite analysis and found that the CAT mats had significantly higher concentrations of osmoprotectants such as betaine and trehalose. Subsequently, we performed amplicon sequencing across the V4 region of the 16S rRNA gene of incubated mats to understand the impact of electrode potential on microbial community structure. These data suggested that variation in the

Regulation of electron transfer processes affects phototrophic mat structure and activity

Directory of Open Access Journals (Sweden)

Haluk eBeyenal

2015-09-01

Full Text Available Phototrophic microbial mats are among the most diverse ecosystems in nature. These systems undergo daily cycles in redox potential caused by variations in light energy input and metabolic interactions among the microbial species. In this work, solid electrodes with controlled potentials were placed under mats to study the electron transfer processes between the electrode and the microbial mat. The phototrophic microbial mat was harvested from Hot Lake, a hypersaline, epsomitic lake located near Oroville (Washington, USA. We operated two reactors: graphite electrodes were polarized at potentials of -700 mVAg/AgCl (cathodic mat system and +300 mVAg/AgCl (anodic mat system and the electron transfer rates between the electrode and mat were monitored. We observed a diel cycle of electron transfer rates for both anodic and cathodic mat systems. Interestingly, the cathodic mats generated the highest reducing current at the same time points that the anodic mats showed the highest oxidizing current. To characterize the physicochemical factors influencing electron transfer processes, we measured depth profiles of dissolved oxygen and sulfide in the mats using microelectrodes. We further demonstrated that the mat-to-electrode and electrode-to-mat electron transfer rates were light- and temperature-dependent. Using nuclear magnetic resonance (NMR imaging, we determined that the electrode potential regulated the diffusivity and porosity of the microbial mats. Both porosity and diffusivity were higher in the cathodic mats than in the anodic mats. We also used NMR spectroscopy for high-resolution quantitative metabolite analysis and found that the cathodic mats had significantly higher concentrations of osmoprotectants such as betaine and trehalose. Subsequently, we performed amplicon sequencing across the V4 region of the 16S rRNA gene of incubated mats to understand the impact of electrode potential on microbial community structure. These data suggested that

Regulation of electron transfer processes affects phototrophic mat structure and activity.

Science.gov (United States)

Ha, Phuc T; Renslow, Ryan S; Atci, Erhan; Reardon, Patrick N; Lindemann, Stephen R; Fredrickson, James K; Call, Douglas R; Beyenal, Haluk

2015-01-01

Phototrophic microbial mats are among the most diverse ecosystems in nature. These systems undergo daily cycles in redox potential caused by variations in light energy input and metabolic interactions among the microbial species. In this work, solid electrodes with controlled potentials were placed under mats to study the electron transfer processes between the electrode and the microbial mat. The phototrophic microbial mat was harvested from Hot Lake, a hypersaline, epsomitic lake located near Oroville (Washington, USA). We operated two reactors: graphite electrodes were polarized at potentials of -700 mVAg/AgCl [cathodic (CAT) mat system] and +300 mVAg/AgCl [anodic (AN) mat system] and the electron transfer rates between the electrode and mat were monitored. We observed a diel cycle of electron transfer rates for both AN and CAT mat systems. Interestingly, the CAT mats generated the highest reducing current at the same time points that the AN mats showed the highest oxidizing current. To characterize the physicochemical factors influencing electron transfer processes, we measured depth profiles of dissolved oxygen (DO) and sulfide in the mats using microelectrodes. We further demonstrated that the mat-to-electrode and electrode-to-mat electron transfer rates were light- and temperature-dependent. Using nuclear magnetic resonance (NMR) imaging, we determined that the electrode potential regulated the diffusivity and porosity of the microbial mats. Both porosity and diffusivity were higher in the CAT mats than in the AN mats. We also used NMR spectroscopy for high-resolution quantitative metabolite analysis and found that the CAT mats had significantly higher concentrations of osmoprotectants such as betaine and trehalose. Subsequently, we performed amplicon sequencing across the V4 region of the 16S rRNA gene of incubated mats to understand the impact of electrode potential on microbial community structure. These data suggested that variation in the

Organic and mineral imprints in fossil photosynthetic mats of an East Antarctic lake.

Science.gov (United States)

Lepot, K; Compère, P; Gérard, E; Namsaraev, Z; Verleyen, E; Tavernier, I; Hodgson, D A; Vyverman, W; Gilbert, B; Wilmotte, A; Javaux, E J

2014-09-01

Lacustrine microbial mats in Antarctic ice-free oases are considered modern analogues of early microbial ecosystems as their primary production is generally dominated by cyanobacteria, the heterotrophic food chain typically truncated due to extreme environmental conditions, and they are geographically isolated. To better understand early fossilization and mineralization processes in this context, we studied the microstructure and chemistry of organo-mineral associations in a suite of sediments 50-4530 cal. years old from a lake in Skarvsnes, Lützow Holm Bay, East Antarctica. First, we report an exceptional preservation of fossil autotrophs and their biomolecules on millennial timescales. The pigment scytonemin is preserved inside cyanobacterial sheaths. As non-pigmented sheaths are also preserved, scytonemin likely played little role in the preservation of sheath polysaccharides, which have been cross-linked by ether bonds. Coccoids preserved thylakoids and autofluorescence of pigments such as carotenoids. This exceptional preservation of autotrophs in the fossil mats argues for limited biodegradation during and after deposition. Moreover, cell-shaped aggregates preserved sulfur-rich nanoglobules, supporting fossilization of instable intracellular byproducts of chemotrophic or phototrophic S-oxidizers. Second, we report a diversity of micro- to nanostructured CaCO3 precipitates intimately associated with extracellular polymeric substances, cyanobacteria, and/or other prokaryotes. Micro-peloids Type 1 display features that distinguish them from known carbonates crystallized in inorganic conditions: (i) Type 1A are often filled with globular nanocarbonates and/or surrounded by a fibrous fringe, (ii) Type 1B are empty and display ovoid to wrinkled fringes of nanocrystallites that can be radially oriented (fibrous or triangular) or multilayered, and (iii) all show small-size variations. Type 2 rounded carbonates 1-2 μm in diameter occurring inside autofluorescent

Rapid reactivation of cyanobacterial photosynthesis and migration upon rehydration of desiccated marine microbial mats

Directory of Open Access Journals (Sweden)

Arjun eChennu

2015-12-01

Full Text Available Desiccated cyanobacterial mats are the dominant biological feature in the Earth's arid zones. While the response of desiccated cyanobacteria to rehydration is well documented for terrestrial systems, information about the response in marine systems is lacking. We used high temporal resolution hyperspectral imaging, liquid chromatography, pulse-amplitude fluorometry, oxygen microsensors and confocal laser microscopy to study this response in a desiccated microbial mat from Exmouth Gulf, Australia. During the initial 15 minutes after rehydration chlorophyll a concentrations increased 2-5 fold and cyanobacterial photosynthesis was re-established. Although the mechanism behind this rapid increase of chlorophyll a remains unknown, we hypothesize that it involves resynthesis from a precursor stored in desiccated cyanobacteria. The subsequent phase (15 min – 48 h involved migration of the reactivated cyanobacteria towards the mat surface, which led, together with a gradual increase in chlorophyll a, to a further increase in photosynthesis. We conclude that the response involving an increase in chlorophyll a and recovery of photosynthetic activity within minutes after rehydration is common for cyanobacteria from desiccated mats of both terrestrial and aquatic origin. However the response of upward migration and its triggering factor appears to be mat-specific and likely linked to other factors.

Rapid Reactivation of Cyanobacterial Photosynthesis and Migration upon Rehydration of Desiccated Marine Microbial Mats

KAUST Repository

Chennu, Arjun

2015-12-24

Desiccated cyanobacterial mats are the dominant biological feature in the Earth’s arid zones. While the response of desiccated cyanobacteria to rehydration is well-documented for terrestrial systems, information about the response in marine systems is lacking. We used high temporal resolution hyperspectral imaging, liquid chromatography, pulse-amplitude fluorometry, oxygen microsensors, and confocal laser microscopy to study this response in a desiccated microbial mat from Exmouth Gulf, Australia. During the initial 15 min after rehydration chlorophyll a concentrations increased 2–5 fold and cyanobacterial photosynthesis was re-established. Although the mechanism behind this rapid increase of chlorophyll a remains unknown, we hypothesize that it involves resynthesis from a precursor stored in desiccated cyanobacteria. The subsequent phase (15 min–48 h) involved migration of the reactivated cyanobacteria toward the mat surface, which led, together with a gradual increase in chlorophyll a, to a further increase in photosynthesis. We conclude that the response involving an increase in chlorophyll a and recovery of photosynthetic activity within minutes after rehydration is common for cyanobacteria from desiccated mats of both terrestrial and marine origin. However, the response of upward migration and its triggering factor appear to be mat-specific and likely linked to other factors.

Rapid Reactivation of Cyanobacterial Photosynthesis and Migration upon Rehydration of Desiccated Marine Microbial Mats

KAUST Repository

Chennu, Arjun; Grinham, Alistair; Polerecky, Lubos; de Beer, Dirk; Alnajjar, Mohammad Ahmad

2015-01-01

Desiccated cyanobacterial mats are the dominant biological feature in the Earth’s arid zones. While the response of desiccated cyanobacteria to rehydration is well-documented for terrestrial systems, information about the response in marine systems is lacking. We used high temporal resolution hyperspectral imaging, liquid chromatography, pulse-amplitude fluorometry, oxygen microsensors, and confocal laser microscopy to study this response in a desiccated microbial mat from Exmouth Gulf, Australia. During the initial 15 min after rehydration chlorophyll a concentrations increased 2–5 fold and cyanobacterial photosynthesis was re-established. Although the mechanism behind this rapid increase of chlorophyll a remains unknown, we hypothesize that it involves resynthesis from a precursor stored in desiccated cyanobacteria. The subsequent phase (15 min–48 h) involved migration of the reactivated cyanobacteria toward the mat surface, which led, together with a gradual increase in chlorophyll a, to a further increase in photosynthesis. We conclude that the response involving an increase in chlorophyll a and recovery of photosynthetic activity within minutes after rehydration is common for cyanobacteria from desiccated mats of both terrestrial and marine origin. However, the response of upward migration and its triggering factor appear to be mat-specific and likely linked to other factors.

Spatial patterns of cyanobacterial mat growth on sand ripples

Science.gov (United States)

Mariotti, G.; Klepac-Ceraj, V.; Perron, J. T.; Bosak, T.

2016-02-01

Photosynthetic microbial mats produce organic matter, cycle nutrients, bind pollutants and stabilize sediment in sandy marine environments. Here, we investigate the influence of bedforms and wave motion on the growth rate, composition and spatial variability of microbial mats by growing cyanobacterial mats on a rippled bed of carbonate sand in a wave tank. The tank was forced with an oscillatory flow with velocities below the threshold for sediment motion yet able to induce a porewater flow within the sediment. Different spatial patterns developed in mats depending on the initial biochemistry of the water medium. When growing in a medium rich in nitrogen, phosphorous and micronutrients, mats grew faster on ripple troughs than on ripple crests. After two months, mats covered the bed surface uniformly, and the microbial communities on the crests and in the troughs had similar compositions. Differences in bed shear stress and nutrient availability between crests and troughs were not able to explain the faster growth in the troughs. We hypothesize that this growth pattern is due to a "strainer" effect, i.e. the suspended bacteria from the inoculum were preferentially delivered to troughs by the wave-induced porewater flow. In the experiments initiated in a medium previously used up by a microbial mat and thus depleted in nutrients, mats grew preferentially on the ripple crests. This spatial pattern persisted for nearly two years, and the microbial composition on troughs and crests was different. We attribute this pattern to the upwelling of porewater in the crests, which increased the delivery of nutrients from sediment to the cyanobacteria on the bed surface. Thus, the macroscopic patterns formed by photosynthetic microbial mats on sand ripples may be used to infer whether mats are nutrient-limited and whether they are recently colonized or older than a month.

Geochemical Influence on Microbial Diversity in the Warm, Salty, Stinking Spring, Utah, USA

Science.gov (United States)

Spear, J. R.

2012-12-01

Little is known of the geochemistry and microbiology in the Stinking Springs, a sulfidic, saline, warm spring northeast of the Great Salt Lake, Utah. The International Geobiology Course of 2012 investigated the geochemistry, lipid abundances, dissolved inorganic carbon (DIC) uptake rates and microbial diversity on different kinds of samples from a number of locations in the spring. The measured pH, temperature, salinity, and sulfide concentration along the 100 m flow path ranged from 6.64-7.77, 40-28° C, 2.9-2.2%, and 250 μM - negligible, respectively. Five sites were selected along the flow path and within each site microbial mats were sub-sampled according to their morphological characteristics; a range from floating to streamer-style in zones of higher flow rates to highly-layered mats in low- or sheet-flow zones. Geochemical characterization of the above plus metals, anions and cations were conducted at each site. Genomic DNA was extracted from each microbial sample / layer, and 16S rRNA genes were amplified and subjected to pyrosequencing. Fatty acids and pigments were extracted from the mat samples / layers and analyzed by liquid chromatography and mass spectrometry for lipid / pigment composition. Bicarbonate uptake rates for mat samples / layers were determined with 24 hour light and dark incubations of 13HCO3-spiked spring water. Microbial diversity varied by site and was generally high in all three domains of life with phototrophs, sulfur oxidizers, sulfate reducers, methanogens, and other bacteria / archaea identified by 16S rRNA gene sequence. Diatoms, identified by both microscopy and lipid analyses were found to increase in abundance with distance from the source. Methanogens were generally more abundant in deeper mat laminae and underlying sediments. Photoheterotrophs were found in all mat layers. Microbial diversity increased significantly with depth at most sites. In addition, two distinct microbial streamers were also identified and

Groundwater shapes sediment biogeochemistry and microbial diversity in a submerged Great Lake sinkhole.

Science.gov (United States)

Kinsman-Costello, L E; Sheik, C S; Sheldon, N D; Allen Burton, G; Costello, D M; Marcus, D; Uyl, P A Den; Dick, G J

2017-03-01

For a large part of earth's history, cyanobacterial mats thrived in low-oxygen conditions, yet our understanding of their ecological functioning is limited. Extant cyanobacterial mats provide windows into the putative functioning of ancient ecosystems, and they continue to mediate biogeochemical transformations and nutrient transport across the sediment-water interface in modern ecosystems. The structure and function of benthic mats are shaped by biogeochemical processes in underlying sediments. A modern cyanobacterial mat system in a submerged sinkhole of Lake Huron (LH) provides a unique opportunity to explore such sediment-mat interactions. In the Middle Island Sinkhole (MIS), seeping groundwater establishes a low-oxygen, sulfidic environment in which a microbial mat dominated by Phormidium and Planktothrix that is capable of both anoxygenic and oxygenic photosynthesis, as well as chemosynthesis, thrives. We explored the coupled microbial community composition and biogeochemical functioning of organic-rich, sulfidic sediments underlying the surface mat. Microbial communities were diverse and vertically stratified to 12 cm sediment depth. In contrast to previous studies, which used low-throughput or shotgun metagenomic approaches, our high-throughput 16S rRNA gene sequencing approach revealed extensive diversity. This diversity was present within microbial groups, including putative sulfate-reducing taxa of Deltaproteobacteria, some of which exhibited differential abundance patterns in the mats and with depth in the underlying sediments. The biological and geochemical conditions in the MIS were distinctly different from those in typical LH sediments of comparable depth. We found evidence for active cycling of sulfur, methane, and nutrients leading to high concentrations of sulfide, ammonium, and phosphorus in sediments underlying cyanobacterial mats. Indicators of nutrient availability were significantly related to MIS microbial community composition, while LH

The effect of sulfate concentration on (sub)millimeter-scale sulfide δ 34S in hypersaline cyanobacterial mats over the diurnal cycle

Science.gov (United States)

Fike, David A.; Finke, Niko; Zha, Jessica; Blake, Garrett; Hoehler, Tori M.; Orphan, Victoria J.

2009-10-01

Substantial isotopic fractionations are associated with many microbial sulfur metabolisms and measurements of the bulk δ 34S isotopic composition of sulfur species (predominantly sulfates and/or sulfides) have been a key component in developing our understanding of both modern and ancient biogeochemical cycling. However, the interpretations of bulk δ 34S measurements are often non-unique, making reconstructions of paleoenvironmental conditions or microbial ecology challenging. In particular, the link between the μm-scale microbial activity that generates isotopic signatures and their eventual preservation as a bulk rock value in the geologic record has remained elusive, in large part because of the difficulty of extracting sufficient material at small scales. Here we investigate the potential for small-scale (˜100 μm-1 cm) δ 34S variability to provide additional constraints for environmental and/or ecological reconstructions. We have investigated the impact of sulfate concentrations (0.2, 1, and 80 mM SO 4) on the δ 34S composition of hydrogen sulfide produced over the diurnal (day/night) cycle in cyanobacterial mats from Guerrero Negro, Baja California Sur, Mexico. Sulfide was captured as silver sulfide on the surface of a 2.5 cm metallic silver disk partially submerged beneath the mat surface. Subsequent analyses were conducted on a Cameca 7f-GEO secondary ion mass spectrometer (SIMS) to record spatial δ 34S variability within the mats under different environmental conditions. Isotope measurements were made in a 2-dimensional grid for each incubation, documenting both lateral and vertical isotopic variation within the mats. Typical grids consisted of ˜400-800 individual measurements covering a lateral distance of ˜1 mm and a vertical depth of ˜5-15 mm. There is a large isotopic enrichment (˜10-20‰) in the uppermost mm of sulfide in those mats where [SO 4] was non-limiting (field and lab incubations at 80 mM). This is attributed to rapid recycling of

Contribution of Chloroflexus respiration to oxygen cycling in a hypersaline microbial mat from Lake Chiprana, Spain

DEFF Research Database (Denmark)

Polerecky, Lubos; Bachar, Ami; Schoon, Raphaela

2007-01-01

In dense stratified systems such as microbial mats, photosynthesis and respiration are coupled due to a tight spatial overlap between oxygen-producing and -consuming microorganisms. We combined microsensors and a membrane inlet mass spectrometer with two independent light sources emitting in the ...

[Oxidation of sulfur-containing substrates by aboriginal and experimentally designed microbial communities].

Science.gov (United States)

Pivovarova, T A; Bulaev, A G; Roshchupko, P V; Belyĭ, A V; Kondrat'eva, T F

2012-01-01

Aboriginal and experimental (constructed of pure microbial cultures) communities of acidophilic chemolithotrophs have been studied. The oxidation of elemental sulfur, sodium thiosulfate, and potassium tetrathionate as sole sources of energy has been monitored. The oxidation rate of the experimental community is higher as compared to the aboriginal community isolated from a flotation concentrate of pyrrhotine-containing pyrite-arsenopyrite gold-arsenic sulfide ore. The degree of oxidation of the mentioned S substrates amounts to 17.91, 68.30, and 93.94% for the experimental microbial community and to 10.71, 56.03, and 79.50% for the aboriginal community, respectively. The degree of oxidation of sulfur sulfide forms in the ore flotation concentrate is 59.15% by the aboriginal microbial community and 49.40% by the experimental microbial community. Despite a higher rate of oxidation of S substrates as a sole source of energy by the experimental microbial community, the aboriginal community oxidizes S substrates at a higher rate in the flotation concentrate of pyrrhotine-containing pyrite-arsenopyrite gold-arsenic sulfide ore, from which it was isolated. Bacterial-chemical oxidation of the flotation concentrate by the aboriginal microbial community allows for the extraction of an additional 32.3% of gold from sulfide minerals, which is by 5.7% larger compared to the yield obtained by the experimental microbial community.

Microbial pathways in colonic sulfur metabolism and links with health and disease

Directory of Open Access Journals (Sweden)

Franck eCarbonero

2012-11-01

Full Text Available Sulfur is both crucial to life and a potential threat to health. While colonic sulfur metabolism mediated by eukaryotic cells is relatively well studied, much less is known about sulfur metabolism within gastrointestinal microbes. Sulfated compounds in the colon are either of inorganic (e.g., sulfates, sulfites or organic (e.g., dietary amino acids and host mucins origin. The most extensively studied of the microbes involved in colonic sulfur metabolism are the sulfate-reducing bacteria, which are common colonic inhabitants. Many other microbial pathways are likely to shape colonic sulfur metabolism as well as the composition and availability of sulfated compounds, and these interactions need to be examined in more detail. Hydrogen sulfide is the sulfur derivative that has attracted the most attention in the context of colonic health, and the extent to which it is detrimental or beneficial remains in debate. Several lines of evidence point to sulfate-reducing bacteria or exogenous hydrogen sulfide as potential players in the etiology of intestinal disorders, inflammatory bowel diseases and colorectal cancer in particular. Generation of hydrogen sulfide via pathways other than dissimilatory sulfate reduction may be as, or more, important than those involving the sulfate-reducing bacteria. We suggest here that a novel axis of research is to assess the effects of hydrogen sulfide in shaping colonic microbiome structure. Clearly, in-depth characterization of the microbial pathways involved in colonic sulfur metabolism is necessary for a better understanding of its contribution to colonic disorders and development of therapeutic strategies.

Sulfur Isotope Trends in Archean Microbialite Facies Record Early Oxygen Production and Consumption

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Zerkle, A.; Meyer, N.; Izon, G.; Poulton, S.; Farquhar, J.; Claire, M.

2014-12-01

The major and minor sulfur isotope composition (δ34S and Δ33S) of pyrites preserved in ~2.65-2.5 billion-year-old (Ga) microbialites record localized oxygen production and consumption near the mat surface. These trends are preserved in two separate drill cores (GKF01 and BH1-Sacha) transecting the Campbellrand-Malmani carbonate platform (Ghaap Group, Transvaal Supergroup, South Africa; Zerkle et al., 2012; Izon et al., in review). Microbialite pyrites possess positive Δ33S values, plotting parallel to typical Archean trends (with a Δ33S/δ34S slope of ~0.9) but enriched in 34S by ~3 to 7‰. We propose that these 34S-enriched pyrites were formed from a residual pool of sulfide that was partially oxidized via molecular oxygen produced by surface mat-dwelling cyanobacteria. Sulfide, carrying the range of Archean Δ33S values, could have been produced deeper within the microbial mat by the reduction of sulfate and elemental sulfur, then fractionated upon reaction with O2 produced by oxygenic photosynthesis. Preservation of this positive 34S offset requires that: 1) sulfide was only partially (50­­-80%) consumed by oxidation, meaning H2S was locally more abundant (or more rapidly produced) than O2, and 2) the majority of the sulfate produced via oxidation was not immediately reduced to sulfide, implying either that the sulfate pool was much larger than the sulfide pool, or that the sulfate formed near the mat surface was transported and reduced in another part of the system. Contrastingly, older microbialite facies (> 2.7 Ga; Thomazo et al., 2013) appear to lack these observed 34S enrichments. Consequently, the onset of 34S enrichments could mark a shift in mat ecology, from communities dominated by anoxygenic photosynthesizers to cyanobacteria. Here, we test these hypotheses with new spatially resolved mm-scale trends in sulfur isotope measurements from pyritized stromatolites of the Vryburg Formation, sampled in the lower part of the BH1-Sacha core. Millimeter

The microbial mats of Pavilion Lake microbialites: examining the relationship between photosynthesis and carbonate precipitation

Science.gov (United States)

Lim, D. S. S.; Hawes, I.; Mackey, T. J.; Brady, A. L.; Biddle, J.; Andersen, D. T.; Belan, M.; Slater, G.; Abercromby, A.; Squyres, S. W.; Delaney, M.; Haberle, C. W.; Cardman, Z.

2014-12-01

Pavilion Lake in British Columbia, Canada is an ultra-oligotrophic lake that has abundant microbialite growth. Recent research has shown that photoautotrophic microbial communities are important to modern microbialite development in Pavilion Lake. However, questions remain as to the relationship between changing light levels within the lake, variation in microbialite macro-structure, microbial consortia, and the preservation of associated biosignatures within the microbialite fabrics. The 2014 Pavilion Lake Research Project (PLRP) field program was focused on data gathering to understand these complex relationships by determining if a) light is the immediate limit to photosynthetic activity and, if so, if light is distributed around microbialites in ways that are consistent with emergent microbialite structure; and b) if at more local scales, the filamentous pink and green cyanobacterial nodular colonies identified in previous PLRP studies are centers of photosynthetic activity that create pH conditions suitable for carbonate precipitation. A diver-deployed pulse-amplitude modulated (PAM) fluorometer was used to collect synoptic in situ measurements of fluorescence yield and irradiance and across microbialites, focusing on comparing flat and vertical structural elements at a range of sites and depths. As well, we collected time series measurements of photosynthetic activity and irradiance at a set depth of 18 m across three different regions in Pavilion Lake. Our initial findings suggest that all microbialite surfaces are primarily light-limited regardless of depth or location within the lake. Shore based PAM fluorometry and microelectrode profiling of diver-collected samples suggest that pink and green nodules have different photosynthetic properties and pH profiles, and that nodular growth is likely to be the primary route of calcification due to the gelatinous covering the nodule creates. On-going tests for molecular signatures and isotopic shifts will allow for

Seasonal Analysis of Microbial Communities in Precipitation in the Greater Tokyo Area, Japan

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Satoshi Hiraoka

2017-08-01

Full Text Available The presence of microbes in the atmosphere and their transport over long distances across the Earth's surface was recently shown. Precipitation is likely a major path by which aerial microbes fall to the ground surface, affecting its microbial ecosystems and introducing pathogenic microbes. Understanding microbial communities in precipitation is of multidisciplinary interest from the perspectives of microbial ecology and public health; however, community-wide and seasonal analyses have not been conducted. Here, we carried out 16S rRNA amplicon sequencing of 30 precipitation samples that were aseptically collected over 1 year in the Greater Tokyo Area, Japan. The precipitation microbial communities were dominated by Proteobacteria, Firmicutes, Bacteroidetes, and Actinobacteria and were overall consistent with those previously reported in atmospheric aerosols and cloud water. Seasonal variations in composition were observed; specifically, Proteobacteria abundance significantly decreased from summer to winter. Notably, estimated ordinary habitats of precipitation microbes were dominated by animal-associated, soil-related, and marine-related environments, and reasonably consistent with estimated air mass backward trajectories. To our knowledge, this is the first amplicon-sequencing study investigating precipitation microbial communities involving sampling over the duration of a year.

Microbially-Mediated Precipitation of Calcium Carbonate Nanoparticles.

Science.gov (United States)

Kang, Ser Ku; Roh, Yul

2016-02-01

The objective of this study was to investigate the biomineralization of carbonate minerals using microorganisms (Wu Do-1) enriched from rhodoliths. A 16S rRNA sequence analysis showed that Wu Do-1 mainly contained Proteus mirabilis. The pH decreased from 6.5 to 5.3 over the first 4 days of incubation due to microbial oxidation of organic acids, after which it increased to 7.8 over the remaining incubation period. XRD analysis showed that the precipitates were Mg-rich cal- cite (MgxCa(1-x)CO3), whereas no precipitates were formed without the addition of Wu Do-1 in D-1 medium. SEM-EDS analyses showed that the Mg-rich calcite had a rhombohedron shape and consisted of Ca, Si and Mg with an extracelluar polymeric substance (EPS). In addition, TEM-EDS analyses revealed they were hexagon in shape, 500-700 nm in size, and composed of Ca, Mg, C, and O. These results indicated that Wu Do-1 induced precipitation of Mg-rich calcite on the cell walls and EPS via the accumulation of Ca and/or Mg ions. Therefore, microbial precipitation of carbonate nanoparticles may play an important role in metal and carbon biogeochemistry, as well as in carbon sequestration in natural environments.

Microbial interactions involving sulfur bacteria : implications for the ecology and evolution of bacterial communities

NARCIS (Netherlands)

Overmann, J; van Gemerden, H

2000-01-01

A major goal of microbial ecology is the identification and characterization of those microorganisms which govern transformations in natural ecosystems. This review summarizes our present knowledge of microbial interactions in the natural sulfur cycle. Central to the discussion is the recent

Community Structure and Activity of a Highly Dynamic and Nutrient-Limited Hypersaline Microbial Mat in Um Alhool Sabkha, Qatar

KAUST Repository

Al-Thani, Roda

2014-03-21

The Um Alhool area in Qatar is a dynamic evaporative ecosystem that receives seawater from below as it is surrounded by sand dunes. We investigated the chemical composition, the microbial activity and biodiversity of the four main layers (L1–L4) in the photosynthetic mats. Chlorophyll a (Chl a) concentration and distribution (measured by HPLC and hyperspectral imaging, respectively), the phycocyanin distribution (scanned with hyperspectral imaging), oxygenic photosynthesis (determined by microsensor), and the abundance of photosynthetic microorganisms (from 16S and 18S rRNA sequencing) decreased with depth in the euphotic layer (L1). Incident irradiance exponentially attenuated in the same zone reaching 1% at 1.7-mm depth. Proteobacteria dominated all layers of the mat (24%–42% of the identified bacteria). Anoxygenic photosynthetic bacteria (dominated by Chloroflexus) were most abundant in the third red layer of the mat (L3), evidenced by the spectral signature of Bacteriochlorophyll as well as by sequencing. The deep, black layer (L4) was dominated by sulfate reducing bacteria belonging to the Deltaproteobacteria, which were responsible for high sulfate reduction rates (measured using 35S tracer). Members of Halobacteria were the dominant Archaea in all layers of the mat (92%–97%), whereas Nematodes were the main Eukaryotes (up to 87%). Primary productivity rates of Um Alhool mat were similar to those of other hypersaline microbial mats. However, sulfate reduction rates were relatively low, indicating that oxygenic respiration contributes more to organic material degradation than sulfate reduction, because of bioturbation. Although Um Alhool hypersaline mat is a nutrient-limited ecosystem, it is interestingly dynamic and phylogenetically highly diverse. All its components work in a highly efficient and synchronized way to compensate for the lack of nutrient supply provided during regular inundation periods.

Sulfur metabolizing microbes dominate microbial communities in Andesite-hosted shallow-sea hydrothermal systems.

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Yao Zhang

Full Text Available To determine microbial community composition, community spatial structure and possible key microbial processes in the shallow-sea hydrothermal vent systems off NE Taiwan's coast, we examined the bacterial and archaeal communities of four samples collected from the water column extending over a redoxocline gradient of a yellow and four from a white hydrothermal vent. Ribosomal tag pyrosequencing based on DNA and RNA showed statistically significant differences between the bacterial and archaeal communities of the different hydrothermal plumes. The bacterial and archaeal communities from the white hydrothermal plume were dominated by sulfur-reducing Nautilia and Thermococcus, whereas the yellow hydrothermal plume and the surface water were dominated by sulfide-oxidizing Thiomicrospira and Euryarchaeota Marine Group II, respectively. Canonical correspondence analyses indicate that methane (CH(4 concentration was the only statistically significant variable that explains all community cluster patterns. However, the results of pyrosequencing showed an essential absence of methanogens and methanotrophs at the two vent fields, suggesting that CH(4 was less tied to microbial processes in this shallow-sea hydrothermal system. We speculated that mixing between hydrothermal fluids and the sea or meteoric water leads to distinctly different CH(4 concentrations and redox niches between the yellow and white vents, consequently influencing the distribution patterns of the free-living Bacteria and Archaea. We concluded that sulfur-reducing and sulfide-oxidizing chemolithoautotrophs accounted for most of the primary biomass synthesis and that microbial sulfur metabolism fueled microbial energy flow and element cycling in the shallow hydrothermal systems off the coast of NE Taiwan.

Sulfur metabolizing microbes dominate microbial communities in Andesite-hosted shallow-sea hydrothermal systems.

Science.gov (United States)

Zhang, Yao; Zhao, Zihao; Chen, Chen-Tung Arthur; Tang, Kai; Su, Jianqiang; Jiao, Nianzhi

2012-01-01

To determine microbial community composition, community spatial structure and possible key microbial processes in the shallow-sea hydrothermal vent systems off NE Taiwan's coast, we examined the bacterial and archaeal communities of four samples collected from the water column extending over a redoxocline gradient of a yellow and four from a white hydrothermal vent. Ribosomal tag pyrosequencing based on DNA and RNA showed statistically significant differences between the bacterial and archaeal communities of the different hydrothermal plumes. The bacterial and archaeal communities from the white hydrothermal plume were dominated by sulfur-reducing Nautilia and Thermococcus, whereas the yellow hydrothermal plume and the surface water were dominated by sulfide-oxidizing Thiomicrospira and Euryarchaeota Marine Group II, respectively. Canonical correspondence analyses indicate that methane (CH(4)) concentration was the only statistically significant variable that explains all community cluster patterns. However, the results of pyrosequencing showed an essential absence of methanogens and methanotrophs at the two vent fields, suggesting that CH(4) was less tied to microbial processes in this shallow-sea hydrothermal system. We speculated that mixing between hydrothermal fluids and the sea or meteoric water leads to distinctly different CH(4) concentrations and redox niches between the yellow and white vents, consequently influencing the distribution patterns of the free-living Bacteria and Archaea. We concluded that sulfur-reducing and sulfide-oxidizing chemolithoautotrophs accounted for most of the primary biomass synthesis and that microbial sulfur metabolism fueled microbial energy flow and element cycling in the shallow hydrothermal systems off the coast of NE Taiwan.

Screening of polyhydroxyalkanoate-producing bacteria and PhaC-encoding genes in two hypersaline microbial mats from Guerrero Negro, Baja California Sur, Mexico

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Carolina A. Martínez-Gutiérrez

2018-05-01

Full Text Available Hypersaline microbial mats develop through seasonal and diel fluctuations, as well as under several physicochemical variables. Hence, resident microorganisms commonly employ strategies such as the synthesis of polyhydroxyalkanoates (PHAs in order to resist changing and stressful conditions. However, the knowledge of bacterial PHA production in hypersaline microbial mats has been limited to date, particularly in regard to medium-chain length PHAs (mcl-PHAs, which have biotechnological applications due to their plastic properties. The aim of this study was to obtain evidence for PHA production in two hypersaline microbial mats of Guerrero Negro, Mexico by searching for PHA granules and PHA synthase genes in isolated bacterial strains and environmental samples. Six PHA-producing strains were identified by 16S rRNA gene sequencing; three of them corresponded to a Halomonas sp. In addition, Paracoccus sp., Planomicrobium sp. and Staphylococcus sp. were also identified as PHA producers. Presumptive PHA granules and PHA synthases genes were detected in both sampling sites. Moreover, phylogenetic analysis showed that most of the phylotypes were distantly related to putative PhaC synthases class I sequences belonging to members of the classes Alphaproteobacteria and Gammaproteobacteria distributed within eight families, with higher abundances corresponding mainly to Rhodobacteraceae and Rhodospirillaceae. This analysis also showed that PhaC synthases class II sequences were closely related to those of Pseudomonas putida, suggesting the presence of this group, which is probably involved in the production of mcl-PHA in the mats. According to our state of knowledge, this study reports for the first time the occurrence of phaC and phaC1 sequences in hypersaline microbial mats, suggesting that these ecosystems may be a novel source for the isolation of short- and medium-chain length PHA producers.

Viruses Occur Incorporated in Biogenic High-Mg Calcite from Hypersaline Microbial Mats

Science.gov (United States)

De Wit, Rutger; Gautret, Pascale; Bettarel, Yvan; Roques, Cécile; Marlière, Christian; Ramonda, Michel; Nguyen Thanh, Thuy; Tran Quang, Huy; Bouvier, Thierry

2015-01-01

Using three different microscopy techniques (epifluorescence, electronic and atomic force microscopy), we showed that high-Mg calcite grains in calcifying microbial mats from the hypersaline lake “La Salada de Chiprana”, Spain, contain viruses with a diameter of 50–80 nm. Energy-dispersive X-ray spectrometer analysis revealed that they contain nitrogen and phosphorus in a molar ratio of ~9, which is typical for viruses. Nucleic acid staining revealed that they contain DNA or RNA. As characteristic for hypersaline environments, the concentrations of free and attached viruses were high (>1010 viruses per g of mat). In addition, we showed that acid treatment (dissolution of calcite) resulted in release of viruses into suspension and estimated that there were ~15 × 109 viruses per g of calcite. We suggest that virus-mineral interactions are one of the possible ways for the formation of nano-sized structures often described as “nanobacteria” and that viruses may play a role in initiating calcification. PMID:26115121

Microbial contributions to coupled arsenic and sulfur cycling in the acid-sulfide hot spring Champagne Pool, New Zealand.

Science.gov (United States)

Hug, Katrin; Maher, William A; Stott, Matthew B; Krikowa, Frank; Foster, Simon; Moreau, John W

2014-01-01

Acid-sulfide hot springs are analogs of early Earth geothermal systems where microbial metal(loid) resistance likely first evolved. Arsenic is a metalloid enriched in the acid-sulfide hot spring Champagne Pool (Waiotapu, New Zealand). Arsenic speciation in Champagne Pool follows reaction paths not yet fully understood with respect to biotic contributions and coupling to biogeochemical sulfur cycling. Here we present quantitative arsenic speciation from Champagne Pool, finding arsenite dominant in the pool, rim and outflow channel (55-75% total arsenic), and dithio- and trithioarsenates ubiquitously present as 18-25% total arsenic. In the outflow channel, dimethylmonothioarsenate comprised ≤9% total arsenic, while on the outflow terrace thioarsenates were present at 55% total arsenic. We also quantified sulfide, thiosulfate, sulfate and elemental sulfur, finding sulfide and sulfate as major species in the pool and outflow terrace, respectively. Elemental sulfur concentration reached a maximum at the terrace. Phylogenetic analysis of 16S rRNA genes from metagenomic sequencing revealed the dominance of Sulfurihydrogenibium at all sites and an increased archaeal population at the rim and outflow channel. Several phylotypes were found closely related to known sulfur- and sulfide-oxidizers, as well as sulfur- and sulfate-reducers. Bioinformatic analysis revealed genes underpinning sulfur redox transformations, consistent with sulfur speciation data, and illustrating a microbial role in sulfur-dependent transformation of arsenite to thioarsenate. Metagenomic analysis also revealed genes encoding for arsenate reductase at all sites, reflecting the ubiquity of thioarsenate and a need for microbial arsenate resistance despite anoxic conditions. Absence of the arsenite oxidase gene, aio, at all sites suggests prioritization of arsenite detoxification over coupling to energy conservation. Finally, detection of methyl arsenic in the outflow channel, in conjunction with

The Guaymas Basin hiking guide to hydrothermal mounds, chimneys and microbial mats: complex seafloor expressions of subsurface hydrothermal circulation

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Andreas eTeske

2016-02-01

Full Text Available The hydrothermal mats, mounds and chimneys of the southern Guaymas Basin are the surface expression of complex subsurface hydrothermal circulation patterns. In this overview we document the most frequently visited features of this hydrothermal area with photographs, temperature measurements, and selected geochemical data; many of these distinct habitats await characterization of their microbial communities and activities. Microprofiler deployments on microbial mats and hydrothermal sediments show their steep geochemical and thermal gradients at millimeter-scale vertical resolution. Mapping these hydrothermal features and sampling locations within the southern Guaymas Basin suggest linkages to underlying shallow sills and heatflow gradients. Recognizing the inherent spatial limitations of much current Guaymas Basin sampling calls for a wider survey of the entire spreading region.

EVAPORITE MICROBIAL FILMS, MATS, MICROBIALITES AND STROMATOLITES

Energy Technology Data Exchange (ETDEWEB)

Brigmon, R; Penny Morris, P; Garriet Smith, G

2008-01-28

Evaporitic environments are found in a variety of depositional environments as early as the Archean. The depositional settings, microbial community and mineralogical composition vary significantly as no two settings are identical. The common thread linking all of the settings is that evaporation exceeds precipitation resulting in elevated concentrations of cations and anions that are higher than in oceanic systems. The Dead Sea and Storrs Lake are examples of two diverse modern evaporitic settings as the former is below sea level and the latter is a coastal lake on an island in the Caribbean. Each system varies in water chemistry as the Dead Sea dissolved ions originate from surface weathered materials, springs, and aquifers while Storrs Lake dissolved ion concentration is primarily derived from sea water. Consequently some of the ions, i.e., Sr, Ba are found at significantly lower concentrations in Storrs Lake than in the Dead Sea. The origin of the dissolved ions are ultimately responsible for the pH of each system, alkaline versus mildly acidic. Each system exhibits unique biogeochemical properties as the extreme environments select certain microorganisms. Storrs Lake possesses significant biofilms and stromatolitic deposits and the alkalinity varies depending on rainfall and storm activity. The microbial community Storrs Lake is much more diverse and active than those observed in the Dead Sea. The Dead Sea waters are mildly acidic, lack stromatolites, and possess a lower density of microbial populations. The general absence of microbial and biofilm fossilization is due to the depletion of HCO{sub 3} and slightly acidic pH.

Community Structure Comparisons of Hydrothermal Vent Microbial Mats Along the Mariana Arc and Back-arc

Science.gov (United States)

Hager, K. W.; Fullerton, H.; Moyer, C. L.

2015-12-01

Hydrothermal vents along the Mariana Arc and back-arc represent a hotspot of microbial diversity that has not yet been fully recognized. The Mariana Arc and back-arc contain hydrothermal vents with varied vent effluent chemistry and temperature, which translates to diverse community composition. We have focused on iron-rich sites where the dominant primary producers are iron oxidizing bacteria. Because microbes from these environments have proven elusive in culturing efforts, we performed culture independent analysis among different microbial communities found at these hydrothermal vents. Terminal-restriction fragment length polymorphism (T-RFLP) and Illumina sequencing of small subunit ribosomal gene amplicons were used to characterize community members and identify samples for shotgun metagenomics. Used in combination, these methods will better elucidate the composition and characteristics of the bacterial communities at these hydrothermal vent systems. The overarching goal of this study is to evaluate and compare taxonomic and metabolic diversity among different communities of microbial mats. We compared communities collected on a fine scale to analyze the bacterial community based on gross mat morphology, geography, and nearby vent effluent chemistry. Taxa richness and evenness are compared with rarefaction curves to visualize diversity. As well as providing a survey of diversity this study also presents a juxtaposition of three methods in which ribosomal small subunit diversity is compared with T-RFLP, next generation amplicon sequencing, and metagenomic shotgun sequencing.

Molecular analysis of the diversity of sulfate-reducing and sulfur-oxidizing prokaryotes in the environment, using aprA as functional marker gene.

Science.gov (United States)

Meyer, Birte; Kuever, Jan

2007-12-01

The dissimilatory adenosine-5'-phosphosulfate reductase is a key enzyme of the microbial sulfate reduction and sulfur oxidation processes. Because the alpha- and beta-subunit-encoding genes, aprBA, are highly conserved among sulfate-reducing and sulfur-oxidizing prokaryotes, they are most suitable for molecular profiling of the microbial community structure of the sulfur cycle in environment. In this study, a new aprA gene-targeting assay using a combination of PCR and denaturing gradient gel electrophoresis is presented. The screening of sulfate-reducing and sulfur-oxidizing reference strains as well as the analyses of environmental DNA from diverse habitats (e.g., microbial mats, invertebrate tissue, marine and estuarine sediments, and filtered hydrothermal water) by the new primer pair revealed an improved microbial diversity coverage and less-pronounced template-to-PCR product bias in direct comparison to those of the previously published primer set (B. Deplancke, K. R. Hristova, H. A. Oakley, V. J. McCracken, R. Aminov, R. I. Mackie, and H. R. Gaskins, Appl. Environ. Microbiol. 66:2166-2174, 2000). The concomitant molecular detection of sulfate-reducing and sulfur-oxidizing prokaryotes was confirmed. The new assay was applied in comparison with the 16S rRNA gene-based analysis to investigate the microbial diversity of the sulfur cycle in sediment, seawater, and manganese crust samples from four study sites in the area of the Lesser Antilles volcanic arc, Caribbean Sea (Caribflux project). The aprA gene-based approach revealed putative sulfur-oxidizing Alphaproteobacteria of chemolithoheterotrophic lifestyle to have been abundant in the nonhydrothermal sediment and water column. In contrast, the sulfur-based microbial community that inhabited the surface of the volcanic manganese crust was more complex, consisting predominantly of putative chemolithoautotrophic sulfur oxidizers of the Betaproteobacteria and Gammaproteobacteria.

Ecology and life history of an amoebomastigote, Paratetramitus jugosus, from a microbial mat: new evidence for multiple fission

Science.gov (United States)

Enzien, M.; McKhann, H. I.; Margulis, L.

1989-01-01

Five microbial habitats (gypsum crust, gypsum photosynthetic community, Microcoleus mat, Thiocapsa scum, and black mud) were sampled for the presence of the euryhaline, rapidly growing amoebomastigote, Paratetramitus jugosus. Field investigations of microbial mats from Baja California Norte, Mexico, and Salina Bido near Matanzas, Cuba, reveal that P. jugosus is most frequently found in the Thiocapsa layer of microbial mats. Various stages of the life history were studied using phase-contrast, differential-interference, and transmission electron microscopy. Mastigote stages were induced and studied by electron microscopy; mastigotes that actively feed on bacteria bear two or more undulipodia. A three-dimensional drawing of the kinetid ("basal apparatus") based on electron micrographs is presented. Although promitoses were occasionally observed, it is unlikely that they can account for the rapid growth of P. jugosus populations on culture media. Dense, refractile, spherical, and irregular-shaped bodies were seen at all times in all cultures along with small mononucleate (approximately 2-7 micrometers diameter) amoebae. Cytochemical studies employing two different fluorescent stains for DNA (DAPI, mithramycin) verified the presence of DNA in these small bodies. Chromatin-like material seen in electron micrographs within the cytoplasm and blebbing off nuclei were interpreted to the chromatin bodies. Our interpretation, consistent with the data but not proven, is that propagation by multiple fission of released chromatin bodies that become small amoebae may occur in Paratetramitus jugosus. These observations are consistent with descriptions of amoeba propagules in the early literature (Hogue, 1914).

Bacterial and archaeal diversity in two hot spring microbial mats from the geothermal region of Tengchong, China.

Science.gov (United States)

Pagaling, Eulyn; Grant, William D; Cowan, Don A; Jones, Brian E; Ma, Yanhe; Ventosa, Antonio; Heaphy, Shaun

2012-07-01

We investigated the bacterial and archaeal diversity in two hot spring microbial mats from the geothermal region of Tengchong in the Yunnan Province, China, using direct molecular analyses. The Langpu (LP) laminated mat was found by the side of a boiling pool with temperature of 60-65 °C and a pH of 8.5, while the Tengchong (TC) streamer mat consisted of white streamers in a slightly acidic (pH 6.5) hot pool outflow with a temperature of 72 °C. Four 16S rRNA gene clone libraries were constructed and restriction enzyme analysis of the inserts was used to identify unique sequences and clone frequencies. From almost 200 clones screened, 55 unique sequences were retrieved. Phylogenetic analysis showed that the LP mat consisted of a diverse bacterial population [Cyanobacteria, Chloroflexi, Chlorobia, Nitrospirae, 'Deinococcus-Thermus', Proteobacteria (alpha, beta and delta subdivisions), Firmicutes, Bacteroidetes and Actinobacteria], while the archaeal population was dominated by methanogenic Euryarchaeota and Crenarchaeota. In contrast, the TC streamer mat consisted of a bacterial population dominated by Aquificae, while the archaeal population also contained Korarchaeota as well as Crenarchaeota and methanogenic Euryarchaeota. These mats harboured clone sequences affiliated to unidentified lineages, suggesting that they are a potential source for discovering novel bacteria and archaea.

Molecular Analysis of the Diversity of Sulfate-Reducing and Sulfur-Oxidizing Prokaryotes in the Environment, Using aprA as Functional Marker Gene▿ †

Science.gov (United States)

Meyer, Birte; Kuever, Jan

2007-01-01

The dissimilatory adenosine-5′-phosposulfate reductase is a key enzyme of the microbial sulfate reduction and sulfur oxidation processes. Because the alpha- and beta-subunit-encoding genes, aprBA, are highly conserved among sulfate-reducing and sulfur-oxidizing prokaryotes, they are most suitable for molecular profiling of the microbial community structure of the sulfur cycle in environment. In this study, a new aprA gene-targeting assay using a combination of PCR and denaturing gradient gel electrophoresis is presented. The screening of sulfate-reducing and sulfur-oxidizing reference strains as well as the analyses of environmental DNA from diverse habitats (e.g., microbial mats, invertebrate tissue, marine and estuarine sediments, and filtered hydrothermal water) by the new primer pair revealed an improved microbial diversity coverage and less-pronounced template-to-PCR product bias in direct comparison to those of the previously published primer set (B. Deplancke, K. R. Hristova, H. A. Oakley, V. J. McCracken, R. Aminov, R. I. Mackie, and H. R. Gaskins, Appl. Environ. Microbiol. 66:2166-2174, 2000). The concomitant molecular detection of sulfate-reducing and sulfur-oxidizing prokaryotes was confirmed. The new assay was applied in comparison with the 16S rRNA gene-based analysis to investigate the microbial diversity of the sulfur cycle in sediment, seawater, and manganese crust samples from four study sites in the area of the Lesser Antilles volcanic arc, Caribbean Sea (Caribflux project). The aprA gene-based approach revealed putative sulfur-oxidizing Alphaproteobacteria of chemolithoheterotrophic lifestyle to have been abundant in the nonhydrothermal sediment and water column. In contrast, the sulfur-based microbial community that inhabited the surface of the volcanic manganese crust was more complex, consisting predominantly of putative chemolithoautotrophic sulfur oxidizers of the Betaproteobacteria and Gammaproteobacteria. PMID:17921272

Composition of atmospheric precipitation. II. Sulfur, chloride, iodine compounds. Bibliography

Energy Technology Data Exchange (ETDEWEB)

Eriksson, E

1952-01-01

Atmospheric precipitation invariably contains insoluble substances of different origin. A large scale study was conducted to determine the content of sulfur, chloride, and iodine in rainwater from various places around the world. The origin of these elements in rainwater is discussed. Several meteorological factors influence the Cl-content of rainwater. They include: rainfall, wind direction and wind strength, altitude, and seasonal variation.

Cyanobacterial composition of microbial mats from an Australian thermal spring: a polyphasic evaluation.

Science.gov (United States)

McGregor, Glenn B; Rasmussen, J Paul

2008-01-01

Cyanobacterial composition of microbial mats from an alkaline thermal spring issuing at 43-71 degrees C from tropical north-eastern Australia are described using a polyphasic approach. Eight genera and 10 species from three cyanobacterial orders were identified based on morphological characters. These represented taxa previously known as thermophilic from other continents. Ultrastructural analysis of the tower mats revealed two filamentous morphotypes contributed the majority of the biomass. Both types had ultrastructural characteristics of the family Pseudanabaenaceae. DNA extracts were made from sections of the tentaculiform towers and the microbial community analysed by 16S cyanobacteria-specific PCR and denaturing-gradient gel electrophoresis. Five significant bands were identified and sequenced. Two bands clustered closely with Oscillatoria amphigranulata isolated from New Zealand hot springs; one unique phylotype had only moderate similarity to a range of Leptolyngbya species; and one phylotype was closely related to a number of Geitlerinema species. Generally the approaches yielded complementary information, however the results suggest that species designation based on morphological and ultrastructural criteria alone often fails to recognize their true phylogenetic position. Conversely some molecular techniques may fail to detect rare taxa suggesting that the widest possible suite of techniques be applied when conducting analyses of cyanobacterial diversity of natural populations. This is the first polyphasic evaluation of thermophilic cyanobacterial communities from the Australian continent.

Microbial ecology of soda lakes: investigating sulfur and nitrogen cycling at Mono Lake, CA, USA

Science.gov (United States)

Fairbanks, D.; Phillips, A. A.; Wells, M.; Bao, R.; Fullerton, K. M.; Stamps, B. W.; Speth, D. R.; Johnson, H.; Sessions, A. L.

2017-12-01

Soda lakes represent unique ecosystems characterized by extremes of pH, salinity and distinct geochemical cycling. Despite these extreme conditions, soda lakes are important repositories of biological adaptation and have a highly functional microbial system. We investigated the biogeochemical cycling of sulfur and nitrogen compounds in Mono Lake, California, located east of the Sierra Nevada mountains. Mono lake is characterized by hyperalkaline, hypersaline and high sulfate concentrations and can enter prolonged periods of meromixis due to freshwater inflow. Typically, the microbial sulfur cycle is highly active in soda lakes with both oxidation and reduction of sulfur compounds. However, the biological sulfur cycle is connected to many other main elemental cycles such as carbon, nitrogen and metals. Here we investigated the interaction between sulfur and nitrogen cycling in Mono lake using a combination of molecular, isotopic, and geochemical observations to explore the links between microbial phylogenetic composition and functionality. Metagenomic and 16S rRNA gene amplicon sequencing were determined at two locations and five depths in May 2017. 16S rRNA gene amplicon sequencing analysis revealed organisms capable of both sulfur and nitrogen cycling. The relative abundance and distribution of functional genes (dsrA, soxAB, nifH, etc) were also determined. These genetic markers indicate the potential in situ relevance of specific carbon, nitrogen, and sulfur pathways in the water column prior to the transition to meromictic stratification. However, genes for sulfide oxidation, denitrification, and ammonification were present. Genome binning guided by the most abundant dsrA sequences, GC content, and abundance with depth identified a Thioalkalivibrio paradoxus bin containing genes capable of sulfur oxidation, denitrification, and nitrate reduction. The presence of a large number of sulfur and nitrogen cycling genes associated with Thioalkalivibrio paradoxus

Rock fracture grouting with microbially induced carbonate precipitation

Science.gov (United States)

Minto, James M.; MacLachlan, Erica; El Mountassir, Gráinne; Lunn, Rebecca J.

2016-11-01

Microbially induced carbonate precipitation has been proposed for soil stabilization, soil strengthening, and permeability reduction as an alternative to traditional cement and chemical grouts. In this paper, we evaluate the grouting of fine aperture rock fractures with calcium carbonate, precipitated through urea hydrolysis, by the bacteria Sporosarcina pasteurii. Calcium carbonate was precipitated within a small-scale and a near field-scale (3.1 m2) artificial fracture consisting of a rough rock lower surfaces and clear polycarbonate upper surfaces. The spatial distribution of the calcium carbonate precipitation was imaged using time-lapse photography and the influence on flow pathways revealed from tracer transport imaging. In the large-scale experiment, hydraulic aperture was reduced from 276 to 22 μm, corresponding to a transmissivity reduction of 1.71 × 10-5 to 8.75 × 10-9 m2/s, over a period of 12 days under constantly flowing conditions. With a modified injection strategy a similar three orders of magnitude reduction in transmissivity was achieved over a period of 3 days. Calcium carbonate precipitated over the entire artificial fracture with strong adhesion to both upper and lower surfaces and precipitation was controlled to prevent clogging of the injection well by manipulating the injection fluid velocity. These experiments demonstrate that microbially induced carbonate precipitation can successfully be used to grout a fracture under constantly flowing conditions and may be a viable alternative to cement based grouts when a high level of hydraulic sealing is required and chemical grouts when a more durable grout is required.

Microscopic Examination of Distribution and Phenotypic Properties of Phylogenetically Diverse Chloroflexaceae-Related Bacteria in Hot Spring Microbial Mats

DEFF Research Database (Denmark)

Nübel, U.; Bateson, Mary M.; Vandieken, V.

2002-01-01

We investigated the diversity, distribution, and phenotypes of uncultivated Chloroflexaceae-related bacteria in photosynthetic microbial mats of an alkaline hot spring (Mushroom Spring, Yellowstone National Park). By applying a directed PCR approach, molecular cloning, and sequence analysis of 16S...

GC and GC-MS characterization of crude oil transformation in sediments and microbial mat samples after the 1991 oil spill in the Saudi Arabian Gulf coast

International Nuclear Information System (INIS)

Garcia de Oteyza, T.; Grimalt, J.O.

2006-01-01

The massive oil discharge in the Saudi Arabian coast at the end of the 1991 Gulf War is used here as a natural experiment to study the ability of microbial mats to transform oil residues after major spills. The degree of oil transformation has been evaluated from the analysis of the aliphatic and aromatic hydrocarbons by gas chromatography (GC) and GC coupled to mass spectrometry (GC-MS). The oil-polluted microbial mat samples from coastal environments exhibited an intermediate degree of transformation between that observed in superficial and deep sediments. Evaporation, photo-oxidation and water-washing seemed to lead to more effective and rapid elimination of hydrocarbons than cyanobacteria and its associated microorganisms. Furthermore, comparison of some compounds (e.g. regular isoprenoid hydrocarbons or alkylnaphthalenes) in the oil collected in the area after the spill or in the mixtures retained by cyanobacterial growth gave rise to an apparent effect of hydrocarbon preservation in the microbial mat ecosystems. - Cyanobacterial mats inhibit degradation of oil by reducing exposure to the atmosphere and seawater

Biotransformation of nitrogen- and sulfur-containing pollutants during coking wastewater treatment: Correspondence of performance to microbial community functional structure.

Science.gov (United States)

Joshi, Dev Raj; Zhang, Yu; Gao, Yinxin; Liu, Yuan; Yang, Min

2017-09-15

Although coking wastewater is generally considered to contain high concentration of nitrogen- and sulfur-containing pollutants, the biotransformation processes of these compounds have not been well understood. Herein, a high throughput functional gene array (GeoChip 5.0) in combination with Illumina MiSeq sequencing of the 16S rRNA gene were used to identify microbial functional traits and their role in biotransformation of nitrogen- and sulfur-containing compounds in a bench-scale aerobic coking wastewater treatment system operated for 488 days. Biotransformation of nitrogen and sulfur-containing pollutants deteriorated when pH of the bioreactor was increased to >8.0, and the microbial community functional structure was significantly associated with pH (Mantels test, P functional microbial community structure (P functional genes for biotransformation of nitrogen- and sulfur-containing pollutants. Functional characterization of taxa and network analysis suggested that Burkholderiales, Actinomycetales, Rhizobiales, Pseudomonadales, and Hydrogenophiliales (Thiobacillus) were key functional taxa. Variance partitioning analysis showed that pH and influent ammonia nitrogen jointly explained 25.9% and 35.5% of variation in organic pollutant degrading genes and microbial community structure, respectively. This study revealed a linkage between microbial community functional structure and the likely biotransformation of nitrogen- and sulfur-containing pollutants, along with a suitable range of pH (7.0-7.5) for stability of the biological system treating coking wastewater. Copyright © 2017 Elsevier Ltd. All rights reserved.

Archaeal and bacterial diversity in two hot spring microbial mats from a geothermal region in Romania.

Science.gov (United States)

Coman, Cristian; Drugă, Bogdan; Hegedus, Adriana; Sicora, Cosmin; Dragoş, Nicolae

2013-05-01

The diversity of archaea and bacteria was investigated in two slightly alkaline, mesophilic hot springs from the Western Plain of Romania. Phylogenetic analysis showed a low diversity of Archaea, only three Euryarchaeota taxa being detected: Methanomethylovorans thermophila, Methanomassiliicoccus luminyensis and Methanococcus aeolicus. Twelve major bacterial groups were identified, both springs being dominated by Cyanobacteria, Chloroflexi and Proteobacteria. While at the phylum/class-level the microbial mats share a similar biodiversity; at the species level the geothermal springs investigated seem to be colonized by specific consortia. The dominant taxa were filamentous heterocyst-containing Fischerella, at 45 °C and non-heterocyst Leptolyngbya and Geitlerinema, at 55 °C. Other bacterial taxa (Thauera sp., Methyloversatilis universalis, Pannonibacter phragmitetus, Polymorphum gilvum, Metallibacterium sp. and Spartobacteria) were observed for the first time in association with a geothermal habitat. Based on their bacterial diversity the two mats were clustered together with other similar habitats from Europe and part of Asia, most likely the water temperature playing a major role in the formation of specific microbial communities that colonize the investigated thermal springs.

Iron Isotope Fractionation in Microbial and Non-Biological Precipitates, and the Human Body

Science.gov (United States)

von Blanckenburg, F.; Boettcher, M. E.; Hofmann, B.; Walczyk, T.

2001-12-01

represent fossil remnants of microbial mats, have been found as encrustations in chalcedony. Delta57Fe is 3 permil heavier than the associated calcite (representing the Fe-rich fluids). Therefore, the fractionations found in microbial precipitates are not larger than those produced in the abiotic experiments. In contrast, major Fe isotope fractionations are produced by the human body: The major iron compartments in the human body, blood, liver, muscle tissues, and also hair, are all depleted by as much as 6 permil in the 57Fe isotope relative to 54Fe when compared to the average dietary intake. Since feces are similar to the average intake, we conclude that a significant Fe isotope fractionation occurs at the adsorptive stage in the intestine. In conclusion, with respect to the hypothesis that Fe isotope effects might serve as "biosignatures" it appears that microbial and abiotic reactions cause similar isotope effects which essentially depend on redox reactions and the speciation in the aqueous solution. On the other hand, higher organisms bear distinct Fe isotope signatures.

Cyanobacteria in sulfidic spring microbial mats can perform oxygenic and anoxygenic photosynthesis simultaneously during an entire diurnal period

NARCIS (Netherlands)

Klatt, Judith M.; de Beer, Dirk; Häusler, Stefan; Polerecky, Lubos|info:eu-repo/dai/nl/370827929

2016-01-01

We used microsensors to study the regulation of anoxygenic and oxygenic photosynthesis (AP and OP, respectively) by light and sulfide in a cyanobacterium dominating microbial mats from cold sulfidic springs. Both photosynthetic modes were performed simultaneously over all H2S concentrations (1–2200

The Diffusive Boundary-Layer of Sediments - Oxygen Microgradients Over a Microbial Mat

DEFF Research Database (Denmark)

JØRGENSEN, BB; MARAIS, DJD

1990-01-01

Oxygen microelectrodes were used to analyze the distribution of the diffusive boundary layer (DBL) at the sedimen-water interface in relation to surface topography and flow velocity. The sediment, collected from saline ponds, was covered by a microbial mat that had high oxygen consumption rate...... and well-defined surface structure. Diffusion through the DBL constituted an important rate limitation to the oxygen uptake of the sediment. The mean effective DBL thickness decreased from 0.59 to 0.16 mm as the flow velocity of the overlying water was increased from 0.3 to 7.7 cm s-1 (measured 1 cm above...

Disruption of photoautotrophic intertidal mats by filamentous fungi

DEFF Research Database (Denmark)

Carreira, Cátia; Staal, Marc Jaap; Falkoski, Daniel

2015-01-01

Summary: Ring-like structures, 2.0-4.8cm in diameter, observed in photosynthetic microbial mats on the Wadden Sea island Schiermonnikoog (the Netherlands) showed to be the result of the fungus Emericellopsis sp. degrading the photoautotrophic top layer of the mat. The mats were predominantly comp...

Mineralogical controls on surface colonization by sulfur-metabolizing microbial communities

Science.gov (United States)

Jones, A. A.; Bennett, P.

2012-12-01

When characterizing microbial diversity and the microbial ecosystem of the shallow subsurface the mineral matrix is generally assumed to be homogenous and unreactive. We report here experimental evidence that microorganisms colonize rock surfaces according to the rock's chemistry and the organism's metabolic requirements and tolerances. We investigated this phenomenon using laboratory biofilm reactors with both a pure culture of sulfur-oxidizing Thiothrix unzii and a mixed environmental sulfur-metabolizing community from Lower Kane, Cave, WY, USA. Reactors contained rock and mineral chips (calcite, albite, microcline, quartz, chert, Madison Limestone (ML), Madison Dolostone (MD), and basalt) amended with one of the two inoculants. Biomass of attached microorganisms on each mineral surface was quantified. The 16S rRNA of attached microbial communities were compared using Roche FLX and Titanium 454 next generation pyrosequencing. A primary controlling factor on taxonomy of attached microorganisms in both pure and mixed culture experiments was mineral buffering capacity. In mixed culture experiments acid-buffering carbonates were preferentially colonized by neutrophilic sulfur-oxidizing microorganisms (~18% to ~27% of microorganisms), while acidophilic sulfur-oxidizing microorganisms colonized non-buffering quartz exclusively (~46% of microorganisms). The nutrient content of the rock was a controlling factor on biomass accumulation, with neutrophilic organisms selecting between carbonate surfaces of equivalent buffer capacities according to the availability of phosphate. Dry biomass on ML was 17.8 ± 2.3 mg/cm2 and MD was 20.6 ± 6.8 mg/cm2; while nutrient poor calcite accumulated 2.4 ± 0.3 mg/cm2. Biomass accumulation was minimal on non-buffering nutrient-limited surfaces. These factors are countered by the competitive exclusion of some populations. A pure culture of T. unzii preferentially colonizes carbonates while a very closely related Thiothrix spp is excluded

Environmental controls on photosynthetic microbial mat distribution and morphogenesis on a 3.42 Ga clastic-starved platform.

Science.gov (United States)

Tice, Michael M

2009-12-01

Three morphotypes of microbial mats are preserved in rocks deposited in shallow-water facies of the 3.42 Ga Buck Reef chert (BRC). Morphotype alpha consists of fine anastomosing and bifurcating carbonaceous laminations, which loosely drape underlying detrital grains or form silica-filled lenses. Morphotype beta consists of meshes of fine carbonaceous strands intergrown with detrital grains and dark laminations, which loosely drape coarse detrital grains. Morphotype gamma consists of fine, even carbonaceous laminations that tightly drape underlying detrital grains. Preservation of nearly uncompacted mat morphologies and detrital grains deposited during mat growth within a well-characterized sedimentary unit makes quantitative correlation between morphology and paleoenvironment possible. All mats are preserved in the shallowest-water interval of those rocks deposited below normal wave base and above storm wave base. This interval is bounded below by a transgressive lag formed during regional flooding and above by a small condensed section that marks a local relative sea-level maximum. Restriction of all mat morphotypes to the shallowest interval of the storm-active layer in the BRC ocean reinforces previous interpretations that these mats were constructed primarily by photosynthetic organisms. Morphotypes alpha and beta dominate the lower half of this interval and grew during deposition of relatively coarse detrital carbonaceous grains, while morphotype gamma dominates the upper half and grew during deposition of fine detrital carbonaceous grains. The observed mat distribution suggests that either light intensity or, more likely, small variations in ambient current energy acted as a first-order control on mat morphotype distribution. These results demonstrate significant environmental control on biological morphogenetic processes independent of influences from siliciclastic sedimentation.

Sulfur in serpentinized oceanic peridotites: Serpentinization processes and microbial sulfate reduction

Science.gov (United States)

Alt, J.C.; Shanks, Wayne C.

1998-01-01

The mineralogy, contents, and isotopic compositions of sulfur in oceanic serpentinites reflect variations in temperatures and fluid fluxes. Serpentinization of serpentinization of Iberian Margin peridotites occurred at low temperatures (???20??-200??C) and high water/rock ratios. Complete serpentinization and consumption of ferrous iron allowed evolution to higher fO2. Microbial reduction of seawater sulfate resulted in addition of low-??34S sulfide (-15 to -43???) and formation of higher-sulfur assemblages that include valleriite and pyrite. The high SO4/total S ratio of Hess Deep serpentinites (0.89) results in an increase of total sulfur and high ??34S of total sulfur (mean ??? 8???). In contrast, Iberian Margin serpentinites gained large amounts of 34S-poor sulfide (mean total S = 3800 ppm), and the high sulfide/total S ratio (0.61) results in a net decrease in ??34S of total sulfur (mean ??? -5???). Thus serpentinization is a net sink for seawater sulfur, but the amount fixed and its isotopic composition vary significantly. Serpentinization may result in uptake of 0.4-14 ?? 1012 g S yr-1 from the oceans, comparable to isotopic exchange in mafic rocks of seafloor hydrothermal systems and approaching global fluxes of riverine sulfate input and sedimentary sulfide output.

Conversion of sulfur compounds and microbial community in anaerobic treatment of fish and pork waste.

Science.gov (United States)

He, Ruo; Yao, Xing-Zhi; Chen, Min; Ma, Ruo-Chan; Li, Hua-Jun; Wang, Chen; Ding, Shen-Hua

2018-04-07

Volatile sulfur compounds (VSCs) are not only the main source of malodor in anaerobic treatment of organic waste, but also pose a threat to human health. In this study, VSCs production and microbial community was investigated during the anaerobic degradation of fish and pork waste. The results showed that after the operation of 245 days, 94.5% and 76.2% of sulfur compounds in the fish and pork waste was converted into VSCs. Among the detected VSCs including H 2 S, carbon disulfide, methanethiol, ethanethiol, dimethyl sulfide, dimethyl disulfide and dimethyl trisulfide, methanethiol was the major component with the maximum concentration of 4.54% and 3.28% in the fish and pork waste, respectively. The conversion of sulfur compounds including total sulfur, SO 4 2- -S, S 2- , methionine and cysteine followed the first-order kinetics. Miseq sequencing analysis showed that Acinetobacter, Clostridium, Proteus, Thiobacillus, Hyphomicrobium and Pseudomonas were the main known sulfur-metabolizing microorganisms in the fish and pork waste. The C/N value had most significant influence on the microbial community in the fish and pork waste. A main conversion of sulfur compounds with CH 3 SH as the key intermediate was firstly hypothesized during the anaerobic degradation of fish and pork waste. These findings are helpful to understand the conversion of sulfur compounds and to develop techniques to control ordor pollution in the anaerobic treatment of organic waste. Copyright © 2018. Published by Elsevier Ltd.

Palaeoenvironmental and biostratigraphic implications of microbial mat-related structures: Examples from the modern Gulf of Cambay and the Precambrian Vindhyan Basin, India

Directory of Open Access Journals (Sweden)

Santanu Banerjee

2014-04-01

Full Text Available A stretch of the modern hypersaline coastal plain of the Gulf of Cambay was chosen to examine the distribution of the microbial mat-related structures (MRS on siliciclastic sediments in the intertidal and supratidal zones. The abundance of MRS increases from the lower intertidal zone to the upper supratidal zone while the type of MRS records a systematic change. While the lower intertidal zone exhibits wrinkle structures, sieve-like surfaces and patchy ripples in places, the upper intertidal zone exhibits diverse MRS related to reduced current activity on the mat layer and intermittent exposure. MRS in the upper intertidal zone include wrinkle structures, sieve-like surfaces, gas domes, reticulated surfaces, multi-directional ripples, patchy ripples, rolled-up mat fragments, setulfs and occasional petee ridges and cracked mat surfaces. The lower supratidal zone is characterized by increased occurrence of petee ridges, gas domes and cracked mat surfaces compared to the upper intertidal zone. The upper supratidal zone is distinguished by the presence of abundant cracked mat surfaces, petee ridges, gas domes and wrinkle structures. The presence of cm-scale, disc-shaped microbial colonies (DMC with a variety of internal structures is a unique feature of the Gulf of Cambay study area. While wrinkle structures occur in all the coastal zones, setulfs occur close to the boundary between the upper intertidal and lower supratidal zones. An attempt has been made to compare the distribution of MRS in this modern environment with those in the ~1.6 Ga Chorhat Sandstone of the Vindhyan Supergroup for high-resolution palaeoenvironmental interpretation. The upper part of the intertidal segment of the Chorhat Sandstone is distinguished from its lower part by the presence of abundant cracked mat surfaces, petee ridges and gas domes in the former, while wrinkle structures, Kinneyia, rolled-up mat fragments, patchy ripples and multi-directional ripples are equally

Trade-offs between microbiome diversity and productivity in a stratified microbial mat

Energy Technology Data Exchange (ETDEWEB)

Bernstein, Hans C.; Brislawn, Colin; Renslow, Ryan S.; Dana, Karl; Morton, Beau; Lindemann, Stephen R.; Song, Hyun-Seob; Atci, Erhan; Beyenal, Haluk; Fredrickson, James K.; Jansson, Janet K.; Moran, James J.

2016-11-01

Productivity is a major determinant of ecosystem diversity. Microbial ecosystems are the most diverse on the planet yet very few relationships between diversity and productivity have been reported as compared to macro-ecological studies. Here we evaluated the spatial relationships of productivity and microbiome diversity in a laboratory-cultivated photosynthetic mat. The goal was to determine how spatial diversification of microorganisms drives localized carbon and energy acquisition rates. We measured sub-millimeter depth profiles of net primary-productivity and gross oxygenic photosynthesis in the context of the localized microenvironment and community structure and observed negative correlations between species richness and productivity within the energy-replete, photic zone. Variations between localized community structures were associated with distinct taxa as well as environmental profiles describing a continuum of biological niches. Spatial regions corresponding to high primary productivity and photosynthesis rates had relatively low species richness and high evenness. Hence, this system exhibited negative species-productivity and species–energy relationships. These negative relationships may be indicative of photosynthetically-driven, light-controlled mat ecosystems that are able to be the most productive with a relatively smaller, even distributions of species that specialize within the highly-oxic, photic zones.

Mechanical and physical properties of wood fiber-reinforced, sulfur-based wood composites

Science.gov (United States)

Chung-Yun Hse; Ben S. Bryant

1993-01-01

Sulfur-based composite was made from sulfur impregnated, oven dried, wet-formed fiber mats. The fiber mats consisted of a 50/50 mixture of recycled newsprint pulp and mechanical hardwood pulp from several species made from chips in a laboratory refiner. The thickness of the composites was 0.125 inch and the specific gravity of the unimpregnated fiber mat was 0.2. The...

Physiological and metagenomic analyses of microbial mats involved in self-purification of mine waters contaminated with heavy metals

Directory of Open Access Journals (Sweden)

Lukasz Drewniak

2016-08-01

Full Text Available Two microbial mats found inside two old (gold and uranium mines in Zloty Stok and Kowary located in SW Poland seem to form a natural barrier that traps heavy metals leaking from dewatering systems. We performed complex physiological and metagenomic analyses to determine which microorganisms are the main driving agents responsible for self-purification of the mine waters and identify metabolic processes responsible for the observed features. SEM and energy dispersive X-ray microanalysis showed accumulation of heavy metals on the mat surface, whereas, sorption experiments showed that neither microbial mats were completely saturated with heavy metals present in the mine waters, indicating that they have a large potential to absorb significant quantities of metal. The metagenomic analysis revealed that Methylococcaceae and Methylophilaceae families were the most abundant in both communities, moreover, it strongly suggest that backbones of both mats were formed by filamentous bacteria, such as Leptothrix, Thiothrix, and Beggiatoa. The Kowary bacterial community was enriched with the Helicobacteraceae family, whereas the Zloty Stok community consist mainly of Sphingomonadaceae, Rhodobacteraceae, and Caulobacteraceae families. Functional (culture-based and metagenome (sequence-based analyses showed that bacteria involved in immobilization of heavy metals, rather than those engaged in mobilization, were the main driving force within the analyzed communities. In turn, a comparison of functional genes revealed that the biofilm formation and heavy metal resistance functions are more desirable in microorganisms engaged in water purification than the ability to utilize heavy metals in the respiratory process (oxidation-reduction. These findings provide insight on the activity of bacteria leading, from biofilm formation to self-purification, of mine waters contaminated with heavy metals

Biosedimentary and geochemical constraints on the precipitation of mineral crusts in shallow sulphate lakes

Science.gov (United States)

Cabestrero, Óscar; del Buey, Pablo; Sanz-Montero, M. Esther

2018-04-01

Seasonal desiccation of Mg2+-(Na+)-(Ca2+)-SO42--(Cl-) saline lakes in La Mancha (Central Spain) that host microbial mats led to the precipitation of hydrated Na-Mg sulphates and gypsum. Sulphates precipitated in the submerged conditions form extensive biolaminites, whilst in marginal areas they produce thin crusts. Sedimentological, mineralogical, petrographic and high resolution textural studies reveal that the crusts were formed within the benthic microbial mats that thrive at salinities ranging from 160 to 340 g·L-1. The minerals of the crusts are primary bloedite (Na2Mg(SO4)2·4H2O), epsomite (MgSO4·7H2O), gypsum (CaSO4·2H2O) and mirabilite (Na2SO4·10H2O), as well as secondary hexahydrite (MgSO4·6H2O) and thenardite (Na2SO4). Primary bloedite crystals, which form the framework of surficial and submerged crusts are seen to nucleate subaqueously and grow incorporatively within the matgrounds. Displacive and incorporative epsomite grows on previous bloedite crystals and also on the ground. Mirabilite is precipitated rapidly at the brine-air interface over bloedite and epsomite. Hexahydrite and thenardite are formed due to dehydration of epsomite and mirabilite, respectively. Hydrochemical modeling with PHREEQC indicated that evaporitic biolaminites are forming from brines undersaturated with respect to bloedite, epsomite and mirabilite, which suggests that the microorganisms contribute to the heterogeneous nucleation of the sulphates in the microbial mats. Unlike carbonates, the influence of microbes on the growth and morphology of complicated double salts such as bloedite has not been documented previously and provides a new perspective on the formation of hydrated sulphate minerals that are common on Earth as well as other planets.

Molecular characterization of anaerobic sulfur-oxidizing microbial communities in up-flow anaerobic sludge blanket reactor treating municipal sewage.

Science.gov (United States)

Aida, Azrina A; Hatamoto, Masashi; Yamamoto, Masamitsu; Ono, Shinya; Nakamura, Akinobu; Takahashi, Masanobu; Yamaguchi, Takashi

2014-11-01

A novel wastewater treatment system consisting of an up-flow anaerobic sludge blanket (UASB) reactor and a down-flow hanging sponge (DHS) reactor with sulfur-redox reaction was developed for treatment of municipal sewage under low-temperature conditions. In the UASB reactor, a novel phenomenon of anaerobic sulfur oxidation occurred in the absence of oxygen, nitrite and nitrate as electron acceptors. The microorganisms involved in anaerobic sulfur oxidation have not been elucidated. Therefore, in this study, we studied the microbial communities existing in the UASB reactor that probably enhanced anaerobic sulfur oxidation. Sludge samples collected from the UASB reactor before and after sulfur oxidation were used for cloning and terminal restriction fragment length polymorphism (T-RFLP) analysis of the 16S rRNA genes of the bacterial and archaeal domains. The microbial community structures of bacteria and archaea indicated that the genus Smithella and uncultured bacteria within the phylum Caldiserica were the dominant bacteria groups. Methanosaeta spp. was the dominant group of the domain archaea. The T-RFLP analysis, which was consistent with the cloning results, also yielded characteristic fingerprints for bacterial communities, whereas the archaeal community structure yielded stable microbial community. From these results, it can be presumed that these major bacteria groups, genus Smithella and uncultured bacteria within the phylum Caldiserica, probably play an important role in sulfur oxidation in UASB reactors. Copyright © 2014 The Society for Biotechnology, Japan. Published by Elsevier B.V. All rights reserved.

Genome-resolved metagenomics reveals that sulfur metabolism dominates the microbial ecology of rising hydrothermal plumes

Science.gov (United States)

Anantharaman, K.; Breier, J. A., Jr.; Jain, S.; Reed, D. C.; Dick, G.

2015-12-01

Deep-sea hydrothermal plumes occur when hot fluids from hydrothermal vents replete with chemically reduced elements and compounds like sulfide, methane, hydrogen, ammonia, iron and manganese mix with cold, oxic seawater. Chemosynthetic microbes use these reduced chemicals to power primary production and are pervasive throughout the deep sea, even at sites far removed from hydrothermal vents. Although neutrally-buoyant hydrothermal plumes have been well-studied, rising hydrothermal plumes have received little attention even though they represent an important interface in the deep-sea where microbial metabolism and particle formation processes control the transformation of important elements and impact global biogeochemical cycles. In this study, we used genome-resolved metagenomic analyses and thermodynamic-bioenergetic modeling to study the microbial ecology of rising hydrothermal plumes at five different hydrothermal vents spanning a range of geochemical gradients at the Eastern Lau Spreading Center (ELSC) in the Western Pacific Ocean. Our analyses show that differences in the geochemistry of hydrothermal vents do not manifest in microbial diversity and community composition, both of which display only minor variance across ELSC hydrothermal plumes. Microbial metabolism is dominated by oxidation of reduced sulfur species and supports a diversity of bacteria, archaea and viruses that provide intriguing insights into metabolic plasticity and virus-mediated horizontal gene transfer in the microbial community. The manifestation of sulfur oxidation genes in hydrogen and methane oxidizing organisms hints at metabolic opportunism in deep-sea microbes that would enable them to respond to varying redox conditions in hydrothermal plumes. Finally, we infer that the abundance, diversity and metabolic versatility of microbes associated with sulfur oxidation impart functional redundancy that could allow it to persist in the dynamic settings of hydrothermal plumes.

Microbial contributions to coupled arsenic and sulfur cycling in the acid-sulfide hot spring Champagne Pool, New Zealand

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Katrin eHug

2014-11-01

Full Text Available Acid-sulfide hot springs are analogs of early Earth geothermal systems where microbial metal(loid resistance likely first evolved. Arsenic is a metalloid enriched in the acid-sulfide hot spring Champagne Pool (Waiotapu, New Zealand. Arsenic speciation in Champagne Pool follows reaction paths not yet fully understood with respect to biotic contributions and coupling to biogeochemical sulfur cycling. Here we present quantitative arsenic speciation from Champagne Pool, finding arsenite dominant in the pool, rim and outflow channel (55-75% total arsenic, and dithio- and trithioarsenates ubiquitously present as 18-25% total arsenic. In the outflow channel, dimethylmonothioarsenate comprised ≤9% total arsenic, while on the outflow terrace thioarsenates were present at 55% total arsenic. We also quantified sulfide, thiosulfate, sulfate and elemental sulfur, finding sulfide and sulfate as major species in the pool and outflow terrace, respectively. Elemental sulfur reached a maximum at the terrace. Phylogenetic analysis of 16S rRNA genes from metagenomic sequencing revealed the dominance of Sulfurihydrogenibium at all sites and an increased archaeal population at the rim and outflow channel. Several phylotypes were found closely related to known sulfur- and sulfide-oxidizers, as well as sulfur- and sulfate-reducers. Bioinformatic analysis revealed genes underpinning sulfur redox transformations, consistent with sulfur speciation data, and illustrating a microbial role in sulfur-dependent transformation of arsenite to thioarsenate. Metagenomic analysis also revealed genes encoding for arsenate reductase at all sites, reflecting the ubiquity of thioarsenate and a need for microbial arsenate resistance despite anoxic conditions. Absence of the arsenite oxidase gene, aio, at all sites suggests prioritization of arsenite detoxification over coupling to energy conservation. Finally, detection of methyl arsenic in the outflow channel, in conjunction with

Petrographic Evidence of Microbial Mats in the Upper Cretaceous Fish-Bearing, Organic-Rich Limestone, Agua Nueva Formation, Central Mexico

Science.gov (United States)

Blanco, A.; Maurrasse, F. J.; Hernández-Ávila, J.; Ángeles-Trigueros, S. A.; García-Cabrera, M. E.

2013-05-01

We document petrographic evidence of microbial mats in the Upper Cretaceous Agua Nueva Formation in the area of Xilitla (San Luis Potosí, Central Mexico), located in the southern part of the Tampico-Misantla basin. The sequence consists predominantly of alternating decimeter-thick beds of fossiliferous dark laminated limestone (C-org > 1.0wt%), and light gray, bioturbated limestone (C-org Duque-Botero and Maurrasse, 2005; 2008). These structures are also analogous to microbial mats in present environments, and Devonian deposits (Kremer, 2006). In addition, the laminae at Xilitla include filamentous bacterial structures, as thin and segmented red elements. In some thin sections, filaments appear to be embedded within the crinkly laminae and shreds showing the same pattern of folding, suggestive of biomorphic elements that represent the main producers of the organic matter associated with the laminae. Thus, exceptional bacterial activity characterizes sedimentation during the accumulation of the Agua Nueva Formation. Oxygen-deficient conditions related to the microbial mats were an important element in the mass mortality and preservation of the fish assemblages. Absence of bioturbation, pervasive framboidal pyrite, and the high concentration of organic matter (TOC ranges from 1.2% to 8wt%) in the dark limestones are consistent with persistent recurring dysoxic/anoxic conditions, and the light-gray bioturbated limestones represent relatively well-oxygenated episodes. Planktonic foraminifera (Rotalipora cushmani) and Inoceramu labiatus indicate a time interval from the latest Cenomanian through the earliest Turonian, thus this long interval of severe oxygen deficiency is coeval with Oceanic Anoxic Event 2 (OAE-2). [Duque-Botero and Maurrasse. 2005. Jour. Iberian Geology (31), 85-98; 2008. Cret. Res., 29, 957-964; Kremer. 2006. Acta Palaeontologica Polonica (51, 1), 143-154

Sulfur and nitrogen compounds in air and precipitation over the former Soviet Union in 1980-1995

Energy Technology Data Exchange (ETDEWEB)

Paramonov, S.; Ryaboshapko, A.; Gromov, S. [Inst. of Global Climate and Ecology, Moscow (Russian Federation); Granat, L.; Rodhe, H. [Stockholm Univ. (Sweden). Dept. of Meteorology

1999-12-01

Published information on sulfur and nitrogen compounds in air and precipitation in background regions of the Former Soviet Union (F SU) was collected and analyzed. Bad or doubtful data were removed. The spatial patterns of sulphur and nitrogen compounds indicate that western and southern regions are the most polluted and eastern Siberia the cleanest. Dry deposition of oxidized sulfur and nitrogen on all the F SU territory was estimated to 3.3 Mt S and 1.6 Mt N per year (an average of 0. 15 gS/m{sup 2} yr and 0.07 gN/m{sup 2} yr). Deposition with precipitation was estimated to 14.7 Mt S and 7.9 Mt N per year (an average of 0.66 gS/m{sup 2}yr and 0.35 gN/m{sup 2}yr). Deposition fluxes are largest during the warm season. Data from the GAW monitoring network during the period 1980-1995 showed a visible increase of nitrate and ammonium in precipitation whereas the concentration of sulfate was rather stable. The sulfur dioxide concentration in air decreased significantly in several regions of the F SU during the decade 1980-1990. The data on nitrogen compounds in air are too limited to permit any firm conclusions regarding trends.

Microbial communities from different subsystems in biological heap leaching system play different roles in iron and sulfur metabolisms.

Science.gov (United States)

Xiao, Yunhua; Liu, Xueduan; Ma, Liyuan; Liang, Yili; Niu, Jiaojiao; Gu, Yabing; Zhang, Xian; Hao, Xiaodong; Dong, Weiling; She, Siyuan; Yin, Huaqun

2016-08-01

The microbial communities are important for minerals decomposition in biological heap leaching system. However, the differentiation and relationship of composition and function of microbial communities between leaching heap (LH) and leaching solution (LS) are still unclear. In this study, 16S rRNA gene sequencing was used to assess the microbial communities from the two subsystems in ZiJinShan copper mine (Fujian province, China). Results of PCoA and dissimilarity test showed that microbial communities in LH samples were significantly different from those in LS samples. The dominant genera of LH was Acidithiobacillus (57.2 ∼ 87.9 %), while Leptospirillum (48.6 ∼ 73.7 %) was predominant in LS. Environmental parameters (especially pH) were the major factors to influence the composition and structure of microbial community by analysis of Mantel tests. Results of functional test showed that microbial communities in LH utilized sodium thiosulfate more quickly and utilized ferrous sulfate more slowly than those in LS, which further indicated that the most sulfur-oxidizing processes of bioleaching took place in LH and the most iron-oxidizing processes were in LS. Further study found that microbial communities in LH had stronger pyrite leaching ability, and iron extraction efficiency was significantly positively correlated with Acidithiobacillus (dominated in LH), which suggested that higher abundance ratio of sulfur-oxidizing microbes might in favor of minerals decomposition. Finally, a conceptual model was designed through the above results to better exhibit the sulfur and iron metabolism in bioleaching systems.

Fine-scale distribution patterns of Synechococcus ecological diversity in the microbial mats of Mushroom Spring, Yellowstone National Park

DEFF Research Database (Denmark)

Becraft, E.; Cohan, F.; Kühl, Michael

2011-01-01

Past analyses of sequence diversity in high-resolution protein-encoding genes have identified putative ecological species of unicellular cyanobacteria in the genus Synechococcus, which are specialized to 60°C but not 65°C in Mushroom Spring microbial mats. Because these studies were limited to only...

Microbial iron mats at the Mid-Atlantic Ridge and evidence that Zetaproteobacteria may be restricted to iron-oxidizing marine systems.

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Jarrod J Scott

Full Text Available Chemolithoautotrophic iron-oxidizing bacteria play an essential role in the global iron cycle. Thus far, the majority of marine iron-oxidizing bacteria have been identified as Zetaproteobacteria, a novel class within the phylum Proteobacteria. Marine iron-oxidizing microbial communities have been found associated with volcanically active seamounts, crustal spreading centers, and coastal waters. However, little is known about the presence and diversity of iron-oxidizing communities at hydrothermal systems along the slow crustal spreading center of the Mid-Atlantic Ridge. From October to November 2012, samples were collected from rust-colored mats at three well-known hydrothermal vent systems on the Mid-Atlantic Ridge (Rainbow, Trans-Atlantic Geotraverse, and Snake Pit using the ROV Jason II. The goal of these efforts was to determine if iron-oxidizing Zetaproteobacteria were present at sites proximal to black smoker vent fields. Small, diffuse flow venting areas with high iron(II concentrations and rust-colored microbial mats were observed at all three sites proximal to black smoker chimneys. A novel, syringe-based precision sampler was used to collect discrete microbial iron mat samples at the three sites. The presence of Zetaproteobacteria was confirmed using a combination of 16S rRNA pyrosequencing and single-cell sorting, while light micros-copy revealed a variety of iron-oxyhydroxide structures, indicating that active iron-oxidizing communities exist along the Mid-Atlantic Ridge. Sequencing analysis suggests that these iron mats contain cosmopolitan representatives of Zetaproteobacteria, but also exhibit diversity that may be uncommon at other iron-rich marine sites studied to date. A meta-analysis of publically available data encompassing a variety of aquatic habitats indicates that Zetaproteobacteria are rare if an iron source is not readily available. This work adds to the growing understanding of Zetaproteobacteria ecology and suggests

Mobilifilum chasei: morphology and ecology of a spirochete from an intertidal stratified microbial mat community

Science.gov (United States)

Margulis, L.; Hinkle, G.; Stolz, J.; Craft, F.; Esteve, I.; Guerrero, R.

1990-01-01

Spirochetes were found in the lower anoxiphototrophic layer of a stratified microbial mat (North Pond, Laguna Figueroa, Baja California, Mexico). Ultra-structural analysis of thin sections of field samples revealed spirochetes approximately 0.25 micrometer in diameter with 10 or more periplasmic flagella, leading to the interpretation that these spirochetes bear 10 flagellar insertions on each end. Morphometric study showed these free-living spirochetes greatly resemble certain symbiotic ones, i.e., Borrelia and certain termite spirochetes, the transverse sections of which are presented here. The ultrastructure of this spirochete also resembles Hollandina and Diplocalyx (spirochetes symbiotic in arthropods) more than it does Spirochaeta, the well known genus of mud-dwelling spirochetes. The new spirochete was detected in mat material collected both in 1985 and in 1987. Unique morphology (i.e., conspicuous outer coat of inner membrane, large number of periplasmic flagella) and ecology prompt us to name a new free-living spirochete.

Microbial Desulfurization of a Crude Oil Middle-Distillate Fraction: Analysis of the Extent of Sulfur Removal and the Effect of Removal on Remaining Sulfur

Science.gov (United States)

Grossman, M. J.; Lee, M. K.; Prince, R. C.; Garrett, K. K.; George, G. N.; Pickering, I. J.

1999-01-01

Rhodococcus sp. strain ECRD-1 was evaluated for its ability to desulfurize a 232 to 343°C middle-distillate (diesel range) fraction of Oregon basin (OB) crude oil. OB oil was provided as the sole source of sulfur in batch cultures, and the extent of desulfurization and the chemical fate of the residual sulfur in the oil after treatment were determined. Gas chromatography (GC), flame ionization detection, and GC sulfur chemiluminesce detection analysis were used to qualitatively evaluate the effect of Rhodococcus sp. strain ECRD-1 treatment on the hydrocarbon and sulfur content of the oil, respectively. Total sulfur was determined by combustion of samples and measurement of released sulfur dioxide by infrared absorption. Up to 30% of the total sulfur in the middle distillate cut was removed, and compounds across the entire boiling range of the oil were affected. Sulfur K-edge X-ray absorption-edge spectroscopy was used to examine the chemical state of the sulfur remaining in the treated OB oil. Approximately equal amounts of thiophenic and sulfidic sulfur compounds were removed by ECRD-1 treatment, and over 50% of the sulfur remaining after treatment was in an oxidized form. The presence of partially oxidized sulfur compounds indicates that these compounds were en route to desulfurization. Overall, more than two-thirds of the sulfur had been removed or oxidized by the microbial treatment. PMID:9872778

Microbial Communities and Their Predicted Metabolic Functions in Growth Laminae of a Unique Large Conical Mat from Lake Untersee, East Antarctica

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Hyunmin Koo

2017-08-01

Full Text Available In this study, we report the distribution of microbial taxa and their predicted metabolic functions observed in the top (U1, middle (U2, and inner (U3 decadal growth laminae of a unique large conical microbial mat from perennially ice-covered Lake Untersee of East Antarctica, using NextGen sequencing of the 16S rRNA gene and bioinformatics tools. The results showed that the U1 lamina was dominated by cyanobacteria, specifically Phormidium sp., Leptolyngbya sp., and Pseudanabaena sp. The U2 and U3 laminae had high abundances of Actinobacteria, Verrucomicrobia, Proteobacteria, and Bacteroidetes. Closely related taxa within each abundant bacterial taxon found in each lamina were further differentiated at the highest taxonomic resolution using the oligotyping method. PICRUSt analysis, which determines predicted KEGG functional categories from the gene contents and abundances among microbial communities, revealed a high number of sequences belonging to carbon fixation, energy metabolism, cyanophycin, chlorophyll, and photosynthesis proteins in the U1 lamina. The functional predictions of the microbial communities in U2 and U3 represented signal transduction, membrane transport, zinc transport and amino acid-, carbohydrate-, and arsenic- metabolisms. The Nearest Sequenced Taxon Index (NSTI values processed through PICRUSt were 0.10, 0.13, and 0.11 for U1, U2, and U3 laminae, respectively. These values indicated a close correspondence with the reference microbial genome database, implying high confidence in the predicted metabolic functions of the microbial communities in each lamina. The distribution of microbial taxa observed in each lamina and their predicted metabolic functions provides additional insight into the complex microbial ecosystem at Lake Untersee, and lays the foundation for studies that will enhance our understanding of the mechanisms responsible for the formation of these unique mat structures and their evolutionary significance.

Microbial communities in methane- and short chain alkane-rich hydrothermal sediments of Guaymas Basin

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Frederick eDowell

2016-01-01

Full Text Available The hydrothermal sediments of Guaymas Basin, an active spreading center in the Gulf of California (Mexico, are rich in porewater methane, short-chain alkanes, sulfate and sulfide, and provide a model system to explore habitat preferences of microorganisms, including sulfate-dependent, methane- and short chain alkane-oxidizing microbial communities. In this study, sediments (above 60˚C covered with sulfur-oxidizing microbial mats surrounding a hydrothermal mound (termed Mat Mound were characterized by porewater geochemistry of methane, C2-C6 short-chain alkanes, sulfate, sulfide, sulfate reduction rate measurements, in-situ temperature gradients, bacterial and archaeal 16S rRNA gene clone libraries and V6 tag pyrosequencing. The most abundantly detected groups in the Mat mound sediments include anaerobic methane-oxidizing archaea of the ANME-1 lineage and its sister clade ANME-1Guaymas, the uncultured bacterial groups SEEP-SRB2 within the Deltaproteobacteria and the separately branching HotSeep-1 Group; these uncultured bacteria are candidates for sulfate-reducing alkane oxidation and for sulfate-reducing syntrophy with ANME archaea. The archaeal dataset indicates distinct habitat preferences for ANME-1, ANME-1-Guaymas and ANME-2 archaea in Guaymas Basin hydrothermal sediments. The bacterial groups SEEP-SRB2 and HotSeep-1 co-occur with ANME-1 and ANME-1Guaymas in hydrothermally active sediments underneath microbial mats in Guaymas Basin. We propose the working hypothesis that this mixed bacterial and archaeal community catalyzes the oxidation of both methane and short-chain alkanes, and constitutes a microbial community signature that is characteristic for hydrothermal and/or cold seep sediments containing both substrates.

Bioremediation of mixed microbial mats: System development of mixed contaminants for application at the Savannah River Site. Annual technical progress report, October 1, 1995--September 30, 1996

International Nuclear Information System (INIS)

Bender, J.; Phillips, P.

1996-01-01

The fundamental objective of this project is to develop and field test the mixed microbial mat bioremediation system for decontamination of target sites at SRS. Although microbial mats have performed well in several pilot projects in the past, atypical problems and site characteristics at SRS demand special field designs. In the interest of designing a pilot and locating it at an appropriate site, the project investigators have worked closely with the technical staff at the SREL. We have concluded that the diverse characteristics of contaminations at SRS may dictate testing several pilot designs during the course of this project

Sulfur-oxidizing bacteria dominate the microbial diversity shift during the pyrite and low-grade pyrolusite bioleaching process.

Science.gov (United States)

Han, Yifan; Ma, Xiaomei; Zhao, Wei; Chang, Yunkang; Zhang, Xiaoxia; Wang, Xingbiao; Wang, Jingjing; Huang, Zhiyong

2013-10-01

The microbial ecology of the pyrite-pyrolusite bioleaching system and its interaction with ore has not been well-described. A 16S rRNA gene clone library was created to evaluate changes in the microbial community at different stages of the pyrite-pyrolusite bioleaching process in a shaken flask. The results revealed that the bacterial community was disturbed after 5 days of the reaction. Phylogenetic analysis of 16S rRNA sequences demonstrated that the predominant microorganisms were members of a genus of sulfur-oxidizing bacteria, Thiomonas sp., that subsequently remained dominant during the bioleaching process. Compared with iron-oxidizing bacteria, sulfur-oxidizing bacteria were more favorable to the pyrite-pyrolusite bioleaching system. Decreased pH due to microbial acid production was an important condition for bioleaching efficiency. Iron-oxidizing bacteria competed for pyrite reduction power with Mn(IV) in pyrolusite under specific conditions. These results extend our knowledge of microbial dynamics during pyrite-pyrolusite bioleaching, which is a key issue to improve commercial applications. Copyright © 2013 The Society for Biotechnology, Japan. Published by Elsevier B.V. All rights reserved.

Effect of sulfur supplements on cellulolytic rumen micro-organisms and microbial protein synthesis in cattle fed a high fibre diet.

Science.gov (United States)

McSweeney, C S; Denman, S E

2007-11-01

To examine the effect of sulfur-containing compounds on the growth of anaerobic rumen fungi and the fibrolytic rumen bacteria Ruminococcus albus, Ruminococcus flavefaciens and Fibrobacter succinogenes in pure culture and within the cattle rumen. The effect of two reduced sulfur compounds, 3-mercaptopropionic acid (MPA) or 3-mercapto-1-propanesulfonic acid as the sole S source on growth of pure fibroyltic fungal and bacterial cultures showed that these compounds were capable of sustaining growth. An in vivo trial was then conducted to determine the effect of sulfur supplements (MPA and sodium sulfate) on microbial population dynamics in cattle fed the roughage Dichanthium aristatum. Real-time PCR showed significant increases in fibrolytic bacterial and fungal populations when cattle were supplemented with these compounds. Sulfate supplementation leads to an increase in dry matter intake without a change in whole tract dry matter digestibility. Supplementation of low S-containing diets with either sodium sulfate or MPA stimulates microbial growth with an increase in rumen microbial protein supply to the animal. Through the use of real-time PCR monitoring, a better understanding of the effect of S supplementation on discrete microbial populations within the rumen is provided.

Disproportionation of elemental sulfur by haloalkaliphilic bacteria from soda lakes.

Science.gov (United States)

Poser, Alexander; Lohmayer, Regina; Vogt, Carsten; Knoeller, Kay; Planer-Friedrich, Britta; Sorokin, Dimitry; Richnow, Hans-H; Finster, Kai

2013-11-01

Microbial disproportionation of elemental sulfur to sulfide and sulfate is a poorly characterized part of the anoxic sulfur cycle. So far, only a few bacterial strains have been described that can couple this reaction to cell growth. Continuous removal of the produced sulfide, for instance by oxidation and/or precipitation with metal ions such as iron, is essential to keep the reaction exergonic. Hitherto, the process has exclusively been reported for neutrophilic anaerobic bacteria. Here, we report for the first time disproportionation of elemental sulfur by three pure cultures of haloalkaliphilic bacteria isolated from soda lakes: the Deltaproteobacteria Desulfurivibrio alkaliphilus and Desulfurivibrio sp. AMeS2, and a member of the Clostridia, Dethiobacter alkaliphilus. All cultures grew in saline media at pH 10 by sulfur disproportionation in the absence of metals as sulfide scavengers. Our data indicate that polysulfides are the dominant sulfur species under highly alkaline conditions and that they might be disproportionated. Furthermore, we report the first organism (Dt. alkaliphilus) from the class Clostridia that is able to grow by sulfur disproportionation.

Geomicrobiological exploration and characterization of novel deep-sea hydrothermal activities accompanying with extremely acidic white smokers and elemental sulfur chimneys at the TOTO caldera in the Mariana Volcanic Arc

Science.gov (United States)

Takai, K.; Nakagawa, T.; Suzuki, Y.; Hirayama, H.; Kosaka, A.; Tsunogai, U.; Gamo, T.; Nealson, K. H.; Horikoshi, K.

2004-12-01

Novel hydrothermal activities accompanying effluent white smokers and elemental sulfur chimney structures at the northeast lava dome of the TOTO caldera depression in the Mariana Volcanic Arc were explored by the manned submersible Shinkai 6500 and characterized by geochemical and microbiological surveys. The white smoker hydrothermal fluids were observed in the potential hydrothermal activity center of the field and represented a maximal temperature of 172 degree C and a lowest pH of 1.59, that was the lowest pH of the hydrothermal fluid ever recorded. The chimney structures consisting all of elemental sulfur (sulfur chimney) were also peculiar to the TOTO caldera hydrothermal field in the world. The geochemical characterization strongly suggested that the TOTO caldera hydrothermal field was a novel system driven by subseafloor mixing between the oxygenated seawater and the superheated volcanic gasses. Microbial community structures in a sulfur chimney structure and its formation hydrothermal fluid with a high concentration of hydrogen sulfide (15 mM) were investigated by culture-dependent and _|independent analyses. Ribosomal rRNA gene clone analysis and fluorescence in situ hybridization (FISH) analysis revealed that epsilon-Proteobacteria, specifically classified into Group G and Group B, dominated the microbial communities in the sulfur chimney structure and formed a dense microbial mat covering the sulfur chimney surface. Archaeal phylotypes were consistently minor components in the communities and related to the genera Thermococcus, Pyrodictium, Aeropyrum, and the uncultivated archaeal group of Deep-sea Hydrothermal Vent Euryarchaeotal Group. Cultivation analysis suggested that the microbial components inhabiting in the sulfur chimney structure might be entrained by hydrothermal fluids from the potential subsurface habitats

Structural and functional analysis of a microbial mat ecosystem from a unique permanent hypersaline inland lake: ‘La Salada de Chiprana’ (NE Spain)

DEFF Research Database (Denmark)

Jonkers, Henk M.; Ludwig, Rebecca; De Wit, Rutger

2003-01-01

The benthic microbial mat community of the only permanent hypersaline natural inland lake of Western Europe, ‘La Salada de Chiprana’, northeastern Spain, was structurally and functionally analyzed. The ionic composition of the lake water is characterized by high concentrations of magnesium...

Fatty Acid and Carbon Isotopic Evidence for type I Methanotrophs in Microbial Mats from a Shallow Marine Gas Seep, Coal Oil Point, CA.

Science.gov (United States)

Ding, H.; Valentine, D.

2005-12-01

To study the microbial community in a Southern California seep field, sediment and bacterial mat samples were collected from natural gas-bearing and gas-free surfaces at two distinct seeps in the Coal Oil Point seep field, offshore Santa Barbara. Fatty acids in these samples were extracted, analyzed and identified. Using gas chromatography (GC), more than 30 different fatty acids were separated. Generally, fatty acid concentrations in natural gas-bearing samples were about 5-fold higher compared to gas-free samples. Using gas chromatography mass sepctrometry (GC-MS), all separated fatty acids were identified in each sample. The major constituents included saturated 14:0, 16:0, 18:0, branched i-15, a-15 and unsaturated 16:1 and 18:1 series fatty acids. GC-IRMS (isotope ratio mass spectrometry) analysis provided the 13C of all major fatty acids and some 16:1 series fatty acids were found to be more depleted than -40% in samples associated with gas seepage. After treatment with dimethyl disufide (DMDS), the 16:1 series fatty acids were resolved into five distinct components, including common composition 16:1(7), bacterial specific i-16:1(7) and typical biomarkers of type I methnotrophs 16:1(8), 16(6) and 16:1(5), suggesting an important role for methnotrophs in seep sediments and microbial mats. These results provide evidence for the activity of type I methanotrophic bacteria in microbial mats and surficial sediments at the Coal Oil Point seep field, and have implications for methane cycling in this and other seep

Diversity of nitrogen-fixing bacteria in cyanobacterial mats

NARCIS (Netherlands)

Severin, I.; Acinas, S.G.; Stal, L.J.

2010-01-01

The structure of the microbial community and the diversity of the functional gene for dinitrogenase reductase and its transcripts were investigated by analyzing >1400 16S rRNA gene and nifH sequences from two microbial mats situated in the intertidal zone of the Dutch barrier island Schiermonnikoog.

Relationship between microbial sulfate reduction rates and sulfur isotopic fractionation

Science.gov (United States)

Matsu'Ura, F.

2009-12-01

Sulfate reduction is one of the common processes to obtain energy for certain types of microorganisms.They use hydrogen gas or organic substrates as electron donor and sulfates as electron acceptor, and reduce sulfates to sulfides. Sulfate reducing microbes extend across domains Archea and Bacteria, and are believed to be one of the earliest forms of terrestrial life (Shen 2004). The origin of 34S-depleted (light) sulfide sulfur, especially δ34S vials, which contain 40ml of liquid culture media slightly modified from DSMZ #63 medium.Excess amount of Fe (II) is added to the DSMZ#63 medium to precipitate sulfide as iron sulfide. The vials were incubated at 25°C, 30°C, and 37°C, respectively. 21 vials were used for one temperature and sulfide and sulfate was collected from each three glass vials at every 12 hours from 72 hours to 144 hours after start of incubation. The sulfide was precipitated as iron sulfide and the sulfate was precipitated as barite. Sulfur isotope compositions of sulfate and sulfide were measured by standard method using Delta Plus mass-spectrometer. [Results and Discussion] The fractionation between sulfide and sulfate ranged from 2.7 to 11.0. The fractionation values varied among the different incubation temperature and growth phase of D. desulfuricans. The maximum fractionation values of three incubation temperatures were 9.9, 11.0, and 9.7, for 25 °C, 30°C, and 37°C, respectively. These results were different from standard model and Canfield et al. (2006). I could not find the clear correlation between ∂34S values and incubation temperatures in this experiment. The measured fractionation values during the incubation varied with incubation stage. The fractionation values clearly increased with incubation time at every temperature, and at 25°C ∂34S value was 3.6 at the 72h and it increased to 7.9 at 144 hours. This indicated the difference of sulfate reduction rate due to the growth phase of SRB. In the early logarithmic growth phase

Contributions of Ectomycorrhizal Fungal Mats to Forest Soil Carbon Cycles

Science.gov (United States)

Kluber, L. A.; Phillips, C. L.; Myrold, D. D.; Bond, B. J.

2008-12-01

Ectomycorrhizal (EM) fungi are a prominent and ubiquitous feature of forest soils, forming symbioses with most tree species, yet little is known about the magnitude of their impact on forest carbon cycles. A subset of EM fungi form dense, perennial aggregations of hyphae, which have elevated respiration rates compared with neighboring non-mat soils. These mats are a foci of EM activity and thereby a natural laboratory for examining how EM fungi impact forest soils. In order to constrain the contributions of EM fungi to forest soil respiration, we quantified the proportion of respiration derived from EM mat soils in an old-growth Douglas-fir stand in western Oregon. One dominant genus of mat-forming fungi, Piloderma, covered 56% of the soil surface area. Piloderma mats were monitored for respiration rates over 15 months and found to have on average 10% higher respiration than non-mat soil. At the stand level, this amounts to roughly 6% of soil respiration due to the presence of Piloderma mats. We calculate that these mats may constitute 27% of autotrophic respiration, based on respiration rates from trenched plots in a neighboring forest stand. Furthermore, enzyme activity and microbial community profiles in mat and non-mat soil provide evidence that specialized communities utilizing chitin contribute to this increased efflux. With 60% higher chitinase activity in mats, the breakdown of chitin is likely an important carbon flux while providing carbon and nitrogen to the microbial communities associated with mats. Quantitative PCR showed similar populations of fungi and bacteria in mat and non-mat soils; however, community analysis revealed distinct fungal and bacterial communities in the two soil types. The higher respiration associated with EM mats does not appear to be due only to a proliferation of EM fungi, but to a shift in overall community composition to organisms that efficiently utilize the unique resources available within the mat, including plant and

Biochemical characterization of a new nicotinamidase from an unclassified bacterium thriving in a geothermal water stream microbial mat community

OpenAIRE

Zapata-P?rez, Rub?n; Mart?nez-Mo?ino, Ana-Bel?n; Garc?a-Saura, Antonio-Gin?s; Cabanes, Juana; Takami, Hideto; S?nchez-Ferrer, ?lvaro

2017-01-01

Nicotinamidases are amidohydrolases that convert nicotinamide into nicotinic acid, contributing to NAD+ homeostasis in most organisms. In order to increase the number of nicotinamidases described to date, this manuscript characterizes a nicotinamidase obtained from a metagenomic library fosmid clone (JFF054_F02) obtained from a geothermal water stream microbial mat community in a Japanese epithermal mine. The enzyme showed an optimum temperature of 90?C, making it the first hyperthermophilic ...

Germ warfare in a microbial mat community: CRISPRs provide insights into the co-evolution of host and viral genomes.

Directory of Open Access Journals (Sweden)

John F Heidelberg

Full Text Available CRISPR arrays and associated cas genes are widespread in bacteria and archaea and confer acquired resistance to viruses. To examine viral immunity in the context of naturally evolving microbial populations we analyzed genomic data from two thermophilic Synechococcus isolates (Syn OS-A and Syn OS-B' as well as a prokaryotic metagenome and viral metagenome derived from microbial mats in hotsprings at Yellowstone National Park. Two distinct CRISPR types, distinguished by the repeat sequence, are found in both the Syn OS-A and Syn OS-B' genomes. The genome of Syn OS-A contains a third CRISPR type with a distinct repeat sequence, which is not found in Syn OS-B', but appears to be shared with other microorganisms that inhabit the mat. The CRISPR repeats identified in the microbial metagenome are highly conserved, while the spacer sequences (hereafter referred to as "viritopes" to emphasize their critical role in viral immunity were mostly unique and had no high identity matches when searched against GenBank. Searching the viritopes against the viral metagenome, however, yielded several matches with high similarity some of which were within a gene identified as a likely viral lysozyme/lysin protein. Analysis of viral metagenome sequences corresponding to this lysozyme/lysin protein revealed several mutations all of which translate into silent or conservative mutations which are unlikely to affect protein function, but may help the virus evade the host CRISPR resistance mechanism. These results demonstrate the varied challenges presented by a natural virus population, and support the notion that the CRISPR/viritope system must be able to adapt quickly to provide host immunity. The ability of metagenomics to track population-level variation in viritope sequences allows for a culture-independent method for evaluating the fast co-evolution of host and viral genomes and its consequence on the structuring of complex microbial communities.

Decoupling the Impacts of Heterotrophy and Autotrophy on Sulfuric Acid Speleogenesis

Science.gov (United States)

Jones, A. A.; Bennett, P.

2013-12-01

Within caves such as Movile Caves (Romania), the Frasassi Caves (Italy), and Lower Kane Cave (LKC, Wyoming, USA) the combination of abiotic autoxidation and microbiological oxidation of H2S produces SO42- and H+ that promotes limestone dissolution through sulfuric-acid speleogenesis (SAS). Microbial sulfide oxidation by sulfur-oxidizing bacteria (SOB) has been shown recently to be the dominant process leading to speleogenesis in these caves. However, due to the inherently large diversity of microbial communities within these environments, there are a variety of metabolic pathways that can impact limestone dissolution and carbon cycling to varying degrees. In order to investigate these variations we outfitted a continuous flow bioreactor with a Picarro Wavelength-Scanned Cavity Ring Down Spectrometer (WS-CRDS) that continuously monitored and logged 12CO2 and 13CO2 at ppmv sensitivity and isotope ratios at consumed resulting in lighter CO2 in the headspace. 16S rRNA sequences confirm that heterotrophic sulfur-reducing bacteria dominate the community within this reactor. When both acetate and CO2 were supplied the heterotrophic behavior appeared to dominate the system which resulted in a significant drop (15‰) in δ13C and a correlative drop in limestone dissolution rate. These results suggest that chemoautotrophy increases the rate of SAS and CO2 flux within the cave environment while heterotrophy leads to slower SAS or even calcite precipitation. Furthermore, changes in carbon substrate (CO2 vs. Acetate) or sulfur substrate concentrations caused an immediate microbial response that could be observed in all measured chemical variables.

Heavy metal immobilization via microbially induced carbonate precipitation and co-precipitation

Science.gov (United States)

Lauchnor, E. G.; Stoick, E.

2017-12-01

Microbially induced CaCO3 precipitation (MICP) has been successfully used in applications such as porous media consolidation and sealing of leakage pathways in the subsurface, and it has the potential to be used for remediation of metal and radionuclide contaminants in surface and groundwater. In this work, MICP is investigated for removal of dissolved heavy metals from contaminated mine discharge water via co-precipitation in CaCO3 or formation of other metal carbonates. The bacterially catalyzed hydrolysis of urea produces inorganic carbon and ammonium and increases pH and the saturation index of carbonate minerals to promote precipitation of CaCO3. Other heavy metal cations can be co-precipitated in CaCO3 as impurities or by replacing Ca2+ in the crystal lattice. We performed laboratory batch experiments of MICP in alkaline mine drainage sampled from an abandoned mine site in Montana and containing a mixture of heavy metals at near neutral pH. Both a model bacterium, Sporosarcina pasteurii, and a ureolytic bacterium isolated from sediments on the mine site were used to promote MICP. Removal of dissolved metals from the aqueous phase was determined via inductively coupled plasma mass spectrometry and resulting precipitates were analyzed via electron microscopy and energy dispersive x-ray spectroscopy (EDX). Both S. pasteurii and the native ureolytic isolate demonstrated ureolysis, increased the pH and promoted precipitation of CaCO3 in batch tests. MICP by the native bacterium reduced concentrations of the heavy metals zinc, copper, cadmium, nickel and manganese in the water. S. pasteurii was also able to promote MICP, but with less removal of dissolved metals. Analysis of precipitates revealed calcium carbonate and phosphate minerals were likely present. The native isolate is undergoing identification via 16S DNA sequencing. Ongoing work will evaluate biofilm formation and MICP by the isolate in continuous flow, gravel-filled laboratory columns. This research

Response of microbial communities to experimental warming and precipitation decrease in Rzecin peatland (Poland)

Science.gov (United States)

Basińska, Anna M.; Gąbka, Maciej; Reczuga, Monika; Łuców, Dominika; Stróżecki, Marcin; Samson, Mateusz; Józefczyk, Damian; Chojnicki, Bogdan; Urbaniak, Marek; Leśny, Jacek; Olejnik, Janusz; Gilbert, Daniel; Silvennoinen, Hanna; Juszczak, Radosław; Lamentowicz, Mariusz

2017-04-01

In the last decade researchers are intensively testing the consequences of different climate change scenarios. Due to high biodiversity, huge amount of stored carbon and their sensitivity to environmental changes, peatlands became important for the temperature increase and drought experiments. Analyses showed that mosses, vascular plants and microbial communities were affected by warming or drought, but still not all effects are clear. Studying the response of microbial groups and indicators (e.g. mixotrophic species of testate amoeba) to warming in combination with decrease of precipitation will allow to better understand the future environmental changes. To recognize the inflow of organic matter and the carbon fixing processes in disturbed environment, we need to analyse the structure and biomass of main groups living in peatlands and the response of those groups to disturbances. The Polish - Norway "WETMAN" project was designed to recognize biotic and abiotic components of ecosystem response to active warming and decrease of precipitation. In this study we present the response of microbial communities and chosen testate amoeba species (TA) to different treatments: warming, warming and decreased precipitation and only decreased precipitation, in relation to control plots. The microbial biomass of upper and lower Sphagnum segments were analysed separately. Particular microbial groups were positively correlated with manipulations e. g. microalgae and rotifers, and other were negatively affected by combination of drought and warming e.g. cyanobacteria and testate amoeba. The structure of community was modified by manipulations, and differed in the case of upper and lower segment of Sphagnum. RDA analyses showed that different factors were crucial for the biomass of microbial groups in upper (conductivity, temperature and phosphorus) and lower (nitrates and sodium) segment. Considering higher taxonomic resolution we found that at the beginning of the experiment TA

Sulfur dioxide concentration measurements in the vicinity of the Albert Funk mining and metallurgical plant complex

Energy Technology Data Exchange (ETDEWEB)

Meyer, M

1976-01-01

This article discusses the ambient air concentration of sulfur dioxide in the area of Freiberg, GDR. The emission of sulfur dioxide results for the most part from brown coal combustion in heat and power plants and in metallurgical plants. Sulfur dioxide emission from neighboring industrial centers such as Dresden and North Bohemian towns affects the Freiburg area to some extent. The use of brown coal in household heating contributes an average of 50 kg of sulfur dioxide emission per coal burning household annually. A total of 1260 measurements at 28 points in the vicinity of Freiberg were made in the year 1972 in evaluating the concentration of sulfur dioxide present in the air. In 75% of the measurements the concentrations were below 0.15 mg/mat3, in 12% between 0.15 and 0.2 mg/mat3, in 7% between 0.2 and 0.3 mg/mat3 and in 6% between 0.3 and 0.5 mg/mat3. The results are described as average industrial pollution. The influence of air temperature, wind velocity, fog, season and time of day are also discussed. (4 refs.) (In German)

Toxicity effects on metal sequestration by microbially-induced carbonate precipitation

Energy Technology Data Exchange (ETDEWEB)

Mugwar, Ahmed J. [Cardiff School of Engineering, Cardiff University, Queen’s Buildings, The Parade, Cardiff CF24 3AA (United Kingdom); College of Engineering, Al-Muthanna University, Samawah (Iraq); Harbottle, Michael J., E-mail: harbottlem@cardiff.ac.uk [Cardiff School of Engineering, Cardiff University, Queen’s Buildings, The Parade, Cardiff CF24 3AA (United Kingdom)

2016-08-15

Highlights: • Minimum inhibitory concentrations (MIC) are determined for S. pasteurii with a range of metals. • Zinc & cadmium bioprecipitation is strongly linked to microbial carbonate generation. • Lead & copper carbonate bioprecipitation is limited & abiotic processes may be significant. • Bioprecipitation allows survival at & remediation of higher metal concentrations than expected. - Abstract: Biological precipitation of metallic contaminants has been explored as a remedial technology for contaminated groundwater systems. However, metal toxicity and availability limit the activity and remedial potential of bacteria. We report the ability of a bacterium, Sporosarcina pasteurii, to remove metals in aerobic aqueous systems through carbonate formation. Its ability to survive and grow in increasingly concentrated aqueous solutions of zinc, cadmium, lead and copper is explored, with and without a metal precipitation mechanism. In the presence of metal ions alone, bacterial growth was inhibited at a range of concentrations depending on the metal. Microbial activity in a urea-amended medium caused carbonate ion generation and pH elevation, providing conditions suitable for calcium carbonate bioprecipitation, and consequent removal of metal ions. Elevation of pH and calcium precipitation are shown to be strongly linked to removal of zinc and cadmium, but only partially linked to removal of lead and copper. The dependence of these effects on interactions between the respective metal and precipitated calcium carbonate are discussed. Finally, it is shown that the bacterium operates at higher metal concentrations in the presence of the urea-amended medium, suggesting that the metal removal mechanism offers a defence against metal toxicity.

Sulfur problems in Swedish agriculture

Energy Technology Data Exchange (ETDEWEB)

Johansson, O

1959-01-01

The present paper deals with some aspects of the sulfur situation in Swedish agriculture with special emphasis on the importance of and relationships among various sources of sulfur supply. An inventory of the sulfur content of Swedish soils and hay crops includes 649 soil samples and a corresponding number of hay samples from 59 locations. In a special investigation the samples were found to be representative of normal Swedish farm land. It is concluded that the amount of sulfur compounds in the air is the primary factor which determines the amount of sulfur added to the soil from the atmosphere. Compared with values obtained in other countries, the amount of sulfur added by the precipitation in Sweden is very low. The distribution in air and precipitation of sulfur from an industrial source was studied in a special investigation. An initial reason for the present study was the damage to vegetation caused by smoke from an industrial source. It was concluded that the average conditions in the vicinity of the industrial source with respect to smoke constituents in the air and precipitation were unfavorable only to the plants directly within a very narrow region. Relationships among the sulfur contents of air, of precipitation, of soils and of plants have been subject to special investigations. In the final general discussion and conclusions it is pointed out that the results from these investigations indicate evident differences in the sulfur status of Swedish soils. The present trend toward the use of more highly concentrated fertilizers poor in sulfur may be expected to cause a considerable change in the sulfur situation in Swedish agriculture. 167 references, 40 figures, 44 tables.

Distribution and Composition of Thiotrophic Mats in the Hypoxic Zone of the Black Sea (150-170 m Water Depth, Crimea Margin).

Science.gov (United States)

Jessen, Gerdhard L; Lichtschlag, Anna; Struck, Ulrich; Boetius, Antje

2016-01-01

At the Black Sea chemocline, oxygen- and sulfide-rich waters meet and form a niche for thiotrophic pelagic bacteria. Here we investigated an area of the Northwestern Black Sea off Crimea close to the shelf break, where the chemocline reaches the seafloor at around 150-170 m water depth, to assess whether thiotrophic bacteria are favored in this zone. Seafloor video transects were carried out with the submersible JAGO covering 20 km(2) on the region between 110 and 200 m depth. Around the chemocline we observed irregular seafloor depressions, covered with whitish mats of large filamentous bacteria. These comprised 25-55% of the seafloor, forming a belt of 3 km width around the chemocline. Cores from the mats obtained with JAGO showed higher accumulations of organic matter under the mats compared to mat-free sediments. The mat-forming bacteria were related to Beggiatoa-like large filamentous sulfur bacteria based on 16S rRNA sequences from the mat, and visual characteristics. The microbial community under the mats was significantly different from the surrounding sediments and enriched with taxa affiliated with polymer degrading, fermenting and sulfate reducing microorganisms. Under the mats, higher organic matter accumulation, as well as higher remineralization and radiotracer-based sulfate reduction rates were measured compared to outside the mat. Mat-covered and mat-free sediments showed similar degradability of the bulk organic matter pool, suggesting that the higher sulfide fluxes and subsequent development of the thiotrophic mats in the patches are consequences of the accumulation of organic matter rather than its qualitative composition. Our observations suggest that the key factors for the distribution of thiotrophic mat-forming communities near to the Crimean shelf break are hypoxic conditions that (i) repress grazers, (ii) enhance the accumulation and degradation of labile organic matter by sulfate-reducers, and (iii) favor thiotrophic filamentous bacteria

Carbonate Precipitation through Microbial Activities in Natural Environment, and Their Potential in Biotechnology: A Review

Science.gov (United States)

Zhu, Tingting; Dittrich, Maria

2016-01-01

Calcium carbonate represents a large portion of carbon reservoir and is used commercially for a variety of applications. Microbial carbonate precipitation, a by-product of microbial activities, plays an important metal coprecipitation and cementation role in natural systems. This natural process occurring in various geological settings can be mimicked and used for a number of biotechnologies, such as metal remediation, carbon sequestration, enhanced oil recovery, and construction restoration. In this study, different metabolic activities leading to calcium carbonate precipitation, their native environment, and potential applications and challenges are reviewed. PMID:26835451

Carbonate precipitation through microbial activities in natural environment, and their potential in biotechnology: a review

Directory of Open Access Journals (Sweden)

Tingting eZhu

2016-01-01

Full Text Available Calcium carbonate represents a large portion of carbon reservoir and is used commercially for a variety of applications. Microbial carbonate precipitation (MCP, a by-product of microbial activities, plays an important metal coprecipitation and cementation role in natural systems. This natural process occurring in various geological settings can be mimicked and used for a number of biotechnology such as metal remediation, carbon sequestration, enhanced oil recovery and construction restoration. In this study, different metabolic activities leading to calcium carbonate precipitation, their native environment, and potential applications and challenges are reviewed.

Sulfurization of Dissolved Organic Matter Increases Hg-Sulfide-Dissolved Organic Matter Bioavailability to a Hg-Methylating Bacterium.

Science.gov (United States)

Graham, Andrew M; Cameron-Burr, Keaton T; Hajic, Hayley A; Lee, Connie; Msekela, Deborah; Gilmour, Cynthia C

2017-08-15

Reactions of dissolved organic matter (DOM) with aqueous sulfide (termed sulfurization) in anoxic environments can substantially increase DOM's reduced sulfur functional group content. Sulfurization may affect DOM-trace metal interactions, including complexation and metal-containing particle precipitation, aggregation, and dissolution. Using a diverse suite of DOM samples, we found that susceptibility to additional sulfur incorporation via reaction with aqueous sulfide increased with increasing DOM aromatic-, carbonyl-, and carboxyl-C content. The role of DOM sulfurization in enhancing Hg bioavailability for microbial methylation was evaluated under conditions typical of Hg methylation environments (μM sulfide concentrations and low Hg-to-DOM molar ratios). Under the conditions of predicted metacinnabar supersaturation, microbial Hg methylation increased with increasing DOM sulfurization, likely reflecting either effective inhibition of metacinnabar growth and aggregation or the formation of Hg(II)-DOM thiol complexes with high bioavailability. Remarkably, Hg methylation efficiencies with the most sulfurized DOM samples were similar (>85% of total Hg methylated) to that observed in the presence of l-cysteine, a ligand facilitating rapid Hg(II) biouptake and methylation. This suggests that complexes of Hg(II) with DOM thiols have similar bioavailability to Hg(II) complexes with low-molecular-weight thiols. Overall, our results are a demonstration of the importance of DOM sulfurization to trace metal and metalloid (especially mercury) fate in the environment. DOM sulfurization likely represents another link between anthropogenic sulfate enrichment and MeHg production in the environment.

Nitrogen, carbon, and sulfur metabolism in natural Thioploca samples

DEFF Research Database (Denmark)

Otte, S.; Kuenen, JG; Nielsen, LP

1999-01-01

Filamentous sulfur bacteria of the genus Thioploca occur as dense mats on the continental shelf off the coast of Chile and Peru. Since little is known about their nitrogen, sulfur, and carbon metabolism, this study was undertaken to investigate their (eco)physiology. Thioploca is able to store...

Cyanobacterial Diversity in Microbial Mats from the Hypersaline Lagoon System of Araruama, Brazil: An In-depth Polyphasic Study

Directory of Open Access Journals (Sweden)

Vitor M. C. Ramos

2017-06-01

Full Text Available Microbial mats are complex, micro-scale ecosystems that can be found in a wide range of environments. In the top layer of photosynthetic mats from hypersaline environments, a large diversity of cyanobacteria typically predominates. With the aim of strengthening the knowledge on the cyanobacterial diversity present in the coastal lagoon system of Araruama (state of Rio de Janeiro, Brazil, we have characterized three mat samples by means of a polyphasic approach. We have used morphological and molecular data obtained by culture-dependent and -independent methods. Moreover, we have compared different classification methodologies and discussed the outcomes, challenges, and pitfalls of these methods. Overall, we show that Araruama's lagoons harbor a high cyanobacterial diversity. Thirty-six unique morphospecies could be differentiated, which increases by more than 15% the number of morphospecies and genera already reported for the entire Araruama system. Morphology-based data were compared with the 16S rRNA gene phylogeny derived from isolate sequences and environmental sequences obtained by PCR-DGGE and pyrosequencing. Most of the 48 phylotypes could be associated with the observed morphospecies at the order level. More than one third of the sequences demonstrated to be closely affiliated (best BLAST hit results of ≥99% with cyanobacteria from ecologically similar habitats. Some sequences had no close relatives in the public databases, including one from an isolate, being placed as “loner” sequences within different orders. This hints at hidden cyanobacterial diversity in the mats of the Araruama system, while reinforcing the relevance of using complementary approaches to study cyanobacterial diversity.

Cyanobacterial Diversity in Microbial Mats from the Hypersaline Lagoon System of Araruama, Brazil: An In-depth Polyphasic Study.

Science.gov (United States)

Ramos, Vitor M C; Castelo-Branco, Raquel; Leão, Pedro N; Martins, Joana; Carvalhal-Gomes, Sinda; Sobrinho da Silva, Frederico; Mendonça Filho, João G; Vasconcelos, Vitor M

2017-01-01

Microbial mats are complex, micro-scale ecosystems that can be found in a wide range of environments. In the top layer of photosynthetic mats from hypersaline environments, a large diversity of cyanobacteria typically predominates. With the aim of strengthening the knowledge on the cyanobacterial diversity present in the coastal lagoon system of Araruama (state of Rio de Janeiro, Brazil), we have characterized three mat samples by means of a polyphasic approach. We have used morphological and molecular data obtained by culture-dependent and -independent methods. Moreover, we have compared different classification methodologies and discussed the outcomes, challenges, and pitfalls of these methods. Overall, we show that Araruama's lagoons harbor a high cyanobacterial diversity. Thirty-six unique morphospecies could be differentiated, which increases by more than 15% the number of morphospecies and genera already reported for the entire Araruama system. Morphology-based data were compared with the 16S rRNA gene phylogeny derived from isolate sequences and environmental sequences obtained by PCR-DGGE and pyrosequencing. Most of the 48 phylotypes could be associated with the observed morphospecies at the order level. More than one third of the sequences demonstrated to be closely affiliated (best BLAST hit results of ≥99%) with cyanobacteria from ecologically similar habitats. Some sequences had no close relatives in the public databases, including one from an isolate, being placed as "loner" sequences within different orders. This hints at hidden cyanobacterial diversity in the mats of the Araruama system, while reinforcing the relevance of using complementary approaches to study cyanobacterial diversity.

Distribution and Composition of Thiotrophic Mats in the Hypoxic Zone of the Black Sea (150–170 m Water Depth, Crimea Margin)

Science.gov (United States)

Jessen, Gerdhard L.; Lichtschlag, Anna; Struck, Ulrich; Boetius, Antje

2016-01-01

At the Black Sea chemocline, oxygen- and sulfide-rich waters meet and form a niche for thiotrophic pelagic bacteria. Here we investigated an area of the Northwestern Black Sea off Crimea close to the shelf break, where the chemocline reaches the seafloor at around 150–170 m water depth, to assess whether thiotrophic bacteria are favored in this zone. Seafloor video transects were carried out with the submersible JAGO covering 20 km2 on the region between 110 and 200 m depth. Around the chemocline we observed irregular seafloor depressions, covered with whitish mats of large filamentous bacteria. These comprised 25–55% of the seafloor, forming a belt of 3 km width around the chemocline. Cores from the mats obtained with JAGO showed higher accumulations of organic matter under the mats compared to mat-free sediments. The mat-forming bacteria were related to Beggiatoa-like large filamentous sulfur bacteria based on 16S rRNA sequences from the mat, and visual characteristics. The microbial community under the mats was significantly different from the surrounding sediments and enriched with taxa affiliated with polymer degrading, fermenting and sulfate reducing microorganisms. Under the mats, higher organic matter accumulation, as well as higher remineralization and radiotracer-based sulfate reduction rates were measured compared to outside the mat. Mat-covered and mat-free sediments showed similar degradability of the bulk organic matter pool, suggesting that the higher sulfide fluxes and subsequent development of the thiotrophic mats in the patches are consequences of the accumulation of organic matter rather than its qualitative composition. Our observations suggest that the key factors for the distribution of thiotrophic mat-forming communities near to the Crimean shelf break are hypoxic conditions that (i) repress grazers, (ii) enhance the accumulation and degradation of labile organic matter by sulfate-reducers, and (iii) favor thiotrophic filamentous bacteria

Complex electrical monitoring of biopolymer and iron mineral precipitation for microbial enhanced hydrocarbon recovery

Science.gov (United States)

Wu, Y.; Hubbard, C. G.; Dong, W.; Hubbard, S. S.

2011-12-01

Microbially enhanced hydrocarbon recovery (MEHR) mechanisms are expected to be impacted by processes and properties that occur over a wide range of scales, ranging from surface interactions and microbial metabolism at the submicron scale to changes in wettability and pore geometry at the pore scale to geological heterogeneities at the petroleum reservoir scale. To eventually ensure successful, production-scale implementation of laboratory-developed MEHR procedures under field conditions, it is necessary to develop approaches that can remotely monitor and accurately predict the complex microbially-facilitated transformations that are expected to occur during MEHR treatments in reservoirs (such as the evolution of redox profiles, oil viscosity or matrix porosity/permeability modifications). Our initial studies are focused on laboratory experiments to assess the geophysical signatures of MEHR-induced biogeochemical transformations, with an ultimate goal of using these approaches to monitor field treatments. Here, we explore the electrical signatures of two MEHR processes that are designed to produce end-products that will plug high permeability zones in reservoirs and thus enhance sweep efficiency. The MEHR experiments to induce biopolymers (in this case dextran) and iron mineral precipitates were conducted using flow-through columns. Leuconostoc mesenteroides, a facultative anaerobe, known to produce dextran from sucrose was used in the biopolymer experiments. Paused injection of sucrose, following inoculation and initial microbial attachment, was carried out on daily basis, allowing enough time for dextran production to occur based on batch experiment observations. Electrical data were collected on daily basis and fluid samples were extracted from the column for characterization. Changes in electrical signal were not observed during initial microbial inoculation. Increase of electrical resistivity and decrease of electrical phase response were observed during the

Coordinated motility of cyanobacteria favor mat formation, photosynthesis and carbon burial in low-oxygen, high-sulfur shallow sinkholes of Lake Huron; whereas deep-water aphotic sinkholes are analogs of deep-sea seep and vent ecosystems

Science.gov (United States)

Biddanda, B. A.; McMillan, A. C.; Long, S. A.; Snider, M. J.; Weinke, A. D.; Dick, G.; Ruberg, S. A.

2016-02-01

Microbial life in submerged sinkhole ecosystems of the Laurentian Great Lakes is relatively understudied in comparison to seeps and vents of the deep-sea. We studied the filamentous benthic mat-forming cyanobacteria consisting primarily of Oscillatoria-like cells growing under low-light, low-oxygen and high-sulfur conditions in Lake Huron's submerged sinkholes using in situ observations, in vitro measurements and time-lapse microscopy. Gliding movement of the cyanobacterial trichomes revealed individual as well as group-coordinated motility. When placed in a petri dish and dispersed in ground water from the sinkhole, filaments re-aggregated into defined colonies within minutes. Measured speed of individual filaments ranged from 50 µm minute-1 or 15 body lengths minute-1 to 215 µm minute-1 or 70 body lengths minute-1 - rates that are rapid relative to non-flagellated/ciliated microbes. Filaments exhibited precise and coordinated positive phototaxis towards pinpoints of light and congregated under the light of foil cutouts. Such light-responsive clusters showed an increase in photosynthetic yield - suggesting phototactic motility aids in light acquisition as well as photosynthesis. Pebbles and pieces of broken shells placed upon the mat in intact sediemnt cores were quickly covered by vertically motile filaments within hours and became fully buried in the anoxic sediments over 3-4 diurnal cycles - likely facilitating the preservation of falling plankton debris. Coordinated horizontal and vertical filament motility optimize mat cohesion and dynamics, photosynthetic efficiency and sedimentary carbon burial in modern-day sinkhole habitats where life operates across sharp redox gradients. Analogous cyanobacterial motility in the shallow seas during Earth's early history, may have played a key role in the oxygenation of the planet by optimizing photosynthesis while favoring carbon burial. We are now eagerly mapping and exploring life in deep-water aphotic sinkholes of

Role of plants in nitrogen and sulfur transformations in floating hydroponic root mats: A comparison of two helophytes.

Science.gov (United States)

Saad, Rania A B; Kuschk, Peter; Wiessner, Arndt; Kappelmeyer, Uwe; Müller, Jochen A; Köser, Heinz

2016-10-01

Knowledge about the roles helophytes play in constructed wetlands (CWs) is limited, especially regarding their provision of organic rhizodeposits. Here, transformations of inorganic nitrogen and sulfur were monitored in a CW variety, floating hydroponic root mat (FHRM), treating synthetic wastewater containing low concentration of organic carbon. Two helophytes, Phragmites australis and Juncus effusus, were compared in duplicates. Striking differences were found between the FHRM of the two helophytes. Whereas ammonium was removed in all FHRMs to below detection level, total nitrogen of 1.15 ± 0.4 g m(-2) d(-1) was removed completely only in P. australis systems. The mats with J. effusus displayed effective nitrification but incomplete denitrification as 77% of the removed ammonium-nitrogen accumulated as nitrate. Furthermore, the P. australis treatment units showed on average 3 times higher sulfate-S removal rates (1.1 ± 0.45 g m(-2) d(-1)) than the systems planted with J. effusus (0.37 ± 0.29 g m(-2) d(-1)). Since the influent organic carbon was below the stoichiometric requirement for the observed N and S transformation processes, helophytes' organic rhizodeposits apparently contributed to these transformations, while P. australis provided about 6 times higher bioavailable organic rhizodeposits than J. effusus. Copyright © 2016 Elsevier Ltd. All rights reserved.

The role microbial sulfate reduction in the direct mediation of sedimentary authigenic carbonate precipitation

Science.gov (United States)

Turchyn, A. V.; Walker, K.; Sun, X.

2016-12-01

The majority of modern deep marine sediments are bathed in water that is undersaturated with respect to calcium carbonate. However, within marine sediments changing chemical conditions, driven largely by the microbial oxidation of organic carbon in the absence of oxygen, lead to supersaturated conditions and drive calcium carbonate precipitation. This sedimentary calcium carbonate is often called `authigenic carbonate', and is found in the form of cements and disseminated crystals within the marine sedimentary pile. As this precipitation of this calcium carbonate is microbially mediated, identifying authigenic carbonate within the geological record and understanding what information its geochemical and/or isotopic signature may hold is key for understanding its importance and what information it may contain past life. However, the modern controls on authigenic carbonate precipitation remain enigmatic because the myriad of microbially mediated reactions occurring within sediments both directly and indirectly impact the proton balance. In this submission we present data from 25 ocean sediment cores spanning the globe where we explore the deviation from the stoichiometrically predicted relationships among alkalinity, calcium and sulfate concentrations. In theory for every mol of organic carbon reduced by sulfate, two mol of alkalinity is produced, and to precipitate subsurface calcium carbonate one mol of calcium is used to consume two mol of alkalinity. We use this data with a model to explore changes in carbonate saturation state with depth below the seafloor. Alkalinity changes in the subsurface are poorly correlated with changes in calcium concentrations, however calcium concentrations are directly and tightly coupled to changes in sulfate concentrations in all studied sites. This suggests a direct role for sulfate reducing bacteria in the precipitation of subsurface carbonate cements.

On the Effects of the Evolution of Microbial Mats and Land Plants on the Earth as a Planet. Photometric and Spectroscopic Light Curves of Paleo-Earths

Science.gov (United States)

Sanromá, E.; Pallé, E.; García Munõz, A.

2013-04-01

Understanding the spectral and photometric variability of the Earth and the rest of the solar system planets has become of utmost importance for the future characterization of rocky exoplanets. As this is not only interesting at present times but also along the planetary evolution, we studied the effect that the evolution of microbial mats and plants over land has had on the way our planet looks from afar. As life evolved, continental surfaces changed gradually and non-uniformly from deserts through microbial mats to land plants, modifying the reflective properties of the ground and most likely the distribution of moisture and cloudiness. Here, we used a radiative transfer model of the Earth, together with geological paleo-records of the continental distribution and a reconstructed cloud distribution, to simulate the visible and near-IR radiation reflected by our planet as a function of Earth's rotation. We found that the evolution from deserts to microbial mats and to land plants produces detectable changes in the globally averaged Earth's reflectance. The variability of each surface type is located in different bands and can induce reflectance changes of up to 40% in period of hours. We conclude that by using photometric observations of an Earth-like planet at different photometric bands it would be possible to discriminate between different surface types. While recent literature proposes the red-edge feature of vegetation near 0.7 μm as a signature for land plants, observations in near-IR bands can be equally or even better suited for this purpose.

ON THE EFFECTS OF THE EVOLUTION OF MICROBIAL MATS AND LAND PLANTS ON THE EARTH AS A PLANET. PHOTOMETRIC AND SPECTROSCOPIC LIGHT CURVES OF PALEO-EARTHS

International Nuclear Information System (INIS)

Sanromá, E.; Pallé, E.; García Munõz, A.

2013-01-01

Understanding the spectral and photometric variability of the Earth and the rest of the solar system planets has become of utmost importance for the future characterization of rocky exoplanets. As this is not only interesting at present times but also along the planetary evolution, we studied the effect that the evolution of microbial mats and plants over land has had on the way our planet looks from afar. As life evolved, continental surfaces changed gradually and non-uniformly from deserts through microbial mats to land plants, modifying the reflective properties of the ground and most likely the distribution of moisture and cloudiness. Here, we used a radiative transfer model of the Earth, together with geological paleo-records of the continental distribution and a reconstructed cloud distribution, to simulate the visible and near-IR radiation reflected by our planet as a function of Earth's rotation. We found that the evolution from deserts to microbial mats and to land plants produces detectable changes in the globally averaged Earth's reflectance. The variability of each surface type is located in different bands and can induce reflectance changes of up to 40% in period of hours. We conclude that by using photometric observations of an Earth-like planet at different photometric bands it would be possible to discriminate between different surface types. While recent literature proposes the red-edge feature of vegetation near 0.7 μm as a signature for land plants, observations in near-IR bands can be equally or even better suited for this purpose.

Early diagenesis in the sediments of the Congo deep-sea fan dominated by massive terrigenous deposits: Part III - Sulfate- and methane- based microbial processes

Science.gov (United States)

Pastor, L.; Toffin, L.; Decker, C.; Olu, K.; Cathalot, C.; Lesongeur, F.; Caprais, J.-C.; Bessette, S.; Brandily, C.; Taillefert, M.; Rabouille, C.

2017-08-01

Geochemical profiles (SO42-, H2S, CH4, δ13CH4) and phylogenetic diversity of Archaea and Bacteria from two oceanographic cruises dedicated to the lobes sediments of the Congo deep-sea fan are presented in this paper. In this area, organic-rich turbidites reach 5000 m and allow the establishment of patchy cold-seep-like habitats including microbial mats, reduced sediments, and vesicomyid bivalves assemblages. These bivalves live in endosymbiosis with sulfur-oxidizing bacteria and use sulfides to perform chemosynthesis. In these habitats, unlike classical abyssal sediments, anoxic processes are dominant. Total oxygen uptake fluxes and methane fluxes measured with benthic chambers are in the same range as those of active cold-seep environments, and oxygen is mainly used for reoxidation of reduced compounds, especially in bacterial mats and reduced sediments. High concentrations of methane and sulfate co-exist in the upper 20 cm of sediments, and evidence indicates that sulfate-reducing microorganisms and methanogens co-occur in the shallow layers of these sediments. Simultaneously, anaerobic oxidation of methane (AOM) with sulfate as the electron acceptor is evidenced by the presence of ANMEs (ANaerobic MEthanotroph). Dissolved sulfide produced through the reduction of sulfate is reoxidized through several pathways depending on the habitat. These pathways include vesicomyid bivalves uptake (adults or juveniles in the bacterial mats habitats), reoxidation by oxygen or iron phases within the reduced sediment, or reoxidation by microbial mats. Sulfide uptake rates by vesicomyids measured in sulfide-rich sea water (90±18 mmol S m-2 d-1) were similar to sulfide production rates obtained by modelling the sulfate profile with different bioirrigation constants, highlighting the major control of vesicomyids on sulfur cycle in their habitats.

Selection of bioindicators to detect lead pollution in Ebro delta microbial mats, using high-resolution microscopic techniques

Energy Technology Data Exchange (ETDEWEB)

Maldonado, J.; Sole, A.; Puyen, Z.M. [Departament de Genetica i Microbiologia, Facultat de Biociencies, Universitat Autonoma de Barcelona, Edifici C, Campus de la UAB, Cerdanyola del Valles, Bellaterra (Spain); Esteve, I., E-mail: isabel.esteve@uab.cat [Departament de Genetica i Microbiologia, Facultat de Biociencies, Universitat Autonoma de Barcelona, Edifici C, Campus de la UAB, Cerdanyola del Valles, Bellaterra (Spain)

2011-07-15

Lead (Pb) is a metal that is non-essential to any metabolic process and, moreover, highly deleterious to life. In microbial mats - benthic stratified ecosystems - located in coastal areas, phototrophic microorganisms (algae and oxygenic phototrophic bacteria) are the primary producers and they are exposed to pollution by metals. In this paper we describe the search for bioindicators among phototrophic populations of Ebro delta microbial mats, using high-resolution microscopic techniques that we have optimized in previous studies. Confocal laser scanning microscopy coupled to a spectrofluorometric detector (CLSM-{lambda}scan) to determine in vivo sensitivity of different cyanobacteria to lead, and scanning electron microscopy (SEM) and transmission electron microscopy (TEM), both coupled to energy dispersive X-ray microanalysis (EDX), to determine the extra- and intracellular sequestration of this metal in cells, were the techniques used for this purpose. Oscillatoria sp. PCC 7515, Chroococcus sp. PCC 9106 and Spirulina sp. PCC 6313 tested in this paper could be considered bioindicators for lead pollution, because all of these microorganisms are indigenous, have high tolerance to high concentrations of lead and are able to accumulate this metal externally in extracellular polymeric substances (EPS) and intracellularly in polyphosphate (PP) inclusions. Experiments made with microcosms demonstrated that Phormidium-like and Lyngbya-like organisms selected themselves at the highest concentrations of lead assayed. In the present study it is shown that all cyanobacteria studied (both in culture and in microcosms) present PP inclusions in their cytoplasm and that these increase in number in lead polluted cultures and microcosms. We believe that the application of these microscopic techniques open up broad prospects for future studies of metal ecotoxicity.

Selection of bioindicators to detect lead pollution in Ebro delta microbial mats, using high-resolution microscopic techniques

International Nuclear Information System (INIS)

Maldonado, J.; Sole, A.; Puyen, Z.M.; Esteve, I.

2011-01-01

Lead (Pb) is a metal that is non-essential to any metabolic process and, moreover, highly deleterious to life. In microbial mats - benthic stratified ecosystems - located in coastal areas, phototrophic microorganisms (algae and oxygenic phototrophic bacteria) are the primary producers and they are exposed to pollution by metals. In this paper we describe the search for bioindicators among phototrophic populations of Ebro delta microbial mats, using high-resolution microscopic techniques that we have optimized in previous studies. Confocal laser scanning microscopy coupled to a spectrofluorometric detector (CLSM-λscan) to determine in vivo sensitivity of different cyanobacteria to lead, and scanning electron microscopy (SEM) and transmission electron microscopy (TEM), both coupled to energy dispersive X-ray microanalysis (EDX), to determine the extra- and intracellular sequestration of this metal in cells, were the techniques used for this purpose. Oscillatoria sp. PCC 7515, Chroococcus sp. PCC 9106 and Spirulina sp. PCC 6313 tested in this paper could be considered bioindicators for lead pollution, because all of these microorganisms are indigenous, have high tolerance to high concentrations of lead and are able to accumulate this metal externally in extracellular polymeric substances (EPS) and intracellularly in polyphosphate (PP) inclusions. Experiments made with microcosms demonstrated that Phormidium-like and Lyngbya-like organisms selected themselves at the highest concentrations of lead assayed. In the present study it is shown that all cyanobacteria studied (both in culture and in microcosms) present PP inclusions in their cytoplasm and that these increase in number in lead polluted cultures and microcosms. We believe that the application of these microscopic techniques open up broad prospects for future studies of metal ecotoxicity.

Selection of bioindicators to detect lead pollution in Ebro delta microbial mats, using high-resolution microscopic techniques.

Science.gov (United States)

Maldonado, J; Solé, A; Puyen, Z M; Esteve, I

2011-07-01

Lead (Pb) is a metal that is non-essential to any metabolic process and, moreover, highly deleterious to life. In microbial mats - benthic stratified ecosystems - located in coastal areas, phototrophic microorganisms (algae and oxygenic phototrophic bacteria) are the primary producers and they are exposed to pollution by metals. In this paper we describe the search for bioindicators among phototrophic populations of Ebro delta microbial mats, using high-resolution microscopic techniques that we have optimized in previous studies. Confocal laser scanning microscopy coupled to a spectrofluorometric detector (CLSM-λscan) to determine in vivo sensitivity of different cyanobacteria to lead, and scanning electron microscopy (SEM) and transmission electron microscopy (TEM), both coupled to energy dispersive X-ray microanalysis (EDX), to determine the extra- and intracellular sequestration of this metal in cells, were the techniques used for this purpose. Oscillatoria sp. PCC 7515, Chroococcus sp. PCC 9106 and Spirulina sp. PCC 6313 tested in this paper could be considered bioindicators for lead pollution, because all of these microorganisms are indigenous, have high tolerance to high concentrations of lead and are able to accumulate this metal externally in extracellular polymeric substances (EPS) and intracellularly in polyphosphate (PP) inclusions. Experiments made with microcosms demonstrated that Phormidium-like and Lyngbya-like organisms selected themselves at the highest concentrations of lead assayed. In the present study it is shown that all cyanobacteria studied (both in culture and in microcosms) present PP inclusions in their cytoplasm and that these increase in number in lead polluted cultures and microcosms. We believe that the application of these microscopic techniques open up broad prospects for future studies of metal ecotoxicity. Copyright © 2011 Elsevier B.V. All rights reserved.

Preventing Precipitation in the ISS Urine Processor

Science.gov (United States)

Muirhead, Dean; Carter, Layne; Williamson, Jill; Chambers, Antja

2017-01-01

The ISS Urine Processor Assembly (UPA) was initially designed to achieve 85% recovery of water from pretreated urine on ISS. Pretreated urine is comprised of crew urine treated with flush water, an oxidant (chromium trioxide), and an inorganic acid (sulfuric acid) to control microbial growth and inhibit precipitation. Unfortunately, initial operation of the UPA on ISS resulted in the precipitation of calcium sulfate at 85% recovery. This occurred because the calcium concentration in the crew urine was elevated in microgravity due to bone loss. The higher calcium concentration precipitated with sulfate from the pretreatment acid, resulting in a failure of the UPA due to the accumulation of solids in the Distillation Assembly. Since this failure, the UPA has been limited to a reduced recovery of water from urine to prevent calcium sulfate from reaching the solubility limit. NASA personnel have worked to identify a solution that would allow the UPA to return to a nominal recovery rate of 85%. This effort has culminated with the development of a pretreatment based on phosphoric acid instead of sulfuric acid. By eliminating the sulfate associated with the pretreatment, the brine can be concentrated to a much higher concentration before calcium sulfate reach the solubility limit. This paper summarizes the development of this pretreatment and the testing performed to verify its implementation on ISS.

Effect of Mg/Ca ratios on microbially induced carbonate precipitation

Science.gov (United States)

Balci, Nurgul; Demirel, Cansu; Seref Sonmez, M.; Kurt, M. Ali

2016-04-01

Influence of Mg/Ca ratios on microbially induced carbonate mineralogy were investigated by series of experiments carried out under various environmental conditions (Mg/Ca ratio, temperature and salinity). Halophilic bacterial cultures used for biomineralization experiments were isolated from hypersaline Lake Acıgöl (Denizli, SW Turkey), displaying extreme water chemistry with an average pH around 8.6 (Balci eta l.,2015). Enriched bacterial culture used in the experiments consisted of Halomonas saccharevitans strain AJ275, Halomonas alimentaria strain L7B; Idiomarina sp. TBZ29, 98% Idiomarina seosensis strain CL-SP19. Biomineralization experiments were set up using above enriched culture with Mg/Ca ratios of 0.05, 1, 4 and 15 and salinity of 8% and 15% experiments at 30oC and 10oC. Additionally, long-term biomineralization experiments were set up to last for a year, for Mg/Ca=4 and Mg/Ca=15 experiments at 30oC. For each experimental condition abiotic experiments were also conducted. Solution chemistry throughout incubation was monitored for Na, K, Mg, Ca, bicarbonate, carbonate, ammonium and phosphate for a month. At the end of the experiments, precipitates were collected and morphology and mineralogy of the biominerals were investigated and results were evaluated using the software DIFFRAC.SUITE EVA. Overall the preliminary results showed chemical precipitation of calcite, halite, hydromagnesite and sylvite. Results obtained from biological experiments indicate that, low Mg/Ca ratios (0.05 and 1) favor chlorapatite precipitation, whereas higher Mg/Ca ratios favor struvite precipitation. Biomineralization of dolomite, huntite and magnesite is favorable at high Mg/Ca ratios (4 and 15), in the presence of halophilic bacteria. Moreover, results indicate that supersaturation with respect to Mg (Mg/Ca=15) combined with NaCl (15%) inhibits biomineralization and forms chemical precipitates. 15% salinity is shown to favor chemical precipitation of mineral phases more than

Microbial Community Structure of an Alluvial Aquifer Treated to Encourage Microbial Induced Calcite Precipitation

Science.gov (United States)

Ohan, J.; Saneiyan, S.; Lee, J.; Ntarlagiannis, D.; Burns, S.; Colwell, F. S.

2017-12-01

An oligotrophic aquifer in the Colorado River floodplain (Rifle, CO) was treated with molasses and urea to encourage microbial induced calcite precipitation (MICP). This would stabilize the soil mass by reducing porosity and strengthening the mineral fabric. Over the course of a 15-day treatment period, microbial biomass was collected from monitoring well groundwater for DNA extraction and sequencing. Bromide, a conservative tracer, was co-injected and subsequently detected in downgradient wells, confirming effective nutrient delivery. Conductivity increased during the injection regime and an overall decrease in pH was observed. Groundwater chemistry showed a marked increase in ammonia, suggesting urea hydrolysis - a process catalyzed by the enzyme urease - the primary enzyme implicated in MICP. Additionally, soluble iron was detected, suggesting a general increase in microbial activity; possibly as iron-reducing bacteria changed insoluble ferric oxide to soluble ferrous hydroxide in the anoxic aquifer. DNA sequencing of the 16S rRNA gene confirmed the presence of iron reducing bacteria, including Shewanella and Desulfuromonadales. Generally, a decrease in microbial community diversity was observed when pre-injection community taxa were compared with post-injection community taxa. Phyla indicative of anoxic aquifers were represented in accordance with previous literature at the Rifle site. Linear discriminant analysis showed significant differences in representative phyla over the course of the injection series. Geophysical monitoring of the site further suggested changes that could be due to MICP. Induced polarization increased the phase shift in the primary treated area, in agreement with laboratory experiments. Cross-hole seismic testing confirmed that the shear wave velocities increased in the treated soil mass, implying the soil matrix became more stable. Future investigations will help elucidate the viability and efficacy of MICP treatment in changing

Raoultella sp. SM1, a novel iron-reducing and uranium-precipitating strain.

Science.gov (United States)

Sklodowska, Aleksandra; Mielnicki, Sebastian; Drewniak, Lukasz

2018-03-01

The main aim of this study was the characterisation of novel Raoutella isolate, an iron-reducing and uranium-precipitating strain, originating from microbial mats occurring in the sediments of a closed down uranium mine in Kowary (SW Poland). Characterisation was done in the context of its potential role in the functioning of these mats and the possibility to use them in uranium removal/recovery processes. In our experiment, we observed the biological precipitation of iron and uranium's secondary minerals containing oxygen, potassium, sodium and phosphor, which were identified as ningyoite-like minerals. The isolated strain, Raoultella sp. SM1, was also able to dissimilatory reduce iron (III) and uranium (VI) in the presence of citrate as an electron donor. Our studies allowed us to characterise a new strain which may be used as a model microorganism in the study of Fe and U respiratory processes and which may be useful in the bioremediation of uranium-contaminated waters and sediments. During this process, uranium may be immobilised in ningyoite-like minerals and can then be recovered in nano/micro-particle form, which may be easily transformed to uraninite. Copyright © 2017 Elsevier Ltd. All rights reserved.

The nitrogen cycle in anaerobic methanotrophic mats of the Black Sea is linked to sulfate reduction and biomass decomposition.

Science.gov (United States)

Siegert, Michael; Taubert, Martin; Seifert, Jana; von Bergen-Tomm, Martin; Basen, Mirko; Bastida, Felipe; Gehre, Matthias; Richnow, Hans-Hermann; Krüger, Martin

2013-11-01

Anaerobic methanotrophic (ANME) mats host methane-oxidizing archaea and sulfate-reducing prokaryotes. Little is known about the nitrogen cycle in these communities. Here, we link the anaerobic oxidation of methane (AOM) to the nitrogen cycle in microbial mats of the Black Sea by using stable isotope probing. We used four different (15)N-labeled sources of nitrogen: dinitrogen, nitrate, nitrite and ammonium. We estimated the nitrogen incorporation rates into the total biomass and the methyl coenzyme M reductase (MCR). Dinitrogen played an insignificant role as nitrogen source. Assimilatory and dissimilatory nitrate reduction occurred. High rates of nitrate reduction to dinitrogen were stimulated by methane and sulfate, suggesting that oxidation of reduced sulfur compounds such as sulfides was necessary for AOM with nitrate as electron acceptor. Nitrate reduction to dinitrogen occurred also in the absence of methane as electron donor but at six times slower rates. Dissimilatory nitrate reduction to ammonium was independent of AOM. Ammonium was used for biomass synthesis under all conditions. The pivotal enzyme in AOM coupled to sulfate reduction, MCR, was synthesized from nitrate and ammonium. Results show that AOM coupled to sulfate reduction along with biomass decomposition drive the nitrogen cycle in the ANME mats of the Black Sea and that MCR enzymes are involved in this process. © 2013 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.

Molecular fossils of prokaryotes in ancient authigenic minerals: archives of microbial activity in reefs and mounds?

Science.gov (United States)

Heindel, Katrin; Birgel, Daniel; Richoz, Sylvain; Westphal, Hildegard; Peckmann, Jörn

2016-04-01

Molecular fossils (lipid biomarkers) are commonly used as proxies in organic-rich sediments of various sources, including eukaryotes and prokaryotes. Usually, molecular fossils of organisms transferred from the water column to the sediment are studied to monitor environmental changes (e.g., temperature, pH). Apart from these 'allochthonous' molecular fossils, prokaryotes are active in sediments and mats on the seafloor and leave behind 'autochthonous' molecular fossils in situ. In contrast to many phototrophic organisms, most benthic sedimentary prokaryotes are obtaining their energy from oxidation or reduction of organic or inorganic substrates. A peculiarity of some of the sediment-thriving prokaryotes is their ability to trigger in situ mineral precipitation, often but not only due to metabolic activity, resulting in authigenic rocks (microbialites). During that process, prokaryotes are rapidly entombed in the mineral matrix, where the molecular fossils are protected from early (bio)degradation. In contrast to other organic compounds (DNA, proteins etc.), molecular fossils can be preserved over very long time periods (millions of years). Thus, molecular fossils in authigenic mineral phases are perfectly suitable to trace microbial activity back in time. Among the best examples of molecular fossils, which are preserved in authigenic rocks are various microbialites, forming e.g. in phototrophic microbial mats and at cold seeps. Microbialite formation is reported throughout earth history. We here will focus on reefal microbialites form the Early Triassic and the Holocene. After the End-Permian mass extinction, microbialites covered wide areas on the ocean margins. In microbialites from the Griesbachian in Iran and Turkey (both Neotethys), molecular fossils of cyanobacteria, archaea, anoxygenic phototrophs, and sulphate-reducing bacteria indicate the presence of layered microbial mats on the seafloor, in which carbonate precipitation was induced. In association with

Microbial network of the carbonate precipitation process induced by microbial consortia and the potential application to crack healing in concrete.

Science.gov (United States)

Zhang, Jiaguang; Zhou, Aijuan; Liu, Yuanzhen; Zhao, Bowei; Luan, Yunbo; Wang, Sufang; Yue, Xiuping; Li, Zhu

2017-11-06

Current studies have employed various pure-cultures for improving concrete durability based on microbially induced carbonate precipitation (MICP). However, there have been very few reports concerned with microbial consortia, which could perform more complex tasks and be more robust in their resistance to environmental fluctuations. In this study, we constructed three microbial consortia that are capable of MICP under aerobic (AE), anaerobic (AN) and facultative anaerobic (FA) conditions. The results showed that AE consortia showed more positive effects on inorganic carbon conversion than AN and FA consortia. Pyrosequencing analysis showed that clear distinctions appeared in the community structure between different microbial consortia systems. Further investigation on microbial community networks revealed that the species in the three microbial consortia built thorough energetic and metabolic interaction networks regarding MICP, nitrate-reduction, bacterial endospores and fermentation communities. Crack-healing experiments showed that the selected cracks of the three consortia-based concrete specimens were almost completely healed in 28 days, which was consistent with the studies using pure cultures. Although the economic advantage might not be clear yet, this study highlights the potential implementation of microbial consortia on crack healing in concrete.

Interactive effects of vertical mixing, solar radiation and microbial activity on oceanic dimethylated sulfur cycling

OpenAIRE

Galí Tàpias, Martí

2012-01-01

The production and subsequent emission of volatile compounds is one of the numerous ways by which microbial plankton participate in the cycling of elements and influence the Earth's climate. Dimethylsulfide (DMS), produced by enzymatic decomposition of the algal intracellular compound dimethylsulfoniopropionate (DMSP), is the more abundant organic volatile in the upper ocean. Its global emission amounts ca. 28 Tg S per year, and represents the main biogenic source of sulfur to the troposphere...

Microbial Activity and Precipitation at Solution-Solution Mixing Zones in Porous Media -- Subsurface Biogeochemical Research

Energy Technology Data Exchange (ETDEWEB)

Colwell, Frederick [Oregon State Univ., Corvallis, OR (United States); Wildenschild, Dorthe [Oregon State Univ., Corvallis, OR (United States); Wood, Brian [Oregon State Univ., Corvallis, OR (United States); Gerlach, Robin [Montana State Univ., Bozeman, MT (United States); Mitchell, Andrew [Montana State Univ., Bozeman, MT (United States); Redden, George [Idaho National Lab. (INL), Idaho Falls, ID (United States)

2014-08-29

The goal for this research was to understand how best to add compounds to receptive microbial communities in porous media in order to achieve optimal calcite precipitation in a volumetrically significant space and to understand the physiological health of the cells that are responsible for the calcite precipitation. The specific objectives were to: (1) develop better tools for visually examining biofilms in porous media and calcium carbonate precipitation being mediated by microbes in porous media, and (2) demonstrate the effectiveness of using that tool within a flow cell model system.

Regulation of nif gene expression and the energetics of N2 fixation over the diel cycle in a hot spring microbial mat.

Science.gov (United States)

Steunou, Anne-Soisig; Jensen, Sheila I; Brecht, Eric; Becraft, Eric D; Bateson, Mary M; Kilian, Oliver; Bhaya, Devaki; Ward, David M; Peters, John W; Grossman, Arthur R; Kühl, Michael

2008-04-01

Nitrogen fixation, a prokaryotic, O2-inhibited process that reduces N2 gas to biomass, is of paramount importance in biogeochemical cycling of nitrogen. We analyzed the levels of nif transcripts of Synechococcus ecotypes, NifH subunit and nitrogenase activity over the diel cycle in the microbial mat of an alkaline hot spring in Yellowstone National Park. The results showed a rise in nif transcripts in the evening, with a subsequent decline over the course of the night. In contrast, immunological data demonstrated that the level of the NifH polypeptide remained stable during the night, and only declined when the mat became oxic in the morning. Nitrogenase activity was low throughout the night; however, it exhibited two peaks, a small one in the evening and a large one in the early morning, when light began to stimulate cyanobacterial photosynthetic activity, but O2 consumption by respiration still exceeded the rate of O2 evolution. Once the irradiance increased to the point at which the mat became oxic, the nitrogenase activity was strongly inhibited. Transcripts for proteins associated with energy-producing metabolisms in the cell also followed diel patterns, with fermentation-related transcripts accumulating at night, photosynthesis- and respiration-related transcripts accumulating during the day and late afternoon, respectively. These results are discussed with respect to the energetics and regulation of N2 fixation in hot spring mats and factors that can markedly influence the extent of N2 fixation over the diel cycle.

Photosynthetic and Behavioral Versatility of the Cyanobacterium Oscillatoria-Boryana in a Sulfide-Rich Microbial Mat

DEFF Research Database (Denmark)

CASTENHOLZ, RW; JØRGENSEN, BB; DAMELIO, E.

1991-01-01

and predominant population which was spread over the mat surface during darkness and on overcast days ( 300 W m-2), O. boryana disappeared almost entirely from the mat surface to a position of about 1 mm below the surface pellicle of the mat. O2, sulfide, and pH microelectrodes inserted into excised mat cores...... photosynthesis of O. boryana occurred. This capability was confirmed for O. boryana by [C-14]-photoincorporation and sulfide-microelectrode experiments. Forced exposure to high irradiance levels (500-700 W m-2) was inhibitory to oxygenic photosynthesis in O. boryana, but these intensities impinging on mats...

A generic transport-reactive model for simulating microbially influenced mineral precipitation in porous medium

NARCIS (Netherlands)

Zhou, J.; Van Turnhout, A.G.; Heimovaara, T.J.; Afanasyev, M.

2015-01-01

The spatial and temporal distribution of precipitated minerals is one of the key factors governing various processes in the sub-surface environment, including microbially influenced corrosion (MIC) (Huang, 2002), bio-cementation (van Paassen et al., 2010) and sediment diagenesis (Paraska et al.,

Dynamics of Molecular Hydrogen in Hypersaline Microbial Mars

Science.gov (United States)

Hoehler, Tori M.; Bebout, Brad M.; Visscher, Pieter T.; DesMarais, David J.; DeVincenzi, Donald L. (Technical Monitor)

2000-01-01

Early Earth microbial communities that centered around the anaerobic decomposition of organic molecular hydrogen as a carrier of electrons, regulator of energy metabolism, and facilitator of syntroph'c microbial interactions. The advent of oxygenic photosynthetic organisms added a highly dynamic and potentially dominant term to the hydrogen economy of these communities. We have examined the daily variations of hydrogen concentrations in cyanobacteria-dominated microbial mats from hypersaline ponds in Baja California Sur, Mexico. These mats bring together phototrophic and anaerobic bacteria (along with virtually all other trophic groups) in a spatially ordered and chemically dynamic matrix that provides a good analog for early Earth microbial ecosystems. Hydrogen concentrations in the photic zone of the mat can be three orders of magnitude or more higher than in the photic zone, which are, in turn, an order of magnitude higher than in the unconsolidated sediments underlying the mat community. Within the photic zone, hydrogen concentrations can fluctuate dramatically during the diel (24 hour day-night) cycle, ranging from less than 0.001% during the day to nearly 10% at night. The resultant nighttime flux of hydrogen from the mat to the environment was up to 17% of the daytime oxygen flux. The daily pattern observed is highly dependent on cyanobacterial species composition within the mat, with Lyngbya-dominated systems having a much greater dynamic range than those dominated by Microcoleus; this may relate largely to differing degrees of nitrogen-fixing and fermentative activity in the two mats. The greatest H2 concentrations and fluxes were observed in the absence of oxygen, suggesting an important potential feedback control in the context of the evolution of atmospheric composition. The impact of adding this highly dynamic photosynthetic term to the hydrogen economy of early microbial ecosystems must have been substantial. From an evolutionary standpoint, the H2

Interactions between phototrophic bacteria in marine sediments

NARCIS (Netherlands)

de Wit, Rutger

1989-01-01

Phototrophic bacteria are the most consicious organisms occuring in laminated microbial sediment ecosystems (microbial mats). In the Waddensea area ecosystems consisting of a toplayer of the cyanobacterium Microleus chthonoplastes overlying a red layer of the purple sulfur bacterium Thiocapsa

Transport-Induced Spatial Patterns of Sulfur Isotopes (δ34S) as Biosignatures

Science.gov (United States)

Mansor, Muammar; Harouaka, Khadouja; Gonzales, Matthew S.; Macalady, Jennifer L.; Fantle, Matthew S.

2018-01-01

Cave minerals deposited in the presence of microbes may host geochemical biosignatures that can be utilized to detect subsurface life on Earth, Mars, or other habitable worlds. The sulfur isotopic composition of gypsum (CaSO4·2H2O) formed in the presence of sulfur-oxidizing microbes in the Frasassi cave system, Italy, was evaluated as a biosignature. Sulfur isotopic compositions (δ34SV-CDT) of gypsum sampled from cave rooms with sulfidic air varied from -11 to -24‰, with minor deposits of elemental sulfur having δ34S values between -17 and -19‰. Over centimeter-length scales, the δ34S values of gypsum varied by up to 8.5‰. Complementary laboratory experiments showed negligible fractionation during the oxidation of elemental sulfur to sulfate by Acidithiobacillus thiooxidans isolated from the caves. Additionally, gypsum precipitated in the presence and absence of microbes at acidic pH characteristic of the sulfidic cave walls has δ34S values that are on average 1‰ higher than sulfate. We therefore interpret the 8.5‰ variation in cave gypsum δ34S (toward more negative values) to reflect the isotopic effect of microbial sulfide oxidation directly to sulfate or via elemental sulfur intermediate. This range is similar to that expected by abiotic sulfide oxidation with oxygen, thus complicating the use of sulfur isotopes as a biosignature at centimeter-length scales. However, at the cave room (meter-length) scale, reactive transport modeling suggests that the overall ˜13‰ variability in gypsum δ34S reflects isotopic distillation of circulating H2S gas due to microbial sulfide oxidation occurring along the cave wall-atmosphere interface. Systematic variations of gypsum δ34S along gas flow paths can thus be interpreted as biogenic given that slow, abiotic oxidation cannot produce the same spatial patterns over similar length scales. The expression and preservation potential of this biosignature is dependent on gas flow parameters and diagenetic

Cyanobacterial life at low O(2): community genomics and function reveal metabolic versatility and extremely low diversity in a Great Lakes sinkhole mat.

Science.gov (United States)

Voorhies, A A; Biddanda, B A; Kendall, S T; Jain, S; Marcus, D N; Nold, S C; Sheldon, N D; Dick, G J

2012-05-01

Cyanobacteria are renowned as the mediators of Earth's oxygenation. However, little is known about the cyanobacterial communities that flourished under the low-O(2) conditions that characterized most of their evolutionary history. Microbial mats in the submerged Middle Island Sinkhole of Lake Huron provide opportunities to investigate cyanobacteria under such persistent low-O(2) conditions. Here, venting groundwater rich in sulfate and low in O(2) supports a unique benthic ecosystem of purple-colored cyanobacterial mats. Beneath the mat is a layer of carbonate that is enriched in calcite and to a lesser extent dolomite. In situ benthic metabolism chambers revealed that the mats are net sinks for O(2), suggesting primary production mechanisms other than oxygenic photosynthesis. Indeed, (14)C-bicarbonate uptake studies of autotrophic production show variable contributions from oxygenic and anoxygenic photosynthesis and chemosynthesis, presumably because of supply of sulfide. These results suggest the presence of either facultatively anoxygenic cyanobacteria or a mix of oxygenic/anoxygenic types of cyanobacteria. Shotgun metagenomic sequencing revealed a remarkably low-diversity mat community dominated by just one genotype most closely related to the cyanobacterium Phormidium autumnale, for which an essentially complete genome was reconstructed. Also recovered were partial genomes from a second genotype of Phormidium and several Oscillatoria. Despite the taxonomic simplicity, diverse cyanobacterial genes putatively involved in sulfur oxidation were identified, suggesting a diversity of sulfide physiologies. The dominant Phormidium genome reflects versatile metabolism and physiology that is specialized for a communal lifestyle under fluctuating redox conditions and light availability. Overall, this study provides genomic and physiologic insights into low-O(2) cyanobacterial mat ecosystems that played crucial geobiological roles over long stretches of Earth history. �

Microbial life in geothermal waters

Energy Technology Data Exchange (ETDEWEB)

Sand, W. [Universitaet Hamburg (Germany). Mikrobiologie

2003-12-01

Geothermal waters usually contain many salts, often in varying concentrations. Some of these salts, especially if they are oxidizable or reducible, may be subject to microbial conversion and/or (bio)precipitation. Microorganisms can oxidize, sometimes even under anoxic (absence of oxygen) conditions, reduced sulfur compounds, iron (II) ions, and manganese (II) ions, to mention just a few of the most important. On the other hand, partially or fully oxidized compounds can be reduced by microorganisms, for example sulfur compounds, iron (III) ions, manganese (IV) ions, nitrogen oxides such as nitrite and nitrate, and, finally, bicarbonate and carbonate ions. If organic compounds are present, these may also be oxidized or reduced. A multitude of these microorganisms are able to perform such a metabolism under aerobic or anoxic conditions. All these (bio)processes allow bacteria to grow and proliferate. The consequences include biocorrosion and biodeterioration. The growth requirements and the biodeterioration mechanisms will be discussed in this review. (author)

Microbial transformations of nitrogen, sulfur and iron dictate vegetation composition in wetlands: a review

Directory of Open Access Journals (Sweden)

Leon P.M. Lamers

2012-04-01

Full Text Available The majority of studies on rhizospheric interactions between microbial communities and vegetation focus on pathogens, mycorrhizal symbiosis, and/or carbon transformations. Although the biogeochemical transformations of nitrogen (N, sulfur (S and iron (Fe have profound effects on plants, these effects have received far less attention. Firstly, all three elements are plant nutrients, and microbial activity significantly changes their mobility and availability. Secondly, microbial oxidation with oxygen supplied by radial oxygen loss (ROL from roots in wetlands causes acidification, while reduction using alternative electron acceptors leads to generation of alkalinity, affecting pH in the rhizosphere and hence plant composition. Thirdly, reduced species of all three elements may become phytotoxic. In addition, Fe cycling is tightly linked to that of S and phosphorus (P. As water level fluctuations are very common in wetlands, rapid changes in the availability of oxygen and alternative terminal electron acceptors will result in strong changes in the prevalent microbial redox reactions, with significant effects on plant growth. Depending on geological and hydrological settings, these interacting microbial transformations change the conditions and resource availability for plants, which are strong drivers of vegetation development and composition by changing relative competitive strengths. Conversely, microbial composition is strongly driven by vegetation composition. Therefore, the combination of micro- and macroecological knowledge is essential to understand the biogeochemical and biological key factors driving heterogeneity and total (i.e., micro-macro community composition at different spatial and temporal scales. As N and S inputs have drastically increased due to anthropogenic forcing and Fe inputs have decreased at a global scale, this combined approach has become even more urgent.

Metagenomic analysis reveals that modern microbialites and polar microbial mats have similar taxonomic and functional potential

Directory of Open Access Journals (Sweden)

Richard Allen White III

2015-09-01

Full Text Available Within the subarctic climate of Clinton Creek, Yukon, Canada, lies an abandoned and flooded open-pit asbestos mine that harbors rapidly growing microbialites. To understand their formation we completed a metagenomic community profile of the microbialites and their surrounding sediments. Assembled metagenomic data revealed that bacteria within the phylum Proteobacteria numerically dominated this system, although the relative abundances of taxa within the phylum varied among environments. Bacteria belonging to Alphaproteobacteria and Gammaproteobacteria were dominant in the microbialites and sediments, respectively. The microbialites were also home to many other groups associated with microbialite formation including filamentous cyanobacteria and dissimilatory sulfate-reducing Deltaproteobacteria, consistent with the idea of a shared global microbialite microbiome. Other members were present that are typically not associated with microbialites including Gemmatimonadetes and iron-oxidizing Betaproteobacteria, which participate in carbon metabolism and iron cycling. Compared to the sediments, the microbialite microbiome has significantly more genes associated with photosynthetic processes (e.g., photosystem II reaction centers, carotenoid and chlorophyll biosynthesis and carbon fixation (e.g., CO dehydrogenase. The Clinton Creek microbialite communities had strikingly similar functional potentials to non-lithifying microbial mats from the Canadian High Arctic and Antarctica, but are functionally distinct, from non-lithifying mats or biofilms from Yellowstone. Clinton Creek microbialites also share metabolic genes (R2 0.900. These metagenomic profiles from an anthropogenic microbialite-forming ecosystem provide context to microbialite formation on a human-relevant timescale.

Effects of Calcium Source on Biochemical Properties of Microbial CaCO3 Precipitation.

Science.gov (United States)

Xu, Jing; Du, Yali; Jiang, Zhengwu; She, Anming

2015-01-01

The biochemical properties of CaCO3 precipitation induced by Sporosarcina pasteurii, an ureolytic type microorganism, were investigated. Effects of calcium source on the precipitation process were examined, since calcium source plays a key role in microbiologically induced mineralization. Regardless of the calcium source type, three distinct stages in the precipitation process were identified by Ca(2+), NH4 (+), pH and cell density monitoring. Compared with stage 1 and 3, stage 2 was considered as the most critical part since biotic CaCO3 precipitation occurs during this stage. Kinetics studies showed that the microbial CaCO3 precipitation rate for calcium lactate was over twice of that for calcium nitrate, indicating that calcium lactate is more beneficial for the cell activity, which in turn determines urease production and CaCO3 precipitation. X-ray diffraction analysis confirmed the CaCO3 crystal as calcite, although scanning electron microscopy revealed a difference in crystal size and morphology if calcium source was different. The findings of this paper further suggest a promising application of microbiologically induced CaCO3 precipitation in remediation of surface and cracks of porous media, e.g., cement-based composites, particularly by using organic source of calcium lactate.

Modern Microbial Ecosystems are a Key to Understanding Our Biosphere's Early Evolution and its Contributions To The Atmosphere and Rock Record

Science.gov (United States)

DesMarais, David J.; DeVincenzi, Donald L. (Technical Monitor)

2000-01-01

The survival of our early biosphere depended upon efficient coordination anion- diverse microbial populations. Microbial mats exhibit a 3.46-billion-year fossil record, thus they are the oldest known ecosystems. Photosynthetic microbial mats were key because, today, sunlight powers more than 99 percent of global primary productivity. Thus photosynthetic ecosystems have affected the atmosphere profoundly and have created the most pervasive, easily-detected fossils. Photosynthetic biospheres elsewhere will be most detectible via telescopes or spacecraft. As a part of the Astrobiology Institute, our Ames Microbial Ecosystems group examines the roles played by ecological processes in the early evolution of our biosphere, as recorded in geologic fossils and in the macromolecules of living cells: (1) We are defining the microbial mat microenvironment, which was an important milieu for early evolution. (2) We are comparing mats in contrasting environments to discern strategies of adaptation and diversification, traits that were key for long-term survival. (3) We have selected sites that mimic key environmental attributes of early Earth and thereby focus upon evolutionary adaptations to long-term changes in the global environment. (4) Our studies of gas exchange contribute to better estimates of biogenic gases in Earth's early atmosphere. This group therefore directly addresses the question: How have the Earth and its biosphere influenced each other over time Our studies strengthen the systematics for interpreting the microbial fossil record and thereby enhance astrobiological studies of martian samples. Our models of biogenic gas emissions will enhance models of atmospheres that might be detected on inhabited extrasolar planets. This work therefore also addresses the question: How can other biospheres be recogniZed" Our choice of field sites helps us explore Earth's evolving early environment. For example, modern mats that occupy thermal springs and certain freshwater

Historical precipitation predictably alters the shape and magnitude of microbial functional response to soil moisture.

Science.gov (United States)

Averill, Colin; Waring, Bonnie G; Hawkes, Christine V

2016-05-01

Soil moisture constrains the activity of decomposer soil microorganisms, and in turn the rate at which soil carbon returns to the atmosphere. While increases in soil moisture are generally associated with increased microbial activity, historical climate may constrain current microbial responses to moisture. However, it is not known if variation in the shape and magnitude of microbial functional responses to soil moisture can be predicted from historical climate at regional scales. To address this problem, we measured soil enzyme activity at 12 sites across a broad climate gradient spanning 442-887 mm mean annual precipitation. Measurements were made eight times over 21 months to maximize sampling during different moisture conditions. We then fit saturating functions of enzyme activity to soil moisture and extracted half saturation and maximum activity parameter values from model fits. We found that 50% of the variation in maximum activity parameters across sites could be predicted by 30-year mean annual precipitation, an indicator of historical climate, and that the effect is independent of variation in temperature, soil texture, or soil carbon concentration. Based on this finding, we suggest that variation in the shape and magnitude of soil microbial response to soil moisture due to historical climate may be remarkably predictable at regional scales, and this approach may extend to other systems. If historical contingencies on microbial activities prove to be persistent in the face of environmental change, this approach also provides a framework for incorporating historical climate effects into biogeochemical models simulating future global change scenarios. © 2016 John Wiley & Sons Ltd.

Increased precipitation accelerates soil organic matter turnover associated with microbial community composition in topsoil of alpine grassland on the eastern Tibetan Plateau.

Science.gov (United States)

Han, Conghai; Wang, Zongli; Si, Guicai; Lei, Tianzhu; Yuan, Yanli; Zhang, Gengxin

2017-10-01

Large quantities of carbon are stored in alpine grassland of the Tibetan Plateau, which is extremely sensitive to climate change. However, it remains unclear whether soil organic matter (SOM) in different layers responds to climate change analogously, and whether microbial communities play vital roles in SOM turnover of topsoil. In this study we measured and collected SOM turnover by the 14 C method in alpine grassland to test climatic effects on SOM turnover in soil profiles. Edaphic properties and microbial communities in the northwestern Qinghai Lake were investigated to explore microbial influence on SOM turnover. SOM turnover in surface soil (0-10 cm) was more sensitive to precipitation than that in subsurface layers (10-40 cm). Precipitation also imposed stronger effects on the composition of microbial communities in the surface layer than that in deeper soil. At the 5-10 cm depth, the SOM turnover rate was positively associated with the bacteria/fungi biomass ratio and the relative abundance of Acidobacteria, both of which are related to precipitation. Partial correlation analysis suggested that increased precipitation could accelerate the SOM turnover rate in topsoil by structuring soil microbial communities. Conversely, carbon stored in deep soil would be barely affected by climate change. Our results provide valuable insights into the dynamics and storage of SOM in alpine grasslands under future climate scenarios.

Community structure of filamentous, sheath-building sulfur bacteria, Thioploca spp, off the coast of Chile

DEFF Research Database (Denmark)

Schulz, HN; Jørgensen, BB; Fossing, HA

1996-01-01

The filamentous sulfur bacteria Thioploca spp, produce dense bacterial mats in the shelf area off the coast of Chile and Peru. The mat consists of common sheaths, shared by many filaments, that reach 5 to 10 cm dean into the sediment, The structure of the Thioploca communities off the Bay...

Utilization of hydrocarbons by cyanobacteria from microbial mats on oily coasts of the Gulf

International Nuclear Information System (INIS)

Al Hasan, R.H.; Sorkhoh, N.A.; Al Bader, D.; Radwan, S.S.

1994-01-01

Several pieces of evidence indicate that Microcoleus chthonoplastes and Phormidium corium, the predominant cyanobacteria in microbial mats on crude oil polluting the Arabian Gulf coasts, contribute to oil degradation by consuming individual n-alkanes. Both cyanobacteria grew phototrophically better in the presence of crude oil or individual n-alkanes than in their absence, indicating that hydrocarbons may have been utilized. This result was true when growth was measured in terms of dry biomass, as well as in terms of the content of biliprotein, the accessory pigment characteristic of cyanobacteria. The phototrophic biomass production by P. corium was directly proportional to the concentration of n-nonadecane (C 19 ) in the medium. The chlorophyll to carotene ratio of hydrocarbon-grown cyanobacteria did not decrease compared to the ratio in the absence of hydrocarbons, indicating that on hydrocarbons the organisms were not stressed. Comparing the fatty acid patterns of total lipids from hydrocarbon-grown cyanobacteria to those of the same organisms grown without hydrocarbons confirms that n-alkanes were taken up and oxidized to fatty acids by both cyanobacteria. (orig.)

Characterizing microbial communities and processes in a modern stromatolite (Shark Bay) using lipid biomarkers and two-dimensional distributions of porewater solutes

DEFF Research Database (Denmark)

Pagès, Anais; Grice, Kliti; Vacher, Michael

2014-01-01

Summary: Modern microbial mats are highly complex and dynamic ecosystems. Diffusive equilibration in thin films (DET) and diffusive gradients in thin films (DGT) samplers were deployed in a modern smooth microbial mat from Shark Bay in order to observe, for the first time, two-dimensional distrib......Summary: Modern microbial mats are highly complex and dynamic ecosystems. Diffusive equilibration in thin films (DET) and diffusive gradients in thin films (DGT) samplers were deployed in a modern smooth microbial mat from Shark Bay in order to observe, for the first time, two...

Can the biogenicity of Europa's surfical sulfur be tested simultaneously with penetrators and ion traps?

Science.gov (United States)

Chela-Flores, J.; Bhattacherjee, A. B.; Dudeja, S.; Kumar, N.; Seckbach, J.

2009-04-01

We suggest a biogenic interpretation of the sulfur patches on the Europan icy surface. This hypothesis is testable by LAPLACE, or a later mission, in which the instrumentation on board are penetrators, or ion traps, with component selection including miniaturized mass spectrometry. The argument in favor of such instrumentation and component selection is as follows: Extreme environments with microbes can act as models for extraterrestrial life (Seckbach et al., 2008). Suggestions have ranged from Venusian environments (Sagan, 1967, Seckbach and Libby, 1970) to Mars (Grilli Caiola and Billi, 2007). Active photosynthetic microbial communities are found on Antarctica, both in and on ice, in fresh water, in saline lakes and streams and within rocks. In the dry valley lakes of Antarctica close to the McMurdo Base, microbial mats are known to selectively remove a huge quantity of sulfur (Parker et al., 1982). Lake Vostok in Antarctica possesses a perennially thick (3 to 4 km) ice-cover that precludes photosynthesis, thus making this subglacial environment a good model system for determining how a potential Europan biota might emerge, evolve and distribute itself. Jupiter's moon Europa may harbor a subsurface water ocean, which lies beneath an ice layer that might be too thick to allow photosynthesis, just as in Lake Vostok. However, disequilibrium chemistry driven by charged particles from Jupiter's magnetosphere could produce sufficient organic and oxidant molecules for an Europan biosphere (Chyba, 2000). We restrict our attention to microbial mats that could still be thriving in spite of the extreme conditions of radiation on Europa. We are especially concerned with sulfur patches discovered by the Galileo mission. In the near future there are technologies available to settle the question of habitability on Europa, such as penetrators that are currently being developed for preliminary trials nearer to the Earth—the Moon-Lite mission (Smith et al., 2008). If analogies

The large-scale process of microbial carbonate precipitation for nickel remediation from an industrial soil.

Science.gov (United States)

Zhu, Xuejiao; Li, Weila; Zhan, Lu; Huang, Minsheng; Zhang, Qiuzhuo; Achal, Varenyam

2016-12-01

Microbial carbonate precipitation is known as an efficient process for the remediation of heavy metals from contaminated soils. In the present study, a urease positive bacterial isolate, identified as Bacillus cereus NS4 through 16S rDNA sequencing, was utilized on a large scale to remove nickel from industrial soil contaminated by the battery industry. The soil was highly contaminated with an initial total nickel concentration of approximately 900 mg kg -1 . The soluble-exchangeable fraction was reduced to 38 mg kg -1 after treatment. The primary objective of metal stabilization was achieved by reducing the bioavailability through immobilizing the nickel in the urease-driven carbonate precipitation. The nickel removal in the soils contributed to the transformation of nickel from mobile species into stable biominerals identified as calcite, vaterite, aragonite and nickelous carbonate when analyzed under XRD. It was proven that during precipitation of calcite, Ni 2+ with an ion radius close to Ca 2+ was incorporated into the CaCO 3 crystal. The biominerals were also characterized by using SEM-EDS to observe the crystal shape and Raman-FTIR spectroscopy to predict responsible bonding during bioremediation with respect to Ni immobilization. The electronic structure and chemical-state information of the detected elements during MICP bioremediation process was studied by XPS. This is the first study in which microbial carbonate precipitation was used for the large-scale remediation of metal-contaminated industrial soil. Copyright © 2016 Elsevier Ltd. All rights reserved.

Metal availability and the expanding network of microbial metabolisms in the Archaean eon

Science.gov (United States)

Moore, Eli K.; Jelen, Benjamin I.; Giovannelli, Donato; Raanan, Hagai; Falkowski, Paul G.

2017-09-01

Life is based on energy gained by electron-transfer processes; these processes rely on oxidoreductase enzymes, which often contain transition metals in their structures. The availability of different metals and substrates has changed over the course of Earth's history as a result of secular changes in redox conditions, particularly global oxygenation. New metabolic pathways using different transition metals co-evolved alongside changing redox conditions. Sulfur reduction, sulfate reduction, methanogenesis and anoxygenic photosynthesis appeared between about 3.8 and 3.4 billion years ago. The oxidoreductases responsible for these metabolisms incorporated metals that were readily available in Archaean oceans, chiefly iron and iron-sulfur clusters. Oxygenic photosynthesis appeared between 3.2 and 2.5 billion years ago, as did methane oxidation, nitrogen fixation, nitrification and denitrification. These metabolisms rely on an expanded range of transition metals presumably made available by the build-up of molecular oxygen in soil crusts and marine microbial mats. The appropriation of copper in enzymes before the Great Oxidation Event is particularly important, as copper is key to nitrogen and methane cycling and was later incorporated into numerous aerobic metabolisms. We find that the diversity of metals used in oxidoreductases has increased through time, suggesting that surface redox potential and metal incorporation influenced the evolution of metabolism, biological electron transfer and microbial ecology.

Regulation of nif gene expression and the energetics of N2 fixation over the diel cycle in a hot spring microbial mat

DEFF Research Database (Denmark)

Steunou, Anne-Soisig; Jensen, Sheila I; Brecht, Eric

2008-01-01

Nitrogen fixation, a prokaryotic, O(2)-inhibited process that reduces N(2) gas to biomass, is of paramount importance in biogeochemical cycling of nitrogen. We analyzed the levels of nif transcripts of Synechococcus ecotypes, NifH subunit and nitrogenase activity over the diel cycle...... in the microbial mat of an alkaline hot spring in Yellowstone National Park. The results showed a rise in nif transcripts in the evening, with a subsequent decline over the course of the night. In contrast, immunological data demonstrated that the level of the NifH polypeptide remained stable during the night...

Long-term sustainability of microbial-induced CaCO3 precipitation in aqueous media.

Science.gov (United States)

Gat, Daniella; Ronen, Zeev; Tsesarsky, Michael

2017-10-01

Microbially induced CaCO 3 precipitation (MICP) via urea hydrolysis is an emerging technique for soil amelioration, building materials rehabilitation and pollutants sequestration amongst other various environmental applications. The successful application of MICP requires the sustainability of the precipitated CaCO 3 ; to which the fate of ammonia, the main by-product of ureolysis, is potentially significante. Ammonia volatilization and biological ammonia oxidation both induce a pH decrease, which, in turn, might cause CaCO 3 dissolution. To examine the potential effect of accumulated ammonia on precipitated CaCO 3 , we conducted a long-term MICP batch experiment, using environmental enrichment cultures of ureolytic bacteria. Here we show that CaCO 3 precipitation was completed within 15-27 days, along with a rise in ammonium concentration. Following completion of ureolysis and precipitation, ammonium concentrations decreased, leading to a pH decrease. About 30 days after precipitation was completed, as much as 30% CaCO 3 dissolution, was observed. A two-step model, describing urea hydrolysis followed by the removal of ammonia from the precipitation solution, predicted CaCO 3 dissolution due to ammonia volatilization. We suggest that ureolytic MICP might result in ammonia volatilization, leading to significant CaCO 3 dissolution. These results provide basic insights into the sustainability of ureolytic MICP and should further encourage removal of the accumulated ammonia from the treated site. Copyright © 2017 Elsevier Ltd. All rights reserved.

Tapetes microbianos del Salar de Llamará, norte de Chile Microbial mats from the Llamará salt flat, northern Chile

Directory of Open Access Journals (Sweden)

CECILIA DEMERGASSO

2003-09-01

incluyendo cocos y bacilos no identificados. En todos los tapetes muestreados en el Salar se encontraron bacterias reductoras de sulfato.Stratified photosynthetic microbial mats are described from the Salar de Llamará, a salt flat basin located in the Atacama desert of northern Chile. Microscopic and spectrophotometric techniques were used. The thickness of the photic zone of these communities spans 8 to 30 mm. This is probably due to the grain size and mineralogical composition of associated sediments. Three different types of mats were recognized. A first one was characterized by a green pigmented layer; a second with orange and green coloured layers, and the third with orange and green layers and an additional purple layer. At one sampling site, no pigmented layers were present. Sediments underlying the mats were white, but in one site, black coloured sediments were observed; this dark colour is probably the result of iron sulphide precipitation. Predominant microorganisms in the orange pigmented layers were diatoms and unicellular cyanobacteria, mainly from the Cyanothece and Synechococcus groups. Filamentous cyanobacteria Microleus sp. and Oscillatoria sp. were the most abundant in the green layer. When interstitial brines reached salinities between 12 and 33 %, no diatoms were observed, and the coccoidal cyanobacteria from the Synechococcus, Cyanothece and Gloeocapsa groups and genus Gloeobacter predominated over filamentous Cyanobacteria in the green layer. The purple layer was built primarily of anoxygenic phototrophic bacteria similar to cells of the genera Chromatium and Thiocapsa. Absorption spectra revealed that chlorophyll a is the most abundant pigment in most of analyzed samples. Integrated values of chlorophyll a and bacteriochlorophyll a reached values of up to 230 and 144 mg m-2 along all of the pigmented zone, respectively. Abundant non-photosynthetic microorganisms were found in the mats, including unidentified cocci and bacilli. Sulphate reducing

Sulfur biogeochemistry of oil sands composite tailings

Energy Technology Data Exchange (ETDEWEB)

Warren, Lesley; Stephenson, Kate [Earth Sciences, McMaster University (Canada)], email: warrenl@mcmaster.ca; Penner, Tara [Syncrude Environmental Research (Canada)

2011-07-01

This paper discusses the sulfur biogeochemistry of oil sands composite tailings (CT). The Government of Alberta is accelerating reclamation activities on composite tailings. As a CT pilot reclamation operation, Syncrude is currently constructing the first freshwater fen. Minor unpredicted incidents with H2S gas released from the dewatering process associated with these reclamations have been reported. The objective of this study is to ascertain the connection between microbial activity and H2S generation within CT and to assess the sulfur biogeochemistry of untreated and treated (fen) CT over seasonal and annual timescales. The microbial geochemical interactions taking place are shown using a flow chart. CT is composed of gypsum, sand, clay and organics like naphthenic acids and bitumen. Sulfur and Fe cycling in mining systems and their microbial activities are presented. The chemistry and the processes involved within CT are also given along with the results. It can be said that the diverse Fe and S metabolizing microorganisms confirm the ecology involved in H2S dynamics.

A batch assay to measure microbial hydrogen sulfide production from sulfur-containing solid wastes

International Nuclear Information System (INIS)

Sun, Mei; Sun, Wenjie; Barlaz, Morton A.

2016-01-01

microbial sulfide production potential of sulfur-containing wastes. - Highlights: • A lab-scale assay to estimate H 2 S production from solid wastes was developed. • High H 2 S concentrations depressed both methane production and sulfate reduction. • Base traps to sequester H 2 S reduced its toxic effect. • H 2 S production potential of different solid wastes was measured. • Not all sulfur in solid wastes is converted to H 2 S through biotransformation.

Sulfate Reduction and Thiosulfate Transformations in a Cyanobacterial Mat during a Diel Oxygen Cycle

DEFF Research Database (Denmark)

JØRGENSEN, BB

1994-01-01

Bacterial sulfate reduction and transformations of thiosulfate were studied with radiotracers in a Microcoleus chthono-plastes-dominated microbial mat growing in a hypersaline pond at the Red Sea. The study showed how a diel cycle of oxygen evolution affected respiration by sulfate-reducing bacte......Bacterial sulfate reduction and transformations of thiosulfate were studied with radiotracers in a Microcoleus chthono-plastes-dominated microbial mat growing in a hypersaline pond at the Red Sea. The study showed how a diel cycle of oxygen evolution affected respiration by sulfate......-reducing bacteria and the metabolism of thiosulfate through oxidative and reductive pathways. Sulfate reduction occurred in both oxic and anoxic layers of the mat and varied diurnally, apparently according to temperature rather than to oxygen. Time course experiments showed that the radiotracer method...... underestimated sulfate reduction in the oxic zone due to rapid reoxidation of the produced sulfide. Extremely high reduction rates of up to 10 mu mol cm(-3) d(-1) were measured just below the euphotic zone. Although thiosulfate was simultaneously oxidized, reduced and disproportionated by bacteria in all layers...

On the effects of the evolution of microbial mats and land plants on the Earth as a planet. Photometric and spectroscopic light curves of paleo-Earths

OpenAIRE

Sanromá, E.; Pallé, E.; García-Muñoz, A.

2013-01-01

Understanding the spectral and photometric variability of the Earth and the rest of the solar system planets has become of the utmost importance for the future characterization of rocky exoplanets. As this is not only interesting at present times but also along the planetary evolution, we studied the effect that the evolution of microbial mats and plants over land has had on the way our planet looks from afar. As life evolved, continental surfaces changed gradually and non- uniformly from des...

Bioleaching of heavy metal polluted sediment: kinetics of leaching and microbial sulfur oxidation

Energy Technology Data Exchange (ETDEWEB)

Loeser, C. [Technische Universitaet Dresden, Institut fuer Lebenmitteltechnik und Bioverfahrenstechnik, D-01062 Dresden (Germany); Zehnsdorf, A. [UFZ-Umweltforschungszentrum Leipzig-Halle GmbH, Umwelt- und Biotechnologisches Zentrum (UBZ), Permoserstrasse 15, D-04318 Leipzig (Germany); Goersch, K.; Seidel, H. [UFZ-Umweltforschungszentrum Leipzig-Halle GmbH, Department Bioremediation, Permoserstrasse 15, D-04318 Leipzig (Germany)

2005-12-01

Remediation of heavy metal polluted sediment through bioleaching using elemental sulfur (S{sup 0}) as the leaching agent can be regarded as a two-step process: firstly, the microbial oxidation of the added S{sup 0} to sulfuric acid and, secondly, the reaction of the produced acid with the sediment. Here, both subprocesses were studied in detail independently: oxidized river sediment was either suspended in sulfuric acid of various strengths, or mixed with various amounts of finely ground S{sup 0} powder (diameter of the S{sup 0} particles between 1 and 175 {mu}m with a Rosin-Rammler-Sperling-Bennet (RRSB) distribution and an average diameter of 35 {mu}m) and suspended in water. The leaching process was observed by repeated analysis of the suspension concerning pH, soluble sulfate and metals, and remaining S{sup 0}. In the case of abiotic leaching with H{sub 2}SO{sub 4}, the reaction between the acid and the sediment resulted in a gradual increase in pH and a solubilization of sediment-borne heavy metals which required some time; 80 % of the finally solubilized heavy metals was dissolved after 1 h, 90 % after 10 h, and 100 % after 100 h. In the case of bioleaching, the rate of S{sup 0} oxidation was maximal at the beginning, gradually diminished with time, and was proportional to the initial amount of S{sup 0}. Due to its very low solubility in water, S{sup 0} is oxidized in a surface reaction catalyzed by attached bacteria. The oxidation let the particles shrink, their surface became smaller and, thus, the S{sup 0} oxidation rate gradually decreased. The shrinking rate was time-invariant and, at 30 C, amounted to 0.5 {mu}m/day (or 100 {mu}g/cm{sup 2}/day). Within 21 days, 90 % of the applied S{sup 0} was oxidized. Three models with a different degree of complexity have been developed that describe this S{sup 0} oxidation, assuming S{sup 0} particles of uniform size (I), using a measured particle size distribution (II), or applying an adapted RRSB distribution (III

A batch assay to measure microbial hydrogen sulfide production from sulfur-containing solid wastes

Energy Technology Data Exchange (ETDEWEB)

Sun, Mei, E-mail: msun8@uncc.edu [Department of Civil, Construction, and Environmental Engineering, North Carolina State University, Campus Box 7908, Raleigh, NC (United States); Sun, Wenjie, E-mail: wsun@smu.edu [Department of Civil, Construction, and Environmental Engineering, North Carolina State University, Campus Box 7908, Raleigh, NC (United States); Department of Civil and Environmental Engineering, Southern Methodist University, PO Box 750340, Dallas, TX (United States); Barlaz, Morton A., E-mail: barlaz@ncsu.edu [Department of Civil, Construction, and Environmental Engineering, North Carolina State University, Campus Box 7908, Raleigh, NC (United States)

2016-05-01

the importance of assays to estimate the microbial sulfide production potential of sulfur-containing wastes. - Highlights: • A lab-scale assay to estimate H{sub 2}S production from solid wastes was developed. • High H{sub 2}S concentrations depressed both methane production and sulfate reduction. • Base traps to sequester H{sub 2}S reduced its toxic effect. • H{sub 2}S production potential of different solid wastes was measured. • Not all sulfur in solid wastes is converted to H{sub 2}S through biotransformation.

Biodesulfurization techniques: Application of selected microorganisms for organic sulfur removal from coals. Final report

Energy Technology Data Exchange (ETDEWEB)

Elmore, B.B.

1993-08-01

As an alternative to post-combustion desulfurization of coal and pre-combustion desulfurization using physicochemical techniques, the microbial desulfurization of coal may be accomplished through the use of microbial cultures that, in an application of various microbial species, may remove both the pyritic and organic fractions of sulfur found in coal. Organisms have been isolated that readily depyritize coal but often at prohibitively low rates of desulfurization. Microbes have also been isolated that may potentially remove the organic-sulfur fraction present in coal (showing promise when acting on organic sulfur model compounds such as dibenzothiophene). The isolation and study of microorganisms demonstrating a potential for removing organic sulfur from coal has been undertaken in this project. Additionally, the organisms and mechanisms by which coal is microbially depyritized has been investigated. Three cultures were isolated that grew on dibenzothiophene (DBT), a model organic-sulfur compound, as the sole sulfur source. These cultures (UMX3, UMX9, and IGTS8) also grew on coal samples as the sole sulfur source. Numerous techniques for pretreating and ``cotreating`` coal for depyritization were also evaluated for the ability to improve the rate or extent of microbial depyritization. These include prewashing the coal with various solvents and adding surfactants to the culture broth. Using a bituminous coal containing 0.61% (w/w) pyrite washed with organic solvents at low slurry concentrations (2% w/v), the extent of depyritization was increased approximately 25% in two weeks as compared to controls. At slurry concentrations of 20% w/v, a tetrachloroethylene treatment of the coal followed by depyritization with Thiobacillus ferrooxidans increased both the rate and extent of depyritization by approximately 10%.

Critical Assessment of Analytical Techniques in the Search for Biomarkers on Mars: A Mummified Microbial Mat from Antarctica as a Best-Case Scenario.

Science.gov (United States)

Blanco, Yolanda; Gallardo-Carreño, Ignacio; Ruiz-Bermejo, Marta; Puente-Sánchez, Fernando; Cavalcante-Silva, Erika; Quesada, Antonio; Prieto-Ballesteros, Olga; Parro, Víctor

2017-10-01

The search for biomarkers of present or past life is one of the major challenges for in situ planetary exploration. Multiple constraints limit the performance and sensitivity of remote in situ instrumentation. In addition, the structure, chemical, and mineralogical composition of the sample may complicate the analysis and interpretation of the results. The aim of this work is to highlight the main constraints, performance, and complementarity of several techniques that have already been implemented or are planned to be implemented on Mars for detection of organic and molecular biomarkers on a best-case sample scenario. We analyzed a 1000-year-old desiccated and mummified microbial mat from Antarctica by Raman and IR (infrared) spectroscopies (near- and mid-IR), thermogravimetry (TG), differential thermal analysis, mass spectrometry (MS), and immunological detection with a life detector chip. In spite of the high organic content (ca. 20% wt/wt) of the sample, the Raman spectra only showed the characteristic spectral peaks of the remaining beta-carotene biomarker and faint peaks of phyllosilicates over a strong fluorescence background. IR spectra complemented the mineralogical information from Raman spectra and showed the main molecular vibrations of the humic acid functional groups. The TG-MS system showed the release of several volatile compounds attributed to biopolymers. An antibody microarray for detecting cyanobacteria (CYANOCHIP) detected biomarkers from Chroococcales, Nostocales, and Oscillatoriales orders. The results highlight limitations of each technique and suggest the necessity of complementary approaches in the search for biomarkers because some analytical techniques might be impaired by sample composition, presentation, or processing. Key Words: Planetary exploration-Life detection-Microbial mat-Life detector chip-Thermogravimetry-Raman spectroscopy-NIR-DRIFTS. Astrobiology 17, 984-996.

Effect of Temperature on Precipitation Rate of Calcium Carbonate Produced through Microbial Metabolic Process of Bio Materials

Directory of Open Access Journals (Sweden)

Prima Yane Putri

2016-09-01

Full Text Available Concrete is the most widely used construction material in civil engineering. But plain concrete is a brittle material and has little resistance to cracking. The cracking in concrete promotes deterioration such as the corrosion of reinforcing rebar, therefore, repair in filling the crack is often carried out. Recently, repair methods using bio-based materials associated with microbial metabolic processes leading to precipitation of calcium carbonate have been intensively studied. In this study, influencing factors on the precipitation rate depending on the constituents of bio-based material comprising yeast, glucose and calcium acetate mixed in tris buffer solution was examined for improving the rate of initial reactions. In addition, effect of temperature change on the amount of calcium carbonate precipitation was also investigated. The precipitates were identified by X-ray diffraction. It was shown that the increase of temperature lead to a change on calcium carbonate precipitation and caused the pH decrease under 7.0.

Community ecology of hot spring cyanobacterial mats: predominant populations and their functional potential

DEFF Research Database (Denmark)

Klatt, C. G.; Wood, J. M.; Rusch, D. B.

2011-01-01

Phototrophic microbial mat communities from 60¿°C and 65¿°C regions in the effluent channels of Mushroom and Octopus Springs (Yellowstone National Park, WY, USA) were investigated by shotgun metagenomic sequencing. Analyses of assembled metagenomic sequences resolved six dominant chlorophototrophic...

The molecular dimension of microbial species: 3. Comparative genomics of Synechococcus strains with different light responses and in situ diel transcription patterns of associated ecotypes in the Mushroom Spring microbial mat

Directory of Open Access Journals (Sweden)

Millie T. Olsen

2015-06-01

Full Text Available Genomes were obtained for three closely related strains of Synechococcus that are representative of putative ecotypes that predominate at different depths in the 1 mm-thick, upper-green layer in the 60°C mat of Mushroom Spring, Yellowstone National Park, and exhibit different light adaptation and acclimation responses. The genomes were compared to the published genome of a previously obtained, closely related strain from a neighboring spring, and differences in both gene content and orthologous gene alleles between high-light-adapted and low-light-adapted strains were identified. Evidence of genetic differences that relate to adaptation to light intensity and/or quality, CO2 uptake, nitrogen metabolism, organic carbon metabolism, and uptake of other nutrients were found between strains of the different putative ecotypes. In situ diel transcription patterns of genes, including genes unique to either low-light-adapted or high-light-adapted strains and different alleles of an orthologous photosystem gene, revealed that expression is fine-tuned to the different light environments experienced by ecotypes prevalent at various depths in the mat. This study suggests that strains of closely related putative ecotypes have different genomic adaptations that enable them to inhabit distinct ecological niches while living in close proximity within a microbial community.

Association of a new type of gliding, filamentous, purple phototrophic bacterium inside bundles of Microcoleus chthonoplastes in hypersaline cyanobacterial mats

Science.gov (United States)

D'Amelio, E. D.; Cohen, Y.; Des Marais, D. J.

1987-01-01

An unidentified filamentous purple bacterium, probably belonging to a new genus or even a new family, is found in close association with the filamentous, mat-forming cyanobacterium Microcoleus chthonoplastes in a hypersaline pond at Guerrero Negro, Baja California Sur, Mexico, and in Solar Lake, Sinai, Egypt. This organism is a gliding, segmented trichome, 0.8-0.9 micrometer wide. It contains intracytoplasmic stacked lamellae which are perpendicular and obliquely oriented to the cell wall, similar to those described for the purple sulfur bacteria Ectothiorhodospira. These bacteria are found inside the cyanobacterial bundle, enclosed by the cyanobacterial sheath. Detailed transmission electron microscopical analyses carried out in horizontal sections of the upper 1.5 mm of the cyanobacterial mat show this cyanobacterial-purple bacterial association at depths of 300-1200 micrometers, corresponding to the zone below that of maximal oxygenic photosynthesis. Sharp gradients of oxygen and sulfide are established during the day at this microzone in the two cyanobacterial mats studied. The close association, the distribution pattern of this association and preliminary physiological experiments suggest a co-metabolism of sulfur by the two-membered community. This probable new genus of purple bacteria may also grow photoheterotrophically using organic carbon excreted by the cyanobacterium. Since the chemical gradients in the entire photic zone fluctuate widely in a diurnal cycle, both types of metabolism probably take place. During the morning and afternoon, sulfide migrates up to the photic zone allowing photoautotrophic metabolism with sulfide as the electron donor. During the day the photic zone is highly oxygenated and the purple bacteria may either use oxidized species of sulfur such as elemental sulfur and thiosulfate in the photoautotrophic mode or grow photoheterotrophically using organic carbon excreted by M. chthonoplastes. The new type of filamentous purple sulfur

Biogeochemistry of a submerged groundwater seep ecosystem in Lake Huron near karst region of Alpena, MI

Science.gov (United States)

Kinsman-Costello, L. E.; Dick, G.; Sheik, C.; Burton, G. A.; Sheldon, N. D.

2015-12-01

Submerged groundwater seeps in Lake Huron establish ecosystems with distinctive geochemical conditions. In the Middle Island Sinkhole (MIS), a 23-m deep seep, groundwater seepage establishes low O2 (< 4 mg L-1), high sulfate (6 mM) conditions, in which a purple cyanobacteria-dominated mat thrives. The mat is capable of anoxygenic photosynthesis, oxygenic photosynthesis, and chemosynthesis. Within the top 3 cm of the mat-water interface, hydrogen sulfide concentrations increase to 1-7 mM. Little is known about the structure and function of microbes within organic-rich, high-sulfide sediments beneath the mat. Using pore water and sediment geochemical characterization along with microbial community analysis, we elucidated relationships between microbial community structure and ecosystem function along vertical gradients. In sediment pore waters, biologically reactive solutes (SO42-, NH4+, PO43-, and CH4) displayed steep vertical gradients, reflecting biological and geochemical functioning. In contrast, more conservative ions (Ca+2, Mg+2, Na+, and Cl-), did not change significantly with depth in MIS sediments, indicating groundwater influence in the sediment profile. MIS sediments contained more organic matter than typical Lake Huron sediments, and were generally higher in nutrients, metals, and sulfur (acid volatile sulfide). Using the Illumina MiSeq platform we detected 14,127 unique operational taxonomic units across sediment and surface mat samples. Microbial community composition in the MIS was distinctly different from non-groundwater affected areas at similar depth nearby in Lake Huron (ANOSIM, R= 0.74, p=0.002). MIS sediment communities were more diverse that MIS surface mat communities and changed with depth into sediments. MIS sediment community composition was related to several geochemical variables, including organic matter and multiple indicators of phosphorus availability. Elucidating the structure and function of microbial consortia in MIS, a highly

Precipitation of the rare earth double sodium and rare earths from the sulfuric liquor and the conversion into rare earth hydroxides through meta ethic reaction

International Nuclear Information System (INIS)

Abreu, Renata D.; Oliveira, Ester F.; Brito, Walter de; Morais, Carlos A.

2007-01-01

This work presents the purification study of the rare earths through precipitation of rare earth and sodium (Na TR (SO 4 ) 2 . x H 2 O)) double sulfate and his conversion to rare earths hydroxide TR(OH) 3 by meta ethic reaction through the addition of sodium hydroxide solution to the solid double sulfate. The study used the sulfuric liquor as rare earth sample, generated in the chemical processing of the monazite with sulfuric acid by the Industrias Nucleares do Brasil - INB, Brazil, after the thorium and uranium extraction. The work investigated the influence of the main variables involved in the precipitation of Na TR(SO 4 ) 2 .xH 2 O and in the conversion for the TR(OH) 3 , as follows: type and excess of the precipitation agent, temperature and time reaction. The obtained solid composites were characterized by X-ray diffraction, infrared and chemical analysis. The double sulfate diffractogram indicated the Na TR(SO 4 ) 2 mono-hydrated. The characterization of the metatese products has shown that, for obtaining the complete conversion of NaTR(SO 4 ) 2 .H 2 O into TR(OH) 3 , the reaction must be hot processed (∼70 deg C) and with small excess of Na OH (≤ 5 percent). (author)

Bioleaching of metals from soils or sediments using the microbial sulfur cycle

NARCIS (Netherlands)

Tichy, R.

1998-01-01

Reduced inorganic sulfur species like elemental sulfur or sulfide are sensitive to changes in oxidative environments. Generally, inorganic reduced sulfur exists in natural environments in a solid phase, whereas its oxidation leads to sulfur solubilization and a production of acidity. This

Biomimetic Ant-Nest Electrode Structures for High Sulfur Ratio Lithium-Sulfur Batteries.

Science.gov (United States)

Ai, Guo; Dai, Yiling; Mao, Wenfeng; Zhao, Hui; Fu, Yanbao; Song, Xiangyun; En, Yunfei; Battaglia, Vincent S; Srinivasan, Venkat; Liu, Gao

2016-09-14

The lithium-sulfur (Li-S) rechargeable battery has the benefit of high gravimetric energy density and low cost. Significant research currently focuses on increasing the sulfur loading and sulfur/inactive-materials ratio, to improve life and capacity. Inspired by nature's ant-nest structure, this research results in a novel Li-S electrode that is designed to meet both goals. With only three simple manufacturing-friendly steps, which include slurry ball-milling, doctor-blade-based laminate casting, and the use of the sacrificial method with water to dissolve away table salt, the ant-nest design has been successfully recreated in an Li-S electrode. The efficient capabilities of the ant-nest structure are adopted to facilitate fast ion transportation, sustain polysulfide dissolution, and assist efficient precipitation. High cycling stability in the Li-S batteries, for practical applications, has been achieved with up to 3 mg·cm(-2) sulfur loading. Li-S electrodes with up to a 85% sulfur ratio have also been achieved for the efficient design of this novel ant-nest structure.

Capacity Fade Analysis of Sulfur Cathodes in Lithium–Sulfur Batteries

Science.gov (United States)

Yan, Jianhua; Liu, Xingbo

2016-01-01

Rechargeable lithium–sulfur (Li–S) batteries are receiving ever‐increasing attention due to their high theoretical energy density and inexpensive raw sulfur materials. However, their rapid capacity fade has been one of the key barriers for their further improvement. It is well accepted that the major degradation mechanisms of S‐cathodes include low electrical conductivity of S and sulfides, precipitation of nonconductive Li2S2 and Li2S, and poly‐shuttle effects. To determine these degradation factors, a comprehensive study of sulfur cathodes with different amounts of electrolytes is presented here. A survey of the fundamentals of Li–S chemistry with respect to capacity fade is first conducted; then, the parameters obtained through electrochemical performance and characterization are used to determine the key causes of capacity fade in Li–S batteries. It is confirmed that the formation and accumulation of nonconductive Li2S2/Li2S films on sulfur cathode surfaces are the major parameters contributing to the rapid capacity fade of Li–S batteries. PMID:27981001

Comparative effects of sulfuric and nitric acid rain on litter decomposition and soil microbial community in subtropical plantation of Yangtze River Delta region.

Science.gov (United States)

Liu, Xin; Zhang, Bo; Zhao, Wenrui; Wang, Ling; Xie, Dejin; Huo, Wentong; Wu, Yanwen; Zhang, Jinchi

2017-12-01

Acid rain is mainly caused by dissolution of sulfur dioxide and nitrogen oxides in the atmosphere, and has a significant negative effect on ecosystems. The relative composition of acid rain is changing gradually from sulfuric acid rain (SAR) to nitric acid rain (NAR) with the rapidly growing amount of nitrogen deposition. In this study, we investigated the impact of simulated SAR and NAR on litter decomposition and the soil microbial community over four seasons since March 2015. Results first showed that the effects of acid rain on litter decomposition and soil microbial were positive in the early period of the experiment, except for SAR on soil microbes. Second, soil pH with NAR decreased more rapidly with the amount of acid rain increased in summer than with SAR treatments. Only strongly acid rain (both SAR and NAR) was capable of depressing litter decomposition and its inhibitory effect was stronger on leaf than on fine root litter. Meanwhile, NAR had a higher inhibitory effect on litter decomposition than SAR. Third, in summer, autumn and winter, PLFAs were negatively impacted by the increased acidity level resulting from both SAR and NAR. However, higher acidity level of NAR (pH=2.5) had the strongest inhibitory impact on soil microbial activity, especially in summer. In addition, Gram-negative bacteria (cy19:0) and fungi (18:1ω9) were more sensitive to both SAR and NAR, and actinomycetes was more sensitive to SAR intensity. Finally, soil total carbon, total nitrogen and pH were the most important soil property factors affecting soil microbial activity, and high microbial indices (fungi/bacteria) with high soil pH. Our results suggest that the ratio of SO 4 2- to NO 3 - in acid rain is an important factor which could affect litter decomposition and soil microbial in subtropical forest of China. Copyright © 2017. Published by Elsevier B.V.

Preliminary results of measurements of air pollution caused by sulfur compounds near the Polaniec power plant

Energy Technology Data Exchange (ETDEWEB)

Dziewanski, J; Kasina, S; Lewinska, J; Piorek, S

1976-01-01

In the past investigations of the negative impact of power stations on the natural environment have been restricted to measuring sulfur dioxide content in the air. A method of determining complex influence of sulfur compounds on the natural environment is proposed. The following indexes are used: content of sulfur dioxide in the air, dust content (determined by means of the West-Gaeke method), content of sulphate ions in precipitation and pH value of precipitation. Methods used to determine each of the indexes are described. Location of measuring stations in the area where the power station is being constructed is evaluated, taking into account prevailing wind direction and atmospheric conditions (15 measuring points out of which 10 stations measure sulfur content in precipitation and pH value of precipitation, and 5 stations measure the mean daily concentration of sulfur dioxide and dust content). Results are presented in 3 maps, 1 table and 2 pictures. Variations in sulfur dioxide content, dust content, and pH value of precipitation depending on direction of wind, atmospheric conditions and season are analyzed. The results of the investigation will be compared with results of investigations carried out when the power station is in operation. (15 refs.)

Experimental and numerical modeling of sulfur plugging in carbonate reservoirs

Energy Technology Data Exchange (ETDEWEB)

Abou-Kassem, J.H. [Chemical and Petroleum Engineering Department, UAE University, PO Box 17555, Al-Ain (United Arab Emirates)

2000-05-01

Sour gas, mainly in the form of hydrogen sulfide, is produced in large amounts from many oil and gas reservoirs in the United Arab Emirates. In addition to creating problems in production lines, the precipitation of elemental sulfur in vicinity of the wellbore is often reported to cause wellbore damage. While there have been several studies performed on the role of solid deposition in gas reservoirs, the role of sulfur deposition in oil reservoirs has not been investigated. This paper presents experimental results along with a comprehensive wellbore model that predicts sulfur precipitation as well as plugging. Two separate sets of experiments, one for a gas phase system and another for a crude oil system, were conducted to investigate the deposition of elemental sulfur in (linear) carbonate cores. The gas flow tests were conducted with elemental sulfur being carried with nitrogen through limestone cores. Changes in gas flow rate were monitored while the injection pressure was held constant. A series of experiments generated valuable data for plugging with elemental sulfur. X-ray diffraction tests provided evidence of sulfur deposition along the cores. The oil flow tests were carried out to observe sulfur precipitation and plugging in a carbonate core. The crude oil was de-asphalted before conducting these tests in order to isolate the effect of asphaltene plugging. Significant plugging was observed and was found to be dependent on flow rate and initial sulfur concentration. This information was used in a phenomenological model that was incorporated in the wellbore numerical model. The data for the numerical model were obtained from both test tube and oil flow experiments. By using a phenomenological model, the wellbore plugging was modeled with an excellent match (with experimental results)

Effect of salinity changes on the bacterial diversity, photosynthesis and oxygen consumption of cyanobacterial mats from an intertidal flat of the Arabian Gulf.

Science.gov (United States)

Abed, Raeid M M; Kohls, Katharina; de Beer, Dirk

2007-06-01

The effects of salinity fluctuation on bacterial diversity, rates of gross photosynthesis (GP) and oxygen consumption in the light (OCL) and in the dark (OCD) were investigated in three submerged cyanobacterial mats from a transect on an intertidal flat. The transect ran 1 km inland from the low water mark along an increasingly extreme habitat with respect to salinity. The response of GP, OCL and OCD in each sample to various salinities (65 per thousand, 100 per thousand, 150 per thousand and 200 per thousand) were compared. The obtained sequences and the number of unique operational taxonomic units showed clear differences in the mats' bacterial composition. While cyanobacteria decreased from the lower to the upper tidal mat, other bacterial groups such as Chloroflexus and Cytophaga/Flavobacteria/Bacteriodetes showed an opposite pattern with the highest dominance in the middle and upper tidal mats respectively. Gross photosynthesis and OCL at the ambient salinities of the mats decreased from the lower to the upper tidal zone. All mats, regardless of their tidal location, exhibited a decrease in areal GP, OCL and OCD rates at salinities > 100 per thousand. The extent of inhibition of these processes at higher salinities suggests an increase in salt adaptation of the mats microorganisms with distance from the low water line. We conclude that the resilience of microbial mats towards different salinity regimes on intertidal flats is accompanied by adjustment of the diversity and function of their microbial communities.

Evaluating Monitoring Strategies to Detect Precipitation-Induced Microbial Contamination Events in Karstic Springs Used for Drinking Water

Directory of Open Access Journals (Sweden)

Michael D. Besmer

2017-11-01

Full Text Available Monitoring of microbial drinking water quality is a key component for ensuring safety and understanding risk, but conventional monitoring strategies are typically based on low sampling frequencies (e.g., quarterly or monthly. This is of concern because many drinking water sources, such as karstic springs are often subject to changes in bacterial concentrations on much shorter time scales (e.g., hours to days, for example after precipitation events. Microbial contamination events are crucial from a risk assessment perspective and should therefore be targeted by monitoring strategies to establish both the frequency of their occurrence and the magnitude of bacterial peak concentrations. In this study we used monitoring data from two specific karstic springs. We assessed the performance of conventional monitoring based on historical records and tested a number of alternative strategies based on a high-resolution data set of bacterial concentrations in spring water collected with online flow cytometry (FCM. We quantified the effect of increasing sampling frequency and found that for the specific case studied, at least bi-weekly sampling would be needed to detect precipitation events with a probability of >90%. We then proposed an optimized monitoring strategy with three targeted samples per event, triggered by precipitation measurements. This approach is more effective and efficient than simply increasing overall sampling frequency. It would enable the water utility to (1 analyze any relevant event and (2 limit median underestimation of peak concentrations to approximately 10%. We conclude with a generalized perspective on sampling optimization and argue that the assessment of short-term dynamics causing microbial peak loads initially requires increased sampling/analysis efforts, but can be optimized subsequently to account for limited resources. This offers water utilities and public health authorities systematic ways to evaluate and optimize their

Biologically induced mineralization of dypingite by cyanobacteria from an alkaline wetland near Atlin, British Columbia, Canada

Directory of Open Access Journals (Sweden)

Dipple Gregory M

2007-12-01

Full Text Available Abstract Background This study provides experimental evidence for biologically induced precipitation of magnesium carbonates, specifically dypingite (Mg5(CO34(OH2·5H2O, by cyanobacteria from an alkaline wetland near Atlin, British Columbia. This wetland is part of a larger hydromagnesite (Mg5(CO34(OH2·4H2O playa. Abiotic and biotic processes for magnesium carbonate precipitation in this environment are compared. Results Field observations show that evaporation of wetland water produces carbonate films of nesquehonite (MgCO3·3H2O on the water surface and crusts on exposed surfaces. In contrast, benthic microbial mats possessing filamentous cyanobacteria (Lyngbya sp. contain platy dypingite (Mg5(CO34(OH2·5H2O and aragonite. Bulk carbonates in the benthic mats (δ13C avg. = 6.7%, δ18O avg. = 17.2% were isotopically distinguishable from abiotically formed nesquehonite (δ13C avg. = 9.3%, δ18O avg. = 24.9%. Field and laboratory experiments, which emulated natural conditions, were conducted to provide insight into the processes for magnesium carbonate precipitation in this environment. Field microcosm experiments included an abiotic control and two microbial systems, one containing ambient wetland water and one amended with nutrients to simulate eutrophic conditions. The abiotic control developed an extensive crust of nesquehonite on its bottom surface during which [Mg2+] decreased by 16.7% relative to the starting concentration. In the microbial systems, precipitation occurred within the mats and was not simply due to the capturing of mineral grains settling out of the water column. Magnesium concentrations decreased by 22.2% and 38.7% in the microbial systems, respectively. Laboratory experiments using natural waters from the Atlin site produced rosettes and flakey globular aggregates of dypingite precipitated in association with filamentous cyanobacteria dominated biofilms cultured from the site, whereas the abiotic control again precipitated

Chroococcales em Esteiras Microbianas em Bolha do Brejo do Pau Fincado, Rio de Janeiro, Brasil.

Directory of Open Access Journals (Sweden)

Loreine Hermida da Silva e Silva

2007-07-01

Full Text Available Chroococcales in blister microbial mats at brejo do Pau Fincado, Rio de Janeiro, Brazil.Brejo do Pau Fincado (220 55’ 56,75” S e 420 16’ 54,7” W is a natural natural coastal aquatical body. It is located at the Lagoa de Araruama complex, formed at least 7000 years ago. The local climate is characterized by low precipitation ratesand high evaporation rates; due to this, the lagoons tend to become ypersalyne. Microbial mats are organic-sedimentary structures composed mainly of cyanobacteria. Whilst the photosynthesis process cyanobacteria induct an environmental change, which leads to calcium carbonate precipitation. The aim of this study was to typify and identify the cyanobacteria at the blister microbial mat. Samples were processed and analyzed using an optical microscope. The blister mat is composed of twelve species of cyanobacteria disposed in a fragile and amorphous mass. In this structure, both quantitative andqualitative domains belong to Chroococcales Westtein 1924. Measurement has shown that the place is very selective, andcyanobacteria presented great resistance and adaptability, because they are forms which had got success surviving to big changes occurred on Earth since the beginning of life and the evolutionary history .

Insights into the genome of large sulfur bacteria revealed by analysis of single filaments

DEFF Research Database (Denmark)

Mussmann, Marc; Hu, Fen Z.; Richter, Michael

2007-01-01

Beggiatoa to overcome non-overlapping availabilities of electron donors and acceptors while gliding between oxic and sulfidic zones. The first look into the genome of these filamentous sulfur-oxidizing bacteria substantially deepens the understanding of their evolution and their contribution to sulfur......Marine sediments are frequently covered by mats of the filamentous Beggiatoa and other large nitrate-storing bacteria that oxidize hydrogen sulfide using either oxygen or nitrate, which they store in intracellular vacuoles. Despite their conspicuous metabolic properties and their biogeochemical...

Microbial community composition and endolith colonization at an Arctic thermal spring are driven by calcite precipitation

Science.gov (United States)

Starke, Verena; Kirshtein, Julie; Fogel, Marilyn L.; Steele, Andrew

2013-01-01

Environmental conditions shape community composition. Arctic thermal springs provide an opportunity to study how environmental gradients can impose strong selective pressures on microbial communities and provide a continuum of niche opportunities. We use microscopic and molecular methods to conduct a survey of microbial community composition at Troll Springs on Svalbard, Norway, in the high Arctic. Microorganisms there exist under a wide range of environmental conditions: in warm water as periphyton, in moist granular materials, and in cold, dry rock as endoliths. Troll Springs has two distinct ecosystems, aquatic and terrestrial, together in close proximity, with different underlying environmental factors shaping each microbial community. Periphyton are entrapped during precipitation of calcium carbonate from the spring's waters, providing microbial populations that serve as precursors for the development of endolithic communities. This process differs from most endolith colonization, in which the rock predates the communities that colonize it. Community composition is modulated as environmental conditions change within the springs. At Troll, the aquatic environments show a small number of dominant operational taxonomic units (OTUs) that are specific to each sample. The terrestrial environments show a more even distribution of OTUs common to multiple samples.

Dynamics of biogeochemical sulfur cycling in Mono Lake

Science.gov (United States)

Phillips, A. A.; Fairbanks, D.; Wells, M.; Fullerton, K. M.; Bao, R.; Johnson, H.; Speth, D. R.; Stamps, B. W.; Miller, L.; Sessions, A. L.

2017-12-01

Mono Lake, California is a closed-basin soda lake (pH 9.8) with high sulfate (120mM), and is an ideal natural laboratory for studying microbial sulfur cycling. Mono Lake is typically thermally stratified in summer while mixing completely in winter. However, large snowmelt inputs may induce salinity stratification that persists for up to five years, causing meromixis. During the California drought of 2014-16, the lake has mixed thoroughly each winter, but the abundant 2017 snowmelt may usher in a multi-year stratification. This natural experiment provides an opportunity to investigate the temporal relationship between microbial sulfur cycling and lake biogeochemistry. We analyzed water samples from five depths at two stations in May of 2017, before the onset of meromixis. Water column sulfate isotope values were generally constant with depth, centering at a δ34SVCDT of 17.39 ± 0.06‰. Organic sulfur isotopes were consistently lighter than lake sulfate, with a δ34SVCDT of 15.59 ± 0.56‰. This significant offset between organic and inorganic sulfur contradicts the minimal isotope effect associated with sulfate assimilation. Sediment push core organic values were further depleted, ranging between δ34SVCDT of -8.94‰ and +0.23‰, implying rapid turnover of Mono Lake sulfur pools. Both lipid biomarkers and 16S rRNA gene amplicons identify Picocystis salinarum, a unicellular green alga, as the dominant member of the microbial community. However, bacterial biomarkers and 16S rRNA genes point to microbes capable of sulfur cycling. We found that dsrA increased with depth (R2 = 0.9008, p reducers and sulfide oxidizers after >1 year of stratification. We saw no evidence in May of 2017 of sulfate reducing bacteria across the oxycline. Additionally, no sulfide was detectable in lake bottom waters despite oxygen below 6.25 µM. Preliminary results suggest a dynamic interplay between sulfide oxidation, sulfate reduction, and the onset of lake stratification. Additional

An increase in precipitation exacerbates negative effects of nitrogen deposition on soil cations and soil microbial communities in a temperate forest.

Science.gov (United States)

Shi, Leilei; Zhang, Hongzhi; Liu, Tao; Mao, Peng; Zhang, Weixin; Shao, Yuanhu; Fu, Shenglei

2018-04-01

World soils are subjected to a number of anthropogenic global change factors. Although many previous studies contributed to understand how single global change factors affect soil properties, there have been few studies aimed at understanding how two naturally co-occurring global change drivers, nitrogen (N) deposition and increased precipitation, affect critical soil properties. In addition, most atmospheric N deposition and precipitation increase studies have been simulated by directly adding N solution or water to the forest floor, and thus largely neglect some key canopy processes in natural conditions. These previous studies, therefore, may not realistically simulate natural atmospheric N deposition and precipitation increase in forest ecosystems. In a field experiment, we used novel canopy applications to investigate the effects of N deposition, increased precipitation, and their combination on soil chemical properties and the microbial community in a temperate deciduous forest. We found that both soil chemistry and microorganisms were sensitive to these global change factors, especially when they were simultaneously applied. These effects were evident within 2 years of treatment initiation. Canopy N deposition immediately accelerated soil acidification, base cation depletion, and toxic metal accumulation. Although increased precipitation only promoted base cation leaching, this exacerbated the effects of N deposition. Increased precipitation decreased soil fungal biomass, possible due to wetting/re-drying stress or to the depletion of Na. When N deposition and increased precipitation occurred together, soil gram-negative bacteria decreased significantly, and the community structure of soil bacteria was altered. The reduction of gram-negative bacterial biomass was closely linked to the accumulation of the toxic metals Al and Fe. These results suggested that short-term responses in soil cations following N deposition and increased precipitation could change

Vapor phase elemental sulfur amendment for sequestering mercury in contaminated soil

Science.gov (United States)

Looney, Brian B.; Denham, Miles E.; Jackson, Dennis G.

2014-07-08

The process of treating elemental mercury within the soil is provided by introducing into the soil a heated vapor phase of elemental sulfur. As the vapor phase of elemental sulfur cools, sulfur is precipitated within the soil and then reacts with any elemental mercury thereby producing a reaction product that is less hazardous than elemental mercury.

Shewanella loihica sp. nov., isolated from iron-rich microbial mats in the Pacific Ocean.

Science.gov (United States)

Gao, Haichun; Obraztova, Anna; Stewart, Nathan; Popa, Radu; Fredrickson, James K; Tiedje, James M; Nealson, Kenneth H; Zhou, Jizhong

2006-08-01

A novel marine bacterial strain, PV-4(T), isolated from a microbial mat located at a hydrothermal vent of Loihi Seamount in the Pacific Ocean, has been characterized. This micro-organism is orangey in colour, Gram-negative, polarly flagellated, facultatively anaerobic and psychrotolerant (temperature range, 0-42 degrees C). No growth was observed with nitrate, nitrite, DMSO or thiosulfate as the electron acceptor and lactate as the electron donor. The major fatty acid detected in strain PV-4(T) was iso-C(15 : 0). Strain PV-4(T) had ubiquinones consisting mainly of Q-7 and Q-8, and possessed menaquinone MK-7. The DNA G+C content of the strain was 53.8 mol% and the genome size was about 4.5 Mbp. Phylogenetic analyses based on 16S rRNA gene sequences placed PV-4(T) within the genus Shewanella. PV-4(T) exhibited 16S rRNA gene sequence similarity levels of 99.6 and 97.5 %, respectively, with respect to the type strains of Shewanella aquimarina and Shewanella marisflavi. DNA from strain PV-4(T) showed low mean levels of relatedness to the DNAs of S. aquimarina (50.5 %) and S. marisflavi (8.5 %). On the basis of phylogenetic and phenotypic characteristics, the bacterium was classified in the genus Shewanella within a distinct novel species, for which the name Shewanella loihica sp. nov. is proposed. The type strain is PV-4(T) (=ATCC BAA-1088(T)=DSM 17748(T)).

Iron oxyhydroxide mineralization on microbial extracellular polysaccharides

Energy Technology Data Exchange (ETDEWEB)

Chan, Clara S.; Fakra, Sirine C.; Edwards, David C.; Emerson, David; Banfield, Jillian F.

2010-06-22

Iron biominerals can form in neutral pH microaerophilic environments where microbes both catalyze iron oxidation and create polymers that localize mineral precipitation. In order to classify the microbial polymers that influence FeOOH mineralogy, we studied the organic and mineral components of biominerals using scanning transmission X-ray microscopy (STXM), micro X-ray fluorescence ({mu}XRF) microscopy, and high-resolution transmission electron microscopy (HRTEM). We focused on iron microbial mat samples from a creek and abandoned mine; these samples are dominated by iron oxyhydroxide-coated structures with sheath, stalk, and filament morphologies. In addition, we characterized the mineralized products of an iron-oxidizing, stalk-forming bacterial culture isolated from the mine. In both natural and cultured samples, microbial polymers were found to be acidic polysaccharides with carboxyl functional groups, strongly spatially correlated with iron oxyhydroxide distribution patterns. Organic fibrils collect FeOOH and control its recrystallization, in some cases resulting in oriented crystals with high aspect ratios. The impact of polymers is particularly pronounced as the materials age. Synthesis experiments designed to mimic the biomineralization processes show that the polysaccharide carboxyl groups bind dissolved iron strongly but release it as mineralization proceeds. Our results suggest that carboxyl groups of acidic polysaccharides are produced by different microorganisms to create a wide range of iron oxyhydroxide biomineral structures. The intimate and potentially long-term association controls the crystal growth, phase, and reactivity of iron oxyhydroxide nanoparticles in natural systems.

Live microbial cells adsorb Mg2+ more effectively than lifeless organic matter

Science.gov (United States)

Qiu, Xuan; Yao, Yanchen; Wang, Hongmei; Duan, Yong

2018-03-01

The Mg2+ content is essential in determining different Mg-CaCO3 minerals. It has been demonstrated that both microbes and the organic matter secreted by microbes are capable of allocating Mg2+ and Ca2+ during the formation of Mg-CaCO3, yet detailed scenarios remain unclear. To investigate the mechanism that microbes and microbial organic matter potentially use to mediate the allocation of Mg2+ and Ca2+ in inoculating systems, microbial mats and four marine bacterial strains ( Synechococcus elongatus, Staphylococcus sp., Bacillus sp., and Desulfovibrio vulgaris) were incubated in artificial seawater media with Mg/Ca ratios ranging from 0.5 to 10.0. At the end of the incubation, the morphology of the microbial mats and the elements adsorbed on them were analyzed using scanning electronic microscopy (SEM) and energy diffraction spectra (EDS), respectively. The content of Mg2+ and Ca2+ adsorbed by the extracellular polysaccharide substances (EPS) and cells of the bacterial strains were analyzed with atomic adsorption spectroscopy (AAS). The functional groups on the surface of the cells and EPS of S. elongatus were estimated using automatic potentiometric titration combined with a chemical equilibrium model. The results show that live microbial mats generally adsorb larger amounts of Mg2+ than Ca2+, while this rarely is the case for autoclaved microbial mats. A similar phenomenon was also observed for the bacterial strains. The living cells adsorb more Mg2+ than Ca2+, yet a reversed trend was observed for EPS. The functional group analysis indicates that the cell surface of S. elongatus contains more basic functional groups (87.24%), while the EPS has more acidic and neutral functional groups (83.08%). These features may be responsible for the different adsorption behavior of Mg2+ and Ca2+ by microbial cells and EPS. Our work confirms the differential Mg2+ and Ca2+ mediation by microbial cells and EPS, which may provide insight into the processes that microbes use to

Study of fallout by precipitation around an oil-fired power plant

Energy Technology Data Exchange (ETDEWEB)

Granat, L; Rodhe, H

1973-01-01

An investigation into the distribution of deposition by precipitation around an oil-fired power plant on the west coast of Sweden is presented. The measurements cover seven precipitation events during late fall. The samples have been analyzed for sulfur, pH, alkalinity, and sodium. In most precipitation events an additional deposition (above the regional background level) of sulfur and acid has been identified on the leeward side of the source. Compared with the background values, the observed increase was generally less than about 100 percent. As a long-term average the additional deposition of acid by precipitation, due to the power plant, is estimated to be not larger than 10-15 percent within 15 km of the plant. A comparison with emitted quantities shows that 1-6 percent of the sulfur emittted during the precipitation has been deposited within the first 15 km, corresponding to a travel time of 20-60 min. If the comparison is made using the total emission, including the dry periods, this fraction is only a few per mille.

On the use of high-throughput sequencing for the study of cyanobacterial diversity in Antarctic aquatic mats.

Science.gov (United States)

Pessi, Igor Stelmach; Maalouf, Pedro De Carvalho; Laughinghouse, Haywood Dail; Baurain, Denis; Wilmotte, Annick

2016-06-01

The study of Antarctic cyanobacterial diversity has been mostly limited to morphological identification and traditional molecular techniques. High-throughput sequencing (HTS) allows a much better understanding of microbial distribution in the environment, but its application is hampered by several methodological and analytical challenges. In this work, we explored the use of HTS as a tool for the study of cyanobacterial diversity in Antarctic aquatic mats. Our results highlight the importance of using artificial communities to validate the parameters of the bioinformatics procedure used to analyze natural communities, since pipeline-dependent biases had a strong effect on the observed community structures. Analysis of microbial mats from five Antarctic lakes and an aquatic biofilm from the Sub-Antarctic showed that HTS is a valuable tool for the assessment of cyanobacterial diversity. The majority of the operational taxonomic units retrieved were related to filamentous taxa such as Leptolyngbya and Phormidium, which are common genera in Antarctic lacustrine microbial mats. However, other phylotypes related to different taxa such as Geitlerinema, Pseudanabaena, Synechococcus, Chamaesiphon, Calothrix, and Coleodesmium were also found. Results revealed a much higher diversity than what had been reported using traditional methods and also highlighted remarkable differences between the cyanobacterial communities of the studied lakes. The aquatic biofilm from the Sub-Antarctic had a distinct cyanobacterial community from the Antarctic lakes, which in turn displayed a salinity-dependent community structure at the phylotype level. © 2016 Phycological Society of America.

A Matérn model of the spatial covariance structure of point rain rates

KAUST Repository

Sun, Ying; Bowman, Kenneth P.; Genton, Marc G.; Tokay, Ali

2014-01-01

It is challenging to model a precipitation field due to its intermittent and highly scale-dependent nature. Many models of point rain rates or areal rainfall observations have been proposed and studied for different time scales. Among them, the spectral model based on a stochastic dynamical equation for the instantaneous point rain rate field is attractive, since it naturally leads to a consistent space–time model. In this paper, we note that the spatial covariance structure of the spectral model is equivalent to the well-known Matérn covariance model. Using high-quality rain gauge data, we estimate the parameters of the Matérn model for different time scales and demonstrate that the Matérn model is superior to an exponential model, particularly at short time scales.

A Matérn model of the spatial covariance structure of point rain rates

KAUST Repository

Sun, Ying

2014-07-15

It is challenging to model a precipitation field due to its intermittent and highly scale-dependent nature. Many models of point rain rates or areal rainfall observations have been proposed and studied for different time scales. Among them, the spectral model based on a stochastic dynamical equation for the instantaneous point rain rate field is attractive, since it naturally leads to a consistent space–time model. In this paper, we note that the spatial covariance structure of the spectral model is equivalent to the well-known Matérn covariance model. Using high-quality rain gauge data, we estimate the parameters of the Matérn model for different time scales and demonstrate that the Matérn model is superior to an exponential model, particularly at short time scales.

Electrospinning of microbial polyester for cell culture

Energy Technology Data Exchange (ETDEWEB)

Kwon, Oh Hyeong [Department of Polymer Science and Engineering, Kumoh National Institute of Technology, 1 Yangho-dong, Gumi, Gyeongbuk 730-701 (Korea, Republic of); Lee, Ik Sang [Department of Polymer Science and Engineering, Kumoh National Institute of Technology, 1 Yangho-dong, Gumi, Gyeongbuk 730-701 (Korea, Republic of); Ko, Young-Gwang [Department of Polymer Science and Engineering, Kumoh National Institute of Technology, 1 Yangho-dong, Gumi, Gyeongbuk 730-701 (Korea, Republic of); Meng, Wan [Department of Polymer Science, Kyungpook National University, 1370 Sankyuk-dong, Buk-gu, Daegu 702-701 (Korea, Republic of); Jung, Kyung-Hye [Department of Polymer Science, Kyungpook National University, 1370 Sankyuk-dong, Buk-gu, Daegu 702-701 (Korea, Republic of); Kang, Inn-Kyu [Department of Polymer Science, Kyungpook National University, 1370 Sankyuk-dong, Buk-gu, Daegu 702-701 (Korea, Republic of); Ito, Yoshihiro [Kanagawa Academy of Science and Technology, KSP East 309, Sakado 3-2-1, Takatsu-ku, Kawasaki 213-0012 (Japan)

2007-03-01

Biodegradable and biocompatible poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV), a copolymer of microbial polyester, was fabricated as a nanofibrous mat by electrospinning. The specific surface area and the porosity of electrospun PHBV nanofibrous mat were determined. When the mechanical properties of flat film and electrospun PHBV nanofibrous mats were investigated, both the tensile modulus and strength of electrospun PHBV were less than those of cast PHBV film. However, the elongation ratio of nanofiber mat was higher than that of the cast film. The structure of electrospun nanofibers using PHBV-trifluoroethanol solutions depended on the solution concentrations. When x-ray diffraction patterns of bulk PHBV before and after electrospinning were compared, the crystallinity of PHBV was not significantly affected by the electrospinning process. Chondrocytes adhered and grew on the electrospun PHBV nanofibrous mat better than on the cast PHBV film. Therefore, the electrospun PHBV was considered to be suitable for cell culture.

Sulfur accumulation and atmospherically deposited sulfate in the Lake States.

Science.gov (United States)

Mark B. David; George Z. Gernter; David F. Grigal; Lewis F. Ohmann

1989-01-01

Characterizes the mass of soil sulfur (adjusted for nitrogen), and atmospherically deposited sulfate along an acid precipitation gradient from Minnesota to Michigan. The relationship of these variables, presented graphically through contour mapping, suggests that patterns of atmospheric wet sulfate deposition are reflected in soil sulfur pools.

Environmental behavior and analysis of agricultural sulfur.

Science.gov (United States)

Griffith, Corey M; Woodrow, James E; Seiber, James N

2015-11-01

Sulfur has been widely used for centuries as a staple for pest and disease management in agriculture. Presently, it is the largest-volume pesticide in use worldwide. This review describes the sources and recovery methods for sulfur, its allotropic forms and properties and its agricultural uses, including development and potential advantages of nanosulfur as a fungicide. Chemical and microbial reactivity, interactions in soil and water and analytical methods for determination in environmental samples and foodstuffs, including inexpensive analytical methods for sulfur residues in wine, beer and other food/beverage substrates, will be reviewed. The toxicology of sulfur towards humans and agriculturally important fungi is included, with some restrictions on use to promote safety. The review concludes with areas for which more research is warranted. © 2015 Society of Chemical Industry.

Reefs under Siege—the Rise, Putative Drivers, and Consequences of Benthic Cyanobacterial Mats

Directory of Open Access Journals (Sweden)

Amanda K. Ford

2018-02-01

Full Text Available Benthic cyanobacteria have commonly been a small but integral component of coral reef ecosystems, fulfilling the critical function of introducing bioavailable nitrogen to an inherently oligotrophic environment. Though surveys may have previously neglected benthic cyanobacteria, or grouped them with more conspicuous benthic groups, emerging evidence strongly indicates that they are becoming increasingly prevalent on reefs worldwide. Some species can form mats comprised by a diverse microbial consortium which allows them to exist across a wide range of environmental conditions. This review evaluates the putative driving factors of increasing benthic cyanobacterial mats, including climate change, declining coastal water quality, iron input, and overexploitation of key consumer and ecosystem engineer species. Ongoing global environmental change can increase growth rates and toxin production of physiologically plastic benthic cyanobacterial mats, placing them at a considerable competitive advantage against reef-building corals. Once established, strong ecological feedbacks [e.g., inhibition of coral recruitment, release of dissolved organic carbon (DOC] reinforce reef degradation. The review also highlights previously overlooked implications of mat proliferation, which can extend beyond reef health and affect human health and welfare. Though identifying (opportunistic consumers of mats remains a priority, their perceived low palatability implies that herbivore management alone may be insufficient to control their proliferation and must be accompanied by local measures to improve water quality and watershed management.

Microbial decomposition of dead grassland roots and its influence on the carbon cycle under changing precipitation patterns

Science.gov (United States)

Becerra, C.; Schimel, J.

2013-12-01

Soil is the largest reservoir of organic carbon in terrestrial ecosystems and as such, represents a potential sink for carbon dioxide.The decomposition products of dead roots buried in the soil is a contributor to soil organic carbon. However, changing precipitation patterns may affect its fate by influencing the microbial community responsible for decomposing dead roots. To assess the impact of changing precipitation patterns, we constructed microcosms with grassland soil collected from the UCSB Sedgwick Reserve, an active and long-term research site, and dead roots from greenhouse-grown grass, Bromus diandrus. Microcosms were wetted continuously, every seven days, or every twenty days. Sets of microcosms were periodically deconstructed to assess the soil versus the roots-associated microbial community and its function. Differences in respiration rates of microcosms continuously wetted or wetted every 7 days versus microcosms wetted every 20 days existed for the first 70 days. After which, no differences in respiration rates were seen with microcosms containing roots and the no roots control. Relatedly, after a 70% roots mass loss by day 50, there was no difference in the respiration rate of microcosms containing roots and the no roots control. More than half of the roots mass loss had occurred by 30 days. By the end of the incubation period, the roots mass loss in continuously wet and 7-day wetted microcosms were over 80% compared to 67% for the microcosms wetted every 20 days. Microbial biomass in the soil were constant over time and showed no difference in treatment except with the no roots control during the first half of the incubation period. Hydrolytic enzyme activities (β-1,4-glucosidase; α-1,4-glucosidase; β-1,4-xylosidase; β-1,4-cellobiosidase) on the roots versus the soil attached to the roots were over an order greater and decreased faster with the exception of N-acetyl-glucosaminidase and acid phosphatase. Oxidative enzyme activities (phenol

Talking Mats

DEFF Research Database (Denmark)

2012-01-01

Talking Mats are visualizations in the handy size of a set of cards used to support interviews with people with mental disabilities.......Talking Mats are visualizations in the handy size of a set of cards used to support interviews with people with mental disabilities....

Hot spring microbial community composition, morphology, and carbon fixation: implications for interpreting the ancient rock record

Science.gov (United States)

Schuler, Caleb G.; Havig, Jeff R.; Hamilton, Trinity L.

2017-11-01

Microbial communities in hydrothermal systems exist in a range of macroscopic morphologies including stromatolites, mats, and filaments. The architects of these structures are typically autotrophic, serving as primary producers. Structures attributed to microbial life have been documented in the rock record dating back to the Archean including recent reports of microbially-related structures in terrestrial hot springs that date back as far as 3.5 Ga. Microbial structures exhibit a range of complexity from filaments to more complex mats and stromatolites and the complexity impacts preservation potential. As a result, interpretation of these structures in the rock record relies on isotopic signatures in combination with overall morphology and paleoenvironmental setting. However, the relationships between morphology, microbial community composition, and primary productivity remain poorly constrained. To begin to address this gap, we examined community composition and carbon fixation in filaments, mats, and stromatolites from the Greater Obsidian Pool Area (GOPA) of the Mud Volcano Area, Yellowstone National Park, WY. We targeted morphologies dominated by bacterial phototrophs located in close proximity within the same pool which are exposed to similar geochemistry as well as bacterial mat, algal filament and chemotrophic filaments from nearby springs. Our results indicate i) natural abundance δ13C values of biomass from these features (-11.0 to -24.3 ‰) are similar to those found in the rock record; ii) carbon uptake rates of photoautotrophic communities is greater than chemoautotrophic; iii) oxygenic photosynthesis, anoxygenic photosynthesis, and chemoautotrophy often contribute to carbon fixation within the same morphology; and iv) increasing phototrophic biofilm complexity corresponds to a significant decrease in rates of carbon fixation—filaments had the highest uptake rates whereas carbon fixation by stromatolites was significantly lower. Our data highlight

Hot Spring Microbial Community Composition, Morphology, and Carbon Fixation: Implications for Interpreting the Ancient Rock Record

Directory of Open Access Journals (Sweden)

Caleb G. Schuler

2017-11-01

Full Text Available Microbial communities in hydrothermal systems exist in a range of macroscopic morphologies including stromatolites, mats, and filaments. The architects of these structures are typically autotrophic, serving as primary producers. Structures attributed to microbial life have been documented in the rock record dating back to the Archean including recent reports of microbially-related structures in terrestrial hot springs that date back as far as 3.5 Ga. Microbial structures exhibit a range of complexity from filaments to more complex mats and stromatolites and the complexity impacts preservation potential. As a result, interpretation of these structures in the rock record relies on isotopic signatures in combination with overall morphology and paleoenvironmental setting. However, the relationships between morphology, microbial community composition, and primary productivity remain poorly constrained. To begin to address this gap, we examined community composition and carbon fixation in filaments, mats, and stromatolites from the Greater Obsidian Pool Area (GOPA of the Mud Volcano Area, Yellowstone National Park, WY. We targeted morphologies dominated by bacterial phototrophs located in close proximity within the same pool which are exposed to similar geochemistry as well as bacterial mat, algal filament and chemotrophic filaments from nearby springs. Our results indicate (i natural abundance δ13C values of biomass from these features (−11.0 to −24.3‰ are similar to those found in the rock record; (ii carbon uptake rates of photoautotrophic communities is greater than chemoautotrophic; (iii oxygenic photosynthesis, anoxygenic photosynthesis, and chemoautotrophy often contribute to carbon fixation within the same morphology; and (iv increasing phototrophic biofilm complexity corresponds to a significant decrease in rates of carbon fixation—filaments had the highest uptake rates whereas carbon fixation by stromatolites was significantly lower

Experimental and numerical modeling of sulfur plugging in a carbonate oil reservoir

Energy Technology Data Exchange (ETDEWEB)

Al-Awadhy, F. [ADMA-OPCO, Abudhabi (United Arab Emirates); Kocabas, I.; Abou-Kassem, J.H. [UAE University, Al Ain (United Arab Emirates); Islam, M.R. [Dalhousie University, Halifax, NS (United States)

2005-01-15

Many oil and gas reservoirs in the United Arab Emirates produce large amounts of sour gas, mainly in the form of hydrogen sulfide. In addition to creating problems in the production line, wellbore damage is often reported due to the precipitation of elemental sulfur in the vicinity of the wellbore. While there have been several studies performed on the role of solid deposition in a gas reservoir, the role of sulfur deposition in oil reservoirs has not been investigated. This article presents experimental results along with a comprehensive wellbore model that predicts sulfur precipitation as well as plugging. The experiments were conducted in a core (linear) system. Both analytical and numerical modelings were performed in a linear coordinate system. Data for the numerical model was obtained from both test tube and coreflood experiments. By using a phenomenological model, the wellbore plugging was modeled with an excellent match (with experimental results). The crude oil was de-asphalted prior to conducting the experiment in order to isolate the effect of asphaltene plugging. A series of coreflood tests was carried out to observe sulfur precipitation and plugging in a carbonate rock. Significant plugging was observed and was found to be dependent on flow rate and initial sulfur concentration. This information was used in the phenomenological model and can be incorporated in the wellbore numerical model. (author)

Community structure of filamentous, sheath-building sulfur bacteria, Thioploca spp, off the coast of Chile

DEFF Research Database (Denmark)

Schulz, HN; Jørgensen, BB; Fossing, HA

1996-01-01

of Concepcion was investigated,vith respect to biomass, species distribution, and three-dimensional orientation of the sheaths, Thioploca sheaths and filaments were found across the whole shelf area within the oxygen minimum zone, The maximum wet weight of sheaths, 800 g m(-2), was found at a depth of 90 m......The filamentous sulfur bacteria Thioploca spp, produce dense bacterial mats in the shelf area off the coast of Chile and Peru. The mat consists of common sheaths, shared by many filaments, that reach 5 to 10 cm dean into the sediment, The structure of the Thioploca communities off the Bay...

Oxidation of inorganic sulfur compounds in acidophilic prokaryotes

Energy Technology Data Exchange (ETDEWEB)

Rohwerder, T.; Sand, W. [Universitaet Duisburg-Essen, Biofilm Centre, Aquatic Biotechnology, Duisburg (Germany)

2007-07-15

The oxidation of reduced inorganic sulfur compounds to sulfuric acid is of great importance for biohydrometallurgical technologies as well as the formation of acidic (below pH 3) and often heavy metal-contaminated environments. The use of elemental sulfur as an electron donor is the predominant energy-yielding process in acidic natural sulfur-rich biotopes but also at mining sites containing sulfidic ores. Contrary to its significant role in the global sulfur cycle and its biotechnological importance, the microbial fundamentals of acidophilic sulfur oxidation are only incompletely understood. Besides giving an overview of sulfur-oxidizing acidophiles, this review describes the so far known enzymatic reactions related to elemental sulfur oxidation in acidophilic bacteria and archaea. Although generally similar reactions are employed in both prokaryotic groups, the stoichiometry of the key enzymes is different. Bacteria oxidize elemental sulfur by a sulfur dioxygenase to sulfite whereas in archaea, a sulfur oxygenase reductase is used forming equal amounts of sulfide and sulfite. In both cases, the activation mechanism of elemental sulfur is not known but highly reactive linear sulfur forms are assumed to be the actual substrate. Inhibition as well as promotion of these biochemical steps is highly relevant in bioleaching operations. An efficient oxidation can prevent the formation of passivating sulfur layers. In other cases, a specific inhibition of sulfur biooxidation may be beneficial for reducing cooling and neutralization costs. In conclusion, the demand for a better knowledge of the biochemistry of sulfur-oxidizing acidophiles is underlined. (Abstract Copyright [2007], Wiley Periodicals, Inc.)

Sulfur bacteria in wastewater stabilization ponds periodically affected by the 'red-water' phenomenon

NARCIS (Netherlands)

Belila, A.; Abbas, B.; Fazaa, I.; Saidi, N.; Snoussi, M.; Hassen, A.; Muyzer, G.

2013-01-01

Several wastewater stabilization ponds (WSP) in Tunisia suffer periodically from the ‘red-water’ phenomenon due to blooming of purple sulfur bacteria, indicating that sulfur cycle is one of the main element cycles in these ponds. In this study, we investigated the microbial diversity of the El

Microbial Iron Oxidation in the Arctic Tundra and Its Implications for Biogeochemical Cycling

Science.gov (United States)

Scott, Jarrod J.; Benes, Joshua; Bowden, William B.

2015-01-01

The role that neutrophilic iron-oxidizing bacteria play in the Arctic tundra is unknown. This study surveyed chemosynthetic iron-oxidizing communities at the North Slope of Alaska near Toolik Field Station (TFS) at Toolik Lake (lat 68.63, long −149.60). Microbial iron mats were common in submerged habitats with stationary or slowly flowing water, and their greatest areal extent is in coating plant stems and sediments in wet sedge meadows. Some Fe-oxidizing bacteria (FeOB) produce easily recognized sheath or stalk morphotypes that were present and dominant in all the mats we observed. The cool water temperatures (9 to 11°C) and reduced pH (5.0 to 6.6) at all sites kinetically favor microbial iron oxidation. A microbial survey of five sites based on 16S rRNA genes found a predominance of Proteobacteria, with Betaproteobacteria and members of the family Comamonadaceae being the most prevalent operational taxonomic units (OTUs). In relative abundance, clades of lithotrophic FeOB composed 5 to 10% of the communities. OTUs related to cyanobacteria and chloroplasts accounted for 3 to 25% of the communities. Oxygen profiles showed evidence for oxygenic photosynthesis at the surface of some mats, indicating the coexistence of photosynthetic and FeOB populations. The relative abundance of OTUs belonging to putative Fe-reducing bacteria (FeRB) averaged around 11% in the sampled iron mats. Mats incubated anaerobically with 10 mM acetate rapidly initiated Fe reduction, indicating that active iron cycling is likely. The prevalence of iron mats on the tundra might impact the carbon cycle through lithoautotrophic chemosynthesis, anaerobic respiration of organic carbon coupled to iron reduction, and the suppression of methanogenesis, and it potentially influences phosphorus dynamics through the adsorption of phosphorus to iron oxides. PMID:26386054

Participation of the Pennsylvania State University in the MAP3S precipitation chemistry network

International Nuclear Information System (INIS)

Lamb, D.; de Pena, R.G.

1991-04-01

The Meteorology Department of the Pennsylvania State University collected precipitation in central Pennsylvania for more than 14 years on behalf of the Multistate Atmospheric Power Production Pollution Study (MAP3S). The MAP3S protocol, based on the sampling of precipitation from individual meteorological events over a long period of time, has allowed both for the development of a chemical climatology of precipitation in the eastern region of the United States and for a vastly improved understanding of the atmospheric processes responsible for wet acidic deposition. The precipitation chemistry data from the Penn State MAP3S site provide evidence of links to the anthropogenic emissions of sulfur dioxide and oxidant precursors. There is now little doubt that the free acidity in the precipitation of the region is due to the presence of unneutralized sulfate in the aqueous phase. In the absence of significant sources of this sulfur species and in view of supplemental enrichment studies, it is concluded that the sulfate enters cloud and rain water primarily through the aqueous-phase oxidation of sulfur dioxide emitted into the air within the geographical region of deposition. Within the source region the local abundances of sulfur dioxide often exceed those of the oxidants, so the depositions of sulfate and free acidity tend to be modulated by the availability of the strong oxidants. As a consequence, the deposition of sulfate exhibits a very strong seasonal dependence and little response to changes in the emissions of sulfur dioxide

Dominance of sulfur-fueled iron oxide reduction in low-sulfate freshwater sediments.

Science.gov (United States)

Hansel, Colleen M; Lentini, Chris J; Tang, Yuanzhi; Johnston, David T; Wankel, Scott D; Jardine, Philip M

2015-11-01

A central tenant in microbial biogeochemistry is that microbial metabolisms follow a predictable sequence of terminal electron acceptors based on the energetic yield for the reaction. It is thereby oftentimes assumed that microbial respiration of ferric iron outcompetes sulfate in all but high-sulfate systems, and thus sulfide has little influence on freshwater or terrestrial iron cycling. Observations of sulfate reduction in low-sulfate environments have been attributed to the presumed presence of highly crystalline iron oxides allowing sulfate reduction to be more energetically favored. Here we identified the iron-reducing processes under low-sulfate conditions within columns containing freshwater sediments amended with structurally diverse iron oxides and fermentation products that fuel anaerobic respiration. We show that despite low sulfate concentrations and regardless of iron oxide substrate (ferrihydrite, Al-ferrihydrite, goethite, hematite), sulfidization was a dominant pathway in iron reduction. This process was mediated by (re)cycling of sulfur upon reaction of sulfide and iron oxides to support continued sulfur-based respiration--a cryptic sulfur cycle involving generation and consumption of sulfur intermediates. Although canonical iron respiration was not observed in the sediments amended with the more crystalline iron oxides, iron respiration did become dominant in the presence of ferrihydrite once sulfate was consumed. Thus, despite more favorable energetics, ferrihydrite reduction did not precede sulfate reduction and instead an inverse redox zonation was observed. These findings indicate that sulfur (re)cycling is a dominant force in iron cycling even in low-sulfate systems and in a manner difficult to predict using the classical thermodynamic ladder.

The precipitation behavior of titanium carbide on the surface of SUS 321 stainless steel

International Nuclear Information System (INIS)

Yoshihara, Kazuhiro; Nii, Kazuyoshi

1982-01-01

The surface composition of SUS 321 stainless steel at high temperatures was observed in vacuum with Auger electron spectroscopy. The precipitation of titanium carbide was found on the surface of SUS 321. The thickness of precipitated titanium carbide layer increased in proportion to the square root of annealing time and became about 0.05 μm after heated at 1100 K for 432 ks. The precipitated titanium carbide was not replaced by the most surface active element sulfur, and remained stable on the surface. The precipitated layer, however, was not even and had many holes about 1 μm in diameter. The bottom of a hole was SUS 321, on which phosphorus, oxygen and sulfur segregated. As the annealing time was prolonged, these segregants were replaced one by one in the order of the surface activity, and finally the most surface active element, sulfur, remained on the bottom of the hole. Moreover, sulfur diffused over the outside of the hole. The precipitation of titanium carbide on the surface occurred according to the following processes: (1) The titanium and carbon which had been dissolved in the bulk diffused onto the surface of the stainless steel. (2) The titanium carbide which had been precipitated in the bulk dissolved because the concentration of titanum and carbon fell under their solubility limits in the bulk. (3) The titanium and carbon diffused onto the surface which was exposed to vacuum. (4) The titanium and carbon recombined into titanium carbide and precipitated on the surface. The growth rate of the thickness of the precipitated layer was controlled by the diffusion of titanium and carbon in the precipitated titanium carbide. (J.P.N.)

Rapid reactivation of cyanobacterial photosynthesis and migration upon rehydration of desiccated marine microbial mats

NARCIS (Netherlands)

Chennu, Arjun; Grinham, Alistair; Polerecky, Lubos; de Beer, Dirk; Al-Najjar, Mohammad A.A.

2015-01-01

Desiccated cyanobacterial mats are the dominant biological feature in the Earth's arid zones. While the response of desiccated cyanobacteria to rehydration is well-documented for terrestrial systems, information about the response in marine systems is lacking. We used high temporal resolution

Microbial community responses to 17 years of altered precipitation are seasonally dependent and coupled to co-varying effects of water content on vegetation and soil C

Science.gov (United States)

Sorensen, Patrick O.; Germino, Matthew J.; Feris, Kevin P.

2013-01-01

Precipitation amount and seasonal timing determine the duration and distribution of water available for plant and microbial activity in the cold desert sagebrush steppe. In this study, we sought to determine if a sustained shift in the amount and timing of precipitation would affect soil microbial diversity, community composition, and soil carbon (C) storage. Field plots were irrigated (+200 mm) during the dormant or growing-season for 17 years. Microbial community responses were assessed over the course of a year at two depths (15–20 cm, 95–100 cm) by terminal restriction fragment length polymorphism (T-RFLP), along with co-occurring changes in plant cover and edaphic properties. Bacterial richness, Shannon Weaver diversity, and composition in shallow soils (15–20 cm) as well as evenness in deep soils (95–100 cm) differed across irrigation treatments during July. Irrigation timing affected fungal community diversity and community composition during the dormant season and most strongly in deep soils (95–100 cm). Dormant-season irrigation increased the ratio of shrubs to forbs and reduced soil C in shallow soils by 16% relative to ambient conditions. It is unclear whether or not soil C will continue to decline with continued treatment application or if microbial adaptation could mitigate sustained soil C losses. Future changes in precipitation timing will affect soil microbes in a seasonally dependent manner and be coupled to co-varying effects of water content on vegetation and soil C.

Augmenting Sulfur Metabolism and Herbivore Defense in Arabidopsis by Bacterial Volatile Signaling

Directory of Open Access Journals (Sweden)

Mina eAziz

2016-04-01

Full Text Available Sulfur is an element necessary for the life cycle of higher plants. Its assimilation and reduction into essential biomolecules are pivotal factors determining a plant’s growth and vigor as well as resistance to environmental stress. While certain soil microbes can enhance ion solubility via chelating agents or oxidation, microbial regulation of plant-sulfur assimilation has not been reported. With an increasing understanding that soil microbes can activate growth and stress tolerance in plants via chemical signaling, the question arises as to whether such beneficial bacteria also regulate sulfur assimilation. Here we report a previously unidentified mechanism by which the growth-promoting rhizobacterium Bacillus amyloliquefaciens (GB03 transcriptionally activates genes responsible for sulfur assimilation, increasing sulfur uptake and accumulation in Arabidopsis. Transcripts encoding for sulfur-rich aliphatic and indolic glucosinolates are also GB03 induced. As a result, GB03-exposed plants with elevated glucosinolates exhibit greater protection against the generalist herbivore, Spodoptera exigua (beet armyworm. In contrast, a previously-characterized glucosinolate mutant compromised in the production of both aliphatic and indolic glucosinolates is also compromised in terms of GB03-induced protection against insect herbivory. As with in vitro studies, soil-grown plants show enhanced glucosinolate accumulation and protection against beet armyworm feeding with GB03 exposure. These results demonstrate the potential of microbes to enhance plant sulfur assimilation and emphasize the sophisticated integration of microbial signaling in plant defense.

Microbial involvement in the formation of Cambrian sea-floor silica-iron oxide deposits, Australia

Science.gov (United States)

Duhig, Nathan C.; Davidson, Garry J.; Stolz, Joe

1992-06-01

The Cambrian-Ordovician Mount Windsor volcanic belt in northern Australia is host to stratiform lenses of massive ferruginous chert that are spatially associated with volcanogenic massive sulfide occurrences, in particular the Thalanga zinc-lead-copper-silver deposit. The rocks are composed principally of Fe2O3 and SiO2, with very low concentrations of alkalic elements, and lithogenous elements such as Al, Zr, and Ti; they are interpreted as nearly pure chemical sediments. Textural evidence is documented of the integral role of filamentous bacteria (and/or fungi) in depositing iron from hydrothermal fluids, and of the inorganic precipitation of silica-iron-oxyhydroxide gels that subsequently matured to subcrystalline and crystalline silica forms. At least three distinct iron-accumulating microbial forms are distinguished: networks of septate filaments, nonseptate filament networks, and extremely coarse branching filaments that do not reconnect. Values for δ34S in disseminated pyrite are up to 50‰ lighter than those of contemporaneous Cambrian seawater, suggesting postdepositional colonization of some ironstones by sulfur-reducing bacteria. The site not only preserves the textural interplay of biological and inorganic depositional processes in exhalites, but also extends the oldest known instance of microbial mediation in vent-proximal hydrothermal iron precipitation to at least 500 Ma.

Influences of dissolved oxygen concentration on biocathodic microbial communities in microbial fuel cells.

Science.gov (United States)

Rago, Laura; Cristiani, Pierangela; Villa, Federica; Zecchin, Sarah; Colombo, Alessandra; Cavalca, Lucia; Schievano, Andrea

2017-08-01

Dissolved oxygen (DO) at cathodic interface is a critical factor influencing microbial fuel cells (MFC) performance. In this work, three MFCs were operated with cathode under different DO conditions: i) air-breathing (A-MFC); ii) water-submerged (W-MFC) and iii) assisted by photosynthetic microorganisms (P-MFC). A plateau of maximum current was reached at 1.06±0.03mA, 1.48±0.06mA and 1.66±0.04mA, increasing respectively for W-MFC, P-MFC and A-MFC. Electrochemical and microbiological tools (Illumina sequencing, confocal microscopy and biofilm cryosectioning) were used to explore anodic and cathodic biofilm in each MFC type. In all cases, biocathodes improved oxygen reduction reaction (ORR) as compared to abiotic condition and A-MFC was the best performing system. Photosynthetic cultures in the cathodic chamber supplied high DO level, up to 16mg O2 L -1 , which sustained aerobic microbial community in P-MFC biocathode. Halomonas, Pseudomonas and other microaerophilic genera reached >50% of the total OTUs. The presence of sulfur reducing bacteria (Desulfuromonas) and purple non-sulfur bacteria in A-MFC biocathode suggested that the recirculation of sulfur compounds could shuttle electrons to sustain the reduction of oxygen as final electron acceptor. The low DO concentration limited the cathode in W-MFC. A model of two different possible microbial mechanisms is proposed which can drive predominantly cathodic ORR. Copyright © 2017 Elsevier B.V. All rights reserved.

Biotransformation and removal of sulfur from dibenzothiophene using improved bio catalytic methods

International Nuclear Information System (INIS)

La Rotta, C. E; Mora, A.L; Madero, A; Mogollon, L.I

1998-01-01

Three methods for the removal of sulfur from dibenzothiophene were evaluated using bio catalytic processes. The methods were a microbial, an enzymatic and a combined one that involves a previous enzymatic oxidation followed by microbial degradation. The bioconversion was evaluated over the molecular dibenzothiophene model, obtaining higher bioconversion percentages through the combined method. The microorganisms used in this study correspond to several Colombian indigenous strains isolated by direct methods from natural sources, and using a standard strain as positive control. All strains have shown sulfur removal capacity, and organic solvent tolerance. The enzyme used was a hemo protein with peroxidase activity, Cytochrome C, obtained from equine heart

Sulfur bacteria in wastewater stabilization ponds periodically affected by the ‘red-water’ phenomenon

NARCIS (Netherlands)

Belila, A.; Abbas, B.; Fazaa, I.; Saidi, N.; Snoussi, M.; Hassen, A.; Muyzer, G.

2012-01-01

Several wastewater stabilization ponds (WSP) in Tunisia suffer periodically from the ‘red-water’ phenomenon due to blooming of purple sulfur bacteria, indicating that sulfur cycle is one of the main element cycles in these ponds. In this study, we investigated the microbial diversity of the El

Microbially Induced Calcite Precipitation (MICP) - A Technology for Managing Flow and Transport in Porous and Fractured Media

Science.gov (United States)

Phillips, A. J.; Hiebert, R.; Kirksey, J.; Lauchnor, E. G.; Rothman, A.; Spangler, L.; Esposito, R.; Gerlach, R.; Cunningham, A. B.

2014-12-01

Certain microorganisms e.g., Sporosarcina pasteurii contribute enzymes that catalyze reactions which in the presence of calcium, can create saturation conditions favorable for calcium carbonate precipitation (microbially-induced calcium carbonate precipitation (MICP)). MICP can be used for a number of engineering applications including securing geologic storage of CO2 or other fluids by sealing fractures, improving wellbore integrity, and stabilizing fractured and unstable porous media. MICP treatment has the advantage of the use of small microorganisms, ~2μm, suggesting applicability to treatment of small aperture fractures not accessible to traditional treatments, for example the use of fine cement. The promotion of MICP in the subsurface is a complex reactive transport problem coupling microbial, abiotic (geochemical), geomechanical and hydrodynamic processes. In the laboratory, MICP has been demonstrated to cement together heavily fractured shale and reduce the permeability of fractures in shale and sandstone cores up to five orders of magnitude under both ambient and subsurface relevant pressure conditions (Figure 1). Most recently, a MICP fracture treatment field study was performed at a well at the Southern Company Gorgas Steam Generation Plant (Alabama) (Figure 1). The Fayetteville Sandstone at approximately 1120' below ground surface was hydraulically fractured prior to MICP treatment. After 4 days of injection of 24 calcium pulses and 6 microbial inoculations, injectivity of brine into the formation was significantly reduced. The experiment also resulted in a reduction in pressure decay which is a measure of improved wellbore integrity. These promising results suggest the potential for MICP treatment to seal fractured pathways at the field scale to improve the long-term security of geologically-stored carbon dioxide or prevent leakage of shale gas or hydraulic fracturing fluids into functional overlying aquifers, reducing environmental impacts.

Radioactive mineral spring precipitates, their analytical and statistical data and the uranium connection

Science.gov (United States)

Cadigan, R.A.; Felmlee, J.K.

1982-01-01

Major radioactive mineral springs are probably related to deep zones of active metamorphism in areas of orogenic tectonism. The most common precipitate is travertine, a chemically precipitated rock composed chiefly of calcium carbonate, but also containing other minerals. The mineral springs are surface manifestations of hydrothermal conduit systems which extend downward many kilometers to hot source rocks. Conduits are kept open by fluid pressure exerted by carbon dioxide-charged waters rising to the surface propelled by heat and gas (CO2 and steam) pressure. On reaching the surface, the dissolved carbon dioxide is released from solution, and calcium carbonate is precipitated. Springs also contain sulfur species (for example, H2S and HS-), and radon, helium and methane as entrained or dissolved gases. The HS- ion can react to form hydrogen sulfide gas, sulfate salts, and native sulfur. Chemical salts and native sulfur precipitate at the surface. The sulfur may partly oxidize to produce detectable sulfur dioxide gas. Radioactivity is due to the presence of radium-226, radon-222, radium-228, and radon-220, and other daughter products of uranium-238 and thorium-232. Uranium and thorium are not present in economically significant amounts in most radioactive spring precipitates. Most radium is coprecipitated at the surface with barite. Barite (barium sulfate) forms in the barium-containing spring water as a product of the oxidation of sulfur species to sulfate ions. The relatively insoluble barium sulfate precipitates and removes much of the radium from solution. Radium coprecipitates to a lesser extent with manganese-barium- and iron-oxy hydroxides. R-mode factor analysis of abundances of elements suggests that 65 percent of the variance of the different elements is affected by seven factors interpreted as follows: (1) Silica and silicate contamination and precipitation; (2) Carbonate travertine precipitation; (3) Radium coprecipitation; (4) Evaporite precipitation

Relationship between corrosion and the biological sulfur cycle: A review

Energy Technology Data Exchange (ETDEWEB)

Little, B.J.; Ray, R.I.; Pope, R.K.

2000-04-01

Sulfur and sulfur compounds can produce pitting, crevice corrosion, dealloying, stress corrosion cracking, and stress-oriented hydrogen-induced cracking of susceptible metals and alloys. Even though the metabolic by-products of the biological sulfur cycle are extremely corrosive, there are no correlations between numbers and types of sulfur-related organisms and the probability or rate of corrosion, Determination of specific mechanisms for corrosion caused by microbiologically mediated oxidation and reduction of sulfur and sulfur compounds is complicated by the variety of potential metabolic-energy sources and by-products; the coexistence of reduced and oxidized sulfur species; competing reactions with inorganic and organic compounds; and the versatility and adaptability of microorganisms in biofilms. The microbial ecology of sulfur-rich environments is poorly understood because of the association of aerobes and anaerobes and the mutualism or succession of heterotrophs to autotrophs. The physical scale over which the sulfur cycle influences corrosion varies with the environment. The complete sulfur cycle of oxidation and reduction reactions can take place in macroenvironments, including sewers and polluted harbors, or within the microenvironment of biofilms. In this review, reactions of sulfur and sulfur compounds resulting in corrosion were discussed in the context of environmental processes important to corrosion.

Investigating the legacy effect of drought on microbial responses to drying and rewetting along a Texan precipitation gradient

Science.gov (United States)

Hicks, Lettice; Leizeaga, Ainara; Hawkes, Christine; Rousk, Johannes

2017-04-01

Hydrological regimes will intensify due to climate change, thus increasing the duration and intensity of drought and rainfall events. Rewetting of dry soil is known to stimulate dramatic CO2 releases. A clear understanding of the mechanisms that determine the dynamics of CO2 loss upon rewetting is therefore required to characterise ecosystem C-budgets and predict responses to climate change. Laboratory studies have identified two distinct responses upon rewetting; bacterial growth either increases linearly immediately, with maximal respiration also occurring immediately and decreasing exponentially with time ("Type 1"), or bacterial growth increases exponentially after a period of near-zero growth, with a sustained period of elevated respiration, sometimes followed by a secondary increase in respiration coinciding with the onset of bacterial growth ("Type 2"). A shift from a Type 1 to a Type 2 response has been observed with increasing duration and intensity of drying prior to rewetting. The size of the surviving microbial community after drying, relative to resources available after rewetting, is suggested to dictate whether a Type 1 or 2 response occurs, with more 'harsh' (i.e. longer or more severe) drying reducing microbial biomass such that carbon available upon rewetting is sufficient to support exponential growth (leading to Type 2 response). However, this is yet to be tested in intact ecosystems. We investigated the legacy of drought on microbial responses to drying and rewetting using grassland soils from a natural precipitation gradient in Texas. Mean annual precipitation spanned a 500 mm range (400-900 mm year-1) across the 400 km gradient, while mean annual temperature was constant. Soil properties (pH, SOM) did not vary systematically across the gradient, with differences reflecting land-use history rather than rainfall. Air dried soils from 18 sites were rewetted to 50 % water holding capacity with bacterial growth, fungal growth and respiration

Development of mats composed by TiO{sub 2} and carbon dual electrospun nanofibers: A possible anode material in microbial fuel cells

Energy Technology Data Exchange (ETDEWEB)

Garcia-Gomez, Nora A.; Balderas-Renteria, Isaias [Universidad Autónoma de Nuevo León, Facultad de Ciencias Químicas, Av. Universidad S/N Cd. Universitaria San Nicolás de los Garza Nuevo León, C.P. 66451 México (Mexico); Garcia-Gutierrez, Domingo I. [Universidad Autónoma de Nuevo León, Facultad de Ingeniería Mecánica y Eléctrica, Av. Universidad S/N Cd. Universitaria San Nicolás de los Garza Nuevo León, C.P. 66451 México (Mexico); Universidad Autónoma de Nuevo León, Centro de Innovación, Investigación y Desarrollo en Ingeniería y Tecnología, PIIT, Av. Universidad S/N Cd. Universitaria San Nicolás de los Garza Nuevo León, C.P. 66451 México (Mexico); Mosqueda, Hugo A. [Universidad Autónoma de Nuevo León, Facultad de Ingeniería Mecánica y Eléctrica, Av. Universidad S/N Cd. Universitaria San Nicolás de los Garza Nuevo León, C.P. 66451 México (Mexico); and others

2015-03-15

Highlights: • Dual nanofiber of TiO{sub 2}–C/C showed excellent electrical performance. • TiO{sub 2}–C/C dual nanofiber can host a dense biofilm of electroactivated Escherichia coli. • Dual nanofibers can be applied as anode to obtain electricity in microbial fuel cells. - Abstract: A new material based on TiO{sub 2(rutile)}–C{sub (semi-graphitic)}/C{sub (semi-graphitic)} dual nanofiber mats is presented, whose composition and synthesis methodology are fundamental factors for the development of exoelectrogenic biofilms on its surface. Therefore, this material shows the required characteristics for possible applications in the bioconversion process of an organic substrate to electricity in a microbial fuel cell. Chronoamperometry, cyclic voltammetry (CV), electrochemical impedance spectroscopy (EIS), and electrical conductivity analyses showed excellent electrical performance of the material for the application intended; a resistance as low as 3.149 Ω was able to be measured on this material. Furthermore, scanning electron microscopy (SEM) and transmission electron microscopy (TEM) studies confirmed the morphology sought on the material for the application intended, dual nanofibres TiO{sub 2(rutile)}–C{sub (semi-graphitic)}/C{sub (semi-graphitic)} with a side by side configuration. The difference in composition of the fibers forming the dual nanofibers was clearly observed and confirmed by energy dispersive X-ray spectroscopy (EDXS), and their crystal structure was evident in the results obtained from selected area electron diffraction (SAED) studies. This nanostructured material presented a high surface area and is biocompatible, given that it can host a dense biofilm of electroactivated Escherichia coli. In this study, the maximum current density obtained in a half microbial fuel cell was 8 A/m{sup 2} (0.8 mA/cm{sup 2})

Biological perchlorate reduction in packed bed reactors using elemental sulfur.

Science.gov (United States)

Sahu, Ashish K; Conneely, Teresa; Nüsslein, Klaus R; Ergas, Sarina J

2009-06-15

Sulfur-utilizing perchlorate (ClO4-)-reducing bacteria were enriched from a denitrifying wastewater seed with elemental sulfur (S0) as an electron donor. The enrichment was composed of a diverse microbial community, with the majority identified as members of the phylum Proteobacteria. Cultures were inoculated into bench-scale packed bed reactors (PBR) with S0 and crushed oyster shell packing media. High ClO4-concentrations (5-8 mg/L) were reduced to PBR performance decreased when effluent recirculation was applied or when smaller S0 particle sizes were used, indicating that mass transfer of ClO4- to the attached biofilm was not the limiting mechanism in this process, and that biofilm acclimation and growth were key factors in overall reactor performance. The presence of nitrate (6.5 mg N/L) inhibited ClO4- reduction. The microbial community composition was found to change with ClO4- availability from a majority of Beta-Proteobacteria near the influent end of the reactor to primarily sulfur-oxidizing bacteria near the effluent end of the reactor.

Sulfur metabolism in the extreme acidophile Acidithiobacillus caldus

Directory of Open Access Journals (Sweden)

Stefanie eMangold

2011-02-01

Full Text Available Given the challenges to life at low pH, an analysis of inorganic sulfur compound oxidation was initiated in the chemolithoautotrophic extremophile Acidithiobacillus caldus. A. caldus is able to metabolize elemental sulfur and a broad range of inorganic sulfur compounds. It has been implicated in the production of environmentally damaging acidic solutions as well as participating in industrial bioleaching operations where it forms part of microbial consortia used for the recovery of metal ions. Based upon the recently published A. caldus type strain genome sequence, a bioinformatic reconstruction of elemental sulfur and inorganic sulfur compound metabolism predicted genes included: sulfide quinone reductase (sqr, tetrathionate hydrolase (tth, two sox gene clusters potentially involved in thiosulfate oxidation (soxABXYZ, sulfur oxygenase reductase (sor, and various electron transport components. RNA transcript profiles by semi-quantitative reverse transcription PCR suggested up-regulation of sox genes in the presence of tetrathionate. Extensive gel based proteomic comparisons of total soluble and membrane enriched protein fractions during growth on elemental sulfur and tetrathionate identified differential protein levels from the two Sox clusters as well as several chaperone and stress proteins up-regulated in the presence of elemental sulfur. Proteomics results also suggested the involvement of heterodisulfide reductase (HdrABC in A. caldus inorganic sulfur compound metabolism. A putative new function of Hdr in acidophiles is discussed. Additional proteomic analysis evaluated protein expression differences between cells grown attached to solid, elemental sulfur versus planktonic cells. This study has provided insights into sulfur metabolism of this acidophilic chemolithotroph and gene expression during attachment to solid elemental sulfur.

Lipid and Phylogenetic Analysis of a Gypsum-hosted Endoevaporitic Microbial Community

Science.gov (United States)

Turk, K. A.; Jahnke, L. L.; Green, S. J.; Kubo, M. D.; Vogel, M. B.; Des Marais, D. J.

2007-12-01

Gypsum evaporites host diverse, productive and volumetrically significant microbial communities and are relevant modern-day analogs to both Precambrian sabkha deposits and, potentially, Martian evaporites. Extensive evaporites form in subaqueous environments of high salinity ponds (>150 permil) maintained by the Exportadora de Sal, S. A. (ESSA) in Guerrero Negro, B.C.S., Mexico. A gypsarenite (reworked clastic gypsum) crust found along the southeast margin of ESSA's Pond 9 was collected in February 2004 and each vibrantly colored layer in the top centimeter was sampled. Extant microbial communities from each layer were characterized using complementary culture-independent molecular techniques, lipid biomarker analysis, and compound specific isotopic analysis. Coupling molecular analysis with lipid biomarker analysis revealed that oxygenic photosynthetic organisms dominate the surface layers (top 3 mm). Polar lipids from the surface layers consisted predominantly of glycolipids, which are characteristic of algae, cyanobacteria and green anoxygenic photosynthetic bacteria. Consistent with prior analyses of gypsum evaporites, 16S rRNA gene clone libraries indicate that cyanobacterial populations belong primarily to the genus Cyanothece. The bacterial community below the surface layers is more diverse and dominated by anaerobic organisms. Phototrophic purple sulfur bacteria, sulfate-reducing bacteria (SRB), and Bacteroidetes were particularly abundant. The relative abundances of SRB increased with depth; Desulfobacteraceae clones were distributed throughout the crust, but not at the surface, while Desulfovibrionaceae clones were found predominantly in the deepest layers. These molecular results are consistent with fatty acid biomarker analysis. δ13C values of major lipid classes in the crust and sediment range from 14 to 36‰, which is considerably lower than corresponding values for benthic Microcoleus-dominated cyanobacterial mats found at lower salinities at ESSA

MatLab Script and Functional Programming

Science.gov (United States)

Shaykhian, Gholam Ali

2007-01-01

MatLab Script and Functional Programming: MatLab is one of the most widely used very high level programming languages for scientific and engineering computations. It is very user-friendly and needs practically no formal programming knowledge. Presented here are MatLab programming aspects and not just the MatLab commands for scientists and engineers who do not have formal programming training and also have no significant time to spare for learning programming to solve their real world problems. Specifically provided are programs for visualization. The MatLab seminar covers the functional and script programming aspect of MatLab language. Specific expectations are: a) Recognize MatLab commands, script and function. b) Create, and run a MatLab function. c) Read, recognize, and describe MatLab syntax. d) Recognize decisions, loops and matrix operators. e) Evaluate scope among multiple files, and multiple functions within a file. f) Declare, define and use scalar variables, vectors and matrices.

Insights into the Processing of Carbon by Early Microbial Ecosystems

Science.gov (United States)

DesMarais, D.; Bebout, B.; Carpenter, S.; Discipulo, S.; Londry, K.; Habicht, K.; Turk, K.

2003-01-01

Interactions between Earth and the biosphere that were crucial for early biological evolution also influenced substantially the processes that circulate C between its reservoirs in the atmosphere, ocean, crust and mantle. The C-13 C-12 values of crustal carbonates and organics have recorded changes both in biological discrimination and in the relative rates of burial of organics and carbonates. A full interpretation of these patterns needs further isotopic studies of microbial ecosystems and individual anaerobes. Thus we measured carbon isotope discrimination during autotrophic and heterotrophic growth of pure cultures of sulfate-reducing bacteria and archaea (SRB and SRA). Discrimination during CO2 assimilation is significantly larger than during heterotrophic growth on lactate or acetate. SRB grown lithoautotrophically consumed less than 3% of available CO2 and exhibited substantial discrimination, as follows: Desulfobacterium autotrophicum (alpha 1.0100 to 1.0123), Desulfobacter hydrogenophilus (alpha = 0.0138), and Desulfotomuculum acetoxidans (alpha = 1.0310). Mixotrophic growth of Desulfovibrio desulfuricans on acetate and CO2 resulted in biomass with delta C-13 composition intermediate to that of the substrates. We have recently extended these experiments to include the thermophilic SRA Archeoglobus spp. Ecological forces also influence isotopic discrimination. Accordingly, we quantified the flow of C and other constituents in modern marine cyanobacterial mats, whose ancestry extends back billions of years. Such ecosystem processes shaped the biosignatures that entered sediments and atmospheres. At Guerrero Negro, BCS, Mexico, we examined mats dominated by Microcoleus (subtidal) and Lyngbya (intertidal to supratidal) cyanobacteria. During 24 hour cycles, we observed the exchange of O2 and dissolved inorganic C (DIC) between mats and the overlying water. Microcoleus mats assimilated near-equal amounts of DIC during the day as they released at night, but

Foam-mat drying technology: A review.

Science.gov (United States)

Hardy, Z; Jideani, V A

2017-08-13

This article reviews various aspects of foam-mat drying such as foam-mat drying processing technique, main additives used for foam-mat drying, foam-mat drying of liquid and solid foods, quality characteristics of foam-mat dried foods, and economic and technical benefits for employing foam-mat drying. Foam-mat drying process is an alternative method that allows the removal of water from liquid materials and pureed materials. In this drying process, a liquid material is converted into foam that is stable by being whipped after adding an edible foaming agent. The stable foam is then spread out in sheet or mat and dried by using hot air (40-90°C) at atmospheric pressure. Methyl cellulose (0.25-2%), egg white (3-20%), maltodextrin (0.5-05%), and gum Arabic (2-9%) are the commonly utilized additives for the foam-mat drying process at the given range, either combined together for their effectiveness or individual effect. The foam-mat drying process is suitable for heat sensitive, viscous, and sticky products that cannot be dried using other forms of drying methods such as spray drying because of the state of product. More interest has developed for foam-mat drying because of the simplicity, cost effectiveness, high speed drying, and improved product quality it provides.

Microbially Induced Precipitation of Gold(0) Nanoparticles.

Science.gov (United States)

Roh, Yu; Kang, Serku; Park, Bitna; Kim, Yumi

2015-01-01

The objectives of this study were to synthesize gold nanoparticles by biomineralization using metal-reducing bacteria and to characterize their mineralogical properties. The metal-reducing bacteria were able to reduce Au(III) to Au(0) with organic fatty acids as electron donors, as indicated by the color change of the culture solution from colorless gold ions to black precipitates at 25 degrees C. XRD, SEM- and TEM-EDS analyses of the precipitates showed that Au(0) was precipitated and formed at either the cell membrane or extracellularly. The Au(0) nanoparticles were about 200 nm in size and ball-shaped. Biomineralization for elemental Au(0) nanoparticle synthesis may be useful for the recovery of natural gold in natural environments.

Metatranscriptomic analysis of a high-sulfide aquatic spring reveals insights into sulfur cycling and unexpected aerobic metabolism

Directory of Open Access Journals (Sweden)

Anne M. Spain

2015-09-01

Full Text Available Zodletone spring is a sulfide-rich spring in southwestern Oklahoma characterized by shallow, microoxic, light-exposed spring water overlaying anoxic sediments. Previously, culture-independent 16S rRNA gene based diversity surveys have revealed that Zodletone spring source sediments harbor a highly diverse microbial community, with multiple lineages putatively involved in various sulfur-cycling processes. Here, we conducted a metatranscriptomic survey of microbial populations in Zodletone spring source sediments to characterize the relative prevalence and importance of putative phototrophic, chemolithotrophic, and heterotrophic microorganisms in the sulfur cycle, the identity of lineages actively involved in various sulfur cycling processes, and the interaction between sulfur cycling and other geochemical processes at the spring source. Sediment samples at the spring’s source were taken at three different times within a 24-h period for geochemical analyses and RNA sequencing. In depth mining of datasets for sulfur cycling transcripts revealed major sulfur cycling pathways and taxa involved, including an unexpected potential role of Actinobacteria in sulfide oxidation and thiosulfate transformation. Surprisingly, transcripts coding for the cyanobacterial Photosystem II D1 protein, methane monooxygenase, and terminal cytochrome oxidases were encountered, indicating that genes for oxygen production and aerobic modes of metabolism are actively being transcribed, despite below-detectable levels (<1 µM of oxygen in source sediment. Results highlight transcripts involved in sulfur, methane, and oxygen cycles, propose that oxygenic photosynthesis could support aerobic methane and sulfide oxidation in anoxic sediments exposed to sunlight, and provide a viewpoint of microbial metabolic lifestyles under conditions similar to those seen during late Archaean and Proterozoic eons.

A review on the kinetics of microbially induced calcium carbonate precipitation by urea hydrolysis

Science.gov (United States)

van Paassen, L. A.

2017-12-01

In this study the kinetics of calcium carbonate precipitation induced by the ureolytic bacteria are reviewed based on experiments and mathematical modelling. The study shows how urea hydrolysis rate depends on the amount of bacteria and the conditions during growth, storage, hydrolysis and precipitation. The dynamics of Microbially Induced Carbonate Precipitation has been monitored in non-seeded liquid batch experiments. Results show that particulary for a fast hydrolysis of urea (>1 M-urea day-1) in a highly concentrated equimolar solution with calcium chloride (>0.25 M) the solubility product of CaCO3 is exceeded within a short period (less than 30 minutes), the supersaturation remains high for an exended period, resulting in prolonged periods of nucleation and crystal growth and extended growth of metastable precursor mineral phases. The pH, being a result of the speciation, quickly rises until critical supersaturation is reached and precipitation is initiated. Then pH drops (sometimes showing oscillating behaviour) to about neutral where it stays until all substrates are depleted. Higher hydrolysis rates lead to higher supersaturation and pH and relatively many small crystals, whereas higher concentrations of urea and calcium chloride mainly lead to lower pH values. The conversion can be reasonably monitored by electrical conductivity and reasonably predicted, using a simplified model based on a single reaction as long as the urea hydrolysis rate is known. Complex geochemical models, which include chemical speciciation through acid-base equilibria and kinetic equations to describe mineral precipitation, do not show significant difference from the simplified model regarding the bulk chemistry and the total amount of precipitates. However, experiments show that ureolytic MICP can result in a highly variable crystal morphologies with large variation in the affected hydraulic properties when applied in a porous medium. In order to calculate the number, size and

Increase in socio-economic value of the fresh water fishery by reductions in the sulfur precipitation. [Norway]. Oekt samfunnsoekonomisk verdi av ferskvannsfisket ved reduksjoner i svovelnedfallet

Energy Technology Data Exchange (ETDEWEB)

Navrud, S

1985-01-29

A reduction of about 30% in the sulfur out-lets in Europe would lead to approximately the same reduction in acid precipitation in the South of Norway. The resulting improvement of water quality would facilitate improvements in the fish population. The report discussed various methods of measuring the socio-economic value of an assumed marginal increase of the amount of fresh water fish and recommends a ''parcel of methods'' in order to solve the estimation problem. A reduction of 30% in the acid precipitation would result in a total yearly socio-economic value increase of approximately 37 millions Norwegian kroners measured by the total willingness of payment by the Norwegian population - wich probably is an underestimation. 66 references, 22 drawings, 5 tables.

Precipitation effects on microbial pollution in a river: lag structures and seasonal effect modification.

Directory of Open Access Journals (Sweden)

Andreas Tornevi

Full Text Available BACKGROUND: The river Göta Älv is a source of freshwater for 0.7 million swedes. The river is subject to contamination from sewer systems discharge and runoff from agricultural lands. Climate models projects an increase in precipitation and heavy rainfall in this region. This study aimed to determine how daily rainfall causes variation in indicators of pathogen loads, to increase knowledge of variations in river water quality and discuss implications for risk management. METHODS: Data covering 7 years of daily monitoring of river water turbidity and concentrations of E. coli, Clostridium and coliforms were obtained, and their short-term variations in relation with precipitation were analyzed with time series regression and non-linear distributed lag models. We studied how precipitation effects varied with season and compared different weather stations for predictive ability. RESULTS: Generally, the lowest raw water quality occurs 2 days after rainfall, with poor raw water quality continuing for several more days. A rainfall event of >15 mm/24-h (local 95 percentile was associated with a three-fold higher concentration of E. coli and 30% higher turbidity levels (lag 2. Rainfall was associated with exponential increases in concentrations of indicator bacteria while the effect on turbidity attenuated with very heavy rainfall. Clear associations were also observed between consecutive days of wet weather and decreased water quality. The precipitation effect on increased levels of indicator bacteria was significant in all seasons. CONCLUSIONS: Rainfall elevates microbial risks year-round in this river and freshwater source and acts as the main driver of varying water quality. Heavy rainfall appears to be a better predictor of fecal pollution than water turbidity. An increase of wet weather and extreme events with climate change will lower river water quality even more, indicating greater challenges for drinking water producers, and suggesting better

Continuous precipitation process of plutonium salts

International Nuclear Information System (INIS)

Richard, P.

1967-03-01

This work concerns the continuous precipitation process of plutonium oxalate. Investigations about the solubility of different valence states in nitric-oxalic and in nitric-sulfuric-oxalic medium lead to select the precipitation process of tetravalent plutonium oxalate. Settling velocity and granulometry of tetravalent oxalate plutonium have been studied with variation of several precipitation parameters such as: temperature, acidity, excess of oxalic acid and aging time. Then are given test results of some laboratory continuous apparatus. Conditions of operation with adopted tubular apparatus are defined in conclusion. A flow-sheet is given for a process at industrial scale. (author) [fr

Recycled Archean sulfur in the mantle wedge of the Mariana Forearc and microbial sulfate reduction within an extremely alkaline serpentine seamount

Science.gov (United States)

Aoyama, Shinnosuke; Nishizawa, Manabu; Miyazaki, Junichi; Shibuya, Takazo; Ueno, Yuichiro; Takai, Ken

2018-06-01

The identification of microbial activity under extreme conditions is important to define potential boundaries of the habitable and uninhabitable zones of terrestrial and extraterrestrial living forms. The subseafloor regimes of serpentinite seamounts in the Mariana Forearc are among the most extreme environments for life on earth owing to the widespread presence of highly alkaline fluids with pH values greater than 12. The potential activity of sulfate-reducing microorganisms has been suggested within the South Chamorro serpentinite seamounts on the basis of depletion of sulfate and enrichment of dissolved sulfide in pore water. However, the vertical distribution of sulfate-reducing microorganisms and the origin of sulfate are still uncertain. To address these issues, we analyzed quadruple sulfur isotopes of sulfide minerals and pore water sulfate in the upper 56 m of sedimentary sequences at the summit of the S. Chamorro Seamount and those of dissolved sulfate in upwelling fluids collected as deep as 202 mbsf (meters below the seafloor) in a cased hole near the summit of the same seamount. The depth profiles of the concentrations and the δ34S and Δ33S‧ values of sulfide minerals and pore water sulfate indicate microbial sulfate reduction as deep as 30 mbsf. Further, apparent isotopic fractionations (34ε) and exponents of mass dependent relationships (33λ) during sulfate reduction are estimated to be 62 ± 14‰ and 0.512 ± 0.002, respectively. The upwelling fluids show both the chlorine depletion relative to seawater and the negative δ15N values of ammonia (-4‰). Although these signatures point to dehydration of the subducting oceanic plate, the negative Δ33S‧ values of sulfate (-0.16‰ to -0.26‰ with analytical errors of ±0.01‰) are unlikely to originate from surrounding modern crusts. Instead, sulfate in the upwelling fluid likely possess non-mass-dependent (NMD) sulfur. Because NMD sulfur was produced primarily in the Archean atmosphere, our

Geology and stable isotope geochemistry of Paleoarchean sulfur. Formation, preservation and geobiology of ancient pyrite and barite

NARCIS (Netherlands)

Roerdink, D.L.|info:eu-repo/dai/nl/318834340

2013-01-01

Sulfur isotopes in ancient sulfate and sulfide minerals provide a comprehensive record of microbial processes involved in the early sulfur cycle on Earth. However, the interpretation of these isotopic signatures requires information on the geological context of such samples, because abiotic

Unraveling multiple phases of sulfur cycling during the alteration of ancient ultramafic oceanic lithosphere

Science.gov (United States)

Schwarzenbach, Esther M.; Gill, Benjamin C.; Johnston, David T.

2018-02-01

Ultramafic-hosted hydrothermal systems - characterized by ongoing serpentinization reactions - exert an important influence on the global sulfur cycle. Extensive water-rock interaction causes elemental exchange between seawater and the oceanic lithosphere, effectively removing sulfate from seawater through both abiogenic and biogenic processes. Here, we use bulk rock multiple sulfur isotope signatures (32S, 33S, 34S) and in situ sulfide analyses together with petrographic observations to track the sulfur cycling processes and the hydrothermal evolution of ancient peridotite-hosted hydrothermal systems. We investigate serpentinized peridotites from the Northern Apennine ophiolite in Italy and the Santa Elena ophiolite in Costa Rica and compare those with the Iberian Margin (Ocean Drilling Program (ODP) Leg 149 and 173) and the 15°20‧N Fracture Zone along the Mid-Atlantic Ridge (ODP Leg 209). In situ measurements of sulfides in the Northern Apennine serpentinites preserve a large range in δ34Ssulfide of -33.8 to +13.3‰ with significant heterogeneities within single sulfide grains and depending on mineralogy. Detailed mineralogical investigation and comparison with bulk rock Δ33Ssulfide and in situ δ34Ssulfide data implies a thermal evolution of the system from high temperatures (∼350 °C) that allowed thermochemical sulfate reduction and input of hydrothermal sulfide to lower temperatures (rock associated with detachment faulting along a mid-ocean ridge spreading center. The Santa Elena peridotites preserve distinct signatures for fluid circulation at high temperatures with both closed system thermochemical sulfate reduction and input of mafic-derived sulfur. In addition, the peridotites provide strong evidence that low Ca2+ concentrations in peridotite-hosted systems can limit sulfate removal during anhydrite precipitation at temperatures above 150 °C. This may play a central role for the availability of sulfate to microbial communities within these

Prevention of formation of acid drainage from high-sulfur coal refuse by inhibition of iron- and sulfur-oxidizing microorganisms. 1. Preliminary experiments in controlled shaken flasks

Energy Technology Data Exchange (ETDEWEB)

Dugan, P.R.

1987-01-01

Changes of pH and sulfate concentration in high-sulfur coal refuse slurries are used as measurements of microbial pyrite oxidation in the laboratory. Sodium lauryl sulfate (SLS), alkylbenzene sulfonate (ABS), benzoic acid (BZ) and combinations of SLS plus BZ and ABS plus BZ effectively inhibited formation of sulfate and acid when added in concentrations greater than 50 mg/l to inoculated 20 or 30% coal refuse slurries. Here 25 mg/l concentrations of SLS, ABS and ABS plus BZ stimulated acid production. Formic, hexanoic, oxalic, propionic, and pyruvic acids at 0.1% concentrations were also effective inhibitors. Four different lignin sulfonates were only slightly effective inhibitors at 0.1% concentrations. It was concluded that acid formation resulting from microbial oxidation in high-sulfur coal refuse can be inhibited. 22 references.

Sulfate- and Sulfur-Reducing Bacteria as Terrestrial Analogs for Microbial Life on Jupiter's Satellite Io

Science.gov (United States)

Pikuta, Elena V.; Hoover, Richard B.; Six, N. Frank (Technical Monitor)

2001-01-01

Observations from the Voyager and Galileo spacecraft have revealed Jupiter's moon Io to be the most volcanically active body of our Solar System. The Galileo Near Infrared Imaging Spectrometer (NIMS) detected extensive deposits of sulfur compounds, elemental sulfur and SO2 frost on the surface of Io. There are extreme temperature variations on Io's surface, ranging from -130 C to over 2000 C at the Pillan Patera volcanic vent. The active volcanoes, fumaroles, calderas, and lava lakes and vast sulfur deposits on this frozen moon indicate that analogs of sulfur- and sulfate-reducing bacteria might inhabit Io. Hence Io may have great significance to Astrobiology. Earth's life forms that depend on sulfur respiration are members of two domains: Bacteria and Archaea. Two basic links of the biogeochemical sulfur cycle of Earth have been studied: 1) the sulfur oxidizing process (occurring at aerobic conditions) and 2) the process of sulfur-reduction to hydrogen sulfide (anaerobic conditions). Sulfate-reducing bacteria (StRB) and sulfur-reducing bacteria (SrRB) are responsible for anaerobic reducing processes. At the present time the systematics of StRB include over 112 species distributed into 35 genera of Bacteria and Archaea. Moderately thermophilic and mesophilic SrRB belong to the Bacteria. The hyperthermophilic SrRB predominately belong to the domain Archaea and are included in the genera: Pyrodictium, Thermoproteus, Pyrobaculum, Thermophilum, Desulfurococcus, and Thermodiscus. The StRB and SrRB use a wide spectrum of substrates as electron donors for lithotrophic and heterotrophic type nutrition. The electron acceptors for the StRB include: sulfate, thiosulfate, sulfite, sulfur, arsenate, dithionite, tetrathionate, sulfur monoxide, iron, nitrite, selenite, fumarate, oxygen, carbon dioxide, and chlorine-containing phenol compounds. The Sulfate- and Sulfur-reducing bacteria are widely distributed in anaerobic ecosystems, including extreme environments like hot springs

Radiocarbon analysis of halophilic microbial lipids from an Australian salt lake

Science.gov (United States)

Bray, P. Sargent; Jones, Claudia M.; Fallon, Stewart J.; Brocks, Jochen J.; George, Simon C.

2012-01-01

Assigning accurate dates to hypersaline sediments opens important terrestrial records of local and regional paleoecologies and paleoclimatology. However, as of yet no conventional method of dating hypersaline systems has been widely adopted. Biomarker, mineralogical, and radiocarbon analyses of sediments and organic extracts from a shallow (13 cm) core from a hypersaline playa, Lake Tyrrell, southeastern Australia, produce a coherent age-depth curve beginning with modern microbial mats and extending to ~ 7500 cal yr BP. These analyses are furthermore used to identify and constrain the timing of the most recent change in hydrological regime at Lake Tyrrell, a shift from a clay deposit to the precipitation of evaporitic sands occurring at some time between ~ 4500 and 7000 yr. These analyses show the potential for widespread dating of hypersaline systems integrating the biomarker approach, reinforce the value of the radiocarbon content of biomarkers in understanding the flow of carbon in modern ecologies, and validate the temporal dimension of data provided by biomarkers when dating late Quaternary sediments.

Phosphorus 32 cycling in the root-litter mat of Pernambuco atlantic coastal forest, Brazil

International Nuclear Information System (INIS)

Salcedo, I.H.; Sampaio, E.V.S.; Elliott, E.T.

1991-01-01

We propose a compartmental model to describe P cycling in the root-litter mat and surface mineral soil of an Atlantic coastal forest. Considerable amounts of P accumulate in this root-litter mat, relative to available P in the underlying mineral soil. We studied the mechanisms responsible for P retention five days after addition of sup(32)P on the surface of the 02 horizon. Total sup(31)P and sup(32)P were determined in leaves, humus, mineral soil and roots. In addition, we determined sup(31)P and sup(32)P in the solution and microbial biomass of the humus material. Fluxes of sup(31)P were obtained from published data and from experimental results of sup(32)P distribution among compartments. The main fluxes taking P out from the soils solution were uptake by the microbial biomass and sorption by the humus (12.9 e 5.2 mg P m sup(-2) week sup(-1), respectively), while the mean flux into the roots was 3.1 mg P m sup(-2) week sup(-1). The main compartment responsible for P accumulation was the humus+fragments, which had the highest P content (61% of total P in the forest floor) and the longest turnover time (15.5 months). (author)

In Situ Hydrogen Dynamics in a Hot Spring Microbial Mat during a Diel Cycle

DEFF Research Database (Denmark)

Revsbech, Niels Peter; Trampe, Erik Christian Løvbjerg; Lichtenberg, Mads

2016-01-01

decreasing to about 11 mol H2 liter1 just before sunrise. Another pulse of H2 production, reaching a peak concentration of 46 mol H2 liter1, was found in the early morning under dim light conditions too low to induce accumulation of O2 in the mat. The light stimulation of H2 accumulation indicated...

Aspects of the ecology of mat-forming lichens

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P. D. Crittenden

2000-03-01

nitrogen fixation in boreal-arctic regions. Stereocaulon-dominated subarctic woodlands provide excellent model systems in which to investigate the role of lichens in nitrogen cycling. Mat-forming lichens are sensitive indicators of atmospheric deposition partly because they occur in open situations in which they intercept precipitation and particulates directly with minimal modification by vascular plant overstoreys. Data from both the UK and northern Russia are presented to illustrate geographical relationships between lichen chemistry and atmospheric deposition of nitrogen and acidity. The ecology of mat-fotming lichens remains under-researched and good opportunities exist for making significant contributions to this field including areas that relate directly to the management of arctic ungulates.

Biocontainment of polychlorinated biphenyls (PCBs) on flat concrete surfaces by microbial carbonate precipitation.

Science.gov (United States)

Okwadha, George D O; Li, Jin

2011-10-01

In this study, a biosealant obtained from microbial carbonate precipitation (MCP) was evaluated as an alternative to an epoxy-coating system. A bacterium Sporosarcina pasteurii strain ATCC 11859, which metabolizes urea and precipitates calcite in a calcium-rich environment, was used in this study to generate the biosealant on a PCB-contaminated concrete surface. Concrete cylinders measuring 3 in (76.2 mm) by 6 in (152.4 mm) were made in accordance with ASTM C33 and C192 and used for this purpose. The PCB, urea, Ca(2+), and bacterial cell concentrations were set at 10 ppm, 666 mM, 250 mM, and about 2.1 × 10(8) cells mL(-1), respectively. The results indicate that the biosealed surfaces reduced water permeability by 1-5 orders of magnitude, and had a high resistance to carbonation. Since the MCP biosealant is thermally stable under temperatures of up to 840 °C, the high temperatures that normally exist in the surrounding equipment, which may contain PCB-based fluids, have no effect on the biosealed surfaces. Consequently, there is greater potential to obtain a stronger, coherent, and durable surface by MCP. No measurable amount of PCBs was detected in the permeating water, indicating that the leaching water, if any, will have a minimum impact on the surrounding environment. Published by Elsevier Ltd.

Bacterial Disproportionation of Elemental Sulfur Coupled to Chemical Reduction of Iron or Manganese

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Thamdrup, Bo; Finster, Kai; Hansen, Jens Würgler; Bak, Friedhelm

1993-01-01

A new chemolithotrophic bacterial metabolism was discovered in anaerobic marine enrichment cultures. Cultures in defined medium with elemental sulfur (S0) and amorphous ferric hydroxide (FeOOH) as sole substrates showed intense formation of sulfate. Furthermore, precipitation of ferrous sulfide and pyrite was observed. The transformations were accompanied by growth of slightly curved, rod-shaped bacteria. The quantification of the products revealed that S0 was microbially disproportionated to sulfate and sulfide, as follows: 4S0 + 4H2O → SO42- + 3H2S + 2H+. Subsequent chemical reactions between the formed sulfide and the added FeOOH led to the observed precipitation of iron sulfides. Sulfate and iron sulfides were also produced when FeOOH was replaced by FeCO3. Further enrichment with manganese oxide, MnO2, instead of FeOOH yielded stable cultures which formed sulfate during concomitant reduction of MnO2 to Mn2+. Growth of small rod-shaped bacteria was observed. When incubated without MnO2, the culture did not grow but produced small amounts of SO42- and H2S at a ratio of 1:3, indicating again a disproportionation of S0. The observed microbial disproportionation of S0 only proceeds significantly in the presence of sulfide-scavenging agents such as iron and manganese compounds. The population density of bacteria capable of S0 disproportionation in the presence of FeOOH or MnO2 was high, > 104 cm-3 in coastal sediments. The metabolism offers an explanation for recent observations of anaerobic sulfide oxidation to sulfate in anoxic sediments. PMID:16348835

Implementation of an atmospheric sulfur scheme in the HIRLAM regional weather forecast model

International Nuclear Information System (INIS)

Ekman, Annica

2000-02-01

Sulfur chemistry has been implemented into the regional weather forecast model HIRLAM in order to simulate sulfur fields during specific weather situations. The model calculates concentrations of sulfur dioxide in air (SO 2 (a)), sulfate in air (SO 4 (a)), sulfate in cloud water (SO 4 (aq)) and hydrogen peroxide (H 2 O 2 ). Modeled concentrations of SO 2 (a), SO 4 (a) and SO 4 (aq) in rain water are compared with observations for two weather situations, one winter case with an extensive stratiform cloud cover and one summer case with mostly convective clouds. A comparison of the weather forecast parameters precipitation, relative humidity, geopotential and temperature with observations is also performed. The results show that the model generally overpredicts the SO 2 (a) concentration and underpredicts the SO 4 (a) concentration. The agreement between modeled and observed SO 4 (aq) in rain water is poor. Calculated turnover times are approximately 1 day for SO 2 (a) and 2-2.5 days for SO 4 (a). For SO 2 (a) this is in accordance with earlier simulated global turnover times, but for SO 4 (a) it is substantially lower. Several sensitivity simulations show that the fractional mean bias and root mean square error decreases, mainly for SO 4 (a) and SO 4 (aq), if an additional oxidant for converting SO 2 (a) to SO 4 (a) is included in the model. All weather forecast parameters, except precipitation, agree better with observations than the sulfur variables do. Wet scavenging is responsible for about half of the deposited sulfur and in addition, a major part of the sulfate production occurs through in-cloud oxidation. Hence, the distribution of clouds and precipitation must be better simulated by the weather forecast model in order to improve the agreement between observed and simulated sulfur concentrations

Morphology and ultrastructure of epilithic versus cryptic, microbial growth in lower Cambrian phosphorites from the Montagne Noire, France.

Science.gov (United States)

Alvaro, J J; Clausen, S

2010-03-01

The lower Cambrian grainy phosphorites of the northern Montagne Noire occur interbedded with grey to black, laminated to massive shales and limestones deposited along the edge of a continental shelf, associated with slope-related facies and unstable substrates. The concentration of phosphate took place by repeated alternations of low sedimentation rates and condensation (hardgrounds), in situ early-diagenetic precipitation of fluorapatite, winnowing and polyphase reworking of previously phosphatized skeletons and hardground-derived clasts. The succession of repeated cycles of sedimentation, phosphate concentration, and reworking led to multi-event phosphate deposits rich in allochthonous particles. Phosphogenesis was primarily mediated by microbial activity, which is evidenced by the abundance of phosphatized putative microbial remains. These occur as smooth and segmented filaments, sheaths, and ovoid-shaped coccoids. These simple morphologies commonly form composite frameworks as a result of their aggregation and entanglement, leading to the record of biofilms, microbial mats, and complex networks. These infested the calcitic skeletonized microfossils that littered the substrate. Microbial activity evidences epilithic (anisotropic coatings on skeletons), euendolithic (perforating skeletal walls), and cryptoendolithic (lining inter- and intraparticulate pores) strategies, the latter dominated by bundles of filaments and globular clusters that grew along the cavities of helcionellids and hyoliths. According to their epilithic versus cryptic strategies, microbial populations that penetrated and dwelled inside hard skeletal substrates show different network and colonial morphologies. These early Cambrian shell concentrations were the loci of a stepwise colonization made by saprophytic to mutualistic, cyanobacterial-fungal consortia. Their euendolithic and cryptoendolithic ecological niches provided microbial refugia to manage the grazing impact mainly led by metazoans.

The microbial temperature sensitivity to warming is controlled by thermal adaptation and is independent of C-quality across a pan-continental survey

Science.gov (United States)

Berglund, Eva; Rousk, Johannes

2017-04-01

Climate models predict that warming will result in an increased loss of soil organic matter (SOM). However, field experiments suggest that although warming results in an immediate increase in SOM turnover, the effect diminishes over time. Although the use and subsequent turnover of SOM is dominated by the soil microbial community, the underlying physiology underpinning warming responses are not considered in current climate models. It has been suggested that a reduction in the perceived quality of SOM to the microbial community, and changes in the microbial thermal adaptation, could be important feed-backs to soil warming. Thus, studies distinguishing between temperature relationships and how substrate quality influences microbial decomposition are a priority. We examined microbial communities and temperature sensitivities along a natural climate gradient including 56 independent samples from across Europe. The gradient included mean annual temperatures (MAT) from ca -4 to 18 ˚ C, along with wide spans of environmental factors known to influence microbial communities, such as pH (4.0 to 8.8), nutrients (C/N from 7 to 50), SOM (from 4 to 94%), and plant communities, etc. The extensive ranges of environmental conditions resulted in wide ranges of substrate quality, indexed as microbial respiration per unit SOM, from 5-150 μg CO2g-1 SOM g-1 h-1. We hypothesised microbial communities to (1) be adapted to the temperature of their climate, leading to warm adapted bacterial communities that were more temperature sensitive (higher Q10s) at higher MAT; (2) have temperature sensitivities affected by the quality of SOM, with higher Q10s for lower quality SOM. To determine the microbial use of SOM and its dependence on temperature, we characterized microbial temperature dependences of bacterial growth (leu inc), fungal growth (ac-in-erg) and soil respiration in all 56 sites. Temperature dependences were determined using brief (ca. 1-2 h at 25˚ C) laboratory incubation

Draft genome sequence of Lampropedia cohaerens strain CT6(T) isolated from arsenic rich microbial mats of a Himalayan hot water spring.

Science.gov (United States)

Tripathi, Charu; Mahato, Nitish K; Rani, Pooja; Singh, Yogendra; Kamra, Komal; Lal, Rup

2016-01-01

Lampropedia cohaerens strain CT6(T), a non-motile, aerobic and coccoid strain was isolated from arsenic rich microbial mats (temperature ~45 °C) of a hot water spring located atop the Himalayan ranges at Manikaran, India. The present study reports the first genome sequence of type strain CT6(T) of genus Lampropedia cohaerens. Sequencing data was generated using the Illumina HiSeq 2000 platform and assembled with ABySS v 1.3.5. The 3,158,922 bp genome was assembled into 41 contigs with a mean GC content of 63.5 % and 2823 coding sequences. Strain CT6(T) was found to harbour genes involved in both the Entner-Duodoroff pathway and non-phosphorylated ED pathway. Strain CT6(T) also contained genes responsible for imparting resistance to arsenic, copper, cobalt, zinc, cadmium and magnesium, providing survival advantages at a thermal location. Additionally, the presence of genes associated with biofilm formation, pyrroloquinoline-quinone production, isoquinoline degradation and mineral phosphate solubilisation in the genome demonstrate the diverse genetic potential for survival at stressed niches.

Microbial ecology of halo-alkaliphilic sulfur bacteria

NARCIS (Netherlands)

Foti, M.J.

2007-01-01

The research of this thesis focussed on the investigation of the microbial diversity in soda lakes, giving a special attention to the micro-organisms involved in the sulphur cycle. The present PhD was part of a bigger project aiming to develop a biological process for the removal of hydrogen

Volatile earliest Triassic sulfur cycle

DEFF Research Database (Denmark)

Schobben, Martin; Stebbins, Alan; Algeo, Thomas J.

2017-01-01

model experiment. Exposure of evaporite deposits having a high δ 34S may account for the source change, with a possible role for the Siberian Traps volcanism by magmatic remobilization of Cambrian rock salt. A high sulfur cycle turnover rate would have left the ocean system vulnerable to development......Marine biodiversity decreases and ecosystem destruction during the end-Permian mass extinction (EPME) have been linked to widespread marine euxinic conditions. Changes in the biogeochemical sulfur cycle, microbial sulfate reduction (MSR), and marine dissolved sulfate concentrations during...... fractionation and point to a more universal control, i.e., contemporaneous seawater sulfate concentration.The MSR-trend transfer function yielded estimates of seawater sulfate of 0.6-2.8mM for the latest Permian to earliest Triassic, suggesting a balanced oceanic S-cycle with equal S inputs and outputs...

Micro-scale experimental study of Microbial-Induced Carbonate Precipitation (MICP) by using microfluidic devices

Science.gov (United States)

Wang, Y.; Soga, K.; DeJong, J. T.; Kabla, A.

2017-12-01

Microbial-induced carbonate precipitation (MICP), one of the bio-mineralization processes, is an innovative subsurface improvement technique for enhancing the strength and stiffness of soils, and controlling their hydraulic conductivity. These macro-scale engineering properties of MICP treated soils controlled by micro-scale factors of the precipitated carbonate, such as its content, amount and distribution in the soil matrix. The precipitation process itself is affected by bacteria amount, reaction kinetics, porous medium geometry and flow distribution in the soils. Accordingly, to better understand the MICP process at the pore scale a new experimental technique that can observe the entire process of MICP at the pore-scale was developed. In this study, a 2-D transparent microfluidic chip made of Polydimethylsiloxane (PDMS) representing the soil matrix was designed and fabricated. A staged-injection MICP treatment procedure was simulated inside the microfluidic chip while continuously monitored using microscopic techniques. The staged-injection MICP treatment procedure started with the injection of bacteria suspension, followed with the bacteria setting for attachment, and then ended with the multiple injections of cementation liquid. The main MICP processes visualized during this procedure included the bacteria transport and attachment during the bacteria injection, the bacteria attachment and growth during the bacteria settling, the bacteria detachment during the cementation liquid injection, the cementation development during the cementation liquid injection, and the cementation development after the completion of cementation liquid injection. It is suggested that the visualization of the main MICP processes using the microfluidic technique can improve understating of the fundamental mechanisms of MICP and consequently help improve the treatment technique for in situ implementation of MICP.

Changes of chemistry of precipitation on the area affected by imissions from hard coal power plant in the years 1977-1994

International Nuclear Information System (INIS)

Zablocki, Z.

1996-01-01

The changes of precipitation chemistry was studied on 9 sites in the distance 0.2-13.5 km from Dolna Odra power plant during the years 1977-1994. The results of long-term studies of changes of precipitation reaction and amounts of sulfur in precipitation on the area were shown as chronotoposequences. The results indicated on some positive changes in chemistry of precipitation in 1991-1994 years as compared to the period of 1986-1990 which manifested as decrease as yearly averages of amounts of sulfur and nitrate-nitrogen in precipitation and decrease of percentage of monthly measurements of precipitation with very acid reaction. (author). 11 refs, 2 figs, 1 tab

MAT FOR LEPTOSPIROSIS DIAGNOSIS

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Esti Rahardianingtyas.

2014-06-01

Full Text Available Leptospirosis is a disease caused by bacterial infection leptospira interrogans.Leptospira bacteria is a spiral bacterium with solid strands with two flagella periplasmik.Septicaemic phase patient samples taken from the blood and cerebrospinal fluid, whereassamples taken at phase immune extracted from urine. The diagnosis of leptospirosis occurdirectly or indirectly. Diagnosis is done by directly isolate and identify the causative agents ofthe agent. Diagnosis is done indirectly by detecting specific antibodies from the patient's body.Gold Standard of the diagnosis of leptospirosis is MAT. Mat made by reacting antibodies toleptospira antigen. Positive results seen with clump formed.Key words: Leptospirosis, Leptospirosis Diagnostic, MAT (Microscopic Agglutination Test Leptospirosis merupakan penyakit yang disebabkan karena infeksi bakteri leptospirainterrogans. Bakteri leptospira merupakan bakteri spiral dengan untaian yang padat dengan duaflagella periplasmik. Sampel pasien pada fase septicaemic diambil dari darah dan cairanserebrospinal, sedangkan sampel yang diambil pada fase immune diambil dari urine. Diagnosisleptospirosis dilakukan secara langsung maupun tidak langsung. Diagnosis secara langsungdilakukan dengan cara mengisolasi agen penyebab dan mengidentifikasi agen tersebut. Diagnosissecara tidak langsung dilakukan dengan cara mendeteksi antibodi spesiflk dari dalam tubuhpasien. Gold Standart dari diagnosis leptospirosis adalah MAT. Mat dilakukan dengan caramereaksikan antibodi dengan antigen leptospira. Hasil positif dilihat dengan terbentuk gumpalanagglutinasiKata kunci: Leptospirosis, Leptospira, Leptospirosis Diagnosis.

The Sirius Passet Lagerstätte: silica death masking opens the window on the earliest mat ground community of the Cambrian Explosion

NARCIS (Netherlands)

Strang, Katie M; Armstrong, Howard; Harper, David A. T.; Trabucho-Alexandre, João

2016-01-01

The Sirius Passet Lagerstätte (SP), Peary Land, North Greenland, occurs in black slates deposited at or just below storm wave base. It represents the earliest Cambrian microbial mat community with exceptional preservation, predating the Burgess Shale by 10 million years. Trilobites from the SP are

Diversity Profile of Microbes Associated with Anaerobic Sulfur Oxidation in an Upflow Anaerobic Sludge Blanket Reactor Treating Municipal Sewage

Science.gov (United States)

Aida, Azrina A.; Kuroda, Kyohei; Yamamoto, Masamitsu; Nakamura, Akinobu; Hatamoto, Masashi; Yamaguchi, Takashi

2015-01-01

We herein analyzed the diversity of microbes involved in anaerobic sulfur oxidation in an upflow anaerobic sludge blanket (UASB) reactor used for treating municipal sewage under low-temperature conditions. Anaerobic sulfur oxidation occurred in the absence of oxygen, with nitrite and nitrate as electron acceptors; however, reactor performance parameters demonstrated that anaerobic conditions were maintained. In order to gain insights into the underlying basis of anaerobic sulfur oxidation, the microbial diversity that exists in the UASB sludge was analyzed comprehensively to determine their identities and contribution to sulfur oxidation. Sludge samples were collected from the UASB reactor over a period of 2 years and used for bacterial 16S rRNA gene-based terminal restriction fragment length polymorphism (T-RFLP) and next-generation sequencing analyses. T-RFLP and sequencing results both showed that microbial community patterns changed markedly from day 537 onwards. Bacteria belonging to the genus Desulforhabdus within the phylum Proteobacteria and uncultured bacteria within the phylum Fusobacteria were the main groups observed during the period of anaerobic sulfur oxidation. Their abundance correlated with temperature, suggesting that these bacterial groups played roles in anaerobic sulfur oxidation in UASB reactors. PMID:25817585

Genome Sequence of Rhodoferax antarcticus ANT.BRT; A Psychrophilic Purple Nonsulfur Bacterium from an Antarctic Microbial Mat

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Jennifer M. Baker

2017-02-01

Full Text Available Rhodoferax antarcticus is an Antarctic purple nonsulfur bacterium and the only characterized anoxygenic phototroph that grows best below 20 °C. We present here a high-quality draft genome of Rfx. antarcticus strain ANT.BRT, isolated from an Antarctic microbial mat. The circular chromosome (3.8 Mbp of Rfx. antarcticus has a 59.1% guanine + cytosine (GC content and contains 4036 open reading frames. In addition, the bacterium contains a sizable plasmid (198.6 kbp, 48.4% GC with 226 open reading frames that comprises about 5% of the total genetic content. Surprisingly, genes encoding light-harvesting complexes 1 and 3 (LH1 and LH3, but not light-harvesting complex 2 (LH2, were identified in the photosynthesis gene cluster of the Rfx. antarcticus genome, a feature that is unique among purple phototrophs. Consistent with physiological studies that showed a strong capacity for nitrogen fixation in Rfx. antarcticus, a nitrogen fixation gene cluster encoding a molybdenum-type nitrogenase was present, but no alternative nitrogenases were identified despite the cold-active phenotype of this phototroph. Genes encoding two forms of ribulose 1,5-bisphosphate carboxylase/oxygenase were present in the Rfx. antarcticus genome, a feature that likely provides autotrophic flexibility under varying environmental conditions. Lastly, genes for assembly of both type IV pili and flagella are present, with the latter showing an unusual degree of clustering. This report represents the first genomic analysis of a psychrophilic anoxygenic phototroph and provides a glimpse of the genetic basis for maintaining a phototrophic lifestyle in a permanently cold, yet highly variable, environment.

Iridium, sulfur isotopes and rare earth elements in the Cretaceous-Tertiary boundary clay at Stevns Klint, Denmark

Science.gov (United States)

Schmitz, Birger; Andersson, Per; Dahl, Jeremy

1988-01-01

Microbial activity and redox-controlled precipitation have been of major importance in the process of metal accumulation in the strongly Ir-enriched Cretaceous-Tertiary (K-T) boundary clay, the Fish Clay, at Stevns Klint in Denmark. Two important findings support this view: 1) Kerogen, recovered by leaching the Fish Clay in HCl and HF, shows an Ir concentration of 1100 ppb; this represents about 50% of the Ir present in the bulk sample Fish Clay. Strong organometallic complexes is the most probable carrier phase for this fraction of Ir. Kerogen separated from the K-T boundary clay at Caravaca, Spain, similarly exhibits enhanced Ir concentrations. 2) Sulfur isotope analyses of metal-rich pyrite spherules, which occur in extreme abundance (about 10% by weight) in the basal Fish Clay, give a δ 34S value of -32%.. This very low value shows that sulfide formation by anaerobic bacteria was intensive in the Fish Clay during early diagenesis. Since the pyrite spherules are major carriers of elements such as Ni, Co, As, Sb and Zn, microbial activity may have played an important role for concentrating these elements. In the Fish Clay large amounts of rare earth elements have precipitated from sea water on fish scales. Analyses reveal that, compared with sea water, the Fish Clay is only about four times less enriched in sea-water derived lanthanides than in Ir. This shows that a sea-water origin is plausible for elements that are strongly enriched in the clay, but whose origin cannot be accounted for by a lithogenic precursor.

Mineralogical, crystallographic, and isotopic constraints on the precipitation of aragonite and calcite at Shiqiang and other hot springs in Yunnan Province, China

Science.gov (United States)

Jones, Brian; Peng, Xiaotong

2016-11-01

Two active spring vent pools at Shiqiang (Yunnan Province, China) are characterized by a complex array of precipitates that coat the wall around the pool and the narrow ledges that surround the vent pool. These precipitates include arrays of aragonite crystals, calcite cone-dendrites, red spar calcite, unattached dodecahedral and rhombohedral calcite crystals, and late stage calcite that commonly coats and disguises the earlier formed precipitates. Some of the microbial mats that grow on the ledges around the pools have been partly mineralized by microspheres that are formed of Si and minor amounts of Fe. The calcite and aragonite that are interspersed with each other at all scales are both primary precipitates. Some laminae, for example, change laterally from aragonite to calcite over distances of only a few millimetres. The precipitates at Shiqiang are similar to precipitates found in and around the vent pools of other springs found in Yunnan Province, including those at Gongxiaoshe, Zhuyuan, Eryuan, and Jifei. In all cases, the δDwater and δ18Owater indicate that the spring water is of meteoric origin. These are thermogene springs with the carrier CO2 being derived largely from the mantle and reaction of the waters with bedrock. Variations in the δ13Ctravertine values indicate that the waters in these springs were mixed, to varying degrees, with cold groundwater and its soil-derived CO2. Calcite and aragonite precipitation took place once the spring waters had become supersaturated with respect to CaCO3, probably as a result of rapid CO2 degassing. These precipitates, which were not in isotopic equilibrium with the spring water, are characterized by their unusual crystal morphologies. The precipitation of calcite and aragonite, seemingly together, can probably be attributed to microscale variations in the saturation levels that are, in turn, attributable to microscale variations in the rate of CO2 degassing.

Acidophilic sulfur disproportionation

Science.gov (United States)

Hardisty, Dalton S.; Olyphant, Greg A.; Bell, Jonathan B.; Johnson, Adam P.; Pratt, Lisa M.

2013-07-01

Bacterial disproportionation of elemental sulfur (S0) is a well-studied metabolism and is not previously reported to occur at pH values less than 4.5. In this study, a sediment core from an abandoned-coal-mine-waste deposit in Southwest Indiana revealed sulfur isotope fractionations between S0 and pyrite (Δ34Ses-py) of up to -35‰, inferred to indicate intense recycling of S0 via bacterial disproportionation and sulfide oxidation. Additionally, the chemistry of seasonally collected pore-water profiles were found to vary, with pore-water pH ranging from 2.2 to 3.8 and observed seasonal redox shifts expressed as abrupt transitions from Fe(III) to Fe(II) dominated conditions, often controlled by fluctuating water table depths. S0 is a common product during the oxidation of pyrite, a process known to generate acidic waters during weathering and production of acid mine drainage. The H2S product of S0 disproportionation, fractionated by up to -8.6‰, is rapidly oxidized to S0 near redox gradients via reaction with Fe(III) allowing for the accumulation of isotopically light S0 that can then become subject to further sulfur disproportionation. A mass-balance model for S0 incorporating pyrite oxidation, S0 disproportionation, and S0 oxidation readily explains the range of observed Δ34Ses-py and emphasizes the necessity of seasonally varying pyrite weathering and metabolic rates, as indicated by the pore water chemistry. The findings of this research suggest that S0 disproportionation is potentially a common microbial process at a pH < 4.5 and can create large sulfur isotope fractionations, even in the absence of sulfate reduction.

Microbial communities and fecal indicator bacteria associated with Cladophora mats on beach sites along Lake Michigan shores.

Science.gov (United States)

Olapade, Ola A; Depas, Morgan M; Jensen, Erika T; McLellan, Sandra L

2006-03-01

A high biomasses of Cladophora, a filamentous green alga, is found mainly during the summer along the shores of Lake Michigan. In this study, the abundance and persistence of the fecal indicator bacterium Escherichia coli and sulfate-reducing bacteria (SRB) on Cladophora mats collected at Lake Michigan beaches were evaluated using both culture-based and molecular analyses. Additionally, 16S rRNA gene cloning and sequencing were used to examine the bacterial community composition. Overall, E. coli was detected in all 63 samples obtained from 11 sites, and the average levels at most beaches ranged from 2,700 CFU/100 g (wet weight) of Cladophora to 7,500 CFU/100 g of Cladophora. However, three beaches were found to have site average E. coli densities of 12,800, 21,130, and 27,950 CFU/100 g of Cladophora. The E. coli levels in the lake water collected at the same time from these three sites were less than the recommended U.S. Environmental Protection Agency limit, 235 CFU/100 ml. E. coli also persisted on Cladophora mats in microcosms at room temperature for more than 7 days, and in some experiments it persisted for as long as 28 days. The SRB densities on Cladophora mats were relatively high, ranging from 4.4x10(6) cells/g (6.64 log CFU/g) to 5.73x10(6) cells/g (6.76 log CFU/g) and accounting for between 20% and 27% of the total bacterial counts. Partial sequences of the 16S rRNA gene clones revealed a phylogenetically diverse community, in which the Cytophaga-Flavobacterium-Bacteroides cluster and the low-G+C-content gram-positive bacteria were the dominant organisms, accounting for 40% and 12.8%, respectively, of the total clone library. These results further reveal the potential public health and ecological significance of Cladophora mats that are commonly found along the shoreline of Lake Michigan, especially with regard to the potential to harbor microorganisms associated with fecal pollution and odor-causing bacteria.

Long-term trends of sulfur deposition in East Asia during 1981-2005

Science.gov (United States)

Kuribayashi, Masatoshi; Ohara, Toshimasa; Morino, Yu; Uno, Itsushi; Kurokawa, Jun-ichi; Hara, Hiroshi

2012-11-01

We used a chemical transport model to investigate the long-term trends of sulfur deposition in East Asia during 1981-2005. The model reproduced the observed spatial distributions in East Asia of the rate of wet deposition of non-seasalt sulfate (nss-SO42-), volume-weighted mean concentrations of nss-SO42- in precipitation, precipitation, and concentrations in air of gaseous sulfur dioxide and particulate nss-SO42-. The model also reproduced well observed seasonal variations and long-term trends of wet deposition of nss-SO42- in Japan from 1988 to 2005. The increasing rate of wet deposition of nss-SO42- in Japan during 1991-2005 was demonstrated with 99.9% significance for both observed and modeled data. The annual rate of total (wet + dry) sulfur deposition in Japan increased from 15.6 Gmol S y-1 in 1981-1985 to 23.9 Gmol S y-1 in 2001-2005 in response to both increasing contributions from Chinese emissions and the eruption of Miyakejima volcano in 2000. During that 25-year period, approximately 2.1% of the sulfur from Chinese emissions was deposited in Japan. Over the same period, the rate of deposition of sulfur in East Asia increased gradually from 14.2 mmol S m-2 y-1 to 24.0 mmol S m-2 y-1, and the contribution of emissions from China to total sulfur deposition in East Asia increased from 65% to 77%. The contribution of Miyakejima volcano was 3% during 2001-2005. The increase in the sulfur deposition rate was remarkably high on the North China Plain, around Guangzhou, and south of Chongqing. The rate of increase in East Asia was greatest in winter, although the rate of sulfur deposition was highest in summer. Sulfur flux from China to Japan increased by a factor of 2.5 at altitudes of 0-3000 m from 1981 to 2005.

Development of techniques of production of sulfur-35 and its inorganic compounds

International Nuclear Information System (INIS)

Shikata, Eiji

1981-12-01

Techniques to produce routinely Curies of carrier-free sulfur-35 from neutron irradiated potassium chloride were developed. Firstly the ratio of sulfur-35 to phosphorus-32 produced respectively by the reactions 35 Cl(n,p) 35 S and 35 Cl(n,α) 32 P was determined. For the post-irradiation process, two processes of anion exchange and cation exchange were studied. The former process was based on the selective elution of carrier-free sulfate after precipitation of the bulk of potassium chloride by ethanol and the latter process on the selective adsorption of carrier-free phosphate on Fe +3 -cation exchange resin. A gloved box with various appendant equipments was constructed for routine production and a glass apparatus was installed in it. Sulfur-35 from 1 Ci to 5 Ci has been produced by the cation exchange process several times every year during past few years, and products of high quality have been obtained with yields higher than 90% without any troubles. In the studies on the synthesis of sulfur-35 labeled inorganic compounds, sulfate[ 35 S] was reduced with tin(II)-phosphoric acid to hydrogen sulfide[ 35 S], which was oxidized to elementary sulfur[ 35 S]. Sulfate[ 35 S] of sodium or copper(II) was precipitated from an aqueous solution of sodium or copper(II) chloride containing carrier-free sulfate [ 35 S] by adding carrier of either one of the sulfates and ethanol. Copper(II) sulfate[ 35 S] was pyrolyzed to evolve sulfur[ 35 S] dioxide, which was fixed in a sodium hydroxide solution as sodium sulfite[ 35 S]. This was allowed to react with colloidal sulfur in a boiling solution in the presence of 2-octanol to form thiosulfate[ 35 S] efficiently. By treating target potassium chloride before and after irradiation in an oxygen-free atmosphere, approximately 60% of sulfur-35 was recovered as thiosulfate. Reduction with nascent hydrogen and decomposition with acid of the thiosulfate were studied to prepare elementary sulfur [ 35 S]. (author)

Decoupling of Neoarchean sulfur sources recorded in Algoma-type banded iron formation

Science.gov (United States)

Diekrup, David; Hannington, Mark D.; Strauss, Harald; Ginley, Stephen J.

2018-05-01

Neoarchean Algoma-type banded iron formations (BIFs) are widely viewed as direct chemical precipitates from proximal volcanic-hydrothermal vents. However, a systematic multiple sulfur isotope study of oxide-facies BIF from a type locality in the ca. 2.74 Ga Temagami greenstone belt reveals mainly bacterial turnover of atmospheric elemental sulfur in the host basin rather than deposition of hydrothermally cycled seawater sulfate or sulfur from direct volcanic input. Trace amounts of chromium reducible sulfur that were extracted for quadruple sulfur isotope (32S-33S-34S-36S) analysis record the previously known mass-independent fractionation of volcanic SO2 in the Archean atmosphere (S-MIF) and biological sulfur cycling but only minor contributions from juvenile sulfur, despite the proximity of volcanic sources. We show that the dominant bacterial metabolisms were iron reduction and sulfur disproportionation, and not sulfate reduction, consistent with limited availability of organic matter and the abundant ferric iron deposited as Fe(OH)3. That sulfur contained in the BIF was not a direct volcanic-hydrothermal input, as expected, changes the view of an important archive of the Neoarchean sulfur cycle in which the available sulfur pools were strongly decoupled and only species produced photochemically under anoxic atmospheric conditions were deposited in the BIF-forming environment.

Matérn-based nonstationary cross-covariance models for global processes

KAUST Repository

Jun, Mikyoung

2014-07-01

Many spatial processes in environmental applications, such as climate variables and climate model errors on a global scale, exhibit complex nonstationary dependence structure, in not only their marginal covariance but also their cross-covariance. Flexible cross-covariance models for processes on a global scale are critical for an accurate description of each spatial process as well as the cross-dependences between them and also for improved predictions. We propose various ways to produce cross-covariance models, based on the Matérn covariance model class, that are suitable for describing prominent nonstationary characteristics of the global processes. In particular, we seek nonstationary versions of Matérn covariance models whose smoothness parameters vary over space, coupled with a differential operators approach for modeling large-scale nonstationarity. We compare their performance to the performance of some existing models in terms of the aic and spatial predictions in two applications: joint modeling of surface temperature and precipitation, and joint modeling of errors in climate model ensembles. © 2014 Elsevier Inc.

Implementation of an atmospheric sulfur scheme in the HIRLAM regional weather forecast model

Energy Technology Data Exchange (ETDEWEB)

Ekman, Annica [Stockholm Univ. (Sweden). Dept. of Meteorology

2000-02-01

Sulfur chemistry has been implemented into the regional weather forecast model HIRLAM in order to simulate sulfur fields during specific weather situations. The model calculates concentrations of sulfur dioxide in air (SO{sub 2}(a)), sulfate in air (SO{sub 4}(a)), sulfate in cloud water (SO{sub 4}(aq)) and hydrogen peroxide (H{sub 2}O{sub 2}). Modeled concentrations of SO{sub 2}(a), SO{sub 4}(a) and SO{sub 4}(aq) in rain water are compared with observations for two weather situations, one winter case with an extensive stratiform cloud cover and one summer case with mostly convective clouds. A comparison of the weather forecast parameters precipitation, relative humidity, geopotential and temperature with observations is also performed. The results show that the model generally overpredicts the SO{sub 2}(a) concentration and underpredicts the SO{sub 4}(a) concentration. The agreement between modeled and observed SO{sub 4}(aq) in rain water is poor. Calculated turnover times are approximately 1 day for SO{sub 2}(a) and 2-2.5 days for SO{sub 4}(a). For SO{sub 2}(a) this is in accordance with earlier simulated global turnover times, but for SO{sub 4}(a) it is substantially lower. Several sensitivity simulations show that the fractional mean bias and root mean square error decreases, mainly for SO{sub 4}(a) and SO{sub 4}(aq), if an additional oxidant for converting SO{sub 2}(a) to SO{sub 4}(a) is included in the model. All weather forecast parameters, except precipitation, agree better with observations than the sulfur variables do. Wet scavenging is responsible for about half of the deposited sulfur and in addition, a major part of the sulfate production occurs through in-cloud oxidation. Hence, the distribution of clouds and precipitation must be better simulated by the weather forecast model in order to improve the agreement between observed and simulated sulfur concentrations.

Electrospun antimicrobial hybrid mats: Innovative packaging material for meat and meat-products.

Science.gov (United States)

Amna, Touseef; Yang, Jieun; Ryu, Kyeong-Seon; Hwang, I H

2015-07-01

To prevent the development and spread of spoilage/pathogenic microorganisms via meat foodstuffs, antimicrobial nanocomposite packaging can serve as a potential alternative. The objective of this study was to develop a new class of antimicrobial hybrid packaging mat composed of biodegradable polyurethane supplemented with virgin olive oil and zinc oxide via electrospinning. Instead of mixing antimicrobial compounds directly with food, incorporation in packaging materials allows the functional effect at food surfaces where microbial activity is localized. The nanofibers were characterized by SEM, EDX, XRD and TEM. The antibacterial activity was tested against two common foodborne pathogens viz., Staphylococcus aureus and Salmonella typhimurium. The present results indicated that incorporation of olive oil in the polymer affected morphology of PU nanofibers and nanocomposite packaging were able to inhibit growth of pathogens. Thus; as-spun mat can be used as prospective antimicrobial packaging, which potentially reduces contamination of meat/meat-products. Moreover, introduced biodegradable packaging for meat products could serve to replace PVC films and simultaneously help to protect natural environment.

Electrochemical evaluation of Ti/TiO{sub 2}-polyaniline anodes for microbial fuel cells using hypersaline microbial consortia for synthetic-wastewater treatment

Energy Technology Data Exchange (ETDEWEB)

Benetton, X.D.; Navarro-Avila, S.G. [Univ. Autonoma de Yucatan, Yucatan (Mexico). Biotecnologia y Bioingenieria; Carrera-Figueiras, C. [Univ. Autonoma de Yucatan, Yucatan (Mexico). Quimica Fundamental y Aplicada

2010-07-01

This paper described the development of a titanium (Ti/TiO{sub 2}) polyaniline composite electrode. The electrode was designed for use with a microbial fuel cell (MFC) that generated electricity through the microbial biodegradation of organic compounds. A modified NBAF medium was used with a 20 mM acetate as an electron donor and 53 mM fumarate as an electron acceptor for a period of 96 hours at 37 degrees C. Strains were cultured under strict anaerobic conditions. Two microbial cultures were used: (1) pure cultures of Geobacter sulfur-reducens; and (2) an uncharacterized stable microbial consortia isolated from hypersaline swamp sediments. The anodes were made with an emeraldine form of PANI deposited over Ti/TiO{sub 2} electrodes. Electrochemical impedance spectroscopy (EIS) monitoring was used to determine the open circuit potential of the MFC. Negative real impedances were obtained and reproduced in all systems studied with the Ti/TiO{sub 2}-PANI anodes. The highest power density was obtained using the Geobacter sulfur-reducens culture. Further research is needed to study the mechanisms that contribute to the occurrence of negative real impedances. 23 refs., 1 tab., 5 figs.

Microbial ecology and biogeochemistry of continental Antarctic soils.

Science.gov (United States)

Cowan, Don A; Makhalanyane, Thulani P; Dennis, Paul G; Hopkins, David W

2014-01-01

The Antarctica Dry Valleys are regarded as the coldest hyperarid desert system on Earth. While a wide variety of environmental stressors including very low minimum temperatures, frequent freeze-thaw cycles and low water availability impose severe limitations to life, suitable niches for abundant microbial colonization exist. Antarctic desert soils contain much higher levels of microbial diversity than previously thought. Edaphic niches, including cryptic and refuge habitats, microbial mats and permafrost soils all harbor microbial communities which drive key biogeochemical cycling processes. For example, lithobionts (hypoliths and endoliths) possess a genetic capacity for nitrogen and carbon cycling, polymer degradation, and other system processes. Nitrogen fixation rates of hypoliths, as assessed through acetylene reduction assays, suggest that these communities are a significant input source for nitrogen into these oligotrophic soils. Here we review aspects of microbial diversity in Antarctic soils with an emphasis on functionality and capacity. We assess current knowledge regarding adaptations to Antarctic soil environments and highlight the current threats to Antarctic desert soil communities.

Mesoporous binary metal oxide nanocomposites: Synthesis, characterization and decontamination of sulfur mustard

Energy Technology Data Exchange (ETDEWEB)

Praveen Kumar, J., E-mail: praveenjella10@gmail.com; Prasad, G.K.; Ramacharyulu, P.V.R.K.; Singh, Beer; Gopi, T.; Krishna, R.

2016-04-15

Mesoporous MnO{sub 2}–ZnO, Fe{sub 2}O{sub 3}–ZnO, NiO–ZnO, and CeO{sub 2}–ZnO binary metal oxide nanocomposites were studied as sorbent decontaminants against sulfur mustard. They were synthesized by precipitation pyrolysis method and characterized by means of transmission electron microscopy, scanning electron microscopy coupled with energy dispersive analysis of X rays, X ray diffraction, and nitrogen adsorption techniques. The transmission electron microscopy and nitrogen adsorption data indicated the presence of pores with diameter ranging from 10 to 70 nm in the binary metal oxide nanocomposites and these materials exhibited surface area values in the range of 76–134 m{sup 2}/g. These binary metal oxide nanocomposites demonstrated large decontamination efficiencies against sulfur mustard when compared to their single component metal oxide nanoparticles. The binary metal oxide nanocomposites effectively decontaminated sulfur mustard into relatively non toxic products such as chloro ethyl vinyl sulfide, divinyl sulfide, 1,4-oxathiane, etc. The promising decontamination properties of binary metal oxide nanocomposites against sulfur mustard were attributed to the basic sites, Lewis acid sites, and the presence of these sites was confirmed by CO{sub 2} and NH{sub 3} temperature programmed desorption. - Graphical abstract: Mesoporous MnO{sub 2}–ZnO, Fe{sub 2}O{sub 3}–ZnO, NiO–ZnO, and CeO{sub 2}–ZnO binary metal oxide nanocomposites were studied as sorbent decontaminants against sulfur mustard. - Highlights: • Binary metal oxide nanocomposites were synthesized by co-precipitation method. • They were studied as sorbent decontaminants against sulfur mustard. • They decontaminated sulfur mustard into non toxic products. • MnO{sub 2}–ZnO and CeO{sub 2}–ZnO nanocomposites showed greater decontamination efficiency.

Matérn thinned Cox processes

DEFF Research Database (Denmark)

Andersen, Ina Trolle; Hahn, Ute

2016-01-01

and hard core behaviour can be achieved by applying a dependent Matérn thinning to a Cox process. An exact formula for the intensity of a Matérn thinned shot noise Cox process is derived from the Palm distribution. For the more general class of Matérn thinned Cox processes, formulae for the intensity...

Matérn thinned Cox processes

DEFF Research Database (Denmark)

Andersen, Ina Trolle; Hahn, Ute

of clustering and hard core behaviour can be achieved by applying a dependent Matérn thinning to a Cox process. An exact formula for the intensity of a Matérn thinned shot noise Cox process is derived from the Palm distribution. For the more general class of Matérn thinned Cox processes, formulae...

Biological removal of sulfur from coal flotation concentrate by culture isolated from coal washery plant tailing dump

Energy Technology Data Exchange (ETDEWEB)

Jorjani, E. [Azad University, Tehran (Iran). Mining Engineering Dept.

2005-10-15

A combination of flotation and microbial leaching processes was used to achieve acceptable level of sulfur and ash in Tabas coal sample of Iran. Representative sample of the minus 500 micron size fraction was subjected to flotation separation for the removal of ash and sulfur. The final concentrate with recovery, combustion value and sulfur content of 86.03, 86.45 and 1.35% respectively was achieved at pH 8 and following reagent dosage and operating conditions: collector: diesel oil (1200 g/ton), frother: MIBC (5%) + pine oil (95%) with concentration of 120 (g/ton), depressant: sodium silicate (1000 g/ton), particle size: {lt} 500 {mu} m and pulp density: 7%. Because of fine distribution of sulfur on Tabas coal macerals and lithotypes, high percentage of total sulfur (79.9%) is distributed in flotation concentrate and only 20.1% is yielded in the tails. So microbial leaching using a species isolated from coal washery plant tailing dump was used in batch system to remove sulfur from flotation concentrate. The conditions were optimized for the maximum removal of sulfur. These conditions were found to be pH of 2, particle size less than 0.18 mm; pulp density: 8%, temperature: 30 {sup o}C, shaking rate: 150 rpm conditions. Total sulfur and ash content was reduced by bioleaching from 13.55 and 1.35 in flotation concentrate to 9.47 and 0.55 in the final leached concentrate, a reduction of 35 and 61.9% respectively. Sterilization of coal adversely affects the sulfur reduction. The results suggest that the isolated culture is sufficiently effective for depyritization of Tabas coal flotation concentrate in stirred system.

Organic sulfur metabolisms in hydrothermal environments.

Science.gov (United States)

Rogers, Karyn L; Schulte, Mitchell D

2012-07-01

Sulfur is central to the metabolisms of many organisms that inhabit extreme environments. While biotic and abiotic cycling of organic sulfur compounds has been well documented in low-temperature anaerobic environments, cycling of organic sulfur in hydrothermal environments has received less attention. Recently published thermodynamic data have been used to estimate aqueous alkyl thiol and sulfide activities in deep-sea hydrothermal systems. Here we use geochemical mixing models to predict fluid compositions that result from mixing end-member hydrothermal fluid from the East Pacific Rise with bottom seawater. These fluid compositions are combined with estimates of methanethiol and dimethylsulfide activities to evaluate energy yields for potential organic sulfur-based metabolisms under hydrothermal conditions. Aerobic respiration has the highest energy yields (over -240 kJ/mol e⁻) at lower temperature; however, oxygen is unlikely to persist at high temperatures, restricting aerobic respiration to mesophilic communities. Nitrite reduction to N₂ has the highest energy yields at higher temperatures (greater than ∼40 °C). Nitrate and nitrite reduction to ammonium also yield significant energy (up to -70 kJ/mol e⁻). Much lower, but still feasible energy yields are calculated for sulfate reduction, disproportionation, and reduction with H₂. Organic compound family and the activity of methanethiol and dimethylsulfide were less important than metabolic strategy in determining overall energy yields. All metabolic strategies considered were exergonic within some portion of the mixing regime suggesting that organic sulfur-based metabolisms may be prevalent within deep-sea hydrothermal vent microbial communities. © 2012 Blackwell Publishing Ltd.

Ectomycorrhizal mats alter forest soil biogeochemistry

Science.gov (United States)

Laurel A. Kluber; Kathryn M. Tinnesand; Bruce A. Caldwell; Susie M. Dunham; Rockie R. Yarwood; Peter J. Bottomley; David D. Myrold

2010-01-01

Dense hyphal mats formed by ectomycorrhizal (EcM) fungi are prominent features in Douglas-fir forest ecosystems, and have been estimated to cover up to 40% of the soil surface in some forest stands. Two morphotypes of EcM mats have been previously described: rhizomorphic mats, which have thick hyphal rhizomorphs and are found primarily in the organic horizon, and...

Mercury methylation in Sphagnum moss mats and its association with sulfate-reducing bacteria in an acidic Adirondack forest lake wetland.

Science.gov (United States)

Yu, Ri-Qing; Adatto, Isaac; Montesdeoca, Mario R; Driscoll, Charles T; Hines, Mark E; Barkay, Tamar

2010-12-01

Processes leading to the bioaccumulation of methylmercury (MeHg) in northern wetlands are largely unknown. We have studied various ecological niches within a remote, acidic forested lake ecosystem in the southwestern Adirondacks, NY, to discover that mats comprised of Sphagnum moss were a hot spot for mercury (Hg) and MeHg accumulation (190.5 and 18.6 ng g⁻¹ dw, respectively). Furthermore, significantly higher potential methylation rates were measured in Sphagnum mats as compared with other sites within Sunday Lake's ecosystem. Although MPN estimates showed a low biomass of sulfate-reducing bacteria (SRB), 2.8 × 10⁴ cells mL⁻¹ in mat samples, evidence consisting of (1) a twofold stimulation of potential methylation by the addition of sulfate, (2) a significant decrease in Hg methylation in the presence of the sulfate reduction inhibitor molybdate, and (3) presence of dsrAB-like genes in mat DNA extracts, suggested that SRB were involved in Hg methylation. Sequencing of dsrB genes indicated that novel SRB, incomplete oxidizers including Desulfobulbus spp. and Desulfovibrio spp., and syntrophs dominated the sulfate-reducing guild in the Sphagnum moss mat. Sphagnum, a bryophyte dominating boreal peatlands, and its associated microbial communities appear to play an important role in the production and accumulation of MeHg in high-latitude ecosystems. © 2010 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved.

Biogeochemistry of sulfur and iron in Thioploca-colonized surface sediments in the upwelling area off central Chile

DEFF Research Database (Denmark)

Zopfi, Jakob; Michael E., Böttcher; Jørgensen, Bo Barker

2008-01-01

suggest further that pyritization at depth includes light sulfide, potentially originating from bacterial sulfur disproportionation. The δ34S-values of pyrite down to -38‰ vs. V-CDT are among the lightest found in organic-rich marine sediments. Seasonal variations in the sulfur isotope composition...... of dissolved sulfate indicated a dynamic non-steady-state sulfur cycle in the surface sediments. The 18O content of porewater sulfate increased with depth at all sites compared to the bottom water composition due to intracellular isotope exchange reactions during microbial sulfur transformations....

Visualizing Microbial Biogeochemistry: NanoSIMS and Stable Isotope Probing (Invited)

Science.gov (United States)

Pett-Ridge, J.; Weber, P. K.

2009-12-01

Linking phylogenetic information to function in microbial communities is a key challenge for microbial ecology. Isotope-labeling experiments provide a useful means to investigate the ecophysiology of microbial populations and cells in the environment and allow measurement of nutrient transfers between cell types, symbionts and consortia. The combination of Nano-Secondary Ion Mass Spectrometry (NanoSIMS) analysis, in situ labeling and high resolution microscopy allows isotopic analysis to be linked to phylogeny and morphology and holds great promise for fine-scale studies of microbial systems. In NanoSIMS analysis, samples are sputtered with an energetic primary beam (Cs+, O-) liberating secondary ions that are separated by the mass spectrometer and detected in a suite of electron multipliers. Five isotopic species may be analyzed concurrently with spatial resolution as fine as 50nm. A high sensitivity isotope ratio ‘map’ can then be generated for the analyzed area. NanoSIMS images of 13C, 15N and Mo (a nitrogenase co-factor) localization in diazotrophic cyanobacteria show how cells differentially allocate resources within filaments and allow calculation of nutrient uptake rates on a cell by cell basis. Images of AM fungal hyphae-root and cyanobacteria-rhizobia associations indicate the mobilization and sharing (stealing?) of newly fixed C and N. In a related technique, “El-FISH”, stable isotope labeled biomass is probed with oligonucleotide-elemental labels and then imaged by NanoSIMS. In microbial consortia and cyanobacterial mats, this technique helps link microbial structure and function simultaneously even in systems with unknown and uncultivated microbes. Finally, the combination of re-engineered universal 16S oligonucleotide microarrays with NanoSIMS analyses may allow microbial identity to be linked to functional roles in complex systems such as mats and cellulose degrading hindgut communities. These newly developed methods provide correlated

Biogenic sulfur and the acidity of rainfall in remote areas of Canada

International Nuclear Information System (INIS)

Nriagu, J.O.; Holdway, D.A.; Coker, R.D.

1987-01-01

Sulfur released from any given natural or anthropogenic source carries an isotopic signature that can be used to trace its flow through the environment. Measurements of the concentration and isotopic composition of sulfur in weekly bulk precipitation samples collected over a 4-year period at a remote location in location in northern Ontario were recorded. The long-term isotopic data and the measurement on the production and release of dimethyl sulfide from boreal wetlands show that biogenic sources can account for up to 30% of the acidifying sulfur burden in the atmosphere in remote areas of Canada. The data suggest that significant biological reemission of anthropogenic sulfur is occurring. The role of this process in the continuing acidification of the environment for years to come must be a matter of concern

Volatile Organic Sulfur Compounds of Environmental Interest: Dimethyl Sulfide and Methanethiol

Science.gov (United States)

Chasteen, Thomas G.; Bentley, Ronald

2004-01-01

Volatile organic sulfur compounds (VOSCs) have been assigned environmental roles in global warming, acid precipitation, and cloud formation where two important members dimethyl sulfide (CH3)2 S, DMS, and methanethiol, CH3SH, MT, of VOSC group are involved.

Role of a unique population of lithotrophic, Fe-oxidizing bacteria in forming microbial Fe-mats at the Loihi Seamount.

Science.gov (United States)

Emerson, D.; Rentz, J. A.; Moyer, C. L.

2005-12-01

The Loihi Seamount, located 30 km SE of the island of Hawai'i, is among the most active volcanos on Earth. The summit, at a depth of 1100m, includes a 250m deep caldera (Pele's Pit) formed by an eruption in 1996. The summit, and especially Pele's Pit, are the site of extensive low to intermediate temperature (10° to 65°C) hydrothermal venting, emanating both from diffuse fissures and orifices that have substantial flow rates. The vent fluid is characterized by a low sulfide content, high CO2 concentrations and Fe(II) amounts in the 10s to 100s of μM. Associated with all vents are extensive deposits of iron oxyhydroxides that typically have 107 to 108 bacterial cells/cc associated with them. The morphology of the Fe-oxides are indicative of biological origins. We have isolated microaerophilic, obligately lithotrophic Fe-oxidizing bacteria from Loihi and describe here `Mariprofundus ferroxydans' a unique bacterium that forms a filamentous iron oxide mineral. `M. ferroxydans' is the first cultured representative of a novel division of the Proteobacteria, known previously only from clones from different hydrothermal vent sites. Molecular evidence from Loihi mats based on clone libraries and terminal restriction length polymorphism (T-RFLP) analysis of 16S rRNA genes indicate that this lineage of Fe-oxidizing organisms are common inhabitants at Loihi. We speculate that this organism and its relatives form the basis of an active microbial mat community that owe their existence to the inherent gradients of Fe(II) and O2 that exist at the Loihi vents. In a geological context this is interesting because the Loihi summit and caldera are in an O2-minima zone; O2 concentrations in the bulk seawater are around 0.5 mg/l. In effect, Loihi could serve as a proxy for the late Archaean and early Proterozoic periods when the Earth's atmosphere went from reducing to oxidizing, and it is speculated that abundant Fe(II) in the Earth's oceans served as a major sink for O2 production

Sulfur metabolism in phototrophic sulfur bacteria

DEFF Research Database (Denmark)

Frigaard, Niels-Ulrik; Dahl, Christiane

2008-01-01

Phototrophic sulfur bacteria are characterized by oxidizing various inorganic sulfur compounds for use as electron donors in carbon dioxide fixation during anoxygenic photosynthetic growth. These bacteria are divided into the purple sulfur bacteria (PSB) and the green sulfur bacteria (GSB......). They utilize various combinations of sulfide, elemental sulfur, and thiosulfate and sometimes also ferrous iron and hydrogen as electron donors. This review focuses on the dissimilatory and assimilatory metabolism of inorganic sulfur compounds in these bacteria and also briefly discusses these metabolisms...... in other types of anoxygenic phototrophic bacteria. The biochemistry and genetics of sulfur compound oxidation in PSB and GSB are described in detail. A variety of enzymes catalyzing sulfur oxidation reactions have been isolated from GSB and PSB (especially Allochromatium vinosum, a representative...

Effects of sulfur in flooded paddy soils: Implications for iron chemistry and arsenic mobilization

Science.gov (United States)

Avancha, S.; Boye, K.

2013-12-01

In the Mekong delta in Cambodia, naturally occurring arsenic (amplified by erosion in the Himalaya Mountains) in paddy soils is mobilized during the seasonal flooding. As a consequence, rice grown on the flooded soils may take up arsenic and expose people eating the rice to this carcinogenic substance. Iron and sulfur both interact strongly with arsenic in paddy soils: iron oxides are strong adsorbents for arsenic in oxic conditions, and sulfur (in the form of sulfide) is a strong adsorbent under anoxic conditions. In the process of reductive dissolution of iron oxides, arsenic, which had been adsorbed to the iron oxides, is released. Therefore, higher levels of reduced iron (ferrous iron) will likely correlate with higher levels of mobilized arsenic. However, the mobilized arsenic may then co-precipitate with or adsorb to iron sulfides, which form under sulfate-reducing conditions and with the aid of certain microbes already present in the soil. In a batch experiment, we investigated how these processes correlate and which has the greatest influence on arsenic mobilization and potential plant availability. The experiment was designed to measure the effects of various sources of sulfur (dried rice straw, charred rice straw, and gypsum) on the iron and arsenic release in an arsenic-contaminated paddy soil from Cambodia under flooded conditions. The two types of rice straw were designed to introduce the same amount of organic sulfur (7.7 μg/g of soil), but different levels of available carbon, since carbon stimulates microbial activity in the soil. In comparison, two different levels of gypsum (calcium sulfate) were used, 7.7 and 34.65 μg/g of soil, to test the effect of directly available inorganic sulfate without carbon addition. The soil was flooded with a buffer solution at pH 7.07 in airtight serum vials and kept as a slurry on a shaker at 25 °C. We measured pH, alkalinity, ferrous iron, ferric iron, sulfide, sulfate, total iron, sulfur, and arsenic in the

Eutrophication, microbial-sulfate reduction and mass extinctions

DEFF Research Database (Denmark)

Schobben, Martin; Stebbins, Alan; Ghaderi, Abbas

2016-01-01

to the Earth system, notably, the biogeochemical sulfur and carbon cycle. This climate warming feedback produces large-scale eutrophication on the continental shelf, which, in turn, expands oxygen minimum zones by increased respiration, which can turn to a sulfidic state by increased microbial-sulfate...

Hexavalent chromium reduction in a sulfur reducing packed-bed bioreactor

Energy Technology Data Exchange (ETDEWEB)

Sahinkaya, Erkan, E-mail: erkansahinkaya@yahoo.com [Department of Bioengineering, Istanbul Medeniyet University, Goeztepe, Istanbul (Turkey); Kilic, Adem [Department of Environmental Engineering, Harran University, Osmanbey Campus, 63000 Sanliurfa (Turkey); Altun, Muslum [Department of Chemistry, Hacettepe University, Beytepe, Ankara (Turkey); Komnitsas, Kostas [Department of Mineral Resources Engineering, Technical University of Crete, 73100 Chania (Greece); Lens, Piet N.L. [Unesco-IHE Institute for Water Education, Westvest 7, Delft 2611 AX (Netherlands)

2012-06-15

Highlights: Black-Right-Pointing-Pointer Elemental sulfur can be used as electron acceptor for sulfide production. Black-Right-Pointing-Pointer Biogenically produced sulfide reduces Cr(VI) to the much less toxic and immobile form of Cr(III). Black-Right-Pointing-Pointer Sulfur packed bioreactor is efficient for Cr(VI) containing wastewater treatment. Black-Right-Pointing-Pointer Reduced form of chromium precipitates in the bioreactor. - Abstract: The most commonly used approach for the detoxification of hazardous industrial effluents and wastewaters containing Cr(VI) is its reduction to the much less toxic and immobile form of Cr(III). This study investigates the cleanup of Cr(VI) containing wastewaters using elemental sulfur as electron acceptor, for the production of hydrogen sulfide that induces Cr(VI) reduction. An elemental sulfur reducing packed-bed bioreactor was operated at 28-30 Degree-Sign C for more than 250 days under varying influent Cr(VI) concentrations (5.0-50.0 mg/L) and hydraulic retention times (HRTs, 0.36-1.0 day). Ethanol or acetate (1000 mg/L COD) was used as carbon source and electron donor. The degree of COD oxidation varied between 30% and 85%, depending on the operating conditions and the type of organic carbon source. The oxidation of organic matter was coupled with the production of hydrogen sulfide, which reached a maximum concentration of 750 mg/L. The biologically produced hydrogen sulfide reduced Cr(VI) chemically to Cr(III) that precipitated in the reactor. Reduction of Cr(VI) and removal efficiency of total chromium always exceeded 97% and 85%, respectively, implying that the reduced chromium was retained in the bioreactor. This study showed that sulfur can be used as an electron acceptor to produce hydrogen sulfide that induces efficient reduction and immobilization of Cr(VI), thus enabling decontamination of Cr(VI) polluted wastewaters.

Sulfur isotopes as a tracer for biogenic sulfate reduction in natural environments: A link between modern and ancient ecosystems. Geologica Ultraiectina (316)

NARCIS (Netherlands)

Stam, M.C.

2010-01-01

Sulfur isotopes have been widely used to trace the activity of sulfate reducing prokaryotes in modern and ancient geochemical settings and to estimate the role of this microbial metabolism in global sulfur cycling. Extensive pure culture data provide detailed insight into cellular mechanisms

Microbial community changes along the active seepage site of one cold seep in the Red Sea.

KAUST Repository

Cao, Huiluo

2015-07-21

The active seepage of the marine cold seeps could be a critical process for the exchange of energy between the submerged geosphere and the sea floor environment through organic-rich fluids, potentially even affecting surrounding microbial habitats. However, few studies have investigated the associated microbial community changes. In the present study, 16S rRNA genes were pyrosequenced to decipher changes in the microbial communities from the Thuwal seepage point in the Red Sea to nearby marine sediments in the brine pool, normal marine sediments and water, and benthic microbial mats. An unexpected number of reads from unclassified groups were detected in these habitats; however, the ecological functions of these groups remain unresolved. Furthermore, ammonia-oxidizing archaeal community structures were investigated using the ammonia monooxygenase subunit A (amoA) gene. Analysis of amoA showed that planktonic marine habitats, including seeps and marine water, hosted archaeal ammonia oxidizers that differed from those in microbial mats and marine sediments, suggesting modifications of the ammonia oxidizing archaeal (AOA) communities along the environmental gradient from active seepage sites to peripheral areas. Changes in the microbial community structure of AOA in different habitats (water vs. sediment) potentially correlated with changes in salinity and oxygen concentrations. Overall, the present results revealed for the first time unanticipated novel microbial groups and changes in the ammonia-oxidizing archaea in response to environmental gradients near the active seepages of a cold seep.

Microbial community changes along the active seepage site of one cold seep in the Red Sea.

KAUST Repository

Cao, Huiluo; Zhang, Weipeng; Wang, Yong; Qian, Pei-Yuan

2015-01-01

The active seepage of the marine cold seeps could be a critical process for the exchange of energy between the submerged geosphere and the sea floor environment through organic-rich fluids, potentially even affecting surrounding microbial habitats. However, few studies have investigated the associated microbial community changes. In the present study, 16S rRNA genes were pyrosequenced to decipher changes in the microbial communities from the Thuwal seepage point in the Red Sea to nearby marine sediments in the brine pool, normal marine sediments and water, and benthic microbial mats. An unexpected number of reads from unclassified groups were detected in these habitats; however, the ecological functions of these groups remain unresolved. Furthermore, ammonia-oxidizing archaeal community structures were investigated using the ammonia monooxygenase subunit A (amoA) gene. Analysis of amoA showed that planktonic marine habitats, including seeps and marine water, hosted archaeal ammonia oxidizers that differed from those in microbial mats and marine sediments, suggesting modifications of the ammonia oxidizing archaeal (AOA) communities along the environmental gradient from active seepage sites to peripheral areas. Changes in the microbial community structure of AOA in different habitats (water vs. sediment) potentially correlated with changes in salinity and oxygen concentrations. Overall, the present results revealed for the first time unanticipated novel microbial groups and changes in the ammonia-oxidizing archaea in response to environmental gradients near the active seepages of a cold seep.

Quantification and isotopic analysis of intracellular sulfur metabolites in the dissimilatory sulfate reduction pathway

Science.gov (United States)

Sim, Min Sub; Paris, Guillaume; Adkins, Jess F.; Orphan, Victoria J.; Sessions, Alex L.

2017-06-01

Microbial sulfate reduction exhibits a normal isotope effect, leaving unreacted sulfate enriched in 34S and producing sulfide that is depleted in 34S. However, the magnitude of sulfur isotope fractionation is quite variable. The resulting changes in sulfur isotope abundance have been used to trace microbial sulfate reduction in modern and ancient ecosystems, but the intracellular mechanism(s) underlying the wide range of fractionations remains unclear. Here we report the concentrations and isotopic ratios of sulfur metabolites in the dissimilatory sulfate reduction pathway of Desulfovibrio alaskensis. Intracellular sulfate and APS levels change depending on the growth phase, peaking at the end of exponential phase, while sulfite accumulates in the cell during stationary phase. During exponential growth, intracellular sulfate and APS are strongly enriched in 34S. The fractionation between internal and external sulfate is up to 49‰, while at the same time that between external sulfate and sulfide is just a few permil. We interpret this pattern to indicate that enzymatic fractionations remain large but the net fractionation between sulfate and sulfide is muted by the closed-system limitation of intracellular sulfate. This 'reservoir effect' diminishes upon cessation of exponential phase growth, allowing the expression of larger net sulfur isotope fractionations. Thus, the relative rates of sulfate exchange across the membrane versus intracellular sulfate reduction should govern the overall (net) fractionation that is expressed. A strong reservoir effect due to vigorous sulfate reduction might be responsible for the well-established inverse correlation between sulfur isotope fractionation and the cell-specific rate of sulfate reduction, while at the same time intraspecies differences in sulfate uptake and/or exchange rates could account for the significant scatter in this relationship. Our approach, together with ongoing investigations of the kinetic isotope

Biochemical process of ureolysis-based microbial CaCO3 precipitation and its application in self-healing concrete.

Science.gov (United States)

Xu, Jing; Wang, Xianzhi; Wang, Binbin

2018-04-01

Urea hydrolysis has already been considered as the most effective pathway for microbially induced CaCO 3 precipitation (MICP). The present work first studied the combination of several key factors including initial pH, temperature, and dosage of urea, which contribute to the biochemical process of MICP. Under an amiable condition of pH and temperature, the dosage of urea has a significant impact on the rate of urea degradation and CaCO 3 precipitation. A bacteria-based self-healing system was developed by loading healing agents on ceramsite carriers. The self-healing efficiency was evaluated by visual inspection on crack closure, compressive strength regain, and capillary water absorption. A preferable healing effectiveness was obtained when the bacteria and organic nutrients were co-immobilized in carriers. Image analysis showed that cracks up to 273 μm could be healed with a crack closure ratio of 86% in 28 days. The compressive strength regain increased 24% and the water absorption coefficient decreased 27% compared to the reference. The findings indicated a promising application of ureolysis-based MICP in restoring the mechanical properties and enhancing the durability of concrete.

Sulfur Cycling in an Iron Oxide-Dominated, Dynamic Marine Depositional System: The Argentine Continental Margin

Directory of Open Access Journals (Sweden)

Natascha Riedinger

2017-05-01

Full Text Available The interplay between sediment deposition patterns, organic matter type and the quantity and quality of reactive mineral phases determines the accumulation, speciation, and isotope composition of pore water and solid phase sulfur constituents in marine sediments. Here, we present the sulfur geochemistry of siliciclastic sediments from two sites along the Argentine continental slope—a system characterized by dynamic deposition and reworking, which result in non-steady state conditions. The two investigated sites have different depositional histories but have in common that reactive iron phases are abundant and that organic matter is refractory—conditions that result in low organoclastic sulfate reduction rates (SRR. Deposition of reworked, isotopically light pyrite and sulfurized organic matter appear to be important contributors to the sulfur inventory, with only minor addition of pyrite from organoclastic sulfate reduction above the sulfate-methane transition (SMT. Pore-water sulfide is limited to a narrow zone at the SMT. The core of that zone is dominated by pyrite accumulation. Iron monosulfide and elemental sulfur accumulate above and below this zone. Iron monosulfide precipitation is driven by the reaction of low amounts of hydrogen sulfide with ferrous iron and is in competition with the oxidation of sulfide by iron (oxyhydroxides to form elemental sulfur. The intervals marked by precipitation of intermediate sulfur phases at the margin of the zone with free sulfide are bordered by two distinct peaks in total organic sulfur (TOS. Organic matter sulfurization appears to precede pyrite formation in the iron-dominated margins of the sulfide zone, potentially linked to the presence of polysulfides formed by reaction between dissolved sulfide and elemental sulfur. Thus, SMTs can be hotspots for organic matter sulfurization in sulfide-limited, reactive iron-rich marine sedimentary systems. Furthermore, existence of elemental sulfur and iron

Electrochemical struvite precipitation from digestate with a fluidized bed cathode microbial electrolysis cell

KAUST Repository

Cusick, Roland D.

2014-05-01

Microbial electrolysis cells (MECs) can be used to simultaneously convert wastewater organics to hydrogen and precipitate struvite, but scale formation at the cathode surface can block catalytic active sites and limit extended operation. To promote bulk phase struvite precipitation and minimize cathode scaling, a two-chamber MEC was designed with a fluidized bed to produce suspended particles and inhibit scale formation on the cathode surface. MEC operation elevated the cathode pH to between 8.3 and 8.7 under continuous flow conditions. Soluble phosphorus removal using digester effluent ranged from 70 to 85% with current generation, compared to 10-20% for the control (open circuit conditions). At low current densities (≤2mA/m2), scouring of the cathode by fluidized particles prevented scale accumulation over a period of 8 days. There was nearly identical removal of soluble phosphorus and magnesium from solution, and an equimolar composition in the collected solids, supporting phosphorus removal by struvite formation. At an applied voltage of 1.0V, energy consumption from the power supply and pumping (0.2Wh/L, 7.5Wh/g-P) was significantly less than that needed by other struvite formation methods based on pH adjustment such as aeration and NaOH addition. In the anode chamber, current generation led to COD oxidation (1.1-2.1g-COD/L-d) and ammonium removal (7-12mM) from digestate amended with 1g/L of sodium acetate. These results indicate that a fluidized bed cathode MEC is a promising method of sustainable electrochemical nutrient and energy recovery method for nutrient rich wastewaters. © 2014 Elsevier Ltd.

Electrochemical struvite precipitation from digestate with a fluidized bed cathode microbial electrolysis cell

KAUST Repository

Cusick, Roland D.; Ullery, Mark L.; Dempsey, Brian A.; Logan, Bruce E.

2014-01-01

Microbial electrolysis cells (MECs) can be used to simultaneously convert wastewater organics to hydrogen and precipitate struvite, but scale formation at the cathode surface can block catalytic active sites and limit extended operation. To promote bulk phase struvite precipitation and minimize cathode scaling, a two-chamber MEC was designed with a fluidized bed to produce suspended particles and inhibit scale formation on the cathode surface. MEC operation elevated the cathode pH to between 8.3 and 8.7 under continuous flow conditions. Soluble phosphorus removal using digester effluent ranged from 70 to 85% with current generation, compared to 10-20% for the control (open circuit conditions). At low current densities (≤2mA/m2), scouring of the cathode by fluidized particles prevented scale accumulation over a period of 8 days. There was nearly identical removal of soluble phosphorus and magnesium from solution, and an equimolar composition in the collected solids, supporting phosphorus removal by struvite formation. At an applied voltage of 1.0V, energy consumption from the power supply and pumping (0.2Wh/L, 7.5Wh/g-P) was significantly less than that needed by other struvite formation methods based on pH adjustment such as aeration and NaOH addition. In the anode chamber, current generation led to COD oxidation (1.1-2.1g-COD/L-d) and ammonium removal (7-12mM) from digestate amended with 1g/L of sodium acetate. These results indicate that a fluidized bed cathode MEC is a promising method of sustainable electrochemical nutrient and energy recovery method for nutrient rich wastewaters. © 2014 Elsevier Ltd.

Hydrogen Dynamics in Cyanobacteria Dominated Microbial Mats Measured by Novel Combined H2/H2S and H2/O2 Microsensors

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Karen Maegaard

2017-10-01

Full Text Available Hydrogen may accumulate to micromolar concentrations in cyanobacterial mat communities from various environments, but the governing factors for this accumulation are poorly described. We used newly developed sensors allowing for simultaneous measurement of H2S and H2 or O2 and H2 within the same point to elucidate the interactions between oxygen, sulfate reducing bacteria, and H2 producing microbes. After onset of darkness and subsequent change from oxic to anoxic conditions within the uppermost ∼1 mm of the mat, H2 accumulated to concentrations of up to 40 μmol L-1 in the formerly oxic layer, but with high variability among sites and sampling dates. The immediate onset of H2 production after darkening points to fermentation as the main H2 producing process in this mat. The measured profiles indicate that a gradual disappearance of the H2 peak was mainly due to the activity of sulfate reducing bacteria that invaded the formerly oxic surface layer from below, or persisted in an inactive state in the oxic mat during illumination. The absence of significant H2 consumption in the formerly oxic mat during the first ∼30 min after onset of anoxic conditions indicated absence of active sulfate reducers in this layer during the oxic period. Addition of the methanogenesis inhibitor BES led to increase in H2, indicating that methanogens contributed to the consumption of H2. Both H2 formation and consumption seemed unaffected by the presence/absence of H2S.

Stable isotope phenotyping via cluster analysis of NanoSIMS data as a method for characterizing distinct microbial ecophysiologies and sulfur-cycling in the environment

Directory of Open Access Journals (Sweden)

Katherine S Dawson

2016-05-01

Full Text Available Stable isotope probing (SIP is a valuable tool for gaining insights into ecophysiology and biogeochemical cycling of environmental microbial communities by tracking isotopically labeled compounds into cellular macromolecules as well as into byproducts of respiration. SIP, in conjunction with nanoscale secondary ion mass spectrometry (NanoSIMS, allows for the visualization of isotope incorporation at the single cell level. In this manner, both active cells within a diverse population as well as heterogeneity in metabolism within a homogeneous population can be observed. The ecophysiological implications of these single cell stable isotope measurements are often limited to the taxonomic resolution of paired fluorescence in situ hybridization (FISH microscopy. Here we introduce a taxonomy-independent method using multi-isotope SIP and NanoSIMS for identifying and grouping phenotypically similar microbial cells by their chemical and isotopic fingerprint. This method was applied to SIP experiments in a sulfur-cycling biofilm collected from sulfidic intertidal vents amended with 13C-acetate, 15N-ammonium, and 33S-sulfate. Using a cluster analysis technique based on fuzzy c-means to group cells according to their isotope (13C/12C, 15N/14N, and 33S/32S and elemental ratio (C/CN and S/CN profiles, our analysis partitioned ~2200 cellular regions of interest (ROIs into 5 distinct groups. These isotope phenotype groupings are reflective of the variation in labeled substrate uptake by cells in a multispecies metabolic network dominated by Gamma- and Deltaproteobacteria. Populations independently grouped by isotope phenotype were subsequently compared with paired FISH data, demonstrating a single coherent deltaproteobacterial cluster and multiple gammaproteobacterial groups, highlighting the distinct ecophysiologies of spatially-associated microbes within the sulfur-cycling biofilm from White Point Beach, CA.

Expression of Genes Involved in Iron and Sulfur Respiration in a Novel Thermophilic Crenarchaeon Isolated from Acid-Sulfate-Chloride Geothermal Systems

Science.gov (United States)

Kozubal, M.; Macur, R.; Inskeep, W. P.

2007-12-01

complex (thiosulfate:quinone oxidoreductase) related to the Acidianus ambivalens DOXAD complex and a sulfur reductase (SRE) complex related to one found in Sulfolobus solfataricus and Acidianus ambivalens. Here we report on the RNA expression of seven gene sequences from each of the above mentioned complexes for Metallosphaera strain MK1 grown aerobically on pyrite, sulfur, Fe(II)-ferrihydrite, and anaerobically with yeast extract and sulfur. In addition, expression studies are also compared to in situ samples collected from the geothermal Fe-mats.

Microbial ecology and biogeochemistry of continental Antarctic soils

Directory of Open Access Journals (Sweden)

Don A Cowan

2014-04-01

Full Text Available The Antarctica Dry Valleys are regarded as the coldest hyperarid desert system on Earth. While a wide variety of environmental stressors including very low minimum temperatures, frequent freeze-thaw cycles and low water availability impose severe limitations to life, suitable niches for abundant microbial colonization exist. Antarctic desert soils contain much higher levels of microbial diversity than previously thought. Edaphic niches, including cryptic and refuge habitats, microbial mats and permafrost soils all harbour microbial communities which drive key biogeochemical cycling processes. For example, lithobionts (hypoliths and endoliths possess a genetic capacity for nitrogen and carbon cycling, polymer degradation and other system processes. Nitrogen fixation rates of hypoliths, as assessed through acetylene reduction assays, suggest that these communities are a significant input source for nitrogen into these oligotrophic soils. Here we review aspects of microbial diversity in Antarctic soils with an emphasis on functionality and capacity. We assess current knowledge regarding adaptations to Antarctic soil environments and highlight the current threats to Antarctic desert soil communities.

Biorremediación de los efluentes de cultivo del camarón Litopenaeus vannamei (Boone, 1931 utilizando tapetes microbianos en un sistema de recirculación Bioremediacion of effluents ones of the culture of Litopenaeus vannamei (Boone, 1931 using microbial mats in a recirculating system

Directory of Open Access Journals (Sweden)

Carlos Lezama-Cervantes

2010-01-01

Full Text Available Se desarrolló un sistema de recirculación (SR integrando el cultivo del camarón con tapetes microbianos buscando mitigar los impactos ambientales de los subproductos del cultivo del camarón y avanzar hacia la biorremediación del agua de cultivo. Los consorcios microbianos obtenidos de ambientes naturales (TaM estuvieron constituidos por bacterias (55,6%, cianófitas (18,4%, diatomeas (9%, nemátodos (5,6% y clorófitas (1,4%, entre los grupos taxonómicos principales. La remoción de nutrientes y sólidos se evaluó en un SR (2 ciclos/hora conteniendo (n = 3 60 y 120 ind m-2 de Litopenaeus vannamei. Los resultados demostraron que los TaM redujeron los niveles de nitrógeno amoniacal por encima del 71% diariamente; la demanda bioquímica de oxígeno (DBO5 se redujo más de 68% y los sólidos suspendidos (SST hasta en 62% al compararse con los sistemas control (p 0,05. El agua bio-remediada tiene un efecto positivo en el cultivo de Litopenaeus vannamei, y promueve el crecimiento y sobrevivencia en presencia de TaM en el SR.We developed a recirculating system integrating shrimp culture with microbial mats aiming to mitigate the environmental impacts of by-products from shrimp culture and to advance toward the bioremediation of the shrimp culture water. The microbial consortia collected from natural environments (TaM was constituted by bacteria (55.6%, Cyanophyte (18.4%, diatoms (9%, nematods (5.6% and Chlorophyte algae (1.4% among the major taxonomic groups. The removal of nutrients and solids by these mats was assessed in a recirculating system (2 cycles/hour (n = 3 containing 60 and 120 ind m-2 of Litopenaeus vannamei. Results showed that the microbial mat reduces daily up to 71% of ammonia nitrogen, decreases around 68% of the biochemical oxygen demand (DBO5 and up to 62% of suspended solids (SST when comparing to the control systems (p 0.05. The Bioremediated culture water had a positive effect on the culture of Litopenaeus vannamei, and

Evaluation of microbially-influenced degradation of massive concrete structures

International Nuclear Information System (INIS)

Hamilton, M.A.; Rogers, R.D.; Zolynski, M.; Veeh, R.

1996-01-01

Many low level waste disposal vaults, both above and below ground, are constructed of concrete. One potential contributing agent to the destruction of concrete structures is microbially-influenced degradation (MID). Three groups of bacteria are known to create conditions that are conducive to destroying concrete integrity. They are sulfur oxidizing bacteria, nitrifying bacteria, and heterotrophic bacteria. Research is being conducted at the Idaho National Engineering Laboratory to assess the extent of naturally occurring microbially influenced degradation (MID) and its contribution to the deterioration of massive concrete structures. The preliminary steps to understanding the extent of MID, require assessing the microbial communities present on degrading concrete surfaces. Ultimately such information can be used to develop guidelines for preventive or corrective treatments for MID and aid in formulation of new materials to resist corrosion. An environmental study was conducted to determine the presence and activity of potential MID bacteria on degrading concrete surfaces of massive concrete structures. Scanning electron microscopy detected bacteria on the surfaces of concrete structures such as bridges and dams, where corrosion was evident. Enumeration of sulfur oxidizing thiobacilli and nitrogen oxidizing Nitrosomonas sp. and Nitrobacter sp. from surface samples was conducted. Bacterial community composition varied between sampling locations, and generally the presence of either sulfur oxidizers or nitrifiers dominated, although instances of both types of bacteria occurring together were encountered. No clear correlation between bacterial numbers and degree of degradation was exhibited

Resilience and receptivity worked in tandem to sustain a geothermal mat community amidst erratic environmental conditions.

Science.gov (United States)

Ghosh, Wriddhiman; Roy, Chayan; Roy, Rimi; Nilawe, Pravin; Mukherjee, Ambarish; Haldar, Prabir Kumar; Chauhan, Neeraj Kumar; Bhattacharya, Sabyasachi; Agarwal, Atima; George, Ashish; Pyne, Prosenjit; Mandal, Subhrangshu; Rameez, Moidu Jameela; Bala, Goutam

2015-07-17

To elucidate how geothermal irregularities affect the sustainability of high-temperature microbiomes we studied the synecological dynamics of a geothermal microbial mat community (GMMC) vis-à-vis fluctuations in its environment. Spatiotemporally-discrete editions of a photosynthetic GMMC colonizing the travertine mound of a circum-neutral hot spring cluster served as the model-system. In 2010 a strong geyser atop the mound discharged mineral-rich hot water, which nourished a GMMC continuum from the proximal channels (PC) upto the slope environment (SE) along the mound's western face. In 2011 that geyser extinguished and consequently the erstwhile mats disappeared. Nevertheless, two relatively-weaker vents erupted in the southern slope and their mineral-poor outflow supported a small GMMC patch in the SE. Comparative metagenomics showed that this mat was a relic of the 2010 community, conserved via population dispersal from erstwhile PC as well as SE niches. Subsequently in 2012, as hydrothermal activity augmented in the southern slope, ecological niches widened and the physiologically-heterogeneous components of the 2011 "seed-community" split into PC and SE meta-communities, thereby reclaiming either end of the thermal gradient. Resilience of incumbent populations, and the community's receptiveness towards immigrants, were the key qualities that ensured the GMMC's sustenance amidst habitat degradation and dispersal to discrete environments.

Microbial community of cyanobacteria mats in the intertidal zone of oil-polluted coast of Saudi Arabia.

Science.gov (United States)

Al-Thukair, A A; Abed, R M M; Mohamed, L

2007-02-01

Cyanobacterial mats are found at various locations along the coast of the Eastern Province of Saudi Arabia. Those mats were affected by severe oil pollution following 1991 oil spill. In this study, samples from Abu Ali Island were collected at three selected sampling sites across the intertidal zone (Lower, Middle, and Upper) in order to understand the effect of extreme environmental conditions of high salinity, temperature and desiccation on distribution of cyanobacteria along the oil polluted intertidal zone. Our investigation of composition of cyanobacteria and diatoms was carried out using light microscopy, and Denaturant Gradient Gel Electrophoresis (DGGE) technique. Light microscopy identification revealed dominant cyanobacteria to be affiliated with genera Phormidium, Microcoleus, and Schizothrix, and to a lesser extent with Oscillatoria, Halothece, and various diatom species. The analysis of DGGE of PCR-amplified 16S rRNA fragments showed that the diversity of cyanobacteria decreases as we proceed from the lower to the upper intertidal zone. Accordingly, the tidal regime, salinity, elevated ambient air temperature, and desiccation periods have a great influence on the distribution of cyanobacterial community in the oil polluted intertidal zone of Abu Ali Island.

Continuous precipitation process of plutonium salts; Procede continu de precipitation des sels de plutonium

Energy Technology Data Exchange (ETDEWEB)

Richard, P [Commissariat a l' Energie Atomique, Fontenay-aux-Roses (France). Centre d' Etudes Nucleaires

1967-03-01

This work concerns the continuous precipitation process of plutonium oxalate. Investigations about the solubility of different valence states in nitric-oxalic and in nitric-sulfuric-oxalic medium lead to select the precipitation process of tetravalent plutonium oxalate. Settling velocity and granulometry of tetravalent oxalate plutonium have been studied with variation of several precipitation parameters such as: temperature, acidity, excess of oxalic acid and aging time. Then are given test results of some laboratory continuous apparatus. Conditions of operation with adopted tubular apparatus are defined in conclusion. A flow-sheet is given for a process at industrial scale. (author) [French] Cette etude porte sur la precipitation continue de l'oxalate de plutonium. L'etude de la solubilite des differentes valences du plutonium dans des milieux acides nitrique-oxalique, puis nitrique-sulfurique-oxalique conduit a choisir la precipitation de l'oxalate de plutonium tetravalent. L'etude porte ensuite sur la sedimentation et la granulometrie de l'oxalate de Pu{sup 4+} obtenue en faisant varier differents parametres de la precipitation : la temperature, l'acidite, l'exces oxalique et le temps de murissement. La derniere partie traite des resultats obtenus avec plusieurs types d'appareils continus essayes au laboratoire. En conclusion sont donnees les conditions de marche de l'appareil tubulaire adopte, ainsi qu'une extrapolation a l'echelle industrielle sous forme d'un flow-sheet. (auteur)

Novel bacterial sulfur oxygenase reductases from bioreactors treating gold-bearing concentrates

DEFF Research Database (Denmark)

Chen, Z-W; Liu, Y-Y; Wu, J-F

2007-01-01

The microbial community and sulfur oxygenase reductases of metagenomic DNA from bioreactors treating gold-bearing concentrates were studied by 16S rRNA library, real-time polymerase chain reaction (RT-PCR), conventional cultivation, and molecular cloning. Results indicated that major bacterial......) of bacteria and archaea were 4.59 x 10(9) and 6.68 x 10(5), respectively. Bacterial strains representing Acidithiobacillus, Leptospirillum, and Sulfobacillus were isolated from the bioreactors. To study sulfur oxidation in the reactors, pairs of new PCR primers were designed for the detection of sulfur...... oxygenase reductase (SOR) genes. Three sor-like genes, namely, sor (Fx), sor (SA), and sor (SB) were identified from metagenomic DNAs of the bioreactors. The sor (Fx) is an inactivated SOR gene and is identical to the pseudo-SOR gene of Ferroplasma acidarmanus. The sor (SA) and sor (SB) showed...

Improvement of sulfur resistance of Pd/Ce-Zr-Al-O catalysts for CO oxidation

Science.gov (United States)

Shin, Haebin; Baek, Minsung; Ro, Youngsoo; Song, Changyeol; Lee, Kwan-Young; Song, In Kyu

2018-01-01