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

Volcano-ice interaction as a microbial habitat on Earth and Mars.

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Cousins, Claire R; Crawford, Ian A

2011-09-01

Volcano-ice interaction has been a widespread geological process on Earth that continues to occur to the present day. The interaction between volcanic activity and ice can generate substantial quantities of liquid water, together with steep thermal and geochemical gradients typical of hydrothermal systems. Environments available for microbial colonization within glaciovolcanic systems are wide-ranging and include the basaltic lava edifice, subglacial caldera meltwater lakes, glacier caves, and subsurface hydrothermal systems. There is widespread evidence of putative volcano-ice interaction on Mars throughout its history and at a range of latitudes. Therefore, it is possible that life on Mars may have exploited these habitats, much in the same way as has been observed on Earth. The sedimentary and mineralogical deposits resulting from volcano-ice interaction have the potential to preserve evidence of any indigenous microbial populations. These include jökulhlaup (subglacial outflow) sedimentary deposits, hydrothermal mineral deposits, basaltic lava flows, and subglacial lacustrine deposits. Here, we briefly review the evidence for volcano-ice interactions on Mars and discuss the geomicrobiology of volcano-ice habitats on Earth. In addition, we explore the potential for the detection of these environments on Mars and any biosignatures these deposits may contain.

Methane isotopic signature of gas bubbles in permafrost winter lake ice: a tool for quantifying variable oxidation levels

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Sapart, C. J.; Boereboom, T.; Roeckmann, T.; Tison, J.-L.

2012-04-01

Methane (CH4) is a strong greenhouse gas and its atmospheric mixing ratio has strongly increased since pre-industrial times. This increase was primarily due to emissions from anthropogenic sources, but there is growing concern about possible feedbacks of natural sources in a changing climate. Thawing of permafrost areas in the Arctic is considered as an important feedback, since the Arctic region undergoes the fastest climate change and hosts large carbon stocks. Subarctic lakes are considered as "hotspots" for CH4 emissions, but the role of the ice cover during the winter period is not well understood to date. Here, we present measurements of CH4 mixing ratio and δ13C-CH4 in 4 types of bubbles identified in subarctic lake ice covers located in a sporadic or discontinuous permafrost area. Our analysis reveals that different bubble types contain CH4 with different, specific isotopic signatures. The evolution of mixing ratio and δ13C-CH4 suggest that oxidation of dissolved CH4 is the most important process determining the isotopic composition of CH4 in bubbles. This results from gas exsolution occurring during the ice growth process. A first estimate of the CH4 oxidation budget (mean = 0.12 mg CH4 m-2 d-1) enables to quantify the impact of the ice cover on CH4 emissions from subartic lakes. The increased exchange time between gases coming from the sediments and the water column, due to the capping effect of the lake ice cover, reduces the amount of CH4 released "as is" and favours its oxidation into carbon dioxide; the latter being further added to the HCO3- pool through the carbonate equilibration reactions.

Microbial processes at the beds of glaciers and ice sheets: a look at life below the Whillans Ice Stream

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Mikucki, J.; Campen, R.; Vancleave, S.; Scherer, R. P.; Coenen, J. J.; Powell, R. D.; Tulaczyk, S. M.

2017-12-01

Groundwater, saturated sediments and hundreds of subglacial lakes exist below the ice sheets of Antarctica. The few Antarctic subglacial environments sampled to date all contain viable microorganisms. This is a significant finding because microbes are known to be key in mediating biogeochemical cycles. In sediments, microbial metabolic activity can also result in byproducts or direct interactions with sediment particles that influence the physical and geochemical characteristics of the matrix they inhabit. Subglacial Lake Whillans (SLW), a fresh water lake under the Whillans Ice Stream that drains into the Ross Sea at its grounding zone, was recently sampled as part of the NSF-funded Whillans Ice Stream Subglacial Access Research Drilling (WISSARD) project. Sediments from both SLW and its grounding zone contain microbial taxa related to iron, sulfur, nitrogen and methane oxidizers. In addition to molecular data, biogeochemical measurements and culture based experiments on Whillans sediments support the notion that the system is chemosynthetic with energy derived in part by cycling inorganic compounds. Etch pitting and mineral precipitates on fossil sponge spicules suggest that spicules may also provide microbial nutrients in these environments. Perhaps the most widespread microbial process that affects sediment structure and mineral weathering is the production of extra polymeric substances (EPS). Several phylogenetic groups detected in Whillans sediments are known to produce EPS and we have observed its production in pure cultures enriched directly from these sediments. Our data sheds light on how microbial life persists below the Antarctic Ice Sheet despite extended isolation in icy darkness, and how these microbes may be shaping their environment.

Allee effect: the story behind the stabilization or extinction of microbial ecosystem.

Science.gov (United States)

Goswami, Madhurankhi; Bhattacharyya, Purnita; Tribedi, Prosun

2017-03-01

A population exhibiting Allee effect shows a positive correlation between population fitness and population size or density. Allee effect decides the extinction or conservation of a microbial population and thus appears to be an important criterion in population ecology. The underlying factor of Allee effect that decides the stabilization and extinction of a particular population density is the threshold or the critical density of their abundance. According to Allee, microbial populations exhibit a definite, critical or threshold density, beyond which the population fitness of a particular population increases with the rise in population density and below it, the population fitness goes down with the decrease in population density. In particular, microbial population displays advantageous traits such as biofilm formation, expression of virulence genes, spore formation and many more only at a high population density. It has also been observed that microorganisms exhibiting a lower population density undergo complete extinction from the residual microbial ecosystem. In reference to Allee effect, decrease in population density or size introduces deleterious mutations among the population density through genetic drift. Mutations are carried forward to successive generations resulting in its accumulation among the population density thus reducing its microbial fitness and thereby increasing the risk of extinction of a particular microbial population. However, when the microbial load is high, the chance of genetic drift is less, and through the process of biofilm formation, the cooperation existing among the microbial population increases that increases the microbial fitness. Thus, the high microbial population through the formation of microbial biofilm stabilizes the ecosystem by increasing fitness. Taken together, microbial fitness shows positive correlation with the ecosystem conservation and negative correlation with ecosystem extinction.

A multi-objective constraint-based approach for modeling genome-scale microbial ecosystems.

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Marko Budinich

Full Text Available Interplay within microbial communities impacts ecosystems on several scales, and elucidation of the consequent effects is a difficult task in ecology. In particular, the integration of genome-scale data within quantitative models of microbial ecosystems remains elusive. This study advocates the use of constraint-based modeling to build predictive models from recent high-resolution -omics datasets. Following recent studies that have demonstrated the accuracy of constraint-based models (CBMs for simulating single-strain metabolic networks, we sought to study microbial ecosystems as a combination of single-strain metabolic networks that exchange nutrients. This study presents two multi-objective extensions of CBMs for modeling communities: multi-objective flux balance analysis (MO-FBA and multi-objective flux variability analysis (MO-FVA. Both methods were applied to a hot spring mat model ecosystem. As a result, multiple trade-offs between nutrients and growth rates, as well as thermodynamically favorable relative abundances at community level, were emphasized. We expect this approach to be used for integrating genomic information in microbial ecosystems. Following models will provide insights about behaviors (including diversity that take place at the ecosystem scale.

Microbial biodiversity of Sardinian oleic ecosystems.

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Santona, Mario; Sanna, Maria Lina; Multineddu, Chiara; Fancello, Francesco; de la Fuente, Sara Audije; Dettori, Sandro; Zara, Severino

2018-04-01

The olives are rich in microorganisms that, during the extraction process may persist in the oils and can influence their physicochemical and sensory characteristics. In this work, and for the first time, we isolated and identified microbial species, yeast and bacteria, present during the production process in four Sardinian (Italy) oleic ecosystems. Among these varieties, we found that Nera di Gonnos was associated to the highest microbial biodiversity, which was followed by Bosana, Nocellara del Belice and Semidana. Among the different microbial species isolated, some are specific of olive ecological niches, such as Cryptococcus spp and Serratia spp; and others to olive oils such as Candida spp and Saccharomyces. Some other species identified in this work were not found before in oleic ecosystems. The enzymatic analyses of yeast and bacteria showed that they have good β-glucosidase activity and yeast also showed good β-glucanase activity. The majority of bacteria presented lipolytic and catalase activities while in yeast were species-specific. Interestingly, yeast and bacteria isolates presented a high resistance to bile acid, and about 65% of the yeast were able to resist at pH 2.5 for 2 h. Finally, bacteria showed no biofilm activity compared to yeast. Copyright © 2017 Elsevier Ltd. All rights reserved.

Chemotrophic Ecosystem Beneath the Larsen Ice Shelf, Antarctica

Science.gov (United States)

Leventer, A.; Domack, E.; Ishman, S.; Sylva, S.; Willmott, V.; Huber, B.; Padman, L.

2005-12-01

The first living chemotrophic ecosystem in the Southern Ocean was discovered in a region of the seafloor previously occupied by the Larsen-B Ice Shelf. A towed video survey documents an ecosystem characterized by a bottom-draping white mat that appears similar to mats of Begiattoa, hydrogen sulfide oxidizing bacteria, and bivalves, 20-30 cm large, similar to vesicomyid clams commonly found at cold seeps. The carbon source is unknown; three potential sources are hypothesized. First, thermogenically-produced methane may occur as the marine shales of this region are similar to hydrocarbon-bearing rocks to the north in Patagonia. The site occurs in an 850 m deep glacially eroded trough located along the contact between Mesozoic-Tertiary crystalline basement and Cretaceous-Tertiary marine rocks; decreased overburden could have induced upward fluid flow. Also possible is the dissociation of methane hydrates, a process that might have occurred as a result of warming oceanic bottom waters. This possibility will be discussed in light of the distribution of early diagenetic ikaite in the region. Third, the possibility of a biogenic methane source will be discussed. A microstratigraphic model for the features observed at the vent sites will be presented; the system is comprised of mud mounds with central vents and surrounding mud flow channels. A series of still image mosaics record the dynamic behavior of the system, which appears to demonstrate episodic venting. These images show the spatial relationship between more and less active sites, as reflected in the superposition of several episodes of mud flow activity and the formation of mud channels. In addition, detailed microscale features of the bathymetry of the site will be presented, placing the community within the context of glacial geomorphologic features. The Larsen-B Ice Shelf persisted through the entire Holocene, limiting carbon influx from a photosynthetic source. Tidal modeling of both pre and post breakup

Comparison of CO/sub 2/ measurements by two laboratories on air from bubbles in polar ice

Energy Technology Data Exchange (ETDEWEB)

Barnola, J.M.; Raynaud, D.; Neftel, A.; Oeschger, H.

1983-06-02

The CO/sub 2/ content of air enclosed in bubbles in polar ice has been reported by two laboratories (in Grenoble and Bern) to be representative of the atmospheric CO/sub 2/ concentration at the time the ice was formed. Such ice core studies indicate lower concentrations in ice formed at the end of the ice age, around 18,000 yr BP, and several explanations have been proposed for such a change. Both laboratories are currently measuring various ice cores in order to determine the pre-AD 1850 CO/sub 2/ level in the atmosphere, which relates to the partitioning of anthropogenic CO/sub 2/ among the atmospheric, biospheric and oceanic reservoirs. The two laboratories use different ice cores and different analytical procedures and, therefore, there is a need to know to what extent the measurements are quantitatively comparable. The results are presented of a comparison between the two laboratories based on measurements from the same ice core sections, which indicate that the measurements can be compared with great confidence. The results suggest that the mean CO/sub 2/ level recorded by Antartic ice for the period 800-2500 yr BP is about 260 p.p.m.v.

Climate regulates alpine lake ice cover phenology and aquatic ecosystem structure

Science.gov (United States)

Preston, Daniel L.; Caine, Nel; McKnight, Diane M.; Williams, Mark W.; Hell, Katherina; Miller, Matthew P.; Hart, Sarah J.; Johnson, Pieter T.J.

2016-01-01

High-elevation aquatic ecosystems are highly vulnerable to climate change, yet relatively few records are available to characterize shifts in ecosystem structure or their underlying mechanisms. Using a long-term dataset on seven alpine lakes (3126 to 3620 m) in Colorado, USA, we show that ice-off dates have shifted seven days earlier over the past 33 years and that spring weather conditions – especially snowfall – drive yearly variation in ice-off timing. In the most well-studied lake, earlier ice-off associated with increases in water residence times, thermal stratification, ion concentrations, dissolved nitrogen, pH, and chlorophyll-a. Mechanistically, low spring snowfall and warm temperatures reduce summer stream flow (increasing lake residence times) but enhance melting of glacial and permafrost ice (increasing lake solute inputs). The observed links among hydrological, chemical, and biological responses to climate factors highlight the potential for major shifts in the functioning of alpine lakes due to forecasted climate change.

Measurements and properties of ice particles and carbon dioxide bubbles in aqueous mixture utilizing optical techniques

Science.gov (United States)

Diallo, Amadou O.

Optical techniques are used to determine the size, shape and many other properties of particles ranging from the micro to a nano-level. These techniques have endless applications. This research is based on a project assigned by a "Vendor" that wants anonymity. The Leica optical microscope and the Dark Field Polarizing Metallurgical Microscope is used to determine the size and count of ice crystals (Vendors products) in multiple time frames. Since the ice temperature influences, its symmetry and the shape is subject to changes at room temperature (300 K) and the atmospheric pressure that is exerted on the ice crystals varies. The ice crystals are in a mixture of water, electrolytes and carbon dioxide with the optical spectroscopy (Qpod2) and Spectra suite, the optical density of the ice crystals is established from the absorbance and transmission measurements. The optical density in this case is also referred to as absorption; it is plotted with respect to a frequency (GHz), wavelength (nm) or Raman shift (1/cm) which shows the light colliding with the ice particles and CO2. Depending on the peaks positions, it is possible to profile the ice crystal sizes using a mean distribution plots. The region of absorbency wavelength expected for the ice is in the visible range; the water molecules in the (UV) Ultra-violet range and the CO2 in the (IR) infrared region. It is also possible to obtain the reflection and transmission output as a percentage change with the wavelengths ranging from 200 to 1100 nm. The refractive index of the ice can be correlated to the density based on the optical acoustic theorem, or Mie Scattering Theory. The viscosity of the ice crystals and the solutions from which the ice crystals are made of as well are recorded with the SV-10 viscometer. The baseline viscosity is used as reference and set lower than that of the ice crystals. The Zeta potential of the particles present in the mixture are approximated by first finding the viscosity of the

Soil Microbial Community Successional Patterns during Forest Ecosystem Restoration ▿†

Science.gov (United States)

Banning, Natasha C.; Gleeson, Deirdre B.; Grigg, Andrew H.; Grant, Carl D.; Andersen, Gary L.; Brodie, Eoin L.; Murphy, D. V.

2011-01-01

Soil microbial community characterization is increasingly being used to determine the responses of soils to stress and disturbances and to assess ecosystem sustainability. However, there is little experimental evidence to indicate that predictable patterns in microbial community structure or composition occur during secondary succession or ecosystem restoration. This study utilized a chronosequence of developing jarrah (Eucalyptus marginata) forest ecosystems, rehabilitated after bauxite mining (up to 18 years old), to examine changes in soil bacterial and fungal community structures (by automated ribosomal intergenic spacer analysis [ARISA]) and changes in specific soil bacterial phyla by 16S rRNA gene microarray analysis. This study demonstrated that mining in these ecosystems significantly altered soil bacterial and fungal community structures. The hypothesis that the soil microbial community structures would become more similar to those of the surrounding nonmined forest with rehabilitation age was broadly supported by shifts in the bacterial but not the fungal community. Microarray analysis enabled the identification of clear successional trends in the bacterial community at the phylum level and supported the finding of an increase in similarity to nonmined forest soil with rehabilitation age. Changes in soil microbial community structure were significantly related to the size of the microbial biomass as well as numerous edaphic variables (including pH and C, N, and P nutrient concentrations). These findings suggest that soil bacterial community dynamics follow a pattern in developing ecosystems that may be predictable and can be conceptualized as providing an integrated assessment of numerous edaphic variables. PMID:21724890

Bubble Curtains: Herbivore Exclusion Devices for Ecology and Restoration of Marine Ecosystems?

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Scott Bennett

2017-09-01

Full Text Available Herbivorous fishes play a critical role in maintaining or disrupting the ecological resilience of many kelp forests, coral reefs and seagrass ecosystems, worldwide. The increasing rate and scale of benthic habitat loss under global change has magnified the importance of herbivores and highlights the need to study marine herbivory at ecologically relevant scales. Currently, underwater herbivore exclusions (or inclusions have been restricted to small scale experimental plots, in large part due to the challenges of designing structures that can withstand the physical forces of waves and currents, without drastically altering the physical environment inside the exclusion area. We tested the ability of bubble curtains to deter herbivorous fishes from feeding on seaweeds as an alternative to the use of rigid exclusion cages. Kelps (Ecklonia radiata were transplanted onto reefs with high browsing herbivore pressure into either unprotected plots, exclusion cages or plots protected by bubble curtains of 0.785 m2 and 3.14 m2. Remote underwater video was used to compare the behavioral response of fishes to kelps protected and unprotected by bubble curtains. Kelp biomass loss was significantly lower inside the bubble curtains compared to unprotected kelps and did not differ from kelp loss rates in traditional exclusion cages. Consistent with this finding, no herbivorous fishes were observed entering into the bubble curtain at any point during the experiment. In contrast, fish bite rates on unprotected kelps were 1,621 ± 702 bites h−1 (mean ± SE. Our study provides initial evidence that bubble curtains can exclude herbivorous fishes, paving the way for future studies to examine their application at larger spatial and temporal scales, beyond what has been previously feasible using traditional exclusion cages.

Comparison of seasonal soil microbial process in snow-covered temperate ecosystems of northern China.

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Xinyue Zhang

Full Text Available More than half of the earth's terrestrial surface currently experiences seasonal snow cover and soil frost. Winter compositional and functional investigations in soil microbial community are frequently conducted in alpine tundra and boreal forest ecosystems. However, little information on winter microbial biogeochemistry is known from seasonally snow-covered temperate ecosystems. As decomposer microbes may differ in their ability/strategy to efficiently use soil organic carbon (SOC within different phases of the year, understanding seasonal microbial process will increase our knowledge of biogeochemical cycling from the aspect of decomposition rates and corresponding nutrient dynamics. In this study, we measured soil microbial biomass, community composition and potential SOC mineralization rates in winter and summer, from six temperate ecosystems in northern China. Our results showed a clear pattern of increased microbial biomass C to nitrogen (N ratio in most winter soils. Concurrently, a shift in soil microbial community composition occurred with higher fungal to bacterial biomass ratio and gram negative (G- to gram positive (G+ bacterial biomass ratio in winter than in summer. Furthermore, potential SOC mineralization rate was higher in winter than in summer. Our study demonstrated a distinct transition of microbial community structure and function from winter to summer in temperate snow-covered ecosystems. Microbial N immobilization in winter may not be the major contributor for plant growth in the following spring.

An open source platform for multi-scale spatially distributed simulations of microbial ecosystems

Energy Technology Data Exchange (ETDEWEB)

Segre, Daniel [Boston Univ., MA (United States)

2014-08-14

The goal of this project was to develop a tool for facilitating simulation, validation and discovery of multiscale dynamical processes in microbial ecosystems. This led to the development of an open-source software platform for Computation Of Microbial Ecosystems in Time and Space (COMETS). COMETS performs spatially distributed time-dependent flux balance based simulations of microbial metabolism. Our plan involved building the software platform itself, calibrating and testing it through comparison with experimental data, and integrating simulations and experiments to address important open questions on the evolution and dynamics of cross-feeding interactions between microbial species.

Microbial ecology of fermentative hydrogen producing bioprocesses: useful insights for driving the ecosystem function.

Science.gov (United States)

Cabrol, Lea; Marone, Antonella; Tapia-Venegas, Estela; Steyer, Jean-Philippe; Ruiz-Filippi, Gonzalo; Trably, Eric

2017-03-01

One of the most important biotechnological challenges is to develop environment friendly technologies to produce new sources of energy. Microbial production of biohydrogen through dark fermentation, by conversion of residual biomass, is an attractive solution for short-term development of bioH2 producing processes. Efficient biohydrogen production relies on complex mixed communities working in tight interaction. Species composition and functional traits are of crucial importance to maintain the ecosystem service. The analysis of microbial community revealed a wide phylogenetic diversity that contributes in different-and still mostly unclear-ways to hydrogen production. Bridging this gap of knowledge between microbial ecology features and ecosystem functionality is essential to optimize the bioprocess and develop strategies toward a maximization of the efficiency and stability of substrate conversion. The aim of this review is to provide a comprehensive overview of the most up-to-date biodata available and discuss the main microbial community features of biohydrogen engineered ecosystems, with a special emphasis on the crucial role of interactions and the relationships between species composition and ecosystem service. The elucidation of intricate relationships between community structure and ecosystem function would make possible to drive ecosystems toward an improved functionality on the basis of microbial ecology principles. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Microbial ecology of mountain glacier ecosystems: biodiversity, ecological connections and implications of a warming climate.

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Hotaling, Scott; Hood, Eran; Hamilton, Trinity L

2017-08-01

Glacier ecosystems are teeming with life on, beneath, and to a lesser degree, within their icy masses. This conclusion largely stems from polar research, with less attention paid to mountain glaciers that overlap environmentally and ecologically with their polar counterparts in some ways, but diverge in others. One difference lies in the susceptibility of mountain glaciers to the near-term threat of climate change, as they tend to be much smaller in both area and volume. Moreover, mountain glaciers are typically steeper, more dependent upon basal sliding for movement, and experience higher seasonal precipitation. Here, we provide a modern synthesis of the microbial ecology of mountain glacier ecosystems, and particularly those at low- to mid-latitudes. We focus on five ecological zones: the supraglacial surface, englacial interior, subglacial bedrock-ice interface, proglacial streams and glacier forefields. For each, we discuss the role of microbiota in biogeochemical cycling and outline ecological and hydrological connections among zones, underscoring the interconnected nature of these ecosystems. Collectively, we highlight the need to: better document the biodiversity and functional roles of mountain glacier microbiota; describe the ecological implications of rapid glacial retreat under climate change and resolve the relative contributions of ecological zones to broader ecosystem function. © 2017 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd.

Effects of ice crystal surface roughness and air bubble inclusions on cirrus cloud radiative properties from remote sensing perspective

International Nuclear Information System (INIS)

Tang, Guanglin; Panetta, R. Lee; Yang, Ping; Kattawar, George W.; Zhai, Peng-Wang

2017-01-01

We study the combined effects of surface roughness and inhomogeneity on the optical scattering properties of ice crystals and explore the consequent implications to remote sensing of cirrus cloud properties. Specifically, surface roughness and inhomogeneity are added to the Moderate Resolution Imaging Spectroradiometer (MODIS) collection 6 (MC6) cirrus cloud particle habit model. Light scattering properties of the new habit model are simulated using a modified version of the Improved Geometric Optics Method (IGOM). Both inhomogeneity and surface roughness affect the single scattering properties significantly. In visible bands, inhomogeneity and surface roughness both tend to smooth the phase function and eliminate halos and the backscattering peak. The asymmetry parameter varies with the degree of surface roughness following a U shape - decreases and then increases - with a minimum at around 0.15, whereas it decreases monotonically with the air bubble volume fraction. Air bubble inclusions significantly increase phase matrix element -P_1_2 for scattering angles between 20°–120°, whereas surface roughness has a much weaker effect, increasing -P_1_2 slightly from 60°–120°. Radiative transfer simulations and cirrus cloud property retrievals are conducted by including both the factors. In terms of surface roughness and air bubble volume fraction, retrievals of cirrus cloud optical thickness or the asymmetry parameter using solar bands show similar patterns of variation. Polarimetric simulations using the MC6 cirrus cloud particle habit model are shown to be more consistent with observations when both surface roughness and inhomogeneity are simultaneously considered. - Highlights: • Surface roughness and air bubble inclusions affect optical properties of ice crystals significantly. • Including both factors improves simulations of ice cloud.• Cirrus cloud particle habit model of the MODIS collection 6 achieves better self-consistency and consistency with

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

Directory of Open Access Journals (Sweden)

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.

Shifts of microbial communities of wheat (Triticum aestivum L.) cultivation in a closed artificial ecosystem.

Science.gov (United States)

Qin, Youcai; Fu, Yuming; Dong, Chen; Jia, Nannan; Liu, Hong

2016-05-01

The microbial communities of plant ecosystems are in relation to plant growing environment, but the alteration in biodiversity of rhizosphere and phyllosphere microbial communities in closed and controlled environments is unknown. The purpose of this study is to analyze the change regularity of microbial communities with wheat plants dependent-cultivated in a closed artificial ecosystem. The microbial community structures in closed-environment treatment plants were investigated by a culture-dependent approach, polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE), and Illumina Miseq high-throughput sequencing. The results indicated that the number of microbes decreased along with time, and the magnitude of bacteria, fungi, and actinomycetes were 10(7)-10(8), 10(5), and 10(3)-10(4) CFU/g (dry weight), respectively. The analysis of PCR-DGGE and Illumina Miseq revealed that the wheat leaf surface and near-root substrate had different microbial communities at different periods of wheat ecosystem development and showed that the relative highest diversity of microbial communities appeared at late and middle periods of the plant ecosystem, respectively. The results also indicated that the wheat leaf and substrate had different microbial community compositions, and the wheat substrate had higher richness of microbial community than the leaf. Flavobacterium, Pseudomonas, Paenibacillus, Enterobacter, Penicillium, Rhodotorula, Acremonium, and Alternaria were dominant in the wheat leaf samples, and Pedobacter, Flavobacterium, Halomonas, Marinobacter, Salinimicrobium, Lysobacter, Pseudomonas, Halobacillus, Xanthomonas, Acremonium, Monographella, and Penicillium were dominant populations in the wheat near-root substrate samples.

Detection of microbial concentration in ice-cream using the impedance technique.

Science.gov (United States)

Grossi, M; Lanzoni, M; Pompei, A; Lazzarini, R; Matteuzzi, D; Riccò, B

2008-06-15

The detection of microbial concentration, essential for safe and high quality food products, is traditionally made with the plate count technique, that is reliable, but also slow and not easily realized in the automatic form, as required for direct use in industrial machines. To this purpose, the method based on impedance measurements represents an attractive alternative since it can produce results in about 10h, instead of the 24-48h needed by standard plate counts and can be easily realized in automatic form. In this paper such a method has been experimentally studied in the case of ice-cream products. In particular, all main ice-cream compositions of real interest have been considered and no nutrient media has been used to dilute the samples. A measurement set-up has been realized using benchtop instruments for impedance measurements on samples whose bacteria concentration was independently measured by means of standard plate counts. The obtained results clearly indicate that impedance measurement represents a feasible and reliable technique to detect total microbial concentration in ice-cream, suitable to be implemented as an embedded system for industrial machines.

Psychrophilic and Psychrotolerant Microbial Extremophiles in Polar Environments

Science.gov (United States)

Hoover, Richard B.; Pikuta, Elena V.

2010-01-01

The microbial extremophiles that inhabit the polar regions of our planet are of tremendous significance. The psychrophilic and psychrotolerant microorganisms, which inhabit all of the cold environments on Earth have important applications to Bioremediation, Medicine, Pharmaceuticals, and many other areas of Biotechnology. Until recently, most of the research on polar microorganisms was confined to studies of polar diatoms, yeast, fungi and cyanobacteria. However, within the past three decades, extensive studies have been conducted to understand the bacteria and archaea that inhabit the Arctic and Antarctic sea-ice, glaciers, ice sheets, permafrost and the cryptoendolithic, cryoconite and ice-bubble environments. These investigations have resulted in the discovery of many new genera and species of anaerobic and aerobic microbial extremophiles. Exotic enzymes, cold-shock proteins and pigments produced by some of the extremophiles from polar environments have the potential to be of great benefit to Mankind. Knowledge about microbial life in the polar regions is crucial to understanding the limitations and biodiversity of life on Earth and may provide valuable clues to the Origin of Life on Earth. The discovery of viable microorganisms in ancient ice from the Fox Tunnel, Alaska and the deep Vostok Ice has shown that microorganisms can remain alive while cryopreserved in ancient ice. The psychrophilic lithoautotrophic homoacetogen isolated from the deep anoxic trough of Lake Untersee is an ideal candidate for life that might inhabit comets or the polar caps of Mars. The spontaneous release of gas from within the Anuchin Glacier above Lake Untersee may provide clues to the ice geysers that erupt from the tiger stripe regions of Saturn s moon Enceladus. The methane productivity in the lower regimes of Lake Untersee may also provide insights into possible mechanisms for the recently discovered methane releases on Mars. Since most of the other water bearing bodies of our

Freezing Bubbles

Science.gov (United States)

Kingett, Christian; Ahmadi, Farzad; Nath, Saurabh; Boreyko, Jonathan

2017-11-01

The two-stage freezing process of a liquid droplet on a substrate is well known; however, how bubbles freeze has not yet been studied. We first deposited bubbles on a silicon substrate that was chilled at temperatures ranging from -10 °C to -40 °C, while the air was at room temperature. We observed that the freeze front moved very slowly up the bubble, and in some cases, even came to a complete halt at a critical height. This slow freezing front propagation can be explained by the low thermal conductivity of the thin soap film, and can be observed more clearly when the bubble size or the surface temperature is increased. This delayed freezing allows the frozen portion of the bubble to cool the air within the bubble while the top part is still liquid, which induces a vapor pressure mismatch that either collapses the top or causes the top to pop. In cases where the freeze front reaches the top of the bubble, a portion of the top may melt and slowly refreeze; this can happen more than just once for a single bubble. We also investigated freezing bubbles inside of a freezer where the air was held at -20 °C. In this case, the bubbles freeze quickly and the ice grows radially from nucleation sites instead of perpendicular to the surface, which provides a clear contrast with the conduction limited room temperature bubbles.

Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning

Science.gov (United States)

Zhang, Ping; Wu, Linwei; Rocha, Andrea M.; Shi, Zhou; Wu, Bo; Qin, Yujia; Wang, Jianjun; Yan, Qingyun; Curtis, Daniel; Ning, Daliang; Van Nostrand, Joy D.; Wu, Liyou; Watson, David B.; Adams, Michael W. W.; Alm, Eric J.; Adams, Paul D.; Arkin, Adam P.

2018-01-01

ABSTRACT Contamination from anthropogenic activities has significantly impacted Earth’s biosphere. However, knowledge about how environmental contamination affects the biodiversity of groundwater microbiomes and ecosystem functioning remains very limited. Here, we used a comprehensive functional gene array to analyze groundwater microbiomes from 69 wells at the Oak Ridge Field Research Center (Oak Ridge, TN), representing a wide pH range and uranium, nitrate, and other contaminants. We hypothesized that the functional diversity of groundwater microbiomes would decrease as environmental contamination (e.g., uranium or nitrate) increased or at low or high pH, while some specific populations capable of utilizing or resistant to those contaminants would increase, and thus, such key microbial functional genes and/or populations could be used to predict groundwater contamination and ecosystem functioning. Our results indicated that functional richness/diversity decreased as uranium (but not nitrate) increased in groundwater. In addition, about 5.9% of specific key functional populations targeted by a comprehensive functional gene array (GeoChip 5) increased significantly (P contamination and ecosystem functioning. This study indicates great potential for using microbial functional genes to predict environmental contamination and ecosystem functioning. PMID:29463661

A Microbial Community in Sediments Beneath the Western Antarctic Ice Sheet, Ice Stream C (Kamb)

Science.gov (United States)

Skidmore, M.; Han, S.; Foo, W.; Bui, D.; Lanoil, B.

2004-12-01

In 2000, an ice-drilling project focusing on the "sticky spot" of Ice Stream C recovered cores of sub-glacial sediments from beneath the Western Antarctic Ice Sheet. We have characterized several chemical and microbiological parameters of the sole intact sediment core. Pore waters extracted from these sediments were brackish and some were supersaturated with respect to calcite. Ion chromatography demonstrated the presence of several organic acids at low, but detectable, levels in the pore water. DAPI direct cell counts were approximately 107 cells g-1. Aerobic viable plate counts were much lower than direct cell counts; however, they were two orders of magnitude higher on plates incubated at low temperature (4 ° C; 3.63 x 105 CFU ml-1) than at higher temperatures (ca. 22° C; 1.5 x 103 CFU ml-1); no colonies were detected on plates incubated anaerobically at either temperature. 16S rDNA clone library analysis indicates extremely limited bacterial diversity in these samples: six phylogenetic clades were detected. The three dominant bacterial phylogenetic clades in the clone libraries (252 clones total) were most closely related to Thiobacillus thioparus (180 clones), Polaromonas vacuolata (34 clones), and Gallionella ferruginea (35 clones) and their relatives; one clone each represented the other three phylogenetic clades (most closely related to Ralstonia pickettii, Lysobacter antibioticus, and Xylella fastidiosa, respectively). These sequences match closely with sequences previously obtained from other subglacial environments in Alaska, Ellesmere Island, Canada and New Zealand. Implications of this microbial community to subglacial chemistry and microbial biogeography will be discussed.

Isolation of nucleic acids and cultures from fossil ice and permafrost

DEFF Research Database (Denmark)

Willerslev, E.; Hansen, Anders J.; Poinar, H. N.

2004-01-01

Owing to their constant low temperatures, glacial ice and permafrost might contain the oldest nucleic acids and microbial cells on Earth, which could prove key to reconstructing past ecosystems and for the planning of missions to other planets. However, recent claims concerning viable cells and m...

Diversity and Function of Microbial Community in Chinese Strong-Flavor Baijiu Ecosystem: A Review

Directory of Open Access Journals (Sweden)

Wei Zou

2018-04-01

Full Text Available Strong flavor baijiu (SFB, also called Luzhou-flavor liquor, is the most popular Chinese baijiu. It is manufactured via solid fermentation, with daqu as the starter. Microbial diversity of the SFB ecosystem and the synergistic effects of the enzymes and compounds produced by them are responsible for the special flavor and mouthfeel of SFB. The present review covers research studies focused on microbial community analysis of the SFB ecosystem, including the culturable microorganisms, their metabolic functions, microbial community diversity and their interactions. The review specifically emphasizes on the most recently conducted culture-independent analysis of SFB microbial community diversity. Furthermore, the possible application of systems biology approaches for elucidating the molecular mechanisms of SFB production were also reviewed and prospected.

Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning

Directory of Open Access Journals (Sweden)

Zhili He

2018-02-01

Full Text Available Contamination from anthropogenic activities has significantly impacted Earth’s biosphere. However, knowledge about how environmental contamination affects the biodiversity of groundwater microbiomes and ecosystem functioning remains very limited. Here, we used a comprehensive functional gene array to analyze groundwater microbiomes from 69 wells at the Oak Ridge Field Research Center (Oak Ridge, TN, representing a wide pH range and uranium, nitrate, and other contaminants. We hypothesized that the functional diversity of groundwater microbiomes would decrease as environmental contamination (e.g., uranium or nitrate increased or at low or high pH, while some specific populations capable of utilizing or resistant to those contaminants would increase, and thus, such key microbial functional genes and/or populations could be used to predict groundwater contamination and ecosystem functioning. Our results indicated that functional richness/diversity decreased as uranium (but not nitrate increased in groundwater. In addition, about 5.9% of specific key functional populations targeted by a comprehensive functional gene array (GeoChip 5 increased significantly (P < 0.05 as uranium or nitrate increased, and their changes could be used to successfully predict uranium and nitrate contamination and ecosystem functioning. This study indicates great potential for using microbial functional genes to predict environmental contamination and ecosystem functioning.

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

Directory of Open Access Journals (Sweden)

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.

Influence of ice and snow covers on the UV exposure of terrestrial microbial communities: dosimetric studies.

Science.gov (United States)

Cockell, Charles S; Rettberg, Petra; Horneck, Gerda; Wynn-Williams, David D; Scherer, Kerstin; Gugg-Helminger, Anton

2002-08-01

Bacillus subtilis spore biological dosimeters and electronic dosimeters were used to investigate the exposure of terrestrial microbial communities in micro-habitats covered by snow and ice in Antarctica. The melting of snow covers of between 5- and 15-cm thickness, depending on age and heterogeneity, could increase B. subtilis spore inactivation by up to an order of magnitude, a relative increase twice that caused by a 50% ozone depletion. Within the snow-pack at depths of less than approximately 3 cm snow algae could receive two to three times the DNA-weighted irradiance they would receive on bare ground. At the edge of the snow-pack, warming of low albedo soils resulted in the formation of overhangs that provided transient UV protection to thawed and growing microbial communities on the soils underneath. In shallow aquatic habitats, thin layers of heterogeneous ice of a few millimetres thickness were found to reduce DNA-weighted irradiances by up to 55% compared to full-sky values with equivalent DNA-weighted diffuse attenuation coefficients (K(DNA)) of >200 m(-1). A 2-mm snow-encrusted ice cover on a pond was equivalent to 10 cm of ice on a perennially ice covered lake. Ice covers also had the effect of stabilizing the UV exposure, which was often subject to rapid variations of up to 33% of the mean value caused by wind-rippling of the water surface. These data show that changing ice and snow covers cause relative changes in microbial UV exposure at least as great as those caused by changing ozone column abundance. Copyright 2002 Elsevier Science B.V.

Ecology of southern ocean pack ice.

Science.gov (United States)

Brierley, Andrew S; Thomas, David N

2002-01-01

Around Antarctica the annual five-fold growth and decay of sea ice is the most prominent physical process and has a profound impact on marine life there. In winter the pack ice canopy extends to cover almost 20 million square kilometres--some 8% of the southern hemisphere and an area larger than the Antarctic continent itself (13.2 million square kilometres)--and is one of the largest, most dynamic ecosystems on earth. Biological activity is associated with all physical components of the sea-ice system: the sea-ice surface; the internal sea-ice matrix and brine channel system; the underside of sea ice and the waters in the vicinity of sea ice that are modified by the presence of sea ice. Microbial and microalgal communities proliferate on and within sea ice and are grazed by a wide range of proto- and macrozooplankton that inhabit the sea ice in large concentrations. Grazing organisms also exploit biogenic material released from the sea ice at ice break-up or melt. Although rates of primary production in the underlying water column are often low because of shading by sea-ice cover, sea ice itself forms a substratum that provides standing stocks of bacteria, algae and grazers significantly higher than those in ice-free areas. Decay of sea ice in summer releases particulate and dissolved organic matter to the water column, playing a major role in biogeochemical cycling as well as seeding water column phytoplankton blooms. Numerous zooplankton species graze sea-ice algae, benefiting additionally because the overlying sea-ice ceiling provides a refuge from surface predators. Sea ice is an important nursery habitat for Antarctic krill, the pivotal species in the Southern Ocean marine ecosystem. Some deep-water fish migrate to shallow depths beneath sea ice to exploit the elevated concentrations of some zooplankton there. The increased secondary production associated with pack ice and the sea-ice edge is exploited by many higher predators, with seals, seabirds and whales

Microbial community dynamics in the forefield of glaciers.

Science.gov (United States)

Bradley, James A; Singarayer, Joy S; Anesio, Alexandre M

2014-11-22

Retreating ice fronts (as a result of a warming climate) expose large expanses of deglaciated forefield, which become colonized by microbes and plants. There has been increasing interest in characterizing the biogeochemical development of these ecosystems using a chronosequence approach. Prior to the establishment of plants, microbes use autochthonously produced and allochthonously delivered nutrients for growth. The microbial community composition is largely made up of heterotrophic microbes (both bacteria and fungi), autotrophic microbes and nitrogen-fixing diazotrophs. Microbial activity is thought to be responsible for the initial build-up of labile nutrient pools, facilitating the growth of higher order plant life in developed soils. However, it is unclear to what extent these ecosystems rely on external sources of nutrients such as ancient carbon pools and periodic nitrogen deposition. Furthermore, the seasonal variation of chronosequence dynamics and the effect of winter are largely unexplored. Modelling this ecosystem will provide a quantitative evaluation of the key processes and could guide the focus of future research. Year-round datasets combined with novel metagenomic techniques will help answer some of the pressing questions in this relatively new but rapidly expanding field, which is of growing interest in the context of future large-scale ice retreat.

Soil Microbial Activity Responses to Fire in a Semi-arid Savannah Ecosystem Pre- and Post-Monsoon Season

Science.gov (United States)

Jimenez, J. R.; Raub, H. D.; Jong, E. L.; Muscarella, C. R.; Smith, W. K.; Gallery, R. E.

2017-12-01

Extracellular enzyme activities (EEA) of soil microorganisms can act as important proxies for nutrient limitation and turnover in soil and provide insight into the biochemical requirements of microbes in terrestrial ecosystems. In semi-arid ecosystems, microbial activity is influenced by topography, disturbances such as fire, and seasonality from monsoon rains. Previous studies from forest ecosystems show that microbial communities shift to similar compositions after severe fires despite different initial conditions. In semi-arid ecosystems with high spatial heterogeniety, we ask does fire lead to patch intensification or patch homogenization and how do monsoon rains influence the successional trajectories of microbial responses? We analyzed microbial activity and soil biogeochemistry throughout the monsoon season in paired burned and unburned sites in the Santa Rita Experimental Range, AZ. Surface soil (5cm) from bare-ground patches, bole, canopy drip line, and nearby grass patches for 5 mesquite trees per site allowed tests of spatiotemporal responses to fire and monsoon rain. Microbial activity was low during the pre-monsoon season and did not differ between the burned and unburned sites. We found greater activity near mesquite trees that reflects soil water and nutrient availability. Fire increased soil alkalinity, though soils near mesquite trees were less affected. Soil water content was significantly higher in the burned sites post-monsoon, potentially reflecting greater hydrophobicity of burned soils. Considering the effects of fire in these semi-arid ecosystems is especially important in the context of the projected changing climate regime in this region. Assessing microbial community recovery pre-, during, and post-monsoon is important for testing predictions about whether successional pathways post-fire lead to recovery or novel trajectories of communities and ecosystem function.

Composition of microbial communities in aerosol, snow and ice samples from remote glaciated areas (Antarctica, Alps, Andes)

Science.gov (United States)

Elster, J.; Delmas, R. J.; Petit, J.-R.; Řeháková, K.

2007-06-01

Taxonomical and ecological analyses were performed on micro-autotrophs (cyanobacteria and algae together with remnants of diatom valves), micro-fungi (hyphae and spores), bacteria (rod, cocci and red clusters), yeast, and plant pollen extracted from various samples: Alps snow (Mt. Blank area), Andean snow (Illimani, Bolivia), Antarctic aerosol filters (Dumont d'Urville, Terre Adélie), and Antarctic inland ice (Terre Adélie). Three methods for ice and snow sample's pre-concentration were tested (filtration, centrifugation and lyophilisation). Afterwards, cultivation methods for terrestrial, freshwater and marine microorganisms (micro-autotrophs and micro-fungi) were used in combination with liquid and solid media. The main goal of the study was to find out if micro-autotrophs are commonly transported by air masses, and later stored in snow and icecaps around the world. The most striking result of this study was the absence of culturable micro-autotrophs in all studied samples. However, an unusual culturable pigmented prokaryote was found in both alpine snow and aerosol samples. Analyses of many samples and proper statistical analyses (PCA, RDA- Monte Carlo permutation tests) showed that studied treatments highly significantly differ in both microbial community and biotic remnants composition F=9.33, p=0.001. In addition, GLM showed that studied treatments highly significantly differ in numbers of categories of microorganisms and remnants of biological material F=11.45, p=0.00005. The Antarctic aerosol samples were characterised by having red clusters of bacteria, the unusual prokaryote and yeasts. The high mountain snow from the Alps and Andes contained much more culturable heterotrophs. The unusual prokaryote was very abundant, as were coccoid bacteria, red clusters of bacteria, as well as yeasts. The Antarctic ice samples were quite different. These samples had higher numbers of rod bacteria and fungal hyphae. The microbial communities and biological remnants of

Soil microbial communities drive the resistance of ecosystem multifunctionality to global change in drylands across the globe.

Science.gov (United States)

Delgado-Baquerizo, Manuel; Eldridge, David J; Ochoa, Victoria; Gozalo, Beatriz; Singh, Brajesh K; Maestre, Fernando T

2017-10-01

The relationship between soil microbial communities and the resistance of multiple ecosystem functions linked to C, N and P cycling (multifunctionality resistance) to global change has never been assessed globally in natural ecosystems. We collected soils from 59 dryland ecosystems worldwide to investigate the importance of microbial communities as predictor of multifunctionality resistance to climate change and nitrogen fertilisation. Multifunctionality had a lower resistance to wetting-drying cycles than to warming or N deposition. Multifunctionality resistance was regulated by changes in microbial composition (relative abundance of phylotypes) but not by richness, total abundance of fungi and bacteria or the fungal: bacterial ratio. Our results suggest that positive effects of particular microbial taxa on multifunctionality resistance could potentially be controlled by altering soil pH. Together, our work demonstrates strong links between microbial community composition and multifunctionality resistance in dryland soils from six continents, and provides insights into the importance of microbial community composition for buffering effects of global change in drylands worldwide. © 2017 John Wiley & Sons Ltd/CNRS.

Linking microbial and ecosystem ecology using ecological stoichiometry: a synthesis of conceptual and empirical approaches

Science.gov (United States)

Hall, E.K.; Maixner, F.; Franklin, O.; Daims, H.; Richter, A.; Battin, T.

2011-01-01

Currently, one of the biggest challenges in microbial and ecosystem ecology is to develop conceptual models that organize the growing body of information on environmental microbiology into a clear mechanistic framework with a direct link to ecosystem processes. Doing so will enable development of testable hypotheses to better direct future research and increase understanding of key constraints on biogeochemical networks. Although the understanding of phenotypic and genotypic diversity of microorganisms in the environment is rapidly accumulating, how controls on microbial physiology ultimately affect biogeochemical fluxes remains poorly understood. We propose that insight into constraints on biogeochemical cycles can be achieved by a more rigorous evaluation of microbial community biomass composition within the context of ecological stoichiometry. Multiple recent studies have pointed to microbial biomass stoichiometry as an important determinant of when microorganisms retain or recycle mineral nutrients. We identify the relevant cellular components that most likely drive changes in microbial biomass stoichiometry by defining a conceptual model rooted in ecological stoichiometry. More importantly, we show how X-ray microanalysis (XRMA), nanoscale secondary ion mass spectroscopy (NanoSIMS), Raman microspectroscopy, and in situ hybridization techniques (for example, FISH) can be applied in concert to allow for direct empirical evaluation of the proposed conceptual framework. This approach links an important piece of the ecological literature, ecological stoichiometry, with the molecular front of the microbial revolution, in an attempt to provide new insight into how microbial physiology could constrain ecosystem processes.

Metagenomic survey of the taxonomic and functional microbial communities of seawater and sea ice from the Canadian Arctic.

Science.gov (United States)

Yergeau, Etienne; Michel, Christine; Tremblay, Julien; Niemi, Andrea; King, Thomas L; Wyglinski, Joanne; Lee, Kenneth; Greer, Charles W

2017-02-08

Climate change has resulted in an accelerated decline of Arctic sea ice since 2001 resulting in primary production increases and prolongation of the ice-free season within the Northwest Passage. The taxonomic and functional microbial community composition of the seawater and sea ice of the Canadian Arctic is not very well known. Bacterial communities from the bottom layer of sea ice cores and surface water from 23 locations around Cornwallis Island, NU, Canada, were extensively screened. The bacterial 16S rRNA gene was sequenced for all samples while shotgun metagenomics was performed on selected samples. Bacterial community composition showed large variation throughout the sampling area both for sea ice and seawater. Seawater and sea ice samples harbored significantly distinct microbial communities, both at different taxonomic levels and at the functional level. A key difference between the two sample types was the dominance of algae in sea ice samples, as visualized by the higher relative abundance of algae and photosynthesis-related genes in the metagenomic datasets and the higher chl a concentrations. The relative abundance of various OTUs and functional genes were significantly correlated with multiple environmental parameters, highlighting many potential environmental drivers and ecological strategies.

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

Microbial contamination determination of Cream suit,Traditional Ice Cream and Olovia in Yasuj City

OpenAIRE

SS Khoramrooz; M Sarikhani; SA Khosravani; M Farhang Falah; Y Mahmoudi; A Sharifi

2015-01-01

Background & aim: Prevalence of diseases caused by consumption of contaminated food has always been a problem all over the world, and every year spent on improving the disease is costly.Cream suit, Ice cream & olowye for ingredient substance and manufacture & preservation conditional have very high possibility for contamination.The aim of this study is Microbial contamination determination of Cream suit, Traditional Ice Cream and Olovia in Yasuj City Methods: This study is randomized cros...

Solid and gaseous inclusions in the EDML deep ice core: origins and implications for the physical properties of polar ice

Science.gov (United States)

Faria, S. H.; Kipfstuhl, S.; Garbe, C. S.; Bendel, V.; Weikusat, C.; Weikusat, I.

2010-12-01

The great value of polar deep ice cores stems mainly from two essential features of polar ice: its crystalline structure and its impurities. They determine the physical properties of the ice matrix and provide proxies for the investigation of past climates. Experience shows that these two essential features of polar ice manifest themselves in a multiscale diversity of dynamic structures, including dislocations, grain boundaries, solid particles, air bubbles, clathrate hydrates and cloudy bands, among others. The fact that these structures are dynamic implies that they evolve with time through intricate interactions between the crystalline structure, impurities, and the ice flow. Records of these interactions have been carefully investigated in samples of the EPICA deep ice core drilled in Dronning Maud Land, Antarctica (75°S, 0°E, 2882 m elevation, 2774.15 m core length). Here we show how the distributions of sizes and shapes of air bubbles correlate with impurities and the crystalline structure, how the interaction between moving grain boundaries and micro-inclusions changes with ice depth and temperature, as well as the possible causes for the abrupt change in ice rheology observed in the MIS6-MIS5e transition. We also discuss how these observations may affect the flow of the ice sheet and the interpretation of paleoclimate records. Micrograph of an EDML sample from 555m depth. One can identify air bubbles (dark, round objects), microinclusions (tiny defocused spots), and a grain boundary pinned by a bubble. The width of the image is 700 micrometers.

Mammalian engineers drive soil microbial communities and ecosystem functions across a disturbance gradient.

Science.gov (United States)

Eldridge, David J; Delgado-Baquerizo, Manuel; Woodhouse, Jason N; Neilan, Brett A

2016-11-01

The effects of mammalian ecosystem engineers on soil microbial communities and ecosystem functions in terrestrial ecosystems are poorly known. Disturbance from livestock has been widely reported to reduce soil function, but disturbance by animals that forage in the soil may partially offset these negative effects of livestock, directly and/or indirectly by shifting the composition and diversity of soil microbial communities. Understanding the role of disturbance from livestock and ecosystem engineers in driving soil microbes and functions is essential for formulating sustainable ecosystem management and conservation policies. We compared soil bacterial community composition and enzyme concentrations within four microsites: foraging pits of two vertebrates, the indigenous short-beaked echidna (Tachyglossus aculeatus) and the exotic European rabbit (Oryctolagus cuniculus), and surface and subsurface soils along a gradient in grazing-induced disturbance in an arid woodland. Microbial community composition varied little across the disturbance gradient, but there were substantial differences among the four microsites. Echidna pits supported a lower relative abundance of Acidobacteria and Cyanobacteria, but a higher relative abundance of Proteobacteria than rabbit pits and surface microsites. Moreover, these microsite differences varied with disturbance. Rabbit pits had a similar profile to the subsoil or the surface soils under moderate and high, but not low disturbance. Overall, echidna foraging pits had the greatest positive effect on function, assessed as mean enzyme concentrations, but rabbits had the least. The positive effects of echidna foraging on function were indirectly driven via microbial community composition. In particular, increasing activity was positively associated with increasing relative abundance of Proteobacteria, but decreasing Acidobacteria. Our study suggests that soil disturbance by animals may offset, to some degree, the oft-reported negative

A common and optimized age scale for Antarctic ice cores

Science.gov (United States)

Parrenin, F.; Veres, D.; Landais, A.; Bazin, L.; Lemieux-Dudon, B.; Toye Mahamadou Kele, H.; Wolff, E.; Martinerie, P.

2012-04-01

Dating ice cores is a complex problem because 1) there is a age shift between the gas bubbles and the surrounding ice 2) there are many different ice cores which can be synchronized with various proxies and 3) there are many methods to date the ice and the gas bubbles, each with advantages and drawbacks. These methods fall into the following categories: 1) Ice flow (for the ice) and firn densification modelling (for the gas bubbles); 2) Comparison of ice core proxies with insolation variations (so-called orbital tuning methods); 3) Comparison of ice core proxies with other well dated archives; 4) Identification of well-dated horizons, such as tephra layers or geomagnetic anomalies. Recently, an new dating tool has been developped (DATICE, Lemieux-Dudon et al., 2010), to take into account all the different dating information into account and produce a common and optimal chronology for ice cores with estimated confidence intervals. In this talk we will review the different dating information for Antarctic ice cores and show how the DATICE tool can be applied.

Physical controls on the storage of methane in land fast sea ice

DEFF Research Database (Denmark)

Zhou, Jiayun; Tison, Jean Louis; Carnat, Gauthier

2014-01-01

regulated the storage of CH4 in sea ice: bubble formation and sea ice permeability. Gas bubble formation from solubility changes had favoured the accumulation of CH4 in the ice at the beginning of ice growth. CH4 retention in sea ice was then twice as efficient as that of salt; this also explains...... the overall higher CH4 concentrations in brine than in the under-ice water. As sea ice thickened, gas bubble formation became less efficient so that CH4 was then mainly trapped in the dissolved state. The increase of sea ice permeability during ice melt marks the end of CH4 storage.......We report on methane (CH4) dynamics in landfast sea ice, brine and under-ice seawater at Barrow in 2009. The CH4 concentrations in under-ice water ranged between 25.9 and 116.4 nmol L−1sw, indicating a superaturation of 700 to 3100% relative to the atmosphere. In comparison, the CH4 concentrations...

Microbial contamination determination of Cream suit,Traditional Ice Cream and Olovia in Yasuj City

Directory of Open Access Journals (Sweden)

SS Khoramrooz

2015-09-01

Full Text Available Background & aim: Prevalence of diseases caused by consumption of contaminated food has always been a problem all over the world, and every year spent on improving the disease is costly.Cream suit, Ice cream & olowye for ingredient substance and manufacture & preservation conditional have very high possibility for contamination.The aim of this study is Microbial contamination determination of Cream suit, Traditional Ice Cream and Olovia in Yasuj City Methods: This study is randomized cross sectional study was performed on 64 samples.The samples were taken from the ice cream and confectionery shops in Yasuj city and keep on cold box then the samples were transported in sterile conditions, to the department of medical microbiology laboratory in medical university of yasuj and  microbial contamination rate evaluated by national standard method. Collected data analysed with SPSS software for data description,from central dispersion and table frequency and draw chart.  RESULTS: The survey results showed that 40% o traditional ice cream,cream suit were infected by Staph aurous, Escherichia coli and salmonella respectly (6.7,87 and 0,(50,30 and 0.(0,0 and0 present, and no seen any bacteria on olowye. Conclusion: Due to our research contamination rate traditional ice cream,cream suit and olowye were by Staph aurous, Escherichia coli and salmonella were very high . therefore using different ways to control bacterial growth especaly E.coli the mostly transmited by fecal oral including the use of healthly and safe raw material for promoting health awareness of people involved in the food preparation and production is essential.

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.

From cultured to uncultured genome sequences: metagenomics and modeling microbial ecosystems.

Science.gov (United States)

Garza, Daniel R; Dutilh, Bas E

2015-11-01

Microorganisms and the viruses that infect them are the most numerous biological entities on Earth and enclose its greatest biodiversity and genetic reservoir. With strength in their numbers, these microscopic organisms are major players in the cycles of energy and matter that sustain all life. Scientists have only scratched the surface of this vast microbial world through culture-dependent methods. Recent developments in generating metagenomes, large random samples of nucleic acid sequences isolated directly from the environment, are providing comprehensive portraits of the composition, structure, and functioning of microbial communities. Moreover, advances in metagenomic analysis have created the possibility of obtaining complete or nearly complete genome sequences from uncultured microorganisms, providing important means to study their biology, ecology, and evolution. Here we review some of the recent developments in the field of metagenomics, focusing on the discovery of genetic novelty and on methods for obtaining uncultured genome sequences, including through the recycling of previously published datasets. Moreover we discuss how metagenomics has become a core scientific tool to characterize eco-evolutionary patterns of microbial ecosystems, thus allowing us to simultaneously discover new microbes and study their natural communities. We conclude by discussing general guidelines and challenges for modeling the interactions between uncultured microorganisms and viruses based on the information contained in their genome sequences. These models will significantly advance our understanding of the functioning of microbial ecosystems and the roles of microbes in the environment.

Microbial Community Activity And Plant Biomass Are Insensitive To Passive Warming In A Semiarid Ecosystem

Science.gov (United States)

Espinosa, N. J.; Fehmi, J. S.; Rasmussen, C.; Gallery, R. E.

2017-12-01

Soil microorganisms drive biogeochemical and nutrient cycling through the production of extracellular enzymes that facilitate organic matter decomposition and the flux of large amounts of carbon dioxide to the atmosphere. Although dryland ecosystems occupy over 40% of land cover and are projected to expand due to climate change, much of our current understanding of these processes comes from mesic temperate ecosystems. Understanding the responses of these globally predominant dryland ecosystems is therefore important yet complicated by co-occurring environmental changes. For example, the widespread and pervasive transition from grass to woody dominated landscapes is changing the hydrology, fire regimes, and carbon storage potential of semiarid ecosystems. In this study, we used a novel passive method of warming to conduct a warming experiment with added plant debris as either woodchip or biochar, to simulate different long-term carbon additions that accompany woody plant encroachment in semiarid ecosystems. The response of heterotrophic respiration, plant biomass, and microbial activity was monitored bi-annually. We hypothesized that the temperature manipulations would have direct and indirect effects on microbial activity. Warmer soils directly reduce the activity of soil extracellular enzymes through denaturation and dehydration of soil pores and indirectly through reducing microbe-available substrates and plant inputs. Overall, reduction in extracellular enzyme activity may reduce decomposition of coarse woody debris and potentially enhance soil carbon storage in semiarid ecosystems. For all seven hydrolytic enzymes examined as well as heterotrophic respiration, there was no consistent or significant response to experimental warming, regardless of seasonal climatic and soil moisture variation. The enzyme results observed here are consistent with the few other experimental results for warming in semiarid ecosystems and indicate that the controls over soil

Late-Holocene climate evolution at the WAIS Divide site, West Antarctica: Bubble number-density estimates

Science.gov (United States)

Fegyveresi, John M.; Alley, R.B.; Spencer, M.K.; Fitzpatrick, J.J.; Steig, E.J.; White, J.W.C.; McConnell, J.R.; Taylor, K.C.

2011-01-01

A surface cooling of ???1.7??C occurred over the ???two millennia prior to ???1700 CE at the West Antarctic ice sheet (WAIS) Divide site, based on trends in observed bubble number-density of samples from the WDC06A ice core, and on an independently constructed accumulation-rate history using annual-layer dating corrected for density variations and thinning from ice flow. Density increase and grain growth in polar firn are both controlled by temperature and accumulation rate, and the integrated effects are recorded in the number-density of bubbles as the firn changes to ice. Numberdensity is conserved in bubbly ice following pore close-off, allowing reconstruction of either paleotemperature or paleo-accumulation rate if the other is known. A quantitative late-Holocene paleoclimate reconstruction is presented for West Antarctica using data obtained from the WAIS Divide WDC06A ice core and a steady-state bubble number-density model. The resultant temperature history agrees closely with independent reconstructions based on stable-isotopic ratios of ice. The ???1.7??C cooling trend observed is consistent with a decrease in Antarctic summer duration from changing orbital obliquity, although it remains possible that elevation change at the site contributed part of the signal. Accumulation rate and temperature dropped together, broadly consistent with control by saturation vapor pressure.

Microbial community evolution of black and stinking rivers during in situ remediation through micro-nano bubble and submerged resin floating bed technology.

Science.gov (United States)

Sun, Yanmei; Wang, Shiwei; Niu, Junfeng

2018-06-01

Microbes play important roles during river remediation and the interaction mechanism illustration between microorganisms and sewage is of great significance to improve restoration technology. In this study, micro-nano bubble and submerged resin floating bed composite technology (MBSR) was firstly used to restore two black and stinking urban rivers. After restoration, the water pollution indices such as dissolved oxygen (DO), ammonia nitrogen (NH 4 + -N), total phosphorous (TP), chemical oxygen demand (COD Cr ), water clarity, and the number of facial coliform were significantly improved. Microbial community composition and relative abundance both varied and more aerobic microbes emerged after remediation. The microbial changes showed correlation with DO, NH 4 + -N, TP and COD Cr of the rivers. In summary, the MBSR treatment improved the physiochemical properties of the two black and stinking urban rivers probably through oxygen enrichment of micro-nano bubble and adsorption of submerged resin floating bed, which thereby stimulated functional microbes to degrade pollutants. Copyright © 2018 Elsevier Ltd. All rights reserved.

Linking Soil Microbial Ecology to Ecosystem Functioning in Integrated Crop-Livestock Systems

Science.gov (United States)

Enhanced soil stability, nutrient cycling and C sequestration potential are important ecosystem functions driven by soil microbial processes and are directly influenced by agricultural management. Integrated crop-livestock agroecosystems (ICL) can enhance these functions via high-residue returning c...

Soil microbial responses to nitrogen addition in arid ecosystems

Directory of Open Access Journals (Sweden)

Robert L Sinsabaugh

2015-08-01

Full Text Available The N cycle of arid ecosystems is influenced by low soil organic matter, high soil pH and extremes in water potential and temperature that lead to open canopies and development of biological soil crusts (biocrusts. We investigated the effects of N amendment on soil microbial dynamics in a Larrea tridentata-Ambrosia dumosa shrubland site in southern Nevada USA. Sites were fertilized with a NO3-NH4 mix at 0, 7, and 15 kg ha-1 yr-1 from March 2012 to March 2013. In March 2013, biocrust (0-0.5 cm and bulk soils (0-10 cm were collected beneath Ambrosia canopies and in the interspaces between plants. Biomass responses were assessed as bacterial and fungal SSU rRNA gene copy number and chlorophyll a concentration. Metabolic responses were measured by five ecoenzyme activities (EEA and rates of N transformation. By most measures, nutrient availability, microbial biomass and process rates were greater in soils beneath the shrub canopy compared to the interspace between plants, and greater in the surface biocrust horizon compared to the deeper 10 cm soil profile. Most measures responded positively to experimental N addition. Effect sizes were generally greater for bulk soil than biocrust. Results were incorporated into a meta-analysis of arid ecosystem responses to N.

Life in Ice: Microbial Growth Dynamics and Greenhouse Gas Production During Winter in a Thermokarst Bog Revealed by Stable Isotope Probing Targeted Metagenomics

Science.gov (United States)

Blazewicz, S.; White, R. A., III; Tas, N.; Euskirchen, E. S.; Mcfarland, J. W.; Jansson, J.; Waldrop, M. P.

2016-12-01

Permafrost contains a reservoir of frozen C estimated to be twice the size of the current atmospheric C pool. In response to changing climate, permafrost is rapidly warming which could result in widespread seasonal thawing. When permafrost thaws, soils that are rich in ice and C often transform into thermokarst wetlands with anaerobic conditions and significant production of atmospheric CH4. While most C flux research in recently thawed permafrost concentrates on the few summer months when seasonal thaw has occurred, there is mounting evidence that sizeable portions of annual CO2 and CH4 efflux occurs over winter or during a rapid burst of emissions associated with seasonal thaw. A potential mechanism for such efflux patterns is microbial activity in frozen soils over winter where gasses produced are partially trapped within ice until spring thaw. In order to better understand microbial transformation of soil C to greenhouse gas over winter, we applied stable isotope probing (SIP) targeted metagenomics combined with process measurements and field flux data to reveal activities of microbial communities in `frozen' soil from an Alaskan thermokarst bog. Field studies revealed build-up of CO2 and CH4 in frozen soils suggesting that microbial activity persisted throughout the winter in soils poised just below the freezing point. Laboratory incubations designed to simulate in-situ winter conditions (-1.5 °C and anaerobic) revealed continuous CH4 and CO2 production. Strikingly, the quantity of CH4 produced in 6 months in frozen soil was equivalent to approximately 80% of CH4 emitted during the 3 month summer `active' season. Heavy water SIP targeted iTag sequencing revealed growing bacteria and archaea in the frozen anaerobic soil. Growth was primarily observed in two bacterial phyla, Firmicutes and Bacteroidetes, suggesting that fermentation was likely the major C mineralization pathway. SIP targeted metagenomics facilitated characterization of the primary metabolic

Stimulation of microbial nitrogen cycling in aquatic ecosystems by benthic macrofauna: mechanisms and environmental implications

OpenAIRE

P. Stief

2013-01-01

Invertebrate animals that live at the bottom of aquatic ecosystems (i.e., benthic macrofauna) are important mediators between nutrients in the water column and microbes in the benthos. The presence of benthic macrofauna stimulates microbial nutrient dynamics through different types of animal–microbe interactions, which potentially affect the trophic status of aquatic ecosystems. This review contrasts three types of animal–microbe interactions in the benthos of aquatic ecosystems: (i) e...

Microbial Communities in the Vertical Atmosphere: Effects of Urbanization and the Natural Environment in Four North American Ecosystems

Science.gov (United States)

Docherty, K. M.; Lemmer, K. M.; Domingue, K. D.; Spring, A.; Kerber, T. V.; Mooney, M. M.

2017-12-01

Airborne transport of microbial communities is a key component of the global ecosystem because it serves as a mechanism for dispersing microbial life between all surface habitats on the planet. However, most of our understanding of airborne microbial distribution is derived from samples collected near the ground. Little is understood about how the vertical layers of the air may act as a habitat filter or how local terrestrial ecosystems contribute to a vast airborne microbial seedbank. Specifically, urbanization may fundamentally alter the terrestrial sources of airborne microbial biodiversity. To address this question, we conducted airborne sampling at minimally disturbed natural sites and paired urban sites in 4 different North American ecosystems: shortgrass steppe, desert scrub, eastern deciduous forest, and northern mesic forest. All natural area sites were co-located with NEON/Ameriflux tower sites collecting atmospheric data. We developed an airborne sampling platform that uses tethered helikites at 3 replicate locations within each ecosystem to launch remote-controlled sampler payloads. We designed sampler payloads to collect airborne bacteria and fungi from 150, 30 and 2 m above the ground. Payload requirements included: ability to be disinfected and remain contaminant-free during transport, remote open/close functionality, payload weight under 6 lbs and automated collection of weather data. After sampling for 6 hours at each location, we extracted DNA collected by the samplers. We also extracted DNA from soil and plant samples collected from each location, and characterized ground vegetation. We conducted bacterial 16S amplicon-based sequencing using Mi-Seq and sequence analysis using QIIME. We used ArcGIS to determine percent land use coverage. Our results demonstrate that terrestrial ecosystem type is the most important factor contributing to differences in airborne bacterial community composition, and that communities differed by ecosystem. The

Microbial characterization of toluene-degrading denitrifying consortia obtained from terrestrial and marine ecosystems.

Science.gov (United States)

An, Y-J; Joo, Y-H; Hong, I-Y; Ryu, H-W; Cho, K-S

2004-10-01

The degradation characteristics of toluene coupled to nitrate reduction were investigated in enrichment culture and the microbial communities of toluene-degrading denitrifying consortia were characterized by denaturing gradient gel electrophoresis (DGGE) technique. Anaerobic nitrate-reducing bacteria were enriched from oil-contaminated soil samples collected from terrestrial (rice field) and marine (tidal flat) ecosystems. Enriched consortia degraded toluene in the presence of nitrate as a terminal electron acceptor. The degradation rate of toluene was affected by the initial substrate concentration and co-existence of other hydrocarbons. The types of toluene-degrading denitrifying consortia depended on the type of ecosystem. The clone RS-7 obtained from the enriched consortium of the rice field was most closely related to a toluene-degrading and denitrifying bacterium, Azoarcus denitrificians (A. tolulyticus sp. nov.). The clone TS-11 detected in the tidal flat enriched consortium was affiliated to Thauera sp. strain S2 (T. aminoaromatica sp. nov.) that was able to degrade toluene under denitrifying conditions. This indicates that environmental factors greatly influence microbial communities obtained from terrestrial (rice field) and marine (tidal flat) ecosystems.

Microbial community dynamics and transformation of vascular plant detritus in two wetland ecosystems

International Nuclear Information System (INIS)

Moran, M.A.

1987-01-01

The microbial ecology of two wetland ecosystems in southeastern Georgia, USA, was studied with respect to microbial community dynamics and microbially-mediated transformations of vascular plant detritus. In the Okefenokee Swamp, biomass of microorganisms in the water column and sediments was generally lower in winter months and higher during spring and summer. Biomass and activity (measured as 14 C-lignocellulose mineralization) differed significantly among five habitats within the Okefenokee, and also among locations within each habitat. Significant heterogeneity in the structure of Okefenokee microbial communities was found at scales from 30 cm to 150 m. In field and laboratory studies of vascular plant decomposition in the Okefenokee and a salt marsh on Sapelo Island, the mathematical model which best describes decomposition kinetics is the decaying coefficient model

Illinois Cleantech Ecosystem Consortium (ICE) for the Department of Energy Innovation Ecosystem Development Initiative

Energy Technology Data Exchange (ETDEWEB)

Zielke, Jason [Clean Energy Trust, Chicago, IL (United States)

2014-01-31

The DoE Innovation Ecosystem Initiative was a gamechanger for Clean Energy Trust. The grant accelerated our development from a concept to a real company in 2010, seeding us with the capital to begin our mission to “accelerate the growth of clean energy businesses in the Midwest”. Now three years later, we have scores and scores of partners which fund us through sponsorship donations to our programs, and we have played a key role in launching several new companies, and helping them acquire funding and reach their milestones. In three years we have grown from two people to nine, now with an annual budget of over $3M. We started with the following simple plan (verbatim from our original submission): “The short-term objective of ICE is to fortify and enhance the platform for collaboration necessary to create a robust ecosystem for clean energy innovation. This includes launching a number of initiatives designed to source, evaluate, and launch new clean energy businesses derived from university research.

Microbial communities, processes and functions in acid mine drainage ecosystems.

Science.gov (United States)

Chen, Lin-xing; Huang, Li-nan; Méndez-García, Celia; Kuang, Jia-liang; Hua, Zheng-shuang; Liu, Jun; Shu, Wen-sheng

2016-04-01

Acid mine drainage (AMD) is generated from the oxidative dissolution of metal sulfides when water and oxygen are available largely due to human mining activities. This process can be accelerated by indigenous microorganisms. In the last several decades, culture-dependent researches have uncovered and validated the roles of AMD microorganisms in metal sulfides oxidation and acid generation processes, and culture-independent studies have largely revealed the diversity and metabolic potentials and activities of AMD communities, leading towards a full understanding of the microbial diversity, functions and interactions in AMD ecosystems. This review describes the diversity of microorganisms and their functions in AMD ecosystems, and discusses their biotechnological applications in biomining and AMD bioremediation according to their capabilities. Copyright © 2016 Elsevier Ltd. All rights reserved.

Psychrophiles and astrobiology: microbial life of frozen worlds

Science.gov (United States)

Pikuta, Elena V.; Hoover, Richard B.

2003-01-01

Most bodies of our Solar System are "Frozen Worlds" where the prevailing surface temperature remains at or below freezing. On Earth there are vast permanently frozen regions of permafrost, polar ice sheets, and glaciers and the deep oceans and deep-sea marine sediments have remained at 2 - 4°C for eons. Psychrophilic and psychrotrophic microbiota that inhabit these regimes provide analogs for microbial life that might inhabit ice sheets and permafrost of Mars, comets, or the ice/water interfaces or sediments deep beneath the icy crusts of Europa, Callisto, or Ganymede. Cryopreserved micro-organisms can remain viable (in a deep anabiotic state) for millions of years frozen in permafrost and ice. Psychrophilic and psychrotrophic (cold-loving) microbes can carry out metabolic processes in water films and brine, acidic, or alkaline chanels in permafrost or ice at temperatures far below 0°C. These microbes of the cryosphere help define the thermal and temporal limits of life on Earth and may provide clues to where and how to search for evidence of life elsewhere in the Cosmos. Astrobiologists at the NASA Marshall Space Flight Center have collected microbial extremophiles from the Pleistocene ice wedges and frozen thermokarst ponds from the Fox Permafrost Tunnel of Alaska. Microbes have also been isolated from samples of Magellanic Penguin guano from Patagonia; deep-sea marine muds near hydrothermal vents; snow and permafrost from Siberia, and deep ice cores, ice-bubble and cryoconite rocks of the Central Antarctic Ice Sheet. These samples have yielded microbial extremophiles representing a wide variety of anaerobic bacteria and archaea. These microbes have been isolated, cultured, characterized and analyzed by phylogenetic and genomic methods. Images were obtained by Phase Contrast, Environmental, Field Emission Scanning and Transmission Electron Microscopes to study the ultra-microstructure and elemental distribution in the composition of these micro-organisms. We

Investigating and Modeling Ecosystem Response to an Experimental and a Natural Ice Storm

Science.gov (United States)

Fakhraei, H.; Driscoll, C. T.; Rustad, L.; Campbell, J. L.; Groffman, P.; Fahey, T.; Likens, G.; Swaminathan, R.

2017-12-01

Our understanding of ecosystem response to the extreme events is generally limited to rare observations from the natural historical events. However, investigating extreme events under controlled conditions can improve our understanding of these natural phenomena. A novel field experiment was conducted in a northern hardwood forest at the Hubbard Brook Experimental Forest in New Hampshire in the northeastern United States to quantify the influence of ice storms on the ecological processes. During subfreezing conditions in the winters of 2016 and 2017, water from a nearby stream was pumped and sprayed on the canopy of eight experimental plots to accrete ice to a targeted thickness on the canopy. The experiment was conducted at three levels of icing thickness (0.25, 0.5, 0.75 in.) in 2016 comparable to the naturally occurring 1998 ice storm and a second 0.5 in. treatment 2017 which were compared with reference plots. The most notable response of the icing treatments was a marked increase in fine and course litter fall which increased exponentially with increases in the icing thickness. Post-treatment openings in the canopy caused short-term increases in soil temperature in the ice-treatment plots compared to the reference plots. No response from the ice storm treatments were detected for soil moisture, net N mineralization, net nitrification, or denitrification after both natural and experimental ice storm. In contrast to the marked increase in the stream water nitrate after the natural occurring 1998 ice storm, we have not observed any significant change in soil solution N concentrations in the experimental ice storm treatments. Inconsistency in the response between the natural and experimental ice storm is likely due to differences in geophysical characteristics of the study sites including slope and lateral uptake of nutrient by the trees outside the experimental plots. In order to evaluate the long-term impacts of ice storms on northern hardwood forests, we used

Microbial populations in Antarctic permafrost: biodiversity, state, age, and implication for astrobiology.

Science.gov (United States)

Gilichinsky, D A; Wilson, G S; Friedmann, E I; McKay, C P; Sletten, R S; Rivkina, E M; Vishnivetskaya, T A; Erokhina, L G; Ivanushkina, N E; Kochkina, G A; Shcherbakova, V A; Soina, V S; Spirina, E V; Vorobyova, E A; Fyodorov-Davydov, D G; Hallet, B; Ozerskaya, S M; Sorokovikov, V A; Laurinavichyus, K S; Shatilovich, A V; Chanton, J P; Ostroumov, V E; Tiedje, J M

2007-04-01

Antarctic permafrost soils have not received as much geocryological and biological study as has been devoted to the ice sheet, though the permafrost is more stable and older and inhabited by more microbes. This makes these soils potentially more informative and a more significant microbial repository than ice sheets. Due to the stability of the subsurface physicochemical regime, Antarctic permafrost is not an extreme environment but a balanced natural one. Up to 10(4) viable cells/g, whose age presumably corresponds to the longevity of the permanently frozen state of the sediments, have been isolated from Antarctic permafrost. Along with the microbes, metabolic by-products are preserved. This presumed natural cryopreservation makes it possible to observe what may be the oldest microbial communities on Earth. Here, we describe the Antarctic permafrost habitat and biodiversity and provide a model for martian ecosystems.

Microbial Communities: Tracing Growth Processes from Antarctic Lakes to Early Earth to Other Planets

Science.gov (United States)

Sumner, D. Y.

2014-12-01

Life in the Universe is dominated by microbes: they are numerically the most abundant cells in our bodies and in Earth's biosphere, and they are the only life that might be present elsewhere in our solar system. Life beyond our solar system could include macroscopic organisms, but everything we understand about the origin of life suggests it must start with microbes. Thus, understanding microbial ecosystems, in the absence of macroscopic organisms, is critical to understanding early life on Earth and life elsewhere in the Universe - if it exists. But what are the general principles of microbial ecology in the absence of predation? What happens when each cell is a chemical factory that can swap among metabolic processes in response to environmental and emergent cues? Geobiologists and astrobiologists are addressing these questions in diverse ways using both Earth's modern biosphere and its fossil record. Modern microbial communities in shallow, ice-covered lakes, Antarctica (Fig.), provide a model for high productivity microbial ecosystems with no to low predation. In these lakes, photosynthetic communities create macroscopic pinnacles and domes, sometime lithified into stromatolites. They provide an ecological, geochemical and morphological model for Precambrian microbial communities in low sedimentation, low current environments. Insights from these communities include new growth processes for ancient mats, especially some that grew prior to the oxidation of Earth's atmosphere. The diversity of biosignatures created in these communities also provides context for models of life under ice elsewhere in our solar system such as paleolakes on Mars and on icy moons. Results from the Mars Science Laboratory (MSL) team document formerly habitable fluvial and lacustrine environments. Lacustrine environments, in particular, are favorable for preserving biosignatures, and continued investigations by MSL will provide a deeper understanding of the duration of habitable

Effects of ice storm on forest ecosystem of southern China in 2008 Shaoqiang Wang1, Lei Zhou1, Weimin Ju2, Kun Huang1 1Key Lab of Ecosystem Network Observation and Modeling, Institute of Geographical Sciences and Natural Resources Research, Beijing, 10010

Science.gov (United States)

Wang, Shaoqiang

2014-05-01

Evidence is mounting that an increase in extreme climate events has begun to occur worldwide during the recent decades, which affect biosphere function and biodiversity. Ecosystems returned to its original structures and functions to maintain its sustainability, which was closely dependent on ecosystem resilience. Understanding the resilience and recovery capacity of ecosystem to extreme climate events is essential to predicting future ecosystem responses to climate change. Given the overwhelming importance of this region in the overall carbon cycle of forest ecosystems in China, south China suffered a destructive ice storm in 2008. In this study, we used the number of freezing day and a process-based model (Boreal Ecosystem Productivity Simulator, BEPS) to characterize the spatial distribution of ice storm region in southeastern China and explore the impacts on carbon cycle of forest ecosystem over the past decade. The ecosystem variables, i.e. Net primary productivity (NPP), Evapotranspiration (ET), and Water use efficiency (WUE, the ratio of NPP to ET) from the outputs of BEPS models were used to detect the resistance and resilience of forest ecosystem in southern China. The pattern of ice storm-induced forest productivity widespread decline was closely related to the number of freezing day during the ice storm period. The NPP of forest area suffered heavy ice storm returned to normal status after five months with high temperature and ample moisture, indicated a high resilience of subtropical forest in China. The long-term changes of forest WUE remain stable, behaving an inherent sensitivity of ecosystem to extreme climate events. In addition, ground visits suggested that the recovery of forest productivity was attributed to rapid growth of understory. Understanding the variability and recovery threshold of ecosystem following extreme climate events help us to better simulate and predict the variability of ecosystem structure and function under current and

Effect of peristalsis in balance of intestinal microbial ecosystem

Science.gov (United States)

Mirbagheri, Seyed Amir; Fu, Henry C.

2017-11-01

A balance of microbiota density in gastrointestinal tracts is necessary for health of the host. Although peristaltic flow made by intestinal muscles is constantly evacuating the lumen, bacterial density stay balanced. Some of bacteria colonize in the secreted mucus where there is no flow, but the rest resist the peristaltic flow in lumen and maintain their population. Using a coupled two-dimensional model of flow induced by large amplitude peristaltic waves, bacterial motility, reproduction, and diffusion, we address how bacterial growth and motility combined with peristaltic flow affect the balance of the intestinal microbial ecosystem.

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.

Soil Nutrient Responses to Disturbance in a Northern Temperate Forest: The Influence of an Ice Storm Manipulation Experiment on Belowground Biogeochemical Cycling

Science.gov (United States)

Wiley, E.; King, C.; Richardson, A. D.; Landhäusser, S.

2016-12-01

Temperate forest ecosystems are increasingly impacted by human-induced changes in climate, which have the ability to alter the prevalence, severity, and extent of extreme weather events. Ice storms, an example of such extreme events, tend to be rarer and often occur as localized events, making them difficult to predict. As such, their impacts on ecosystem structure and functioning are poorly understood. We utilized a field manipulation experiment that effectively simulated natural ice storms of varying intensities to mechanistically understand the short-term nitrogen (N) responses to such extreme weather events. Net N mineralization and nitrification were quantified for both the organic and mineral soil horizons via 30-day in situ incubations of intact soil cores, while gross N transformations were measured in short-term laboratory incubations using the 15N pool dilution technique. Net C mineralization and N and C microbial biomass were also measured on disturbed soil cores via the chloroform fumigation incubation method. All microbial transformation measurements were carried out in the fall of the pre-treatment year (2015), and the spring and fall of the post-treatment years (2016 and 2017). We found that the availability of inorganic N to the microbial community did not significantly change immediately following the simulated ice storms. Over longer time-scales, however, we expect that N loss (mineralization, nitrification, denitrification) and conservation (immobilization) processes will be controlled more by the flow and availability of labile C from newly decaying fine and coarse woody debris that was dropped immediately following the ice storm. We hypothesize that the forested ecosystem is now in a state of N oligotrophy, and thus less likely to show any N response to disturbance in the short-term. This suggests that recovery of the forest over the long-term may be slower than that observed following a natural ice storm event that took place in 1998 in the

Effect of ecosystems substitutions and CO{sub 2} increase of the atmosphere on the microbial ecosystems of forests; Effet de substitutions d'essence et de l'augmentation en CO{sub 2} de l'atmosphere sur les communautes microbiennes intervenant dans le fonctionnement d'un ecosysteme forestier

Energy Technology Data Exchange (ETDEWEB)

Martin, F

2007-07-01

Biological diversity is often exclusively considered at the level of plants and animals, whereas the bulk of global biodiversity is in fact at the microbial level. Although it is clear that the ecology of our planet is driven by microbial ecosystems, we are severely hampered by our limited understanding of the diversity and function of such microbial ecosystems. In the present project, teams in the disciplines of geochemistry, soil microbiology, genomics and ecosystem processes are assembled to study the relationship between environmental change, land use changes, biodiversity, and functioning of forest ecosystems. The network has a strong focus on developing and applying biochemical and genotyping methodologies to address key scientific issues in soil microbial ecology. These include assessing the impact of environmental- and land use changes on microbial diversity and function and exploring the evolutionary and mechanistic links between biological diversity and ecosystem function. In the present study, we have shown that: (1) The native mixed forest showed the highest microbial diversity (2) The mono specific plantations of tree species (e.g., oak, beech, pine, spruce) strikingly alter genetic and functional diversities of soil bacterial and fungal species. (3) Bacterial denitrification rates were dramatically modified by the planted species. Only by taking into account the impact of forest management on below-ground microbial diversity can one hope to get a full ecosystem-based understanding, and this must be addressed via modelling in order to provide relevant and useful information for conservation and policy making. (author)

Algae Drive Enhanced Darkening of Bare Ice on the Greenland Ice Sheet

Science.gov (United States)

Stibal, Marek; Box, Jason E.; Cameron, Karen A.; Langen, Peter L.; Yallop, Marian L.; Mottram, Ruth H.; Khan, Alia L.; Molotch, Noah P.; Chrismas, Nathan A. M.; Calı Quaglia, Filippo; Remias, Daniel; Smeets, C. J. P. Paul; van den Broeke, Michiel R.; Ryan, Jonathan C.; Hubbard, Alun; Tranter, Martyn; van As, Dirk; Ahlstrøm, Andreas P.

2017-11-01

Surface ablation of the Greenland ice sheet is amplified by surface darkening caused by light-absorbing impurities such as mineral dust, black carbon, and pigmented microbial cells. We present the first quantitative assessment of the microbial contribution to the ice sheet surface darkening, based on field measurements of surface reflectance and concentrations of light-absorbing impurities, including pigmented algae, during the 2014 melt season in the southwestern part of the ice sheet. The impact of algae on bare ice darkening in the study area was greater than that of nonalgal impurities and yielded a net albedo reduction of 0.038 ± 0.0035 for each algal population doubling. We argue that algal growth is a crucial control of bare ice darkening, and incorporating the algal darkening effect will improve mass balance and sea level projections of the Greenland ice sheet and ice masses elsewhere.

Direct visualization of solute locations in laboratory ice samples

Directory of Open Access Journals (Sweden)

T. Hullar

2016-09-01

Full Text Available Many important chemical reactions occur in polar snow, where solutes may be present in several reservoirs, including at the air–ice interface and in liquid-like regions within the ice matrix. Some recent laboratory studies suggest chemical reaction rates may differ in these two reservoirs. While investigations have examined where solutes are found in natural snow and ice, few studies have examined either solute locations in laboratory samples or the possible factors controlling solute segregation. To address this, we used micro-computed tomography (microCT to examine solute locations in ice samples prepared from either aqueous cesium chloride (CsCl or rose bengal solutions that were frozen using several different methods. Samples frozen in a laboratory freezer had the largest liquid-like inclusions and air bubbles, while samples frozen in a custom freeze chamber had somewhat smaller air bubbles and inclusions; in contrast, samples frozen in liquid nitrogen showed much smaller concentrated inclusions and air bubbles, only slightly larger than the resolution limit of our images (∼ 2 µm. Freezing solutions in plastic vs. glass vials had significant impacts on the sample structure, perhaps because the poor heat conductivity of plastic vials changes how heat is removed from the sample as it cools. Similarly, the choice of solute had a significant impact on sample structure, with rose bengal solutions yielding smaller inclusions and air bubbles compared to CsCl solutions frozen using the same method. Additional experiments using higher-resolution imaging of an ice sample show that CsCl moves in a thermal gradient, supporting the idea that the solutes in ice are present in mobile liquid-like regions. Our work shows that the structure of laboratory ice samples, including the location of solutes, is sensitive to the freezing method, sample container, and solute characteristics, requiring careful experimental design and interpretation of results.

Microfabric and Structures in Glacial Ice

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Monz, M.; Hudleston, P. J.

2017-12-01

Similar to rocks in active orogens, glacial ice develops both structures and fabrics that reflect deformation. Crystallographic preferred orientation (CPO), associated with mechanical anisotropy, develops as ice deforms, and as in rock, directly reflects the conditions and mechanisms of deformation and influences the overall strength. This project aims to better constrain the rheologic properties of natural ice through microstructural analysis and to establish the relationship of microfabric to macroscale structures. The focus is on enigmatic fabric patterns found in coarse grained, "warm" (T > -10oC) ice deep in ice sheets and in valley glaciers. Deformation mechanisms that produce such patterns are poorly understood. Detailed mapping of surface structures, including bedding, foliation, and blue bands (bubble-free veins of ice), was done in the ablation zone of Storglaciären, a polythermal valley glacier in northern Sweden. Microstructural studies on samples from a transect across the ablation zone were carried out in a cold room. Crystal size was too large for use of electron backscattered diffraction to determine CPO, therefore a Rigsby universal stage, designed specifically for ice, was used. In thick and thin sections, recrystallized grains are locally variable in both size (1mm-7cm in one thin section) and shape and clearly reflect recrystallization involving highly mobile grain boundaries. Larger crystals are often branching, and appear multiple times throughout one thin section. There is a clear shape preferred orientation that is generally parallel with foliation defined by bubble alignment and concentration. Locally, there appears to be an inverse correlation between bubble concentration and smoothness of grain boundaries. Fabric in samples that have undergone prolonged shear display roughly symmetrical multimaxima patterns centered around the pole to foliation. The angular distances between maxima suggest a possible twin relationship that may have

Anaerobic Psychrophiles from Alaska, Antarctica, and Patagonia: Implications to Possible Life on Mars and Europa

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Hoover, Richard B.; Pikuta, Elena V.; Marsic, Damien; Ng, Joseph

2002-01-01

Microorganisms preserved within the permafrost, glaciers, and polar ice sheets of planet Earth provide analogs for microbial life forms that may be encountered in ice or permafrost of Mars, Europa, Callisto, Ganymede, asteroids, comets or other frozen worlds in the Cosmos. The psychrophilic and psychrotolerant microbes of the terrestrial cryosphere help establish the thermal and temporal limitations of life on Earth and provide clues to where and how we should search for evidence of life elsewhere in the Universe. For this reason, the cold-loving microorganisms are directly relevant to Astrobiology. Cryopreserved microorganisms can remain viable (in deep anabiosis) in permafrost and ice for millions of years. Permafrost, ice wedges, pingos, glaciers, and polar ice sheets may contain intact ancient DNA, lipids, enzymes, proteins, genes, and even frozen and yet viable ancient microbiota. Some microorganisms carry out metabolic processes in water films and brine, acidic, or alkaline channels in permafrost or ice at temperatures far below 0 C. Complex microbial communities live in snow, ice-bubbles, cryoconite holes on glaciers and ancient microbial ecosystems are cryopreserved within the permafrost, glaciers, and polar caps. In the Astrobiology group of the NASA Marshall Space Flight Center and the University of Alabama at Huntsville, we have employed advanced techniques for the isolation, culture, and phylogenetic analysis of many types of microbial extremophiles. We have also used the Environmental Scanning Electron Microscope to study the morphology, ultra-microstructure and chemical composition of microorganisms in ancient permafrost and ice. We discuss several interesting and novel anaerobic microorganisms that we have isolated and cultured from the Pleistocene ice of the Fox Tunnel of Alaska, guano of the Magellanic Penguin, deep-sea sediments from the vicinity of the Rainbow Hydrothermal Vent and enrichment cultures from ice of the Patriot Hills of Antarctica

Population cycles and species diversity in dynamic Kill-the-Winner model of microbial ecosystems

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Maslov, Sergei; Sneppen, Kim

2017-01-01

Determinants of species diversity in microbial ecosystems remain poorly understood. Bacteriophages are believed to increase the diversity by the virtue of Kill-the-Winner infection bias preventing the fastest growing organism from taking over the community. Phage-bacterial ecosystems are traditionally described in terms of the static equilibrium state of Lotka-Volterra equations in which bacterial growth is exactly balanced by losses due to phage predation. Here we consider a more dynamic scenario in which phage infections give rise to abrupt and severe collapses of bacterial populations whenever they become sufficiently large. As a consequence, each bacterial population in our model follows cyclic dynamics of exponential growth interrupted by sudden declines. The total population of all species fluctuates around the carrying capacity of the environment, making these cycles cryptic. While a subset of the slowest growing species in our model is always driven towards extinction, in general the overall ecosystem diversity remains high. The number of surviving species is inversely proportional to the variation in their growth rates but increases with the frequency and severity of phage-induced collapses. Thus counter-intuitively we predict that microbial communities exposed to more violent perturbations should have higher diversity. PMID:28051127

The perils and promises of microbial abundance: novel natures and model ecosystems, from artisanal cheese to alien seas.

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Paxson, Heather; Helmreich, Stefan

2014-04-01

Microbial life has been much in the news. From outbreaks of Escherichia coli to discussions of the benefits of raw and fermented foods to recent reports of life forms capable of living in extreme environments, the modest microbe has become a figure for thinking through the presents and possible futures of nature, writ large as well as small. Noting that dominant representations of microbial life have shifted from an idiom of peril to one of promise, we argue that microbes--especially when thriving as microbial communities--are being upheld as model ecosystems in a prescriptive sense, as tokens of how organisms and human ecological relations with them could, should, or might be. We do so in reference to two case studies: the regulatory politics of artisanal cheese and the speculative research of astrobiology. To think of and with microbial communities as model ecosystems offers a corrective to the scientific determinisms we detect in some recent calls to attend to the materiality of scientific objects.

Soil microbial metabolic quotient (qCO2) of twelve ecosystems of Mt. Kilimanjaro

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Pabst, Holger; Gerschlauer, Friederike; Kiese, Ralf; Kuzyakov, Yakov

2014-05-01

Soil organic carbon, microbial biomass carbon (MBC) and the metabolic quotient qCO2 - as sensitive and important parameters for soil fertility and C turnover - are strongly affected by land-use changes all over the world. These effects are particularly distinct upon conversion of natural to agricultural ecosystems due to very fast carbon (C) and nutrient cycles and high vulnerability, especially in the tropics. In this study, we used an elevational gradient on Mt. Kilimanjaro to investigate the effects of land-use change and elevation on Corg, MBC and qCO2. Down to a soil depth of 18 cm we compared 4 natural (Helichrysum, Erica forest, Podocarpus forest, Ocotea forest), 5 seminatural (disturbed Podocarpus forest, disturbed Ocotea forest, lower montane forest, grassland, savannah), 1 sustainably used (homegarden) and 2 intensively used ecosystems (coffee plantation, maize field) on an elevation gradient from 950 to 3880 m a.s.l.. Using an incubation device, soil CO2-efflux of 18 cm deep soil cores was measured under field moist conditions and mean annual temperature. MBC to Corg ratios varied between 0.7 and 2.3%. qCO2 increased with magnitude of the disturbance, albeit this effect decreased with elevation. Following the annual precipitation of the ecosystems, both, Corg and MBC showed a hum-shaped distribution with elevation, whereas their maxima were between 2500 and 3000 m a.s.l.. Additionaly, Corg and MBC contents were significantly reduced in intensively used agricultural systems. We conclude that the soil microbial biomass and its activity in Mt. Kilimanjaro ecosystems are strongly altered by land-use. This effect is more distinct in lower than in higher elevated ecosystems and strongly dependent on the magnitude of disturbance.

Mapping microbial ecosystems and spoilage-gene flow in breweries highlights patterns of contamination and resistance.

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Bokulich, Nicholas A; Bergsveinson, Jordyn; Ziola, Barry; Mills, David A

2015-03-10

Distinct microbial ecosystems have evolved to meet the challenges of indoor environments, shaping the microbial communities that interact most with modern human activities. Microbial transmission in food-processing facilities has an enormous impact on the qualities and healthfulness of foods, beneficially or detrimentally interacting with food products. To explore modes of microbial transmission and spoilage-gene frequency in a commercial food-production scenario, we profiled hop-resistance gene frequencies and bacterial and fungal communities in a brewery. We employed a Bayesian approach for predicting routes of contamination, revealing critical control points for microbial management. Physically mapping microbial populations over time illustrates patterns of dispersal and identifies potential contaminant reservoirs within this environment. Habitual exposure to beer is associated with increased abundance of spoilage genes, predicting greater contamination risk. Elucidating the genetic landscapes of indoor environments poses important practical implications for food-production systems and these concepts are translatable to other built environments.

Identification and analysis of low molecular weight dissolved organic carbon in subglacial basal ice ecosystems by ion chromatography

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Lawson, E. C.; Wadham, J. L.; Lis, G. P.; Tranter, M.; Pickard, A. E.; Stibal, M.; Dewsbury, P.; Fitzsimons, S.

2015-08-01

Glacial runoff is an important source of dissolved organic carbon (DOC) for downstream heterotrophic activity, despite the low overall DOC concentrations. This is because of the abundance of bioavailable, low molecular weight (LMW) DOC species. However, the provenance and character of LMW-DOC is not fully understood. We investigated the abundance and composition of DOC in subglacial environments via a molecular level DOC analysis of basal ice, which forms by water/sediment freeze-on to the glacier sole. Spectrofluorometry and a novel ion chromatographic method, which has been little utilised in glacial science for LMW-DOC determinations, were employed to identify and quantify the major LMW fractions (free amino acids, carbohydrates and carboxylic acids) in basal ice from four glaciers, each with a different basal debris type. Basal ice from Joyce Glacier (Antarctica) was unique in that 98 % of the LMW-DOC was derived from the extremely diverse FAA pool, comprising 14 FAAs. LMW-DOC concentrations in basal ice were dependent on the bioavailability of the overridden organic carbon (OC), which in turn, was influenced by the type of overridden material. Mean LMW-DOC concentrations in basal ice from Russell Glacier (Greenland), Finsterwalderbreen (Svalbard) and Engabreen (Norway) were low (0-417 nM C), attributed to the relatively refractory nature of the OC in the overridden paleosols and bedrock. In contrast, mean LMW-DOC concentrations were an order of magnitude higher (4430 nM C) in basal ice from Joyce Glacier, a reflection of the high bioavailability of the overridden lacustrine material (>17 % of the sediment OC comprised extractable carbohydrates, a proxy for bioavailable OC). We find that the overridden material may act as a direct (via abiotic leaching) and indirect (via microbial cycling) source of DOC to the subglacial environment and provides a range of LMW-DOC compounds that may stimulate microbial activity in wet sediments in current subglacial

Complex yet translucent: the optical properties of sea ice

International Nuclear Information System (INIS)

Perovich, Donald K.

2003-01-01

Sea ice is a naturally occurring material with an intricate and highly variable structure consisting of ice platelets, brine pockets, air bubbles, and precipitated salt crystals. The optical properties of sea ice are directly dependent on this ice structure. Because sea ice is a material that exists at its salinity determined freezing point, its structure and optical properties are significantly affected by small changes in temperature. Understanding the interaction of sunlight with sea ice is important to a diverse array of scientific problems, including those in polar climatology. A key optical parameter for climatological studies is the albedo, the fraction of the incident sunlight that is reflected. The albedo of sea ice is quite sensitive to surface conditions. The presence of a snow cover enhances the albedo, while surface meltwater reduces the albedo. Radiative transfer in sea ice is a combination of absorption and scattering. Differences in the magnitude of sea ice optical properties are ascribable primarily to differences in scattering, while spectral variations are mainly a result of absorption. Physical changes that enhance scattering, such as the formation of air bubbles due to brine drainage, result in more light reflection and less transmission

Microbial processes in glaciers and permafrost. A literature study on microbiology affecting groundwater at ice sheet melting

International Nuclear Information System (INIS)

Hallbeck, Lotta

2009-10-01

A repository for spent nuclear fuel will remain for hundred thousands of years. During this period, several ice ages will most likely take place. To understand the effect of melt water from ice sheets on the repository, the microbiological processes of oxygen reduction has to be elucidated. This report is a compilation of the present knowledge about biological activity in glacier environments. These environments consist of many different parts which have their own biological character depending on the prevailing physical and chemical conditions. There are, for example, ice sheets and glaciers, glacial streams and rivers, soil and water beneath the ice, soil and water in front of and beside ice sheets and glacier and deep groundwater beneath the ice. The microbiological processes of importance are consumption of oxygen by aerobic microorganisms, anaerobic organisms and their reduced metabolites, like sulphide, acetate and methane, which can act as reducing agents in biological or chemical oxygen reduction. The lithotrophic type (inorganic energy source) of metabolism is important in these cold environments. There are also microbiological processes important to radionuclide transport and the production of complexing agents, biological colloids and biofilms. The study of microbial processes in glacier and ice sheet environments is still a young scientific niche. The studies have so far mostly been concentrated to ice surfaces and the subglacial environment. The most important findings from the literature study are as follows. Primary production is ongoing in snow cover and on ice surfaces of glaciers and ice sheets. The production is dependent on the location, because of temperature and solar radiation, but also on the prevailing state of the glacier. On surfaces and in the snow cover, heterotrophic microorganisms consume oxygen and organic material. In surface ice structures anaerobic conditions may occur. The subglacial environment is very active with several types

Microbial processes in glaciers and permafrost. A literature study on microbiology affecting groundwater at ice sheet melting

Energy Technology Data Exchange (ETDEWEB)

Hallbeck, Lotta (Microbial Analytics Sweden AB, Moelnlycke (Sweden))

2009-10-15

A repository for spent nuclear fuel will remain for hundred thousands of years. During this period, several ice ages will most likely take place. To understand the effect of melt water from ice sheets on the repository, the microbiological processes of oxygen reduction has to be elucidated. This report is a compilation of the present knowledge about biological activity in glacier environments. These environments consist of many different parts which have their own biological character depending on the prevailing physical and chemical conditions. There are, for example, ice sheets and glaciers, glacial streams and rivers, soil and water beneath the ice, soil and water in front of and beside ice sheets and glacier and deep groundwater beneath the ice. The microbiological processes of importance are consumption of oxygen by aerobic microorganisms, anaerobic organisms and their reduced metabolites, like sulphide, acetate and methane, which can act as reducing agents in biological or chemical oxygen reduction. The lithotrophic type (inorganic energy source) of metabolism is important in these cold environments. There are also microbiological processes important to radionuclide transport and the production of complexing agents, biological colloids and biofilms. The study of microbial processes in glacier and ice sheet environments is still a young scientific niche. The studies have so far mostly been concentrated to ice surfaces and the subglacial environment. The most important findings from the literature study are as follows. Primary production is ongoing in snow cover and on ice surfaces of glaciers and ice sheets. The production is dependent on the location, because of temperature and solar radiation, but also on the prevailing state of the glacier. On surfaces and in the snow cover, heterotrophic microorganisms consume oxygen and organic material. In surface ice structures anaerobic conditions may occur. The subglacial environment is very active with several types

Burning fire-prone Mediterranean shrublands: immediate changes in soil microbial community structure and ecosystem functions.

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Goberna, M; García, C; Insam, H; Hernández, M T; Verdú, M

2012-07-01

Wildfires subject soil microbes to extreme temperatures and modify their physical and chemical habitat. This might immediately alter their community structure and ecosystem functions. We burned a fire-prone shrubland under controlled conditions to investigate (1) the fire-induced changes in the community structure of soil archaea, bacteria and fungi by analysing 16S or 18S rRNA gene amplicons separated through denaturing gradient gel electrophoresis; (2) the physical and chemical variables determining the immediate shifts in the microbial community structure; and (3) the microbial drivers of the change in ecosystem functions related to biogeochemical cycling. Prokaryotes and eukaryotes were structured by the local environment in pre-fire soils. Fire caused a significant shift in the microbial community structure, biomass C, respiration and soil hydrolases. One-day changes in bacterial and fungal community structure correlated to the rise in total organic C and NO(3)(-)-N caused by the combustion of plant residues. In the following week, bacterial communities shifted further forced by desiccation and increasing concentrations of macronutrients. Shifts in archaeal community structure were unrelated to any of the 18 environmental variables measured. Fire-induced changes in the community structure of bacteria, rather than archaea or fungi, were correlated to the enhanced microbial biomass, CO(2) production and hydrolysis of C and P organics. This is the first report on the combined effects of fire on the three biological domains in soils. We concluded that immediately after fire the biogeochemical cycling in Mediterranean shrublands becomes less conservative through the increased microbial biomass, activity and changes in the bacterial community structure.

Microbial Community Response to Terrestrially Derived Dissolved Organic Matter in the Coastal Arctic

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Rachel E. Sipler

2017-06-01

Full Text Available Warming at nearly twice the global rate, higher than average air temperatures are the new ‘normal’ for Arctic ecosystems. This rise in temperature has triggered hydrological and geochemical changes that increasingly release carbon-rich water into the coastal ocean via increased riverine discharge, coastal erosion, and the thawing of the semi-permanent permafrost ubiquitous in the region. To determine the biogeochemical impacts of terrestrially derived dissolved organic matter (tDOM on marine ecosystems we compared the nutrient stocks and bacterial communities present under ice-covered and ice-free conditions, assessed the lability of Arctic tDOM to coastal microbial communities from the Chukchi Sea, and identified bacterial taxa that respond to rapid increases in tDOM. Once thought to be predominantly refractory, we found that ∼7% of dissolved organic carbon and ∼38% of dissolved organic nitrogen from tDOM was bioavailable to receiving marine microbial communities on short 4 – 6 day time scales. The addition of tDOM shifted bacterial community structure toward more copiotrophic taxa and away from more oligotrophic taxa. Although no single order was found to respond universally (positively or negatively to the tDOM addition, this study identified 20 indicator species as possible sentinels for increased tDOM. These data suggest the true ecological impact of tDOM will be widespread across many bacterial taxa and that shifts in coastal microbial community composition should be anticipated.

The potential for retreating alpine glaciers to alter alpine ecosystems in the Colorado Front Range

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Hall, E.; Baron, J.

2013-12-01

Glaciers are retreating at an unprecedented rate. In mid-latitude alpine ecosystems the presence of glaciers and rock glaciers govern rates and ecology of alpine and sub-alpine ecosystems. Changes in the thermal environment due to the loss of isothermal habitat and inputs from glacier melt chemistry are altering alpine ecosystems in unpredictable ways. In particular, glacier may be a source of nitrogen that is altering alpine ecosystem dynamics. Loch Vale Watershed (LVWS) located within Rocky Mountain National Park. LVWS contains a surface glacier (Andrew's glacier) and a rock glacier (Taylor's glacier) at the headwater of each of the two drainages within the watershed. We collected precipitation from a National Atmospheric Deposition Site and surface water from multiple alpine lakes and streams during a particularly high and low snow year in the Colorado Front Range. We also sampled stream and lake sediments at each site to analyze the associated microbial community. Concentrations of nitrate and ammonium, relative abundance of amoA (the gene responsible for a key step in the microbial nitrification pathway), and the dual isotope signal to nitrate all point to snow melt as a key deliverer of nitrogen to ecosystems along the Colorado Front Range. However, late summer surface water chemistry is isotopically similar to the chemistry of glacial ice. This suggests that retreating glacier may be an additional source of N to alpine ecosystems and have the potential to alter microbial community composition, biogeochemical rate processes, and ecosystem function. These dynamics are most likely not unique to the Colorado Front Range and should be globally distributed as glaciers continue to retreat in high altitude ecosystems around the world.

Microbial food web dynamics along a soil chronosequence of a glacier forefield

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J. Esperschütz

2011-11-01

Full Text Available Microbial food webs are critical for efficient nutrient turnover providing the basis for functional and stable ecosystems. However, the successional development of such microbial food webs and their role in "young" ecosystems is unclear. Due to a continuous glacier retreat since the middle of the 19th century, glacier forefields have expanded offering an excellent opportunity to study food web dynamics in soils at different developmental stages. In the present study, litter degradation and the corresponding C fluxes into microbial communities were investigated along the forefield of the Damma glacier (Switzerland. ¹³C-enriched litter of the pioneering plant Leucanthemopsis alpina (L. Heywood was incorporated into the soil at sites that have been free from ice for approximately 10, 60, 100 and more than 700 years. The structure and function of microbial communities were identified by ¹³C analysis of phospholipid fatty acids (PLFA and phospholipid ether lipids (PLEL. Results showed increasing microbial diversity and biomass, and enhanced proliferation of bacterial groups as ecosystem development progressed. Initially, litter decomposition proceeded faster at the more developed sites, but at the end of the experiment loss of litter mass was similar at all sites, once the more easily-degradable litter fraction was processed. As a result incorporation of ¹³C into microbial biomass was more evident during the first weeks of litter decomposition. ¹³C enrichments of both PLEL and PLFA biomarkers following litter incorporation were observed at all sites, suggesting similar microbial foodwebs at all stages of soil development. Nonetheless, the contribution of bacteria, especially actinomycetes to litter turnover became more pronounced as soil age increased in detriment of archaea, fungi and protozoa, more prominent in recently deglaciated terrain.

Dynamics of microbial communities during decomposition of litter from pioneering plants in initial soil ecosystems

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J. Esperschütz

2013-07-01

Full Text Available In initial ecosystems, concentrations of all macro- and micronutrients can be considered as extremely low. Plant litter therefore strongly influences the development of a degrader's food web and is an important source for C and N input into soil in such ecosystems. In the present study, a 13C litter decomposition field experiment was performed for 30 weeks in initial soils from a post-mining area near the city of Cottbus (Germany. Two of this region's dominant but contrasting pioneering plant species (Lotus corniculatus L. and Calamagrostis epigejos L. were chosen to investigate the effects of litter quality on the litter decomposing microbial food web in initially nutrient-poor substrates. The results clearly indicate the importance of litter quality, as indicated by its N content, its bioavailability for the degradation process and the development of microbial communities in the detritusphere and soil. The degradation of the L. corniculatus litter, which had a low C / N ratio, was fast and showed pronounced changes in the microbial community structure 1–4 weeks after litter addition. The degradation of the C. epigejos litter material was slow and microbial community changes mainly occurred between 4 and 30 weeks after litter addition to the soil. However, for both litter materials a clear indication of the importance of fungi for the degradation process was observed both in terms of fungal abundance and activity (13C incorporation activity

Microbial Fingerprints of Community Structure Correlate with Changes in Ecosystem Function Induced by Perturbing the Redox Environment

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Mills, A. L.; Ford, R. M.; Vallino, J. J.; Herman, J. S.; Hornberger, G. M.

2001-12-01

Restoration of high-quality groundwater has been an elusive engineering goal. Consequently, natural microbially-mediated reactions are increasingly relied upon to degrade organic contaminants, including hydrocarbons and many synthetic compounds. Of concern is how the introduction of an organic chemical contaminant affects the indigenous microbial communities, the geochemistry of the aquifer, and the function of the ecosystem. The presence of functional redundancy in microbial communities suggests that recovery of the community after a disturbance such as a contamination event could easily result in a community that is similar in function to that which existed prior to the contamination, but which is compositionally quite different. To investigate the relationship between community structure and function we observed the response of a diverse microbial community obtained from raw sewage to a dynamic redox environment using an aerobic/anaerobic/aerobic cycle. To evaluate changes in community function CO2, pH, ammonium and nitrate levels were monitored. A phylogenetically-based DNA technique (tRFLP) was used to assess changes in microbial community structure. Principal component analysis of the tRFLP data revealed significant changes in the composition of the microbial community that correlated well with changes in community function. Results from our experiments will be discussed in the context of a metabolic model based the biogeochemistry of the system. The governing philosophy of this thermodynamically constrained metabolic model is that living systems synthesize and allocate cellular machinery in such a way as to "optimally" utilize available resources in the environment. The robustness of this optimization-based approach provides a powerful tool for studying relationships between microbial diversity and ecosystem function.

Hadal biosphere: insight into the microbial ecosystem in the deepest ocean on Earth.

Science.gov (United States)

Nunoura, Takuro; Takaki, Yoshihiro; Hirai, Miho; Shimamura, Shigeru; Makabe, Akiko; Koide, Osamu; Kikuchi, Tohru; Miyazaki, Junichi; Koba, Keisuke; Yoshida, Naohiro; Sunamura, Michinari; Takai, Ken

2015-03-17

Hadal oceans at water depths below 6,000 m are the least-explored aquatic biosphere. The Challenger Deep, located in the western equatorial Pacific, with a water depth of ∼11 km, is the deepest ocean on Earth. Microbial communities associated with waters from the sea surface to the trench bottom (0∼10,257 m) in the Challenger Deep were analyzed, and unprecedented trench microbial communities were identified in the hadal waters (6,000∼10,257 m) that were distinct from the abyssal microbial communities. The potentially chemolithotrophic populations were less abundant in the hadal water than those in the upper abyssal waters. The emerging members of chemolithotrophic nitrifiers in the hadal water that likely adapt to the higher flux of electron donors were also different from those in the abyssal waters that adapt to the lower flux of electron donors. Species-level niche separation in most of the dominant taxa was also found between the hadal and abyssal microbial communities. Considering the geomorphology and the isolated hydrotopographical nature of the Mariana Trench, we hypothesized that the distinct hadal microbial ecosystem was driven by the endogenous recycling of organic matter in the hadal waters associated with the trench geomorphology.

Long-term reactive nitrogen loading alters soil carbon and microbial community properties in a subalpine forest ecosystem

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Boot, Claudia M.; Hall, Ed K.; Denef, Karolien; Baron, Jill S.

2016-01-01

Elevated nitrogen (N) deposition due to increased fossil fuel combustion and agricultural practices has altered global carbon (C) cycling. Additions of reactive N to N-limited environments are typically accompanied by increases in plant biomass. Soil C dynamics, however, have shown a range of different responses to the addition of reactive N that seem to be ecosystem dependent. We evaluated the effect of N amendments on biogeochemical characteristics and microbial responses of subalpine forest organic soils in order to develop a mechanistic understanding of how soils are affected by N amendments in subalpine ecosystems. We measured a suite of responses across three years (2011–2013) during two seasons (spring and fall). Following 17 years of N amendments, fertilized soils were more acidic (control mean 5.09, fertilized mean 4.68), and had lower %C (control mean 33.7% C, fertilized mean 29.8% C) and microbial biomass C by 22% relative to control plots. Shifts in biogeochemical properties in fertilized plots were associated with an altered microbial community driven by reduced arbuscular mycorrhizal (control mean 3.2 mol%, fertilized mean 2.5 mol%) and saprotrophic fungal groups (control mean 17.0 mol%, fertilized mean 15.2 mol%), as well as a decrease in N degrading microbial enzyme activity. Our results suggest that decreases in soil C in subalpine forests were in part driven by increased microbial degradation of soil organic matter and reduced inputs to soil organic matter in the form of microbial biomass.

Laser induced fluorescence emission (L.I.F.E.): in situ and remote detection of life in Antarctic and Alaskan ice

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Storrie-Lombardi, Michael C.; Sattler, Birgit

2009-08-01

Once thought to be a barren desert devoid of life, it now appears that Earth's cryosphere is an ice ecosystem harbouring a rich community of metabolically active microorganisms inhabiting ice, snow, water, and lithic environments. The ability to rapidly survey this ecosystem during in situ and orbital missions is of considerable interest for monitoring Earth's carbon budget and for efficiently searching for life on Mars or any exoplanet with an analogous cryosphere. Laser induced fluorescence emission (L.I.F.E.) imaging and spectroscopy using excitation in ultraviolet (UV) wavelengths have been proposed as non-destructive astrobiological survey tools to search for amino acids, nucleic acids, microbial life, and polycyclic aromatic hydrocarbons (PAHs) deep in the Mars regolith. However, the technique is easily adapted to search for larger, more complex biomolecular targets using longer wavelength sources. Of particular interest is the ability for excitation at blue, green, and red wavelengths to produce visible and near infrared fluorescence of photosynthetic pigments in cyanobacteria-dominated microbial communities populating the ice of alpine, Arctic, and Antarctic lakes, glaciers, ice sheets, and even the supercooled water-ice droplets of clouds. During the Tawani 2008 International Antarctic Expedition we tested the in situ use of the technique as part of a field campaign in the Dry Valleys of Schirmacher Oasis and Lake Untersee, Queen Maud Land, Antarctica. In the spring of 2009, we performed airborne remote sensing tests of the technology in Alaska. In this paper we review our in situ laser detection experiments and present for the first time preliminary results on our efforts to detect cryosphere L.I.F.E. from an airborne platform.

Microbial Community Dynamics in Soil Depth Profiles Over 120,000 Years of Ecosystem Development

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Stephanie Turner

2017-05-01

Full Text Available Along a long-term ecosystem development gradient, soil nutrient contents and mineralogical properties change, therefore probably altering soil microbial communities. However, knowledge about the dynamics of soil microbial communities during long-term ecosystem development including progressive and retrogressive stages is limited, especially in mineral soils. Therefore, microbial abundances (quantitative PCR and community composition (pyrosequencing as well as their controlling soil properties were investigated in soil depth profiles along the 120,000 years old Franz Josef chronosequence (New Zealand. Additionally, in a microcosm incubation experiment the effects of particular soil properties, i.e., soil age, soil organic matter fraction (mineral-associated vs. particulate, O2 status, and carbon and phosphorus additions, on microbial abundances (quantitative PCR and community patterns (T-RFLP were analyzed. The archaeal to bacterial abundance ratio not only increased with soil depth but also with soil age along the chronosequence, coinciding with mineralogical changes and increasing phosphorus limitation. Results of the incubation experiment indicated that archaeal abundances were less impacted by the tested soil parameters compared to Bacteria suggesting that Archaea may better cope with mineral-induced substrate restrictions in subsoils and older soils. Instead, archaeal communities showed a soil age-related compositional shift with the Bathyarchaeota, that were frequently detected in nutrient-poor, low-energy environments, being dominant at the oldest site. However, bacterial communities remained stable with ongoing soil development. In contrast to the abundances, the archaeal compositional shift was associated with the mineralogical gradient. Our study revealed, that archaeal and bacterial communities in whole soil profiles are differently affected by long-term soil development with archaeal communities probably being better adapted to

Turning into Ice

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Pietsch, Renée B.; Hanlon, Regina; Bohland, Cynthia; Schmale, David G., III

2016-01-01

This article describes an interdisciplinary unit in which students explore biological "ice nucleation"--by particles that cause water to freeze at temperatures above -38°C--through the lens of the microbial ice nucleator "Pseudomonas syringae." Such This activity, which aligns with the "Next Generation Science…

A Synthesis of the Effects of Pesticides on Microbial Persistence in Aquatic Ecosystems

Science.gov (United States)

Staley, Zachery R.; Harwood, Valerie J.; Rohr, Jason R.

2016-01-01

Pesticides are a pervasive presence in aquatic ecosystems throughout the world. While pesticides are intended to control fungi, insects, and other pests, their mechanisms of action are often not specific enough to prevent unintended effects, such as on non-target microbial populations. Microorganisms, including algae and cyanobacteria, protozoa, aquatic fungi, and bacteria, form the basis of many food webs and are responsible for crucial aspects of biogeochemical cycling; therefore, the potential for pesticides to alter microbial community structures must be understood to preserve ecosystem services. This review examines studies that focused on direct population-level effects and indirect community-level effects of pesticides on microorganisms. Generally, insecticides, herbicides, and fungicides were found to have adverse direct effects on algal and fungal species. Insecticides and fungicides also had deleterious direct effects in the majority of studies examining protozoa species, although herbicides were found to have inconsistent direct effects on protozoans. Our synthesis revealed mixed or no direct effects on bacterial species among all pesticide categories, with results highly dependent on the target species, chemical, and concentration used in the study. Examination of community-level, indirect effects revealed that all pesticide categories had a tendency to reduce higher trophic levels, thereby diminishing top-down pressures and favoring lower trophic levels. Often, indirect effects exerted greater influence than direct effects. However, few studies have been conducted to specifically address community-level effects of pesticides on microorganisms and further research is necessary to better understand and predict the net effects of pesticides on ecosystem health. PMID:26565685

Monitoring the fibrolytic potential of microbial ecosystems from domestic and wild ruminants browsing tanniferous forages

Directory of Open Access Journals (Sweden)

Nokwethemba Nqobile Philile Msimango

2016-03-01

Full Text Available Although the rumen microbiome has been reported to synthesize a rich source of symbiotic enzymes (exocellulase, endocellulase, hemicellulase and cellobiase, the digestion of tropical C4 grasses and browses by ruminants is still limited. Therefore, this study aimed to unveil potential fibrolytic microbial ecosystems from giraffe, kudu, impala and consortia (A1 [giraffe + kudu], A2 [giraffe + impala], A3 [kudu + impala], and A4 [giraffe + kudu + impala] browsing tanniferous plants, which can be used to improve forage utilization in domesticated goat. Crude protein enzyme extracts (CPZ from fresh faecal samples were precipitated by 60% ammonium sulphate and assayed for exocellulase, endocellulase and hemicellulase by incubating with crystalline cellulose, carboxymethyl cellulose and xylan at 38 °C with optimum pH of 5.5 to 6.5 for 1, 2, and 48 h, respectively. Enzyme specific activities were defined as μg of reducing sugar/mg CPZ. In vitro fermentation study was done by transferring 33 mL of fresh faecal inoculum into 67 mL of salivary buffer containing 1 g Acacia sieberiana and incubating for 72 h at 38 °C. Apparent degradability (APDeg, true degradability (TD, neutral detergent fibre degradability (NDFdeg, acid detergent fibre degradability (ADFdeg, microbial yield (MY, metabolizable energy (ME and total gas emitted (Gas were measured. Exocellulase activities were higher (P < 0.05 in all wild animals and consortia than those in goat except for A4. Minimal differences in hemicellulase activities (P < 0.05 were observed among goat and wild animals and consortia, while endocellulase activity was generally higher (P < 0.05 in goat than that in the rest of the systems. Apart from A3, TDeg, NDFdeg and ADFdeg were higher (P < 0.05 in all microbial ecosystems from wild animals and consortia than those in goat. Apparent degradability, MY and ME also varied (P < 0.05 among these systems. Giraffe, Kudu and A3 produced lower (P�

Rhizosphere soil microbial index of tree species in a coal mining ecosystem

Energy Technology Data Exchange (ETDEWEB)

Sinha, S.; Masto, R.E.; Ram, L.C.; Selvi, V.A.; Srivastava, N.K.; Tripathi, R.C.; George, J. [Central Institute of Mining & Fuel Research, Dhanbad (India)

2009-09-15

Microbial characterization of the tree rhizosphere provides important information relating to the screening of tree species for re-vegetation of degraded land. Rhizosphere soil samples collected from a few predominant tree species growing in the coal mining ecosystem of Dhanbad, India, were analyzed for soil organic carbon (SOC), mineralizable N, microbial biomass carbon (MBC), active microbial biomass carbon (AMBC), basal soil respiration (BSR), and soil enzyme activities (dehydrogenase, urease, catalase, phenol oxidase, and peroxidase). Principal component analysis was employed to derive a rhizosphere soil microbial index (RSMI) and accordingly, dehydrogenase, BSR/MBC, MBC/SOC, EC, phenol oxidase and AMBC were found to be the most critical properties. The observed values for the above properties were converted into a unitless score (0-1.00) and the scores were integrated into RSMI. The tree species could be arranged in decreasing order of the RSMI as: A. marmelos (0.718), A. indica (0.715), Bauhinia bauhinia (0.693), B. monosperma (0.611), E. jambolana (0.601), Moringa oleifera (0.565), Dalbergia sissoo (0.498), T indica (0.488), Morus alba (0.415), F religiosa (0.291), Eucalyptus sp. (0.232) and T grandis (0.181). It was concluded that tree species in coal mining areas had diverse effects on their respective rhizosphere microbial processes, which could directly or indirectly determine the survival and performance of the planted tree species in degraded coal mining areas. Tree species with higher RSMI values could be recommended for re-vegetation of degraded coal mining area.

Plant, microbial and ecosystem carbon use efficiencies interact to stabilize microbial growth as a fraction of gross primary production.

Science.gov (United States)

Sinsabaugh, Robert L; Moorhead, Daryl L; Xu, Xiaofeng; Litvak, Marcy E

2017-06-01

The carbon use efficiency of plants (CUE a ) and microorganisms (CUE h ) determines rates of biomass turnover and soil carbon sequestration. We evaluated the hypothesis that CUE a and CUE h counterbalance at a large scale, stabilizing microbial growth (μ) as a fraction of gross primary production (GPP). Collating data from published studies, we correlated annual CUE a , estimated from satellite imagery, with locally determined soil CUE h for 100 globally distributed sites. Ecosystem CUE e , the ratio of net ecosystem production (NEP) to GPP, was estimated for each site using published models. At the ecosystem scale, CUE a and CUE h were inversely related. At the global scale, the apparent temperature sensitivity of CUE h with respect to mean annual temperature (MAT) was similar for organic and mineral soils (0.029°C -1 ). CUE a and CUE e were inversely related to MAT, with apparent sensitivities of -0.009 and -0.032°C -1 , respectively. These trends constrain the ratio μ : GPP (= (CUE a  × CUE h )/(1 - CUE e )) with respect to MAT by counterbalancing the apparent temperature sensitivities of the component processes. At the ecosystem scale, the counterbalance is effected by modulating soil organic matter stocks. The results suggest that a μ : GPP value of c. 0.13 is a homeostatic steady state for ecosystem carbon fluxes at a large scale. © 2017 The Authors. New Phytologist © 2017 New Phytologist Trust.

Too big or too narrow? Disturbance characteristics determine the functional resilience in virtual microbial ecosystems

Science.gov (United States)

König, Sara; Firle, Anouk-Letizia; Koehnke, Merlin; Banitz, Thomas; Frank, Karin

2017-04-01

In general ecology, there is an ongoing debate about the influence of fragmentation on extinction thresholds. Whether this influence is positive or negative depends on the considered type of fragmentation: whereas habitat fragmentation often has a negative influence on population extinction thresholds, spatially fragmented disturbances are observed to have mostly positive effects on the extinction probability. Besides preventing population extinction, in soil systems ecology we are interested in analyzing how ecosystem functions are maintained despite disturbance events. Here, we analyzed the influence of disturbance size and fragmentation on the functional resilience of a microbial soil ecosystem. As soil is a highly heterogeneous environment exposed to disturbances of different spatial configurations, the identification of critical disturbance characteristics for maintaining its functions is crucial. We used the numerical simulation model eColony considering bacterial growth, degradation and dispersal for analyzing the dynamic response of biodegradation examplary for an important microbial ecosystem service to disturbance events of different spatial configurations. We systematically varied the size and the degree of fragmentation of the affected area (disturbance pattern). We found that the influence of the disturbance size on functional recovery and biodegradation performance highly depends on the spatial fragmentation of the disturbance. Generally, biodegradation performance decreases with increasing clumpedness and increasing size of the affected area. After spatially correlated disturbance events, biodegradation performance decreases linear with increasing disturbance size. After spatially fragmented disturbance events, on the other hand, an increase in disturbance size has no influence on the biodegradation performance until a critical disturbance size is reached. Is the affected area bigger than this critical size, the functional performance decreases

Recent advances in the application of microbial transglutaminase crosslinking in cheese and ice cream products: A review.

Science.gov (United States)

Taghi Gharibzahedi, Seyed Mohammad; Koubaa, Mohamed; Barba, Francisco J; Greiner, Ralf; George, Saji; Roohinejad, Shahin

2018-02-01

Microbial transglutaminase (MTGase) has been currently utilized to form new food structures and matrices with high physicochemical stability. Incorporation of this multi-functional enzyme into structural composition of milk protein-based products, such as cheese and ice cream, can not only be a successful strategy to improve their nutritional and technological characteristics through intramolecular cross-linking, but also to reduce the production cost by decreasing fat and stabilizer contents. The recent research developments and promising results of MTGase application in producing functional formulations of cheese and ice cream with higher quality characteristics are reviewed. New interesting insights and future perspectives are also presented. The addition of MTGase to cheese led to significant improvements in moisture, yield, texture, rheology and sensory properties, without changes in the chemical composition. Furthermore, pH value of ice cream is not affected by the MTGase treatment. Compared to untreated ice creams, application of MTGase significantly promotes consistency, fat destabilization, overrun and organoleptic acceptance, while a substantial reduction in firmness and melting rate of samples was observed. The addition of MTGase to cheese and ice cream-milk provides reinforcement to the protein matrix and can be considered as a novel additive for improving the physicochemical and organoleptic properties of final products. Copyright © 2017 Elsevier B.V. All rights reserved.

An examination of the biodiversity-ecosystem function relationship in arable soil microbial communities

DEFF Research Database (Denmark)

Griffiths, B.S.; Ritz, Karl; Wheatley, R.

2001-01-01

, nitrate accumulation, respiratory growth response, community level physiological profile and decomposition). Neither was there a direct effect of biodiversity on the variability of the processes, nor on the stability of decomposition when the soils were perturbed by heat or copper. The biodiversity of......Microbial communities differing in biodiversity were established by inoculating sterile agricultural soil with serially diluted soil suspensions prepared from the parent soil. Three replicate communities of each dilution were allowed to establish an equivalent microbial biomass by incubation for 9...... months at 15°C, after which the biodiversity-ecosystem function relationship was examined for a range of soil processes. Biodiversity was determined by monitoring cultivable bacterial and fungal morphotypes, directly extracted eubacterial DNA and protozoan taxa. In the context of this study biodiversity...

Primary productivity as a control over soil microbial diversity along environmental gradients in a polar desert ecosystem

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Kevin M. Geyer

2017-07-01

Full Text Available Primary production is the fundamental source of energy to foodwebs and ecosystems, and is thus an important constraint on soil communities. This coupling is particularly evident in polar terrestrial ecosystems where biological diversity and activity is tightly constrained by edaphic gradients of productivity (e.g., soil moisture, organic carbon availability and geochemical severity (e.g., pH, electrical conductivity. In the McMurdo Dry Valleys of Antarctica, environmental gradients determine numerous properties of soil communities and yet relatively few estimates of gross or net primary productivity (GPP, NPP exist for this region. Here we describe a survey utilizing pulse amplitude modulation (PAM fluorometry to estimate rates of GPP across a broad environmental gradient along with belowground microbial diversity and decomposition. PAM estimates of GPP ranged from an average of 0.27 μmol O2/m2/s in the most arid soils to an average of 6.97 μmol O2/m2/s in the most productive soils, the latter equivalent to 217 g C/m2/y in annual NPP assuming a 60 day growing season. A diversity index of four carbon-acquiring enzyme activities also increased with soil productivity, suggesting that the diversity of organic substrates in mesic environments may be an additional driver of microbial diversity. Overall, soil productivity was a stronger predictor of microbial diversity and enzymatic activity than any estimate of geochemical severity. These results highlight the fundamental role of environmental gradients to control community diversity and the dynamics of ecosystem-scale carbon pools in arid systems.

Sea ice algal biomass and physiology in the Amundsen Sea, Antarctica

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Kevin R. Arrigo

2014-07-01

Full Text Available Abstract Sea ice covers approximately 5% of the ocean surface and is one of the most extensive ecosystems on the planet. The microbial communities that live in sea ice represent an important food source for numerous organisms at a time of year when phytoplankton in the water column are scarce. Here we describe the distributions and physiology of sea ice microalgae in the poorly studied Amundsen Sea sector of the Southern Ocean. Microalgal biomass was relatively high in sea ice in the Amundsen Sea, due primarily to well developed surface communities that would have been replenished with nutrients during seawater flooding of the surface as a result of heavy snow accumulation. Elevated biomass was also occasionally observed in slush, interior, and bottom ice microhabitats throughout the region. Sea ice microalgal photophysiology appeared to be controlled by the availability of both light and nutrients. Surface communities used an active xanthophyll cycle and effective pigment sunscreens to protect themselves from harmful ultraviolet and visible radiation. Acclimation to low light microhabitats in sea ice was facilitated by enhanced pigment content per cell, greater photosynthetic accessory pigments, and increased photosynthetic efficiency. Photoacclimation was especially effective in the bottom ice community, where ready access to nutrients would have allowed ice microalgae to synthesize a more efficient photosynthetic apparatus. Surprisingly, the pigment-detected prymnesiophyte Phaeocystis antarctica was an important component of surface communities (slush and surface ponds where its acclimation to high light may precondition it to seed phytoplankton blooms after the sea ice melts in spring.

Microbial community structure of Arctic multiyear sea ice and surface seawater by 454 sequencing of the 16S RNA gene

DEFF Research Database (Denmark)

Bowman, Jeff S.; Rasmussen, Simon; Blom, Nikolaj

2011-01-01

community in MYI at two sites near the geographic North Pole using parallel tag sequencing of the 16S rRNA gene. Although the composition of the MYI microbial community has been characterized by previous studies, microbial community structure has not been. Although richness was lower in MYI than....... In addition, several low-abundance clades not previously reported in sea ice were present, including the phylum TM7 and the classes Spartobacteria and Opitutae. Members of Coraliomargarita, a recently described genus of the class Opitutae, were present in sufficient numbers to suggest niche occupation within...

A metagenomic snapshot of taxonomic and functional diversity in an alpine glacier cryoconite ecosystem

International Nuclear Information System (INIS)

Edwards, Arwyn; Pachebat, Justin A; Swain, Martin; Hegarty, Matt; Rassner, Sara M E; Hodson, Andrew J; Irvine-Fynn, Tristram D L; Sattler, Birgit

2013-01-01

Cryoconite is a microbe–mineral aggregate which darkens the ice surface of glaciers. Microbial process and marker gene PCR-dependent measurements reveal active and diverse cryoconite microbial communities on polar glaciers. Here, we provide the first report of a cryoconite metagenome and culture-independent study of alpine cryoconite microbial diversity. We assembled 1.2 Gbp of metagenomic DNA sequenced using an Illumina HiScanSQ from cryoconite holes across the ablation zone of Rotmoosferner in the Austrian Alps. The metagenome revealed a bacterially-dominated community, with Proteobacteria (62% of bacterial-assigned contigs) and Bacteroidetes (14%) considerably more abundant than Cyanobacteria (2.5%). Streptophyte DNA dominated the eukaryotic metagenome. Functional genes linked to N, Fe, S and P cycling illustrated an acquisitive trend and a nitrogen cycle based upon efficient ammonia recycling. A comparison of 32 metagenome datasets revealed a similarity in functional profiles between the cryoconite and metagenomes characterized from other cold microbe–mineral aggregates. Overall, the metagenomic snapshot reveals the cryoconite ecosystem of this alpine glacier as dependent on scavenging carbon and nutrients from allochthonous sources, in particular mosses transported by wind from ice-marginal habitats, consistent with net heterotrophy indicated by productivity measurements. A transition from singular snapshots of cryoconite metagenomes to comparative analyses is advocated. (letter)

Microbial and Functional Diversity within the Phyllosphere of Espeletia Species in an Andean High-Mountain Ecosystem.

Science.gov (United States)

Ruiz-Pérez, Carlos A; Restrepo, Silvia; Zambrano, María Mercedes

2016-01-08

Microbial populations residing in close contact with plants can be found in the rhizosphere, in the phyllosphere as epiphytes on the surface, or inside plants as endophytes. Here, we analyzed the microbiota associated with Espeletia plants, endemic to the Páramo environment of the Andes Mountains and a unique model for studying microbial populations and their adaptations to the adverse conditions of high-mountain neotropical ecosystems. Communities were analyzed using samples from the rhizosphere, necromass, and young and mature leaves, the last two analyzed separately as endophytes and epiphytes. The taxonomic composition determined by performing sequencing of the V5-V6 region of the 16S rRNA gene indicated differences among populations of the leaf phyllosphere, the necromass, and the rhizosphere, with predominance of some phyla but only few shared operational taxonomic units (OTUs). Functional profiles predicted on the basis of taxonomic affiliations differed from those obtained by GeoChip microarray analysis, which separated community functional capacities based on plant microenvironment. The identified metabolic pathways provided insight regarding microbial strategies for colonization and survival in these ecosystems. This study of novel plant phyllosphere microbiomes and their putative functional ecology is also the first step for future bioprospecting studies in search of enzymes, compounds, or microorganisms relevant to industry or for remediation efforts. Copyright © 2016, American Society for Microbiology. All Rights Reserved.

Bubble dynamics and bubble-induced turbulence of a single-bubble chain

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Lee, Joohyoung; Park, Hyungmin

2016-11-01

In the present study, the bubble dynamics and liquid-phase turbulence induced by a chain of bubbles injected from a single nozzle have been experimentally investigated. Using a high-speed two-phase particle image velociemtry, measurements on the bubbles and liquid-phase velocity field are conducted in a transparent tank filled with water, while varying the bubble release frequency from 0.1 to 35 Hz. The tested bubble size ranges between 2.0-3.2 mm, and the corresponding bubble Reynolds number is 590-1100, indicating that it belongs to the regime of path instability. As the release frequency increases, it is found that the global shape of bubble dispersion can be classified into two regimes: from asymmetric (regular) to axisymmetric (irregular). In particular, at higher frequency, the wake vortices of leading bubbles cause an irregular behaviour of the following bubble. For the liquid phase, it is found that a specific trend on the bubble-induced turbulence appears in a strong relation to the above bubble dynamics. Considering this, we try to provide a theoretical model to estimate the liquid-phase turbulence induced by a chain of bubbles. Supported by a Grant funded by Samsung Electronics, Korea.

Stable isotope probing to study functional components of complex microbial ecosystems.

Science.gov (United States)

Mazard, Sophie; Schäfer, Hendrik

2014-01-01

This protocol presents a method of dissecting the DNA or RNA of key organisms involved in a specific biochemical process within a complex ecosystem. Stable isotope probing (SIP) allows the labelling and separation of nucleic acids from community members that are involved in important biochemical transformations, yet are often not the most numerically abundant members of a community. This pure culture-independent technique circumvents limitations of traditional microbial isolation techniques or data mining from large-scale whole-community metagenomic studies to tease out the identities and genomic repertoires of microorganisms participating in biological nutrient cycles. SIP experiments can be applied to virtually any ecosystem and biochemical pathway under investigation provided a suitable stable isotope substrate is available. This versatile methodology allows a wide range of analyses to be performed, from fatty-acid analyses, community structure and ecology studies, and targeted metagenomics involving nucleic acid sequencing. SIP experiments provide an effective alternative to large-scale whole-community metagenomic studies by specifically targeting the organisms or biochemical transformations of interest, thereby reducing the sequencing effort and time-consuming bioinformatics analyses of large datasets.

The feasibility of automated online flow cytometry for in-situ monitoring of microbial dynamics in aquatic ecosystems

Science.gov (United States)

Besmer, Michael D.; Weissbrodt, David G.; Kratochvil, Bradley E.; Sigrist, Jürg A.; Weyland, Mathias S.; Hammes, Frederik

2014-01-01

Fluorescent staining coupled with flow cytometry (FCM) is often used for the monitoring, quantification and characterization of bacteria in engineered and environmental aquatic ecosystems including seawater, freshwater, drinking water, wastewater, and industrial bioreactors. However, infrequent grab sampling hampers accurate characterization and subsequent understanding of microbial dynamics in all of these ecosystems. A logic technological progression is high throughput and full automation of the sampling, staining, measurement, and data analysis steps. Here we assess the feasibility and applicability of automated FCM by means of actual data sets produced with prototype instrumentation. As proof-of-concept we demonstrate examples of microbial dynamics in (i) flowing tap water from a municipal drinking water supply network and (ii) river water from a small creek subject to two rainfall events. In both cases, automated measurements were done at 15-min intervals during 12–14 consecutive days, yielding more than 1000 individual data points for each ecosystem. The extensive data sets derived from the automated measurements allowed for the establishment of baseline data for each ecosystem, as well as for the recognition of daily variations and specific events that would most likely be missed (or miss-characterized) by infrequent sampling. In addition, the online FCM data from the river water was combined and correlated with online measurements of abiotic parameters, showing considerable potential for a better understanding of cause-and-effect relationships in aquatic ecosystems. Although several challenges remain, the successful operation of an automated online FCM system and the basic interpretation of the resulting data sets represent a breakthrough toward the eventual establishment of fully automated online microbiological monitoring technologies. PMID:24917858

Functional resilience of microbial ecosystems in soil: How important is a spatial analysis?

Science.gov (United States)

König, Sara; Banitz, Thomas; Centler, Florian; Frank, Karin; Thullner, Martin

2015-04-01

Microbial life in soil is exposed to fluctuating environmental conditions influencing the performance of microbially mediated ecosystem services such as biodegradation of contaminants. However, as this environment is typically very heterogeneous, spatial aspects can be expected to play a major role for the ability to recover from a stress event. To determine key processes for functional resilience, simple scenarios with varying stress intensities were simulated within a microbial simulation model and the biodegradation rate in the recovery phase monitored. Parameters including microbial growth and dispersal rates were varied over a typical range to consider microorganisms with varying properties. Besides an aggregated temporal monitoring, the explicit observation of the spatio-temporal dynamics proved essential to understand the recovery process. For a mechanistic understanding of the model system, scenarios were also simulated with selected processes being switched-off. Results of the mechanistic and the spatial view show that the key factors for functional recovery with respect to biodegradation after a simple stress event depend on the location of the observed habitats. The limiting factors near unstressed areas are spatial processes - the mobility of the bacteria as well as substrate diffusion - the longer the distance to the unstressed region the more important becomes the process growth. Furthermore, recovery depends on the stress intensity - after a low stress event the spatial configuration has no influence on the key factors for functional resilience. To confirm these results, we repeated the stress scenarios but this time including an additional dispersal network representing a fungal network in soil. The system benefits from an increased spatial performance due to the higher mobility of the degrading microorganisms. However, this effect appears only in scenarios where the spatial distribution of the stressed area plays a role. With these simulations we

Biodegradable Plastic Mulch Films: Impacts on Soil Microbial Communities and Ecosystem Functions

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Sreejata Bandopadhyay

2018-04-01

Full Text Available Agricultural plastic mulch films are widely used in specialty crop production systems because of their agronomic benefits. Biodegradable plastic mulches (BDMs offer an environmentally sustainable alternative to conventional polyethylene (PE mulch. Unlike PE films, which need to be removed after use, BDMs are tilled into soil where they are expected to biodegrade. However, there remains considerable uncertainty about long-term impacts of BDM incorporation on soil ecosystems. BDMs potentially influence soil microbial communities in two ways: first, as a surface barrier prior to soil incorporation, indirectly affecting soil microclimate and atmosphere (similar to PE films and second, after soil incorporation, as a direct input of physical fragments, which add carbon, microorganisms, additives, and adherent chemicals. This review summarizes the current literature on impacts of plastic mulches on soil biological and biogeochemical processes, with a special emphasis on BDMs. The combined findings indicated that when used as a surface barrier, plastic mulches altered soil microbial community composition and functioning via microclimate modification, though the nature of these alterations varied between studies. In addition, BDM incorporation into soil can result in enhanced microbial activity and enrichment of fungal taxa. This suggests that despite the fact that total carbon input from BDMs is minuscule, a stimulatory effect on microbial activity may ultimately affect soil organic matter dynamics. To address the current knowledge gaps, long term studies and a better understanding of impacts of BDMs on nutrient biogeochemistry are needed. These are critical to evaluating BDMs as they relate to soil health and agroecosystem sustainability.

Biodegradable Plastic Mulch Films: Impacts on Soil Microbial Communities and Ecosystem Functions.

Science.gov (United States)

Bandopadhyay, Sreejata; Martin-Closas, Lluis; Pelacho, Ana M; DeBruyn, Jennifer M

2018-01-01

Agricultural plastic mulch films are widely used in specialty crop production systems because of their agronomic benefits. Biodegradable plastic mulches (BDMs) offer an environmentally sustainable alternative to conventional polyethylene (PE) mulch. Unlike PE films, which need to be removed after use, BDMs are tilled into soil where they are expected to biodegrade. However, there remains considerable uncertainty about long-term impacts of BDM incorporation on soil ecosystems. BDMs potentially influence soil microbial communities in two ways: first, as a surface barrier prior to soil incorporation, indirectly affecting soil microclimate and atmosphere (similar to PE films) and second, after soil incorporation, as a direct input of physical fragments, which add carbon, microorganisms, additives, and adherent chemicals. This review summarizes the current literature on impacts of plastic mulches on soil biological and biogeochemical processes, with a special emphasis on BDMs. The combined findings indicated that when used as a surface barrier, plastic mulches altered soil microbial community composition and functioning via microclimate modification, though the nature of these alterations varied between studies. In addition, BDM incorporation into soil can result in enhanced microbial activity and enrichment of fungal taxa. This suggests that despite the fact that total carbon input from BDMs is minuscule, a stimulatory effect on microbial activity may ultimately affect soil organic matter dynamics. To address the current knowledge gaps, long term studies and a better understanding of impacts of BDMs on nutrient biogeochemistry are needed. These are critical to evaluating BDMs as they relate to soil health and agroecosystem sustainability.

Statistical Physics Approaches to Microbial Ecology

Science.gov (United States)

Mehta, Pankaj

The unprecedented ability to quantitatively measure and probe complex microbial communities has renewed interest in identifying the fundamental ecological principles governing community ecology in microbial ecosystems. Here, we present work from our group and others showing how ideas from statistical physics can help us uncover these ecological principles. Two major lessons emerge from this work. First, large, ecosystems with many species often display new, emergent ecological behaviors that are absent in small ecosystems with just a few species. To paraphrase Nobel laureate Phil Anderson, ''More is Different'', especially in community ecology. Second, the lack of trophic layer separation in microbial ecology fundamentally distinguishes microbial ecology from classical paradigms of community ecology and leads to qualitative different rules for community assembly in microbes. I illustrate these ideas using both theoretical modeling and novel new experiments on large microbial ecosystems performed by our collaborators (Joshua Goldford and Alvaro Sanchez). Work supported by Simons Investigator in MMLS and NIH R35 R35 GM119461.

Soil ecology of a rock outcrop ecosystem: Abiotic stresses, soil respiration, and microbial community profiles in limestone cedar glades

Science.gov (United States)

Cartwright, Jennifer M.; Advised by Dzantor, E. Kudjo

2015-01-01

Limestone cedar glades are a type of rock outcrop ecosystem characterized by shallow soil and extreme hydrologic conditions—seasonally ranging from xeric to saturated—that support a number of plant species of conservation concern. Although a rich botanical literature exists on cedar glades, soil biochemical processes and the ecology of soil microbial communities in limestone cedar glades have largely been ignored. This investigation documents the abiotic stress regime of this ecosystem (shallow soil, extreme hydrologic fluctuations and seasonally high soil surface temperatures) as well as soil physical and chemical characteristics, and relates both types of information to ecological structures and functions including vegetation, soil respiration, and soil microbial community metabolic profiles and diversity. Methods used in this investigation include field observations and measurements of soil physical and chemical properties and processes, laboratory analyses, and microbiological assays of soil samples.

Microbes as engines of ecosystem function: when does community structure enhance predictions of ecosystem processes?

Directory of Open Access Journals (Sweden)

Emily B. Graham

2016-02-01

Full Text Available Microorganisms are vital in mediating the earth’s biogeochemical cycles; yet, despite our rapidly increasing ability to explore complex environmental microbial communities, the relationship between microbial community structure and ecosystem processes remains poorly understood. Here, we address a fundamental and unanswered question in microbial ecology: ‘When do we need to understand microbial community structure to accurately predict function?’ We present a statistical analysis investigating the value of environmental data and microbial community structure independently and in combination for explaining rates of carbon and nitrogen cycling processes within 82 global datasets. Environmental variables were the strongest predictors of process rates but left 44% of variation unexplained on average, suggesting the potential for microbial data to increase model accuracy. Although only 29% of our datasets were significantly improved by adding information on microbial community structure, we observed improvement in models of processes mediated by narrow phylogenetic guilds via functional gene data, and conversely, improvement in models of facultative microbial processes via community diversity metrics. Our results also suggest that microbial diversity can strengthen predictions of respiration rates beyond microbial biomass parameters, as 53% of models were improved by incorporating both sets of predictors compared to 35% by microbial biomass alone. Our analysis represents the first comprehensive analysis of research examining links between microbial community structure and ecosystem function. Taken together, our results indicate that a greater understanding of microbial communities informed by ecological principles may enhance our ability to predict ecosystem process rates relative to assessments based on environmental variables and microbial physiology.

Tipping elements in the Arctic marine ecosystem.

Science.gov (United States)

Duarte, Carlos M; Agustí, Susana; Wassmann, Paul; Arrieta, Jesús M; Alcaraz, Miquel; Coello, Alexandra; Marbà, Núria; Hendriks, Iris E; Holding, Johnna; García-Zarandona, Iñigo; Kritzberg, Emma; Vaqué, Dolors

2012-02-01

The Arctic marine ecosystem contains multiple elements that present alternative states. The most obvious of which is an Arctic Ocean largely covered by an ice sheet in summer versus one largely devoid of such cover. Ecosystems under pressure typically shift between such alternative states in an abrupt, rather than smooth manner, with the level of forcing required for shifting this status termed threshold or tipping point. Loss of Arctic ice due to anthropogenic climate change is accelerating, with the extent of Arctic sea ice displaying increased variance at present, a leading indicator of the proximity of a possible tipping point. Reduced ice extent is expected, in turn, to trigger a number of additional tipping elements, physical, chemical, and biological, in motion, with potentially large impacts on the Arctic marine ecosystem.

Adaptive long-term monitoring of soil health in metal phytostabilization: ecological attributes and ecosystem services based on soil microbial parameters.

Science.gov (United States)

Epelde, Lur; Becerril, José M; Alkorta, Itziar; Garbisu, Carlos

2014-01-01

Phytostabilization is a promising option for the remediation of metal contaminated soils which requires the implementation of long-term monitoring programs. We here propose to incorporate the paradigm of "adaptive monitoring", which enables monitoring programs to evolve iteratively as new information emerges and research questions change, to metal phytostabilization. Posing good questions that cover the chemical, toxicological and ecological concerns associated to metal contaminated soils is critical for an efficient long-term phytostabilization monitoring program. Regarding the ecological concerns, soil microbial parameters are most valuable indicators of the effectiveness of metal phytostabilization processes in terms of recovery of soil health. We suggest to group soil microbial parameters in higher-level categories such as "ecological attributes" (vigor, organization, stability) or "ecosystem services" in order to facilitate interpretation and, most importantly, to provide long-term phytostabilization monitoring programs with the required stability through time against changes in techniques, methods, interests, etc. that will inevitably occur during the monitoring program. Finally, a Phytostabilization Monitoring Card, based on both ecological attributes and ecosystem services, for soil microbial properties is provided.

Microbial ecology-based engineering of Microbial Electrochemical Technologies.

Science.gov (United States)

Koch, Christin; Korth, Benjamin; Harnisch, Falk

2018-01-01

Microbial ecology is devoted to the understanding of dynamics, activity and interaction of microorganisms in natural and technical ecosystems. Bioelectrochemical systems represent important technical ecosystems, where microbial ecology is of highest importance for their function. However, whereas aspects of, for example, materials and reactor engineering are commonly perceived as highly relevant, the study and engineering of microbial ecology are significantly underrepresented in bioelectrochemical systems. This shortfall may be assigned to a deficit on knowledge and power of these methods as well as the prerequisites for their thorough application. This article discusses not only the importance of microbial ecology for microbial electrochemical technologies but also shows which information can be derived for a knowledge-driven engineering. Instead of providing a comprehensive list of techniques from which it is hard to judge the applicability and value of information for a respective one, this review illustrates the suitability of selected techniques on a case study. Thereby, best practice for different research questions is provided and a set of key questions for experimental design, data acquisition and analysis is suggested. © 2017 The Authors. Microbial Biotechnology published by John Wiley & Sons Ltd and Society for Applied Microbiology.

Sea Ice Microorganisms: Environmental Constraints and Extracellular Responses

Directory of Open Access Journals (Sweden)

Jody W. Deming

2013-03-01

Full Text Available Inherent to sea ice, like other high latitude environments, is the strong seasonality driven by changes in insolation throughout the year. Sea-ice organisms are exposed to shifting, sometimes limiting, conditions of temperature and salinity. An array of adaptations to survive these and other challenges has been acquired by those organisms that inhabit the ice. One key adaptive response is the production of extracellular polymeric substances (EPS, which play multiple roles in the entrapment, retention and survival of microorganisms in sea ice. In this concept paper we consider two main areas of sea-ice microbiology: the physico-chemical properties that define sea ice as a microbial habitat, imparting particular advantages and limits; and extracellular responses elicited in microbial inhabitants as they exploit or survive these conditions. Emphasis is placed on protective strategies used in the face of fluctuating and extreme environmental conditions in sea ice. Gaps in knowledge and testable hypotheses are identified for future research.

ICES and PICES strategies for coordinating research on the impacts of climate change on marine ecosystems

DEFF Research Database (Denmark)

Kim, S.; Hollowed, Anne B.; Barange, Manuel

2014-01-01

organizations to develop a research initiative that focuses on their shared interests. A phased implementation will ensure that SICCME will be responsive to a rapidly evolving research area while delivering ongoing syntheses of existing knowledge, thereby advancing new science and methodologies......The social, economic, and ecological consequences of projected climate change on fish and fisheries are issues of global concern. In 2012, the International Council for the Exploration of the Sea (ICES) and the North Pacific Marine Science Organization (PICES) established a Strategic Initiative...... on Climate Change Effects on Marine Ecosystems (SICCME) to synthesize and to promote innovative, credible, and objective science-based advice on the impacts of climate change on marine ecosystems in the Northern Hemisphere. SICCME takes advantage of the unique and complementary strengths of the two...

Stimulation of microbial nitrogen cycling in aquatic ecosystems by benthic macrofauna: mechanisms and environmental implications

Science.gov (United States)

Stief, P.

2013-12-01

Invertebrate animals that live at the bottom of aquatic ecosystems (i.e., benthic macrofauna) are important mediators between nutrients in the water column and microbes in the benthos. The presence of benthic macrofauna stimulates microbial nutrient dynamics through different types of animal-microbe interactions, which potentially affect the trophic status of aquatic ecosystems. This review contrasts three types of animal-microbe interactions in the benthos of aquatic ecosystems: (i) ecosystem engineering, (ii) grazing, and (iii) symbiosis. Their specific contributions to the turnover of fixed nitrogen (mainly nitrate and ammonium) and the emission of the greenhouse gas nitrous oxide are evaluated. Published data indicate that ecosystem engineering by sediment-burrowing macrofauna stimulates benthic nitrification and denitrification, which together allows fixed nitrogen removal. However, the release of ammonium from sediments is enhanced more strongly than the sedimentary uptake of nitrate. Ecosystem engineering by reef-building macrofauna increases nitrogen retention and ammonium concentrations in shallow aquatic ecosystems, but allows organic nitrogen removal through harvesting. Grazing by macrofauna on benthic microbes apparently has small or neutral effects on nitrogen cycling. Animal-microbe symbioses provide abundant and distinct benthic compartments for a multitude of nitrogen-cycle pathways. Recent studies reveal that ecosystem engineering, grazing, and symbioses of benthic macrofauna significantly enhance nitrous oxide emission from shallow aquatic ecosystems. The beneficial effect of benthic macrofauna on fixed nitrogen removal through coupled nitrification-denitrification can thus be offset by the concurrent release of (i) ammonium that stimulates aquatic primary production and (ii) nitrous oxide that contributes to global warming. Overall, benthic macrofauna intensifies the coupling between benthos, pelagial, and atmosphere through enhanced turnover and

Life under ice: Investigating microbial-related biogeochemical cycles in the seasonally-covered Great Lake Onego, Russia

Science.gov (United States)

Thomas, Camille; Ariztegui, Daniel; Victor, Frossard; Emilie, Lyautey; Marie-Elodie, Perga; Life Under Ice Scientific Team

2016-04-01

The Great European lakes Ladoga and Onego are important resources for Russia in terms of drinking water, energy, fishing and leisure. Because their northern location (North of Saint Petersburgh), these lakes are usually ice-covered during winter. Due to logistical reasons, their study has thus been limited to the ice-free periods, and very few data are available for the winter season. As a matter of fact, comprehension of large lakes behaviour in winter is very limited as compared to the knowledge available from small subpolar lakes or perennially ice-covered polar lakes. To tackle this issue, an international consortium of scientists has gathered around the « life under ice » project to investigate physical, chemical and biogeochemical changes during winter in Lake Onego. Our team has mainly focused on the characterization and quantification of biological processes, from the water column to the sediment, with a special focus on methane cycling and trophic interactions. A first « on-ice » campaign in March 2015 allowed the sampling of a 120 cm sedimentary core and the collection of water samples at multiple depths. The data resulting from this expedition will be correlated to physical and chemical parameters collected simultaneously. A rapid biological activity test was applied immediately after coring in order to test for microbial activity in the sediments. In situ adenosine-5'-triphosphate (ATP) measurements were carried out in the core and taken as an indication of living organisms within the sediments. The presence of ATP is a marker molecule for metabolically active cells, since it is not known to form abiotically. Deoxyribonucleic acid (DNA) and ribonucleic acid (RNA) were extracted from these samples, and quantified. Quantitative polymerase chain reactions (PCR) were performed on archaeal and bacterial 16S rRNA genes used to reconstruct phylogenies, as well as on their transcripts. Moreover, functional genes involved in the methane and nitrogen cycles

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

Directory of Open Access Journals (Sweden)

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.

Modeling of radiation transport in coupled atmosphere-snow-ice-ocean systems

International Nuclear Information System (INIS)

Stamnes, K.; Hamre, B.; Stamnes, J.J.; Ryzhikov, G.; Biryulina, M.; Mahoney, R.; Hauss, B.; Sei, A.

2011-01-01

A radiative transfer model for coupled atmosphere-snow-ice-ocean systems (CASIO-DISORT) is used to develop accurate and efficient tools for computing the bidirectional reflectance distribution function (BRDF) of sea ice for a wide range of situations occurring in nature. These tools include a method to generate sea ice inherent optical properties (IOPs: single-scattering albedo, extinction optical depth, and scattering asymmetry parameter) for any wavelength between 300 and 4000 nm as a function of sea ice physical parameters including real and imaginary parts of the sea ice refractive index, brine pocket concentration and effective brine pocket size, air bubble concentration and effective air bubble size, volume fraction of ice impurities and impurity absorption coefficient, and sea ice thickness. The CASIO-DISORT code was used to compute look-up tables (LUTs) of the Fourier expansion coefficients of the BRDF as a function of angles of illumination and observation, sea ice IOPs, and ocean albedo. By interpolation in the LUTs one efficiently obtains accurate BRDF values. To include snow on the ice we modified DISORT2 to accept Fourier expansion coefficients for the BDRF as input instead of the BRDF itself, thereby reducing the computation time by a factor of about 60. The BRDF computed by CASIO-DISORT or retrieved from the LUTs applies to diffuse light only. To remedy this shortcoming we added a specular Gaussian beam component to the new BRDF tool and verified that it works well for BRDFs for bare and snow-covered sea ice.

Effects of mushroom and herb polysaccharides, as alternative for an antibiotic, on the cecal microbial ecosystem in broiler chickens

NARCIS (Netherlands)

Guo, F.; Williams, B.A.; Kwakkel, R.P.; Li, H.S.; Li, X.P.; Luo, J.Y.; Li, W.K.; Verstegen, M.W.A.

2004-01-01

An in vivo experiment was conducted to study the potential prebiotic effects of mushroom and herb polysaccharide extracts, Lentinus edodes extract (LenE), Tremella fuciformis extract, and Astragalus membranaceus Radix extract, on chicken growth and the cecal microbial ecosystem, as compared with the

[Reflectance of sea ice in Liaodong Bay].

Science.gov (United States)

Xu, Zhan-tang; Yang, Yue-zhong; Wang, Gui-fen; Cao, Wen-xi; Kong, Xiang-peng

2010-07-01

In the present study, the relationships between sea ice albedo and the bidirectional reflectance distribution in Liaodong Bay were investigated. The results indicate that: (1) sea ice albedo alpha(lambda) is closely related to the components of sea ice, the higher the particulate concentration in sea ice surface is, the lower the sea ice albedo alpha(lambda) is. On the contrary, the higher the bubble concentration in sea ice is, the higher sea ice albedo alpha(lambda) is. (2) Sea ice albedo alpha(lambda) is similar to the bidirectional reflectance factor R(f) when the probe locates at nadir. The R(f) would increase with the increase in detector zenith theta, and the correlation between R(f) and the detector azimuth would gradually increase. When the theta is located at solar zenith 63 degrees, the R(f) would reach the maximum, and the strongest correlation is also shown between the R(f) and the detector azimuth. (3) Different types of sea ice would have the different anisotropic reflectance factors.

Does microbial biomass affect pelagic ecosystem efficiency? An experimental study.

Science.gov (United States)

Wehr, J D; Le, J; Campbell, L

1994-01-01

Bacteria and other microorganisms in the pelagic zone participate in the recycling of organic matter and nutrients within the water column. The microbial loop is thought to enhance ecosystem efficiency through rapid recycling and reduced sinking rates, thus reducing the loss of nutrients contained in organisms remaining within the photic zone. We conducted experiments with lake communities in 5400-liter mesocosms, and measured the flux of materials and nutrients out of the water column. A factorial design manipulated 8 nutrient treatments: 4 phosphorus levels × 2 nitrogen levels. Total sedimentation rates were greatest in high-N mesocosms; within N-surplus communities, [Symbol: see text]1 µM P resulted in 50% increase in total particulate losses. P additions without added N had small effects on nutrient losses from the photic zone; +2 µM P tanks received 334 mg P per tank, yet after 14 days lost only 69 mg more particulate-P than did control communities. Nutrient treatments resulted in marked differences in phytoplankton biomass (twofold N effect, fivefold P effect in +N mesocosms only), bacterioplankton densities (twofold N-effect, twofold P effects in -N and +N mesocosms), and the relative importance of autotrophic picoplankton (maximum in high NY mesocosms). Multiple regression analysis found that of 8 plankton and water chemistry variables, the ratio of autotrophic picoplankton to total phytoplankton (measured as chlorophyll α) explained the largest portion of the total variation in sedimentation loss rates (65% of P-flux, 57% of N-flux, 26% of total flux). In each case, systems with greater relative importance of autotrophic picoplankton had significantly reduced loss rates. In contrast, greater numbers of planktonic bacteria were associated with increased sedimentation rates and lower system efficiency. We suggest that different microbial components may have contrasting effects on the presumed enhanced efficiency provided by the microbial loop.

Ice nucleation triggered by negative pressure.

Science.gov (United States)

Marcolli, Claudia

2017-11-30

Homogeneous ice nucleation needs supercooling of more than 35 K to become effective. When pressure is applied to water, the melting and the freezing points both decrease. Conversely, melting and freezing temperatures increase under negative pressure, i.e. when water is stretched. This study presents an extrapolation of homogeneous ice nucleation temperatures from positive to negative pressures as a basis for further exploration of ice nucleation under negative pressure. It predicts that increasing negative pressure at temperatures below about 262 K eventually results in homogeneous ice nucleation while at warmer temperature homogeneous cavitation, i. e. bubble nucleation, dominates. Negative pressure occurs locally and briefly when water is stretched due to mechanical shock, sonic waves, or fragmentation. The occurrence of such transient negative pressure should suffice to trigger homogeneous ice nucleation at large supercooling in the absence of ice-nucleating surfaces. In addition, negative pressure can act together with ice-inducing surfaces to enhance their intrinsic ice nucleation efficiency. Dynamic ice nucleation can be used to improve properties and uniformity of frozen products by applying ultrasonic fields and might also be relevant for the freezing of large drops in rainclouds.

From bacteria to elephants: Effects of land-use legacies on biodiversity and ecosystem structure in the Serengeti-Mara ecosystem: Chapter 8

Science.gov (United States)

Verchot, Louis V.; Ward, Naomi L.; Belnap, Jayne; Bossio, Deborah; Coughenour, Michael; Gibson, John; Hanotte, Olivier; Muchiru, Andrew N.; Phillips, Susan L.; Steven, Blaire; Wall, Diana H.; Reid, Robin S.

2015-01-01

Generally, ecological research has considered the aboveground and belowground components of ecosystems separately. Consequently, frameworks for integrating the two components are not well developed. Integrating the microbial components into ecosystem ecology requires different approaches from those offered by plant ecology, partly because of the scales at which microbial processes operate and partly because of measurement constraints. Studies have begun to relate microbial community structure to ecosystem function. results suggest that excluding people and livestock from the MMNR, or preventing heavier livestock from grazing around settlements, may not change the general structure of the ecosystem (soils, plant structure), but can change the numbers and diversity of wildlife, nematodes and microbes in this ecosystem in subtle ways.

Carrot Juice Fermentations as Man-Made Microbial Ecosystems Dominated by Lactic Acid Bacteria.

Science.gov (United States)

Wuyts, Sander; Van Beeck, Wannes; Oerlemans, Eline F M; Wittouck, Stijn; Claes, Ingmar J J; De Boeck, Ilke; Weckx, Stefan; Lievens, Bart; De Vuyst, Luc; Lebeer, Sarah

2018-06-15

Spontaneous vegetable fermentations, with their rich flavors and postulated health benefits, are regaining popularity. However, their microbiology is still poorly understood, therefore raising concerns about food safety. In addition, such spontaneous fermentations form interesting cases of man-made microbial ecosystems. Here, samples from 38 carrot juice fermentations were collected through a citizen science initiative, in addition to three laboratory fermentations. Culturing showed that Enterobacteriaceae were outcompeted by lactic acid bacteria (LAB) between 3 and 13 days of fermentation. Metabolite-target analysis showed that lactic acid and mannitol were highly produced, as well as the biogenic amine cadaverine. High-throughput 16S rRNA gene sequencing revealed that mainly species of Leuconostoc and Lactobacillus (as identified by 8 and 20 amplicon sequence variants [ASVs], respectively) mediated the fermentations in subsequent order. The analyses at the DNA level still detected a high number of Enterobacteriaceae , but their relative abundance was low when RNA-based sequencing was performed to detect presumptive metabolically active bacterial cells. In addition, this method greatly reduced host read contamination. Phylogenetic placement indicated a high LAB diversity, with ASVs from nine different phylogenetic groups of the Lactobacillus genus complex. However, fermentation experiments with isolates showed that only strains belonging to the most prevalent phylogenetic groups preserved the fermentation dynamics. The carrot juice fermentation thus forms a robust man-made microbial ecosystem suitable for studies on LAB diversity and niche specificity. IMPORTANCE The usage of fermented food products by professional chefs is steadily growing worldwide. Meanwhile, this interest has also increased at the household level. However, many of these artisanal food products remain understudied. Here, an extensive microbial analysis was performed of spontaneous fermented

Theory calculation of combination of 'embryo' bubble growing-up visible bubble in bubble chamber

International Nuclear Information System (INIS)

Ye Zipiao; Sheng Xiangdong; Dai Changjiang

2004-01-01

By aid of island combination theory of 'embryo' bubble, it is resolved well the question which 'embryo' bubble grows up a visible bubble in the bubble chamber. Through theory calculation it is shown that radius of the big' embryo' bubble combinated not only relates with work matter such as surface tension coefficient, saturation vapour pressure and boiling point of liquid, but also does absorbing quantity of heat and the numbers of 'embryo' bubbles combination. It is explained reasonably that the radius of bubbles in bubble chamber is different for the same energies of neutrons and proton. The track of neutron in bubble chamber is long and thin, and the track of proton in bubble chamber is wide and short. It is also explained reasonably that the bubble radius of the incident particles with more charges which there are the same energies will be wider than that of the incident particles with less charges in the track. (author)

Meta genome-wide network from functional linkages of genes in human gut microbial ecosystems.

Science.gov (United States)

Ji, Yan; Shi, Yixiang; Wang, Chuan; Dai, Jianliang; Li, Yixue

2013-03-01

The human gut microbial ecosystem (HGME) exerts an important influence on the human health. In recent researches, meta-genomics provided deep insights into the HGME in terms of gene contents, metabolic processes and genome constitutions of meta-genome. Here we present a novel methodology to investigate the HGME on the basis of a set of functionally coupled genes regardless of their genome origins when considering the co-evolution properties of genes. By analyzing these coupled genes, we showed some basic properties of HGME significantly associated with each other, and further constructed a protein interaction map of human gut meta-genome to discover some functional modules that may relate with essential metabolic processes. Compared with other studies, our method provides a new idea to extract basic function elements from meta-genome systems and investigate complex microbial environment by associating its biological traits with co-evolutionary fingerprints encoded in it.

Vertical structure and pH as factors for chitinolytic and pectinolytic microbial community of soils and terrestrial ecosystems of different climatic zones

Science.gov (United States)

Lukacheva, Evgeniya; Natalia, Manucharova

2016-04-01

Chitin is a naturally occurring fibre-forming polymer that plays a protective role in many lower animals similar to that of cellulose in plants. Also it's a compound of cell walls of fungi. Chemically it is a long-chain unbranched polysaccharide made of N-acetylglucosamine residues; it is the second most abundant organic compound in nature, after cellulose. Pectin is a structural heteropolysaccharide contained in the primary cell walls of terrestrial plants. Roots of the plants and root crops contain pectin. Chitin and pectin are widely distributed throughout the natural world. Structural and functional features of the complex microbial degradation of biopolymers one of the most important direction in microbial ecology. But there is no a lot of data concerns degradation in vertical structure of terrestrial ecosystems and detailed studies concerning certain abiotic features as pH. Microbial complexes of natural areas were analyzed only as humus horizons (A1) of the soil profile. Only small part of microbial community could be studied with this approach. It is known that ecosystems have their own structure. It is possible to allocate some vertical tiers: phylloplane, litter (soil covering), soil. We investigated chitinolytic and pectinolytic microbial communities dedicated to different layers of the ecosystems. Also it was described depending on pH dominated in certain ecosystem with certain conditions. Quantity of eukaryote and procaryote organisms increased in the test samples with chitin and pectin. Increasing of eukaryote in samples with pectin was more then in samples with chitin. Also should be noted the significant increasing of actinomycet's quantity in the samples with chitin in comparison with samples with pectin. The variety and abundance of bacteria in the litter samples increased an order of magnitude as compared to other probes. Further prokaryote community was investigated by method FISH (fluorescence in situ hybridization). FISH is a cytogenetic

Microbial Mn(IV) and Fe(III) reduction in northern Barents Sea sediments under different conditions of ice cover and organic carbon deposition

DEFF Research Database (Denmark)

Nickel, Maren; Vandieken, Verona; Brüchert, Volker

2008-01-01

station, with seasonally extended ice cover, low organic carbon content and sedimentation rate combined with relatively high concentrations of Mn and Fe(III) oxides favored dissimilatory Fe and Mn reduction (98% of anaerobic carbon oxidation) over sulfate reduction in the top 12 cm of the sediment....... In contrast, in a sediment that had not been ice covered for at least 12 months and with more organic carbon and a higher sedimentation rate, sulfate reduction was the most important anaerobic electron-accepting process (>80% of anaerobic carbon oxidation). In the upper 3 cm, microbial Fe and sulfate...

Impacts of radiation exposure on the experimental microbial ecosystem: a particle-based model simulation approach

International Nuclear Information System (INIS)

Doi, M.; Tanaka, N.; Fuma, S.; Kawabata, Z.

2004-01-01

Well-designed experimental model ecosystem could be a simple reference of the actual environment and complex ecological systems. For ecological toxicity test of radiation and other environmental toxicants, we investigated and aquatic microbial ecosystem (closed microcosm) in the test tube with initial substrates,autotroph flagellate algae (Euglena, G.), heterotroph ciliate protozoa (Tetrahymena T.) and saprotroph bacteria (E, coli). These species organizes by itself to construct the ecological system, that keeps the sustainable population dynamics for more than 2 years after inoculation only by adding light diurnally and controlling temperature at 25 degree Celsius. Objective of the study is to develop the particle-based computer simulation by reviewing interactions among microbes and environment, and analyze the ecological toxicities of radiation on the microcosm by replicating experimental results in the computer simulation. (Author) 14 refs

Investigating the effect of multiple layers of insulation with a bubble wrap experiment

Science.gov (United States)

Eggers, Dolores; Ruiz, Michael J.

2018-03-01

We provide a fun, inexpensive laboratory experiment for students to investigate the effects of multiple layers of insulation and observe diminishing values for additional layers using bubble wrap. This experiment provides an opportunity for students to learn about heat transfer through conduction using readily available materials. A water-ice pack is placed on top of five layers of bubble wrap. The temperature is taken between each layer periodically for at least 15 min. Students determine asymptotic temperatures for varying layers. This experiment also suggests a real world application.

Bioaerosols in the Earth system: Climate, health, and ecosystem interactions

Energy Technology Data Exchange (ETDEWEB)

Fröhlich-Nowoisky, Janine; Kampf, Christopher J.; Weber, Bettina; Huffman, J. Alex; Pöhlker, Christopher; Andreae, Meinrat O.; Lang-Yona, Naama; Burrows, Susannah M.; Gunthe, Sachin S.; Elbert, Wolfgang; Su, Hang; Hoor, Peter; Thines, Eckhard; Hoffmann, Thorsten; Després, Viviane R.; Pöschl, Ulrich

2016-12-01

Aerosols of biological origin play a vital role in the Earth system, particularly in the in-teractions between atmosphere, biosphere, climate, and public health. Airborne bacteria, fungal spores, pollen, and other bioparticles are essential for the reproduction and spread of organisms across various ecosystems, and they can cause or enhance human, animal, and plant diseases. Moreover, they can serve as nuclei for cloud droplets, ice crystals, and precipitation, thus influencing the hydrological cycle and climate. The actual formation, abundance, composition, and effects of biological aerosols and the atmospheric microbi-ome are, however, not yet well characterized and constitute a large gap in the scientific understanding of the interaction and co-evolution of life and climate in the Earth system. This review presents an overview of the state of bioaerosol research and highlights recent advances in terms of bioaerosol identification, characterization, transport, and transfor-mation processes, as well as their interactions with climate, health, and ecosystems, focus-ing on the role bioaerosols play in the Earth system.

Molecular microbial ecology manual

NARCIS (Netherlands)

Kowalchuk, G.A.; Bruijn, de F.J.; Head, I.M.; Akkermans, A.D.L.

2004-01-01

The field of microbial ecology has been revolutionized in the past two decades by the introduction of molecular methods into the toolbox of the microbial ecologist. This molecular arsenal has helped to unveil the enormity of microbial diversity across the breadth of the earth's ecosystems, and has

Bubbles

DEFF Research Database (Denmark)

Dholakia, Nikhilesh; Turcan, Romeo V.

2013-01-01

A goal of our ongoing research stream is to develop a multidisciplinary metatheory of bubbles. In this viewpoint paper we put forward a typology of bubbles by comparing four types of assets – entertainment, commodities, financial securities (stocks), and housing properties – where bubbles could...... and do form occasionally. Cutting across and comparing such varied asset types provides some rich insights into the nature of bubbles – and offers an inductive way to arrive at the typology of bubbles....

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

Dynamic morphology of gas hydrate on a methane bubble in water: Observations and new insights for hydrate film models

Science.gov (United States)

Warzinski, Robert P.; Lynn, Ronald; Haljasmaa, Igor; Leifer, Ira; Shaffer, Frank; Anderson, Brian J.; Levine, Jonathan S.

2014-10-01

Predicting the fate of subsea hydrocarbon gases escaping into seawater is complicated by potential formation of hydrate on rising bubbles that can enhance their survival in the water column, allowing gas to reach shallower depths and the atmosphere. The precise nature and influence of hydrate coatings on bubble hydrodynamics and dissolution is largely unknown. Here we present high-definition, experimental observations of complex surficial mechanisms governing methane bubble hydrate formation and dissociation during transit of a simulated oceanic water column that reveal a temporal progression of deep-sea controlling mechanisms. Synergistic feedbacks between bubble hydrodynamics, hydrate morphology, and coverage characteristics were discovered. Morphological changes on the bubble surface appear analogous to macroscale, sea ice processes, presenting new mechanistic insights. An inverse linear relationship between hydrate coverage and bubble dissolution rate is indicated. Understanding and incorporating these phenomena into bubble and bubble plume models will be necessary to accurately predict global greenhouse gas budgets for warming ocean scenarios and hydrocarbon transport from anthropogenic or natural deep-sea eruptions.

Continuous greenhouse gas measurements from ice cores

DEFF Research Database (Denmark)

Stowasser, Christopher

Ice cores offer the unique possibility to study the history of past atmospheric greenhouse gases over the last 800,000 years, since past atmospheric air is trapped in bubbles in the ice. Since the 1950s, paleo-scientists have developed a variety of techniques to extract the trapped air from...... individual ice core samples, and to measure the mixing ratio of greenhouse gases such as carbon dioxide, methane and nitrous oxide in the extracted air. The discrete measurements have become highly accurate and reproducible, but require relatively large amounts of ice per measured species and are both time......-consuming and labor-intensive. This PhD thesis presents the development of a new method for measurements of greenhouse gas mixing ratios from ice cores based on a melting device of a continuous flow analysis (CFA) system. The coupling to a CFA melting device enables time-efficient measurements of high resolution...

Bubbles generated from wind-steepened breaking waves: 1. Bubble plume bubbles

NARCIS (Netherlands)

Leifer, I.; Leeuw, G. de

2006-01-01

Measurements of bubble plumes from paddle-amplified, wind stress breaking waves were made in a large wind-wave channel during the LUMINY experiment in fresh (but not clean) water. Bubble plumes exhibited considerable variability with respect to dynamics, bubble size distribution, and physical

Strong linkage between active microbial communities and microbial carbon usage in a deglaciated terrain of the High Arctic

Science.gov (United States)

Kim, M.; Gyeong, H. R.; Lee, Y. K.

2017-12-01

Soil microorganisms play pivotal roles in ecosystem development and carbon cycling in newly exposed glacier forelands. However, little is known about carbon utilization pattern by metabolically active microbes over the course of ecosystem succession in these nutrient-poor environments. We investigated RNA-based microbial community dynamics and its relation to microbial carbon usage along the chronosequence of a High Arctic glacier foreland. Among microbial taxa surveyed (bacteria, archaea and fungi), bacteria are among the most metabolically active taxa with a dominance of Cyanobacteria and Actinobacteria. There was a strong association between microbial carbon usage and active Actinobacterial communities, suggesting that member of Actinobacteria are actively involved in organic carbon degradation in glacier forelands. Both bacterial community and microbial carbon usage are converged towards later stage of succession, indicating that the composition of soil organic carbon plays important roles in structuring bacterial decomposer communities during ecosystem development.

The YNP Metagenome Project: Environmental Parameters Responsible for Microbial Distribution in the Yellowstone Geothermal Ecosystem

Directory of Open Access Journals (Sweden)

William P. Inskeep

2013-05-01

Full Text Available The Yellowstone geothermal complex contains over 10,000 diverse geothermal features that host numerous phylogenetically deeply-rooted and poorly understood archaea, bacteria and viruses. Microbial communities in high-temperature environments are generally less diverse than soil, marine, sediment or lake habitats and therefore offer a tremendous opportunity for studying the structure and function of different model microbial communities using environmental metagenomics. One of the broader goals of this study was to establish linkages among microbial distribution, metabolic potential and environmental variables. Twenty geochemically distinct geothermal ecosystems representing a broad spectrum of Yellowstone hot-spring environments were used for metagenomic and geochemical analysis and included approximately equal numbers of: (1 phototrophic mats, (2 ‘filamentous streamer’ communities, and (3 archaeal-dominated sediments. The metagenomes were analyzed using a suite of complementary and integrative bioinformatic tools, including phylogenetic and functional analysis of both individual sequence reads and assemblies of predominant phylotypes. This volume identifies major environmental determinants of a large number of thermophilic microbial lineages, many of which have not been fully described in the literature nor previously cultivated to enable functional and genomic analyses. Moreover, protein family abundance comparisons and in-depth analyses of specific genes and metabolic pathways relevant to these hot-spring environments reveal hallmark signatures of metabolic capabilities that parallel the distribution of phylotypes across specific types of geochemical environments.

Diversity of key players in the microbial ecosystems of the human body.

Science.gov (United States)

Jordán, Ferenc; Lauria, Mario; Scotti, Marco; Nguyen, Thanh-Phuong; Praveen, Paurush; Morine, Melissa; Priami, Corrado

2015-10-30

Coexisting bacteria form various microbial communities in human body parts. In these ecosystems they interact in various ways and the properties of the interaction network can be related to the stability and functional diversity of the local bacterial community. In this study, we analyze the interaction network among bacterial OTUs in 11 locations of the human body. These belong to two major groups. One is the digestive system and the other is the female genital tract. In each local ecosystem we determine the key species, both the ones being in key positions in the interaction network and the ones that dominate by frequency. Beyond identifying the key players and discussing their biological relevance, we also quantify and compare the properties of the 11 networks. The interaction networks of the female genital system and the digestive system show totally different architecture. Both the topological properties and the identity of the key groups differ. Key groups represent four phyla of prokaryotes. Some groups appear in key positions in several locations, while others are assigned only to a single body part. The key groups of the digestive and the genital tracts are totally different.

Ecosystem model of the entire Beaufort Sea marine ecosystem: a tool for assessing food-web structure and ecosystem changes from 1970 to 2014

Science.gov (United States)

Suprenand, P. M.; Hoover, C.

2016-02-01

The Beaufort Sea coastal-marine ecosystem is approximately a 476,000 km2 area in the Arctic Ocean, which extends from -112.5 to -158° longitude to 67.5 to 75° latitude. Within this Arctic Ocean area the United States (Alaskan) indigenous communities of Barrow, Kaktovik, and Nuiqsut, and the Canadian (Northwest Territories) indigenous communities of Aklavik, Inuvik, Tuktoyaktuk, Paulatuk, Ulukhaktok, and Sachs Harbour, subsist by harvesting marine mammals, fish, and invertebrates from the Beaufort Sea to provide the majority of their community foods annually. The ecosystem in which the indigenous communities harvest is considered a polar habitat that includes many specialized species, such as polar bears that rely on sea-ice for foraging activities and denning, or ice algae that are attached to the cryosphere. However, the polar habitat has been experiencing a diminishing sea-ice extent, age, and seasonal duration, with concomitant increases in sea surface temperatures (SSTs), since the 1970s. Changes in sea-ice and SST have consequences to the Beaufort Sea coastal-marine ecosystem, which includes animal habitat losses, alterations to trophodynamics, and impacts to subsistence community harvesting. The present study was aimed at capturing trophodynamic changes in the Beaufort Sea coastal-marine ecosystem from 1970 to 2014 using a fitted spatial-temporal model (Ecopath with Ecosim and Ecospace) that utilizes forcing and mediation functions to describe animal/trophodynamic relationships with sea-ice and sea surface temperature, as well as individual community harvesting efforts. Model outputs reveals similar trends in animals population changes (e.g., increasing bowhead whale stock), changes in apex predator diets (e.g., polar bears eating less ringed seal), and changes in animal distributions (e.g., polar bears remaining closer to land over time). The Beaufort Sea model is a dynamic tool for Arctic Ocean natural resource management in the years to come.

Anti-Bubbles

Science.gov (United States)

Tufaile, Alberto; Sartorelli, José Carlos

2003-08-01

An anti-bubble is a striking kind of bubble in liquid that seemingly does not comply the buoyancy, and after few minutes it disappears suddenly inside the liquid. Different from a simple air bubble that rises directly to the liquid surface, an anti-bubble wanders around in the fluid due to its slightly lesser density than the surrounding liquid. In spite of this odd behavior, an anti-bubble can be understood as the opposite of a conventional soap bubble in air, which is a shell of liquid surrounding air, and an anti-bubble is a shell of air surrounding a drop of the liquid inside the liquid. Two-phase flow has been a subject of interest due to its relevance to process equipment for contacting gases and liquids applied in industry. A chain of bubbles rising in a liquid formed from a nozzle is a two-phase flow, and there are certain conditions in which spherical air shells, called anti-bubbles, are produced. The purpose of this work is mainly to note the existence of anti-bubbling regime as a sequel of a bubbling system. We initially have presented the experimental apparatus. After this we have described the evolution of the bubbling regimes, and emulated the effect of bubbling coalescence with simple maps. Then is shown the inverted dripping as a consequence of the bubble coalescence, and finally the conditions for anti-bubble formation.

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.

Bubble properties of heterogeneous bubbly flow in a square bubble column

NARCIS (Netherlands)

Bai, Wei; Deen, Niels G.; Kuipers, J.A.M.

2010-01-01

The present work focuses on the measurements of bubble properties in heterogeneous bubbly flows in a square bubble column. A four-point optical fibre probe was used for this purpose. The accuracy and intrusive effect of the optical probe was investigated first. The results show that the optical

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

New directions in coral reef microbial ecology.

Science.gov (United States)

Garren, Melissa; Azam, Farooq

2012-04-01

Microbial processes largely control the health and resilience of coral reef ecosystems, and new technologies have led to an exciting wave of discovery regarding the mechanisms by which microbial communities support the functioning of these incredibly diverse and valuable systems. There are three questions at the forefront of discovery: What mechanisms underlie coral reef health and resilience? How do environmental and anthropogenic pressures affect ecosystem function? What is the ecology of microbial diseases of corals? The goal is to understand the functioning of coral reefs as integrated systems from microbes and molecules to regional and ocean-basin scale ecosystems to enable accurate predictions of resilience and responses to perturbations such as climate change and eutrophication. This review outlines recent discoveries regarding the microbial ecology of different microenvironments within coral ecosystems, and highlights research directions that take advantage of new technologies to build a quantitative and mechanistic understanding of how coral health is connected through microbial processes to its surrounding environment. The time is ripe for natural resource managers and microbial ecologists to work together to create an integrated understanding of coral reef functioning. In the context of long-term survival and conservation of reefs, the need for this work is immediate. © 2011 Society for Applied Microbiology and Blackwell Publishing Ltd.

Soil microbial responses to climate warming in Northern Andean alpine ecosystems

Science.gov (United States)

Gallery, R. E.; Lasso, E.

2017-12-01

The historically cooler temperatures and waterlogged soils of tropical alpine grasslands (páramo) have resulted in low decomposition rates and a large buildup of organic matter, making páramo one of the most important carbon sinks in tropical biomes. The climatic factors that favored the carbon accumulation are changing, and as a result páramo could play a disproportionate role in driving climate feedbacks through increased carbon released from these large soil carbon stores. Open top chamber warming experiments were established in the Colombian Andes in 2016 to quantify the magnitude of climate change on carbon balance and identify microbial and plant traits that regulate these impacts. Two focal sites differ in mean annual temperature, precipitation, and plant community richness. Heterotrophic respiration (RH,) was measured from soil cores incubated at temperatures representing current and projected warming. The warming effect on RH was sensitive to soil moisture, which could reflect shifts in microbial community composition and/or extracellular enzyme production or efficiency as soils dry. Bacterial, archaeal, and fungal communities in ambient and warmed plots were measured through high-throughput amplicon sequencing of the 16S rRNA and ITS1 rRNA gene regions. Communities showed strong spatial structuring both within and among páramo, reflecting the topographic heterogeneity of these ecosystems. Significant differences in relative abundance of dominant microbial taxa between páramo could be largely explained by soil bulk density, water holding capacity, and non-vascular plant cover. Phototrophs common to anoxic soils (e.g., Rhodospirillaceae, Hyphomicrobiaceae) were abundant. Taxa within Euryarchaeota were recovered, suggesting methanogenesis potential. Exploration of the magnitude and temperature sensitivity of methane flux is needed in these seasonally anoxic soils whose dynamics could have significant implications for the global climate system.

Computational analysis of ozonation in bubble columns

International Nuclear Information System (INIS)

Quinones-Bolanos, E.; Zhou, H.; Otten, L.

2002-01-01

This paper presents a new computational ozonation model based on the principle of computational fluid dynamics along with the kinetics of ozone decay and microbial inactivation to predict the performance of ozone disinfection in fine bubble columns. The model can be represented using a mixture two-phase flow model to simulate the hydrodynamics of the water flow and using two transport equations to track the concentration profiles of ozone and microorganisms along the height of the column, respectively. The applicability of this model was then demonstrated by comparing the simulated ozone concentrations with experimental measurements obtained from a pilot scale fine bubble column. One distinct advantage of this approach is that it does not require the prerequisite assumptions such as plug flow condition, perfect mixing, tanks-in-series, uniform radial or longitudinal dispersion in predicting the performance of disinfection contactors without carrying out expensive and tedious tracer studies. (author)

A sublimation technique for high-precision measurements of δ13CO2 and mixing ratios of CO2 and N2O from air trapped in ice cores

Directory of Open Access Journals (Sweden)

H. Fischer

2011-07-01

Full Text Available In order to provide high precision stable carbon isotope ratios (δ13CO2 or δ13C of CO2 from small bubbly, partially and fully clathrated ice core samples we developed a new method based on sublimation coupled to gas chromatography-isotope ratio mass spectrometry (GC-IRMS. In a first step the trapped air is quantitatively released from ~30 g of ice and CO2 together with N2O are separated from the bulk air components and stored in a miniature glass tube. In an off-line step, the extracted sample is introduced into a helium carrier flow using a minimised tube cracker device. Prior to measurement, N2O and organic sample contaminants are gas chromatographically separated from CO2. Pulses of a CO2/N2O mixture are admitted to the tube cracker and follow the path of the sample through the system. This allows an identical treatment and comparison of sample and standard peaks. The ability of the method to reproduce δ13C from bubble and clathrate ice is verified on different ice cores. We achieve reproducibilities for bubble ice between 0.05 ‰ and 0.07 ‰ and for clathrate ice between 0.05 ‰ and 0.09 ‰ (dependent on the ice core used. A comparison of our data with measurements on bubble ice from the same ice core but using a mechanical extraction device shows no significant systematic offset. In addition to δ13C, the CO2 and N2O mixing ratios can be volumetrically derived with a precision of 2 ppmv and 8 ppbv, respectively.

Influence of Bubble-Bubble interactions on the macroscale circulation patterns in a bubbling gas-solid fluidized bed

NARCIS (Netherlands)

Laverman, J.A.; van Sint Annaland, M.; Kuipers, J.A.M.

2007-01-01

The macro-scale circulation patterns in the emulsion phase of a gas-solid fluidized bed in the bubbling regime have been studied with a 3D Discrete Bubble Model. It has been shown that bubble-bubble interactions strongly influence the extent of the solids circulation and the bubble size

Irradiation of ice creams for immunosuppressed patients

International Nuclear Information System (INIS)

Adeil Pietranera, Maria S.; Narvaiz, Patricia; Horack, C.; Kairiyama, Eulogia; Gimenez, Palmira; Gronostajski, D.

2003-01-01

Immunosuppressed patients are very likely to acquire microbial food borne diseases, since due to illness, biological condition or situations generating risks, their natural defences are below what is considered as 'normal limits'. This makes their food intake very restricted, avoiding all those products that could be a source of microorganisms. Gamma radiation applied at sub-sterilizing doses represents a good choice in order to achieve 'clean' diets, and at the same time, it can widen the variety of available meals for these patients, allowing the inclusion of some products normally considered as 'high risk' due to their microbial load, but that can be nutritionally or psychologically adequate. One of these products is ice-cream, a minimally processed type of meal that does not suffer enough microbial inactivation during its processing. Particularly those from natural origin can carry undesirable contamination causing sometimes diseases to the consumer. For that reason, different ice-cream flavours (vanilla, raspberry, peach and milk jam) were exposed to an irradiation treatment at the 60 Co facility of the Ezeiza Atomic Centre. The delivered doses were 3, 6 and 9 kGy. Microbiological determinations were performed, together with sensory evaluations and some chemical analysis: acidity, peroxide value, ultraviolet and visible absorption, thin-layer chromatography and sugar determination, in order to find out if gamma radiation could be applied as a decontamination process without impairing quality. Water-based ice-creams (raspberry and peach) were more resistant to gamma radiation than cream-based ones (vanilla and milk jam), due to their differences in fat content. Gamma irradiation with 3 kGy reduced remarkably the microbial load of these ice-creams and eliminated pathogens without impairing their quality. (author)

Long-term effects of irrigation with waste water on soil AM fungi diversity and microbial activities: the implications for agro-ecosystem resilience.

Directory of Open Access Journals (Sweden)

Maria del Mar Alguacil

Full Text Available The effects of irrigation with treated urban wastewater (WW on the arbuscular mycorrhizal fungi (AMF diversity and soil microbial activities were assayed on a long-term basis in a semiarid orange-tree orchard. After 43 years, the soil irrigated with fresh water (FW had higher AMF diversity than soils irrigated with WW. Microbial activities were significantly higher in the soils irrigated with WW than in those irrigated with FW. Therefore, as no negative effects were observed on crop vitality and productivity, it seems that the ecosystem resilience gave rise to the selection of AMF species better able to thrive in soils with higher microbial activity and, thus, to higher soil fertility.

Reconstructing the Genetic Potential of the Microbially-Mediated Nitrogen Cycle in a Salt Marsh Ecosystem.

Science.gov (United States)

Dini-Andreote, Francisco; Brossi, Maria Julia de L; van Elsas, Jan Dirk; Salles, Joana F

2016-01-01

Coastal ecosystems are considered buffer zones for the discharge of land-derived nutrients without accounting for potential negative side effects. Hence, there is an urgent need to better understand the ecological assembly and dynamics of the microorganisms that are involved in nitrogen (N) cycling in such systems. Here, we employed two complementary methodological approaches (i.e., shotgun metagenomics and quantitative PCR) to examine the distribution and abundance of selected microbial genes involved in N transformations. We used soil samples collected along a well-established pristine salt marsh soil chronosequence that spans over a century of ecosystem development at the island of Schiermonnikoog, The Netherlands. Across the examined soil successional stages, the structure of the populations of genes involved in N cycling processes was strongly related to (shifts in the) soil nitrogen levels (i.e., [Formula: see text], [Formula: see text]), salinity and pH (explaining 73.8% of the total variation, R (2) = 0.71). Quantification of the genes used as proxies for N fixation, nitrification and denitrification revealed clear successional signatures that corroborated the taxonomic assignments obtained by metagenomics. Notably, we found strong evidence for niche partitioning, as revealed by the abundance and distribution of marker genes for nitrification (ammonia-oxidizing bacteria and archaea) and denitrification (nitrite reductase nirK, nirS and nitrous oxide reductase nosZ clades I and II). This was supported by a distinct correlation between these genes and soil physico-chemical properties, such as soil physical structure, pH, salinity, organic matter, total N, [Formula: see text], [Formula: see text] and [Formula: see text], across four seasonal samplings. Overall, this study sheds light on the successional trajectories of microbial N cycle genes along a naturally developing salt marsh ecosystem. The data obtained serve as a foundation to guide the formulation of

Assessing Impacts of Unconventional Natural Gas Extraction on Microbial Communities in Headwater Stream Ecosystems in Northwestern Pennsylvania

Directory of Open Access Journals (Sweden)

Ryan eTrexler

2014-11-01

Full Text Available Hydraulic fracturing and horizontal drilling have increased dramatically in Pennsylvania Marcellus shale formations, however the potential for major environmental impacts are still incompletely understood. High-throughput sequencing of the 16S rRNA gene was performed to characterize the microbial community structure of water, sediment, bryophyte, and biofilm samples from 26 headwater stream sites in northwestern Pennsylvania with different histories of fracking activity within Marcellus shale play. Further, we describe the relationship between microbial community structure and environmental parameters measured. Approximately 3.2 million 16S rRNA gene sequences were retrieved from a total of 58 samples. Microbial community analyses showed significant reductions in species richness as well as evenness in sites with Marcellus shale activity (MSA+. Beta diversity analyses revealed distinct microbial community structure between sites with and without Marcellus shale activity (MSA-. For example, OTUs within the Acetobacteracea, Methylocystaceae, Acidobacteriaceae, and Phenylobacterium were greater than three log-fold more abundant in MSA+ sites as compared to MSA- sites. Further, several of these OTUs were strongly negatively correlated with pH and positively correlated with the number of wellpads in a watershed. It should be noted that many of the OTUs enriched in MSA+ sites are putative acidophilic and/or methanotrophic populations. This study revealed apparent shifts in the autochthonous microbial communities and highlighted potential members that could be responding to changing stream conditions as a result of nascent industrial activity in these aquatic ecosystems.

Assessing impacts of unconventional natural gas extraction on microbial communities in headwater stream ecosystems in Northwestern Pennsylvania

Science.gov (United States)

Trexler, Ryan; Solomon, Caroline; Brislawn, Colin J.; Wright, Justin R.; Rosenberger, Abigail; McClure, Erin E.; Grube, Alyssa M.; Peterson, Mark P.; Keddache, Mehdi; Mason, Olivia U.; Hazen, Terry C.; Grant, Christopher J.; Lamendella, Regina

2014-01-01

Hydraulic fracturing and horizontal drilling have increased dramatically in Pennsylvania Marcellus shale formations, however the potential for major environmental impacts are still incompletely understood. High-throughput sequencing of the 16S rRNA gene was performed to characterize the microbial community structure of water, sediment, bryophyte, and biofilm samples from 26 headwater stream sites in northwestern Pennsylvania with different histories of fracking activity within Marcellus shale formations. Further, we describe the relationship between microbial community structure and environmental parameters measured. Approximately 3.2 million 16S rRNA gene sequences were retrieved from a total of 58 samples. Microbial community analyses showed significant reductions in species richness as well as evenness in sites with Marcellus shale activity. Beta diversity analyses revealed distinct microbial community structure between sites with and without Marcellus shale activity. For example, operational taxonomic units (OTUs) within the Acetobacteracea, Methylocystaceae, Acidobacteriaceae, and Phenylobacterium were greater than three log-fold more abundant in MSA+ sites as compared to MSA− sites. Further, several of these OTUs were strongly negatively correlated with pH and positively correlated with the number of wellpads in a watershed. It should be noted that many of the OTUs enriched in MSA+ sites are putative acidophilic and/or methanotrophic populations. This study revealed apparent shifts in the autochthonous microbial communities and highlighted potential members that could be responding to changing stream conditions as a result of nascent industrial activity in these aquatic ecosystems. PMID:25408683

The influence of firn air transport processes and radiocarbon production on gas records from polar firn and ice

DEFF Research Database (Denmark)

Buizert, Christo

Air bubbles found in polar ice cores preserve a record of past atmospheric composition up to 800 kyr back in time. The composition of the bubbles is not identical to the ancient atmosphere, as it is influenced by processes prior to trapping, within the ice sheet itself, and during sampling...... does not vanish completely in the lock-in zone, as is commonly assumed. Six state-of-the-art firn air transport models are tuned to the NEEM site; all models successfully reproduce the data within a 1 Gaussian distribution. We present the first intercomparison study of firn air models, where we...

Science Bubbles

DEFF Research Database (Denmark)

Hendricks, Vincent Fella; Pedersen, David Budtz

2013-01-01

Much like the trade and trait sof bubbles in financial markets,similar bubbles appear on the science market. When economic bubbles burst, the drop in prices causes the crash of unsustainable investments leading to an investor confidence crisis possibly followed by a financial panic. But when...... bubbles appear in science, truth and reliability are the first victims. This paper explores how fashions in research funding and research management may turn science into something like a bubble economy....

Effect of vacuum-packaging and low dose gamma irradiation on the microbial, bio-chemical quality and shelf life of peeled shrimp (Litopenaeus vannamei) during ice storage

International Nuclear Information System (INIS)

Bojayanaik, Manjanaik; Naroth, Kavya; Prasad, Surjith; Shetty, Veena; Hiriyur, Somashekarappa; Patil, Rajashekar

2015-01-01

The present investigation was carried out to see the combined effect of vacuum packaging and low dose gamma irradiation (3kGy) on the shelf life of peeled and undeveined shrimp (Litopeanus vannamie) during ice storage. The fresh farm raised shrimps were peeled and un deveined, packed in high density polyethylene bags (aerobic and vacuum packaging) and were divided into four groups viz. control (C), Irradiated (I), Vacuum packed (V) and vacuum-packed with irradiation (VI). The two groups (I and VI) were irradiated at 3 kGy (Dose rate at the rate 6.043 kGy/hr) and aseptically stored in ice in an insulated polystyrene box. All the samples were periodically analysed for microbial (Total bacterial load, total Coliform, Faecal Coliforms, Staphylococcus, Salmonella, Vibrios and E. coli) and bio chemical (TVB-N, TMA, TBARS and pH) quality. The results revealed that the combination of low dose gamma irradiation and vacuum packaging had a significant effect on microbial load (p>0.05). The TVB-N, TMA-N, TBARS and pH were significantly lower in vacuum packed with irradiation when compare to non-irradiated and aerobically packed shrimp (p> 0.05), and shelf life of peeled shrimp extended up to 21 days in ice storage. (author)

Microbial ecology of terrestrial Antarctica: Are microbial systems at risk from human activities?

Energy Technology Data Exchange (ETDEWEB)

White, G.J.

1996-08-01

Many of the ecological systems found in continental Antarctica are comprised entirely of microbial species. Concerns have arisen that these microbial systems might be at risk either directly through the actions of humans or indirectly through increased competition from introduced species. Although protection of native biota is covered by the Protocol on Environmental Protection to the Antarctic Treaty, strict measures for preventing the introduction on non-native species or for protecting microbial habitats may be impractical. This report summarizes the research conducted to date on microbial ecosystems in continental Antarctica and discusses the need for protecting these ecosystems. The focus is on communities inhabiting soil and rock surfaces in non-coastal areas of continental Antarctica. Although current polices regarding waste management and other operations in Antarctic research stations serve to reduce the introduction on non- native microbial species, importation cannot be eliminated entirely. Increased awareness of microbial habitats by field personnel and protection of certain unique habitats from physical destruction by humans may be necessary. At present, small-scale impacts from human activities are occurring in certain areas both in terms of introduced species and destruction of habitat. On a large scale, however, it is questionable whether the introduction of non-native microbial species to terrestrial Antarctica merits concern.

Characteristics of bubble plumes, bubble-plume bubbles and waves from wind-steepened wave breaking

NARCIS (Netherlands)

Leifer, I.; Caulliez, G.; Leeuw, G. de

2007-01-01

Observations of breaking waves, associated bubble plumes and bubble-plume size distributions were used to explore the coupled evolution of wave-breaking, wave properties and bubble-plume characteristics. Experiments were made in a large, freshwater, wind-wave channel with mechanical wind-steepened

Continuous methane measurements from a late Holocene Greenland ice core

DEFF Research Database (Denmark)

Rhodes, R.H.; Mitchell, L.E.; Brook, E.J.

2013-01-01

Ancient air trapped inside bubbles in ice cores can now be analysed for methane concentration utilising a laser spectrometer coupled to a continuous melter system. We present a new ultra-high resolution record of atmospheric methane variability over the last 1800yr obtained from continuous analysis...... of a shallow ice core from the North Greenland Eemian project (NEEM-2011-S1) during a 4-week laboratory-based measurement campaign. Our record faithfully replicates the form and amplitudes of multi-decadal oscillations previously observed in other ice cores and demonstrates the detailed depth resolution (5.3cm......), rapid acquisition time (30mday) and good long-term reproducibility (2.6%, 2s) of the continuous measurement technique.In addition, we report the detection of high frequency ice core methane signals of non-atmospheric origin. Firstly, measurements of air from the firn-ice transition region...

Microbial bioenergetics of coral-algal interactions

Directory of Open Access Journals (Sweden)

Ty N.F. Roach

2017-06-01

Full Text Available Human impacts are causing ecosystem phase shifts from coral- to algal-dominated reef systems on a global scale. As these ecosystems undergo transition, there is an increased incidence of coral-macroalgal interactions. Mounting evidence indicates that the outcome of these interaction events is, in part, governed by microbially mediated dynamics. The allocation of available energy through different trophic levels, including the microbial food web, determines the outcome of these interactions and ultimately shapes the benthic community structure. However, little is known about the underlying thermodynamic mechanisms involved in these trophic energy transfers. This study utilizes a novel combination of methods including calorimetry, flow cytometry, and optical oxygen measurements, to provide a bioenergetic analysis of coral-macroalgal interactions in a controlled aquarium setting. We demonstrate that the energetic demands of microbial communities at the coral-algal interaction interface are higher than in the communities associated with either of the macroorganisms alone. This was evident through higher microbial power output (energy use per unit time and lower oxygen concentrations at interaction zones compared to areas distal from the interface. Increases in microbial power output and lower oxygen concentrations were significantly correlated with the ratio of heterotrophic to autotrophic microbes but not the total microbial abundance. These results suggest that coral-algal interfaces harbor higher proportions of heterotrophic microbes that are optimizing maximal power output, as opposed to yield. This yield to power shift offers a possible thermodynamic mechanism underlying the transition from coral- to algal-dominated reef ecosystems currently being observed worldwide. As changes in the power output of an ecosystem are a significant indicator of the current state of the system, this analysis provides a novel and insightful means to quantify

The relationship between sea ice bacterial community structure and biogeochemistry: A synthesis of current knowledge and known unknowns

Directory of Open Access Journals (Sweden)

Jeff S. Bowman

2015-10-01

Full Text Available Abstract Sea ice plays an important role in high latitude biogeochemical cycles, ecosystems, and climate. A complete understanding of how sea ice biogeochemistry contributes to these processes must take into account the metabolic functions of the sea ice bacterial community. While the roles of sea ice bacteria in the carbon cycle and sea ice microbial loop are evidenced by high rates of bacterial production (BP, their metabolic diversity extends far beyond heterotrophy, and their functionality encompasses much more than carbon turnover. Work over the last three decades has identified an active role for sea ice bacteria in phosphate and nitrogen cycling, mutualistic partnerships with ice algae, and even prokaryotic carbon fixation. To better understand the role of sea ice bacteria in the carbon cycle the existing sea ice BP and primary production data were synthesized. BP in sea ice was poorly correlated with primary production, but had a strong, variable relationship with chlorophyll a, with a positive correlation below 50 mg chlorophyll a m-3 and a negative correlation above this value. These results concur with previous work suggesting that BP can be inhibited by grazing or the production of bacteriostatic compounds. To extend existing observations and predictions of other community functions a metabolic inference technique was used on the available 16S rRNA gene data. This analysis provided taxonomic support for some observed metabolic processes, as well as underexplored processes such as sulfur oxidation and nitrogen fixation. The decreasing spatial and temporal extent of sea ice, and altered timing of ice formation and melt, are likely to impact the structure and function of sea ice bacterial communities. An adequate modeling framework and studies that can resolve the functional dynamics of the sea ice bacterial community, such as community gene expression studies, are urgently needed to predict future change.

Microbial ecology of deep-water mid-Atlantic canyons

Science.gov (United States)

Kellogg, Christina A.

2011-01-01

The research described in this fact sheet will be conducted from 2012 to 2014 as part of the U.S. Geological Survey's DISCOVRE (DIversity, Systematics, and COnnectivity of Vulnerable Reef Ecosystems) Program. This integrated, multidisciplinary effort will be investigating a variety of topics related to unique and fragile deep-sea ecosystems from the microscopic level to the ecosystem level. One goal is to improve understanding, at the microbiological scale, of the benthic communities (including corals) that reside in and around mid-Atlantic canyon habitats and their associated environments. Specific objectives include identifying and characterizing the microbial associates of deep-sea corals, characterizing the microbial biofilms on hard substrates to better determine their role in engineering the ecosystem, and adding a microbial dimension to benthic community structure and function assessments by characterizing micro-eukaryotes, bacteria, and archaea in deep-sea sediments.

Bubble Size Distribution in a Vibrating Bubble Column

Science.gov (United States)

Mohagheghian, Shahrouz; Wilson, Trevor; Valenzuela, Bret; Hinds, Tyler; Moseni, Kevin; Elbing, Brian

2016-11-01

While vibrating bubble columns have increased the mass transfer between phases, a universal scaling law remains elusive. Attempts to predict mass transfer rates in large industrial scale applications by extrapolating laboratory scale models have failed. In a stationary bubble column, mass transfer is a function of phase interfacial area (PIA), while PIA is determined based on the bubble size distribution (BSD). On the other hand, BSD is influenced by the injection characteristics and liquid phase dynamics and properties. Vibration modifies the BSD by impacting the gas and gas-liquid dynamics. This work uses a vibrating cylindrical bubble column to investigate the effect of gas injection and vibration characteristics on the BSD. The bubble column has a 10 cm diameter and was filled with water to a depth of 90 cm above the tip of the orifice tube injector. BSD was measured using high-speed imaging to determine the projected area of individual bubbles, which the nominal bubble diameter was then calculated assuming spherical bubbles. The BSD dependence on the distance from the injector, injector design (1.6 and 0.8 mm ID), air flow rates (0.5 to 5 lit/min), and vibration conditions (stationary and vibration conditions varying amplitude and frequency) will be presented. In addition to mean data, higher order statistics will also be provided.

Effects of Elevated Carbon Dioxide and Salinity on the Microbial Diversity in Lithifying Microbial Mats

Directory of Open Access Journals (Sweden)

Steven R. Ahrendt

2014-03-01

Full Text Available Atmospheric levels of carbon dioxide (CO2 are rising at an accelerated rate resulting in changes in the pH and carbonate chemistry of the world’s oceans. However, there is uncertainty regarding the impact these changing environmental conditions have on carbonate-depositing microbial communities. Here, we examine the effects of elevated CO2, three times that of current atmospheric levels, on the microbial diversity associated with lithifying microbial mats. Lithifying microbial mats are complex ecosystems that facilitate the trapping and binding of sediments, and/or the precipitation of calcium carbonate into organosedimentary structures known as microbialites. To examine the impact of rising CO2 and resulting shifts in pH on lithifying microbial mats, we constructed growth chambers that could continually manipulate and monitor the mat environment. The microbial diversity of the various treatments was compared using 16S rRNA gene pyrosequencing. The results indicated that elevated CO2 levels during the six month exposure did not profoundly alter the microbial diversity, community structure, or carbonate precipitation in the microbial mats; however some key taxa, such as the sulfate-reducing bacteria Deltasulfobacterales, were enriched. These results suggest that some carbonate depositing ecosystems, such as the microbialites, may be more resilient to anthropogenic-induced environmental change than previously thought.

The effect of sea ice on the solar energy budget in the astmosphere-sea ice-ocean system: A model study

Science.gov (United States)

Jin, Z.; Stamnes, Knut; Weeks, W. F.; Tsay, Si-Chee

1994-01-01

A coupled one-dimensional multilayer and multistream radiative transfer model has been developed and applied to the study of radiative interactions in the atmosphere, sea ice, and ocean system. The consistent solution of the radiative transfer equation in this coupled system automatically takes into account the refraction and reflection at the air-ice interface and allows flexibility in choice of stream numbers. The solar radiation spectrum (0.25 micron-4.0 micron) is divided into 24 spectral bands to account adequately for gaseous absorption in the atmosphere. The effects of ice property changes, including salinity and density variations, as well as of melt ponds and snow cover variations over the ice on the solar energy distribution in the entire system have been studied quantitatively. The results show that for bare ice it is the scattering, determined by air bubbles and brine pockets, in just a few centimeters of the top layer of ice that plays the most important role in the solar energy absorption and partitioning in the entire system. Ice thickness is important to the energy distribution only when the ice is thin, while the absorption in the atmosphere is not sensitive to ice thickness exceeds about 70 cm. The presence of clouds moderates all the sensitivities of the absorptive amounts in each layer to the variations in the ice properties and ice thickness. Comparisons with observational spectral albedo values for two simple ice types are also presented.

A model established of a 'Embryo' bubble growing-up some visible bubble in bubble chamber and its primary theory calculation

International Nuclear Information System (INIS)

Ye Zipiao; Sheng Xiangdong

2006-01-01

A model of a 'embryo' bubble growing up a visible bubble in the bubble chamber is established. Through primary theory calculation it is shown that the 'embryo' bubble is not only absorbing quantity of heat, but also some molecules get into the 'embryo' bubble from its environment. It is explained reasonably that the radius of bubbles in bubble camber is different for the same energies of neutrons and proton. The track of neutron in bubble camber is long and thin, and the track of proton in bubble camber is wide and short. It is explained reasonably that the bubble radius of the incident particles with more charges which there are the same energies will be wider than that of the incident particles with less charges in the track. It is also explained reasonably that there are a little different radius of the bubbles of a track at the some region. It can be predicted theoretically that there should be big bubbles to burst when incident particles enter the bubble chamber at first. The sensitivity and the detective efficiency of bubble camber can be enhanced by choosing appropriate work matter. (authors)

Preliminary biogeochemical assessment of EPICA LGM and Holocene ice samples

Science.gov (United States)

Bulat, S.; Alekhina, I.; Marie, D.; Wagenbach, D.; Raynaud, D.; Petit, J. R.

2009-04-01

We are investigating the biological content (biomass and microbial diversity of Aeolian origin) of EPICA ice core within the frame of EPICA Microbiology consortium*. Two ice core sections were selected from EPICA Dome C and Droning Maud Land, both from LGM and Holocene. Preliminary measurements of DOC (dissolved organic content) and microbial cell concentrations have been performed. Both analyses showed the very low biomass and ultra low DOC content. Trace DNA analyses are in a progress. The ice sections were decontaminated in LGGE cold and clean room facilities benefiting the protocol developed for Vostok ice core studies. The melt water was then shared between two party laboratories for a complementary approach in studying microbial content. Prior to biology the melt water was tested for chemical contaminant ions and organic acids, DOC and dust contents. The biological methods included all the spectra of appropriate molecular techniques (gDNA extraction, PCR, clone libraries and sequencing). As preliminary results, both LGM (well identified by dust fallout) and Holocene ice samples (EDC99 and EDML) proved to be extremely clear (i.e. pristine) in terms of biomass (less then 4 cells per ml) and DOC contents (less then 5 ppbC). There was no obvious difference between LGM and Holocene in cell counts, while LGM showed a bit high organic carbon content. The latter in terms of biology means ultra-oligotrophic conditions (i.e., no possibility for heterotrophic life style). In fact no metabolizing microbial cells or propagating populations are expected at these depths at temperature -38oC and lower (limiting life temperature threshold is -20°C). Nevertheless some life seeds brought in Antarctica with precipitation could be well preserved because the age is rather young (21 kyr and less). Trying to identify these aliens and document their distribution during last climate cycle the meltwater was concentrated about 1000 times down. The genomic DNA was extracted and very

Under the sea ice: Exploring the relationship between sea ice and the foraging behaviour of southern elephant seals in East Antarctica

Science.gov (United States)

Labrousse, Sara; Sallée, Jean-Baptiste; Fraser, Alexander D.; Massom, Robert A.; Reid, Phillip; Sumner, Michael; Guinet, Christophe; Harcourt, Robert; McMahon, Clive; Bailleul, Frédéric; Hindell, Mark A.; Charrassin, Jean-Benoit

2017-08-01

Investigating ecological relationships between predators and their environment is essential to understand the response of marine ecosystems to climate variability and change. This is particularly true in polar regions, where sea ice (a sensitive climate variable) plays a crucial yet highly dynamic and variable role in how it influences the whole marine ecosystem, from phytoplankton to top predators. For mesopredators such as seals, sea ice both supports a rich (under-ice) food resource, access to which depends on local to regional coverage and conditions. Here, we investigate sex-specific relationships between the foraging strategies of southern elephant seals (Mirounga leonina) in winter and spatio-temporal variability in sea ice concentration (SIC) and coverage in East Antarctica. We satellite-tracked 46 individuals undertaking post-moult trips in winter from Kerguelen Islands to the peri-Antarctic shelf between 2004 and 2014. These data indicate distinct general patterns of sea ice usage: while females tended to follow the sea ice edge as it extended northward, the males remained on the continental shelf despite increasing sea ice. Seal hunting time, a proxy of foraging activity inferred from the diving behaviour, was longer for females in late autumn in the outer part of the pack ice, ∼150-370 km south of the ice edge. Within persistent regions of compact sea ice, females had a longer foraging activity (i) in the highest sea ice concentration at their position, but (ii) their foraging activity was longer when there were more patches of low concentration sea ice around their position (either in time or in space; 30 days & 50 km). The high spatio-temporal variability of sea ice around female positions is probably a key factor allowing them to exploit these concentrated patches. Despite lack of information on prey availability, females may exploit mesopelagic finfishes and squids that concentrate near the ice-water interface or within the water column (from

Frost flowers on young Arctic sea ice: The climatic, chemical, and microbial significance of an emerging ice type

Science.gov (United States)

Barber, D. G.; Ehn, J. K.; Pućko, M.; Rysgaard, S.; Deming, J. W.; Bowman, J. S.; Papakyriakou, T.; Galley, R. J.; Søgaard, D. H.

2014-10-01

Ongoing changes in Arctic sea ice are increasing the spatial and temporal range of young sea ice types over which frost flowers can occur, yet the significance of frost flowers to ocean-sea ice-atmosphere exchange processes remains poorly understood. Frost flowers form when moisture from seawater becomes available to a cold atmosphere and surface winds are low, allowing for supersaturation of the near-surface boundary layer. Ice grown in a pond cut in young ice at the mouth of Young Sound, NE Greenland, in March 2012, showed that expanding frost flower clusters began forming as soon as the ice formed. The new ice and frost flowers dramatically changed the radiative and thermal environment. The frost flowers were about 5°C colder than the brine surface, with an approximately linear temperature gradient from their base to their upper tips. Salinity and δ18O values indicated that frost flowers primarily originated from the surface brine skim. Ikaite crystals were observed to form within an hour in both frost flowers and the thin pond ice. Average ikaite concentrations were 1013 µmol kg-1 in frost flowers and 1061 µmol kg-1 in the surface slush layer. Chamber flux measurements confirmed an efflux of CO2 at the brine-wetted sea ice surface, in line with expectations from the brine chemistry. Bacteria concentrations generally increased with salinity in frost flowers and the surface slush layer. Bacterial densities and taxa indicated that a selective process occurred at the ice surface and confirmed the general pattern of primary oceanic origin versus negligible atmospheric deposition.

Stream microbial diversity responds to environmental changes: Review and synthesis of existing research

Directory of Open Access Journals (Sweden)

Lydia eZeglin

2015-05-01

Full Text Available The importance of microbial activity to ecosystem function in aquatic ecosystems is well established, but microbial diversity has been less frequently addressed. This review and synthesis of the hundreds of published studies on stream microbial diversity shows that factors known to drive ecosystem processes, such as nutrient availability, hydrology, metal contamination, contrasting land-use and temperature, also cause heterogeneity in bacterial diversity. Temporal heterogeneity in stream bacterial diversity was frequently observed, reflecting the dynamic nature of both stream ecosystems and microbial community composition. However, within-stream spatial differences in stream bacterial diversity were more commonly observed, driven specifically by different organic matter compartments. Bacterial phyla showed similar patterns in relative abundance with regard to compartment type across different streams. For example, surface water contained the highest relative abundance of Actinobacteria, while epilithon contained the highest relative abundance of Cyanobacteria and Bacteroidetes. This suggests that contrasting physical and/or nutritional habitats characterized by different stream organic matter compartment types may select for certain bacterial lineages. When comparing the prevalence of physicochemical effects on stream bacterial diversity, effects of changing metal concentrations were most, while effects of differences in nutrient concentrations were least frequently observed. This may indicate that although changing nutrient concentrations do tend to affect microbial diversity, other environmental factors are more likely to alter stream microbial diversity and function. The common observation of connections between ecosystem process drivers and microbial diversity suggests that microbial taxonomic turnover could mediate ecosystem-scale responses to changing environmental conditions, including both microbial habitat distribution and

The Behavior of Micro Bubbles and Bubble Cluster in Ultrasound Field

Science.gov (United States)

Yoshizawa, Shin; Matsumoto, Yoichiro

2001-11-01

Ultrasound is widely applied in the clinical field today, such as ultrasound imaging, Extracorporeal Shock Wave Lithotripsy (ESWL) and so on. It is essential to take a real understanding of the dynamics of micro bubbles and bubble cluster in these applications. Thus we numerically simulate them in ultrasound field in this paper. In the numerical simulation, we consider the thermal behavior inside the bubble and the pressure wave phenomena in the bubble cluster in detail, namely, the evaporation and condensation of liquid at the bubble wall, heat transfer through the bubble wall, diffusion of non-condensable gas inside the bubble and the compressibility of liquid. Initial cluster radius is to 0.5[mm], bubble radius is 1.7[mm], void fraction is 0.1[ambient pressure is 101.3[kPa], temperature is 293[K] and the amplitude of ultrasound is 50[kPa]. We simulate bubble cluster in ultrasound field at various frequencies and we obtain the following conclusions. 1) The maximum pressure inside bubble cluster reaches 5[MPa] and this is much higher than that of a bubble. 2) Bubble cluster behaves like a rigid body acoustically when the frequency of ultrasound is much higher than its natural frequency.

Seasonal microbial and nutrient responses during a 5-year reduction in the daily temperature range of soil in a Chihuahuan Desert ecosystem.

Science.gov (United States)

van Gestel, Natasja C; Dhungana, Nirmala; Tissue, David T; Zak, John C

2016-01-01

High daily temperature range of soil (DTRsoil) negatively affects soil microbial biomass and activity, but its interaction with seasonal soil moisture in regulating ecosystem function remains unclear. For our 5-year field study in the Chihuahuan Desert, we suspended shade cloth 15 cm above the soil surface to reduce daytime temperature and increase nighttime soil temperature compared to unshaded plots, thereby reducing DTRsoil (by 5 ºC at 0.2 cm depth) without altering mean temperatures. Microbial biomass production was primarily regulated by seasonal precipitation with the magnitude of the response dependent on DTRsoil. Reduced DTRsoil more consistently increased microbial biomass nitrogen (MBN; +38%) than microbial biomass carbon (MBC) with treatment responses being similar in spring and summer. Soil respiration depended primarily on soil moisture with responses to reduced DTRsoil evident only in wetter summer soils (+53%) and not in dry spring soils. Reduced DTRsoil had no effect on concentrations of dissolved organic C, soil organic matter (SOM), nor soil inorganic N (extractable NO3 (-)-N + NH4 (+)-N). Higher MBN without changes in soil inorganic N suggests faster N cycling rates or alternate sources of N. If N cycling rates increased without a change to external N inputs (atmospheric N deposition or N fixation), then productivity in this desert system, which is N-poor and low in SOM, could be negatively impacted with continued decreases in daily temperature range. Thus, the future N balance in arid ecosystems, under conditions of lower DTR, seems linked to future precipitation regimes through N deposition and regulation of soil heat load dynamics.

Fama on Bubbles

DEFF Research Database (Denmark)

Engsted, Tom

2016-01-01

While Eugene Fama has repeatedly expressed his discontent with the notion of an “irrational bubble,” he has never publicly expressed his opinion on “rational bubbles.” On empirical grounds Fama rejects bubbles by referring to the lack of reliable evidence that price declines are predictable....... However, this argument cannot be used to rule out rational bubbles because such bubbles do not necessarily imply return predictability, and return predictability of the kind documented by Fama does not rule out rational bubbles. On data samples that include the 1990s, there is evidence of an explosive...... component in stock market valuation ratios, consistent with a rational bubble....

A multitrophic model to quantify the effects of marine viruses on microbial food webs and ecosystem processes

DEFF Research Database (Denmark)

Weitz, Joshua S.; Stock, Charles A.; Wilhelm, Steven W.

2015-01-01

Viral lysis of microbial hosts releases organic matter that can then be assimilated by nontargeted microorganisms. Quantitative estimates of virus-mediated recycling of carbon in marine waters, first established in the late 1990s, were originally extrapolated from marine host and virus densities......, host carbon content and inferred viral lysis rates. Yet, these estimates did not explicitly incorporate the cascade of complex feedbacks associated with virus-mediated lysis. To evaluate the role of viruses in shaping community structure and ecosystem functioning, we extend dynamic multitrophic...

Life in Ice: Implications to Astrobiology

Science.gov (United States)

Hoover, Richard B.

2009-01-01

During the 2008 Tawani International Expedition Schirmacher Oasis/Lake Untersee Antarctica Expedition, living and instantly motile bacteria were found in freshly thawed meltwater from ice of the Schirmacher Oasis Lakes, the Anuchin Glacier ice and samples of the that perennial ice sheet above Lake Untersee. This phenomenon of living bacteria encased in ice had previously been observed in the 32,000 year old ice of the Fox Tunnel. The bacteria found in this ice included the strain FTR1T which was isolated and published as valid new species (Carnobacterium pleistocenium) the first validly published living Pleistocene organism still alive today. Living bacteria were also extracted from ancient ice cores from Vostok, Antarctica. The discovery that many strains of bacteria are able to survive and remain alive while frozen in ice sheets for long periods of time may have direct relevance to Astrobiology. The abundance of viable bacteria in the ice sheets of Antarctica suggests that the presence of live bacteria in ice is common, rather than an isolated phenomenon. This paper will discuss the results of recent studies at NSSTC of bacteria cryopreserved in ice. This paper advances the hypothesis that cryopreserved cells, and perhaps even viable bacterial cells, may exist today--frozen in the water-ice of lunar craters, the Polar Caps or craters of Mars; or in the permafrost of Mars; ice and rocks of comets or water bearing asteroids; or in the frozen crusts of the icy moons of Jupiter and Saturn. The existence of bacterial life in ice suggests that it may not be necessary to drill through a thick ice crust to reach liquid water seas deep beneath the icy crusts of Europa, Ganymede and Enceladus. The presence of viable bacteria in the ice of the Earth s Polar Caps suggests that the possibility that cryo-panspermia (i.e., the trans-planetary transfer of microbial life by impact ejection/spallation of bacteria-rich polar ice masses) deserves serious consideration and study as a

Novel insights into microbial community dynamics during the fermentation of Central European ice wine.

Science.gov (United States)

Bučková, Mária; Puškárová, Andrea; Ženišová, Katarína; Kraková, Lucia; Piknová, Ľubica; Kuchta, Tomáš; Pangallo, Domenico

2018-02-02

Culture-dependent and culture-independent strategies were applied to investigate the microbiota of autumn undamaged and damaged berries, winter berries and ice wine must samples of Grüner Veltliner (Veltlínske zelené) from Small Carpathian wine-producing region. One hundred twenty-six yeasts and 242 bacterial strains isolated from several microbiological media (YPD, PDA, R2A, GYC, MRS and MRS-T) were clustered by ITS-PCR and subsequent Qiaxcel electrophoresis. Representatives of each cluster were identified by sequencing. The extracellular hydrolytic properties and intracellular activities of esterase and β-glucosidase of isolates were assayed. The culture-independent approach permitted the analysis of extracted DNA and RNA coupling DGGE fingerprinting with construction of clone libraries (bacterial and fungal; DGGE-cloning). The combination of the two approaches provided comprehensive data that evidenced the presence of a complex microbiota in each analyzed sample. RNA and DNA analyses facilitated differentiation of living microorganisms from the entire microbiota. Diverse microbial communities colonized the autumn and winter berries. Generally, the combination of results obtained by the methods suggested that the must samples contained mainly Saccharomyces cerevisiae, Metschnikowia spp., Hanseniaspora uvarum, Lactococcus lactis and Leuconostoc spp. The strains exhibited interesting esterase and β-glucosidase properties, which are important for aroma formation in wine. Fermentation strategies utilising these microorganisms, could be attempted in the future in order to modulate the ice wine characteristics. Copyright © 2017 Elsevier B.V. All rights reserved.

The isotopic composition of methane in polar ice cores

Science.gov (United States)

Craig, H.; Chou, C. C.; Welhan, J. A.; Stevens, C. M.; Engelkemeir, A.

1988-01-01

Air bubbles in polar ice cores indicate that about 300 years ago the atmospheric mixing ratio of methane began to increase rapidly. Today the mixing ratio is about 1.7 parts per million by volume, and, having doubled once in the past several hundred years, it will double again in the next 60 years if current rates continue. Carbon isotope ratios in methane up to 350 years in age have been measured with as little as 25 kilograms of polar ice recovered in 4-meter-long ice-core segments. The data show that: (1) in situ microbiology or chemistry has not altered the ice-core methane concentrations, and (2) that the carbon-13 to carbon-12 ratio of atmospheric CH4 in ice from 100 years and 300 years ago was about 2 per mil lower than at present. Atmospheric methane has a rich spectrum of isotopic sources: the ice-core data indicate that anthropogenic burning of the earth's biomass is the principal cause of the recent C-13H4 enrichment, although other factors may also contribute.

Sea ice biogeochemistry: a guide for modellers.

Directory of Open Access Journals (Sweden)

Letizia Tedesco

Full Text Available Sea ice is a fundamental component of the climate system and plays a key role in polar trophic food webs. Nonetheless sea ice biogeochemical dynamics at large temporal and spatial scales are still rarely described. Numerical models may potentially contribute integrating among sparse observations, but available models of sea ice biogeochemistry are still scarce, whether their relevance for properly describing the current and future state of the polar oceans has been recently addressed. A general methodology to develop a sea ice biogeochemical model is presented, deriving it from an existing validated model application by extension of generic pelagic biogeochemistry model parameterizations. The described methodology is flexible and considers different levels of ecosystem complexity and vertical representation, while adopting a strategy of coupling that ensures mass conservation. We show how to apply this methodology step by step by building an intermediate complexity model from a published realistic application and applying it to analyze theoretically a typical season of first-year sea ice in the Arctic, the one currently needing the most urgent understanding. The aim is to (1 introduce sea ice biogeochemistry and address its relevance to ocean modelers of polar regions, supporting them in adding a new sea ice component to their modelling framework for a more adequate representation of the sea ice-covered ocean ecosystem as a whole, and (2 extend our knowledge on the relevant controlling factors of sea ice algal production, showing that beyond the light and nutrient availability, the duration of the sea ice season may play a key-role shaping the algal production during the on going and upcoming projected changes.

Interaction of a bubble and a bubble cluster in an ultrasonic field

International Nuclear Information System (INIS)

Wang Cheng-Hui; Cheng Jian-Chun

2013-01-01

Using an appropriate approximation, we have formulated the interacting equation of multi-bubble motion for a system of a single bubble and a spherical bubble cluster. The behavior of the bubbles is observed in coupled and uncoupled states. The oscillation of bubbles inside the cluster is in a coupled state. The numerical simulation demonstrates that the secondary Bjerknes force can be influenced by the number density, initial radius, distance, driving frequency, and amplitude of ultrasound. However, if a bubble approaches a bubble cluster of the same initial radii, coupled oscillation would be induced and a repulsive force is evoked, which may be the reason why the bubble cluster can exist steadily. With the increment of the number density of the bubble cluster, a secondary Bjerknes force acting on the bubbles inside the cluster decreases due to the strong suppression of the coupled bubbles. It is shown that there may be an optimal number density for a bubble cluster which can generate an optimal cavitation effect in liquid for a stable driving ultrasound. (electromagnetism, optics, acoustics, heat transfer, classical mechanics, and fluid dynamics)

Biogeography of serpentinite-hosted microbial ecosystems

Science.gov (United States)

Brazelton, W.; Cardace, D.; Fruh-Green, G.; Lang, S. Q.; Lilley, M. D.; Morrill, P. L.; Szponar, N.; Twing, K. I.; Schrenk, M. O.

2012-12-01

Ultramafic rocks in the Earth's mantle represent a tremendous reservoir of carbon and reducing power. Upon tectonic uplift and exposure to fluid flow, serpentinization of these materials generates copious energy, sustains abiogenic synthesis of organic molecules, and releases hydrogen gas (H2). To date, however, the "serpentinite microbiome" is poorly constrained- almost nothing is known about the microbial diversity endemic to rocks actively undergoing serpentinization. Through the Census of Deep Life, we have obtained 16S rRNA gene pyrotag sequences from fluids and rocks from serpentinizing ophiolites in California, Canada, and Italy. The samples include high pH serpentinite springs, presumably representative of deeper environments within the ophiolite complex, wells which directly access subsurface aquifers, and rocks obtained from drill cores into serpentinites. These data represent a unique opportunity to examine biogeographic patterns among a restricted set of microbial taxa that are adapted to similar environmental conditions and are inhabiting sites with related geological histories. In general, our results point to potentially H2-utilizing Betaproteobacteria thriving in shallow, oxic-anoxic transition zones and anaerobic Clostridia thriving in anoxic, deep subsurface habitats. These general taxonomic and biogeochemical trends were also observed in seafloor Lost City hydrothermal chimneys, indicating that we are beginning to identify a core serpentinite microbial community that spans marine and continental settings.

Decadal ecosystem response to an anomalous melt season in a polar desert in Antarctica.

Science.gov (United States)

Gooseff, Michael N; Barrett, John E; Adams, Byron J; Doran, Peter T; Fountain, Andrew G; Lyons, W Berry; McKnight, Diane M; Priscu, John C; Sokol, Eric R; Takacs-Vesbach, Cristina; Vandegehuchte, Martijn L; Virginia, Ross A; Wall, Diana H

2017-09-01

Amplified climate change in polar regions is significantly altering regional ecosystems, yet there are few long-term records documenting these responses. The McMurdo Dry Valleys (MDV) cold desert ecosystem is the largest ice-free area of Antarctica, comprising soils, glaciers, meltwater streams and permanently ice-covered lakes. Multi-decadal records indicate that the MDV exhibited a distinct ecosystem response to an uncharacteristic austral summer and ensuing climatic shift. A decadal summer cooling phase ended in 2002 with intense glacial melt ('flood year')-a step-change in water availability triggering distinct changes in the ecosystem. Before 2002, the ecosystem exhibited synchronous behaviour: declining stream flow, decreasing lake levels, thickening lake ice cover, decreasing primary production in lakes and streams, and diminishing soil secondary production. Since 2002, summer air temperatures and solar flux have been relatively consistent, leading to lake level rise, lake ice thinning and elevated stream flow. Biological responses varied; one stream cyanobacterial mat type immediately increased production, but another stream mat type, soil invertebrates and lake primary productivity responded asynchronously a few years after 2002. This ecosystem response to a climatic anomaly demonstrates differential biological community responses to substantial perturbations, and the mediation of biological responses to climate change by changes in physical ecosystem properties.

Comparison of the Microbial Diversity and Abundance Between the Freshwater Land-Locked Lakes of Schirmacher Oasis and the Perennially Ice-Covered Lake Untersee in East Antarctica

Science.gov (United States)

Huang, Jonathan; Hoover, Richard B.; Swain, Ashit; Murdock, Chris; Bej, Asim K.

2010-01-01

Extreme conditions such as low temperature, dryness, and constant UV-radiation in terrestrial Antarctica are limiting factors of the survival of microbial populations. The objective of this study was to investigate the microbial diversity and enumeration between the open water lakes of Schirmacher Oasis and the permanently ice-covered Lake Untersee. The lakes in Schirmacher Oasis possessed abundant and diverse group of microorganisms compared to the Lake Untersee. Furthermore, the microbial diversity between two lakes in Schirmacher Oasis (Lake L27C and L47) was compared by culture-based molecular approach. It was determined that L27Chad a richer microbial diversity representing 5 different phyla and 7 different genera. In contrast L47 consisted of 4 different phyla and 6 different genera. The difference in microbial community could be due to the wide range of pH between L27C (pH 9.1) and L47 (pH 5.7). Most of the microbes isolated from these lakes consisted of adaptive biological pigmentation. Characterization of the microbial community found in the freshwater lakes of East Antarctica is important because it gives a further glimpse into the adaptation and survival strategies found in extreme conditions.

Microbial diversity and community structure across environmental gradients in Bransfield Strait, Western Antarctic Peninsula

Directory of Open Access Journals (Sweden)

Camila Negrão Signori

2014-12-01

Full Text Available The Southern Ocean is currently subject to intense investigations, mainly related to its importance for global biogeochemical cycles and its alarming rate of warming in response to climate change. Microbes play an essential role in the functioning of this ecosystem and are the main drivers of the biogeochemical cycling of elements. Yet, the diversity and abundance of microorganisms in this system remains poorly studied, in particular with regards to changes along environmental gradients. Here, we used amplicon sequencing of 16S rRNA gene tags using primers covering both Bacteria and Archaea to assess the composition and diversity of the microbial communities from four sampling depths (surface, the maximum and minimum of the oxygen concentration, and near the seafloor at ten oceanographic stations located in Bransfield Strait (northwest of the Antarctic Peninsula (AP and near the sea ice edge (north of the AP. Samples collected near the seafloor and at the oxygen minimum exhibited a higher diversity than those from the surface and oxygen maximum for both bacterial and archaeal communities. The main taxonomic groups identified below 100 m were Thaumarchaeota, Euryarchaeota and Proteobacteria (Gamma-, Delta-, Beta- and Alphaproteobacteria, whereas in the mixed layer above 100 m Bacteroidetes and Proteobacteria (mainly Alpha- and Gammaproteobacteria were found to be dominant. A combination of environmental factors seems to influence the microbial community composition. Our results help to understand how the dynamic seascape of the Southern Ocean shapes the microbial community composition and set a baseline for upcoming studies to evaluate the response of this ecosystem to future changes.

Glycoside Hydrolases across Environmental Microbial Communities.

Directory of Open Access Journals (Sweden)

Renaud Berlemont

2016-12-01

Full Text Available Across many environments microbial glycoside hydrolases support the enzymatic processing of carbohydrates, a critical function in many ecosystems. Little is known about how the microbial composition of a community and the potential for carbohydrate processing relate to each other. Here, using 1,934 metagenomic datasets, we linked changes in community composition to variation of potential for carbohydrate processing across environments. We were able to show that each ecosystem-type displays a specific potential for carbohydrate utilization. Most of this potential was associated with just 77 bacterial genera. The GH content in bacterial genera is best described by their taxonomic affiliation. Across metagenomes, fluctuations of the microbial community structure and GH potential for carbohydrate utilization were correlated. Our analysis reveals that both deterministic and stochastic processes contribute to the assembly of complex microbial communities.

Bubble systems

CERN Document Server

Avdeev, Alexander A

2016-01-01

This monograph presents a systematic analysis of bubble system mathematics, using the mechanics of two-phase systems in non-equilibrium as the scope of analysis. The author introduces the thermodynamic foundations of bubble systems, ranging from the fundamental starting points to current research challenges. This book addresses a range of topics, including description methods of multi-phase systems, boundary and initial conditions as well as coupling requirements at the phase boundary. Moreover, it presents a detailed study of the basic problems of bubble dynamics in a liquid mass: growth (dynamically and thermally controlled), collapse, bubble pulsations, bubble rise and breakup. Special emphasis is placed on bubble dynamics in turbulent flows. The analysis results are used to write integral equations governing the rate of vapor generation (condensation) in non-equilibrium flows, thus creating a basis for solving a number of practical problems. This book is the first to present a comprehensive theory of boil...

Surfacing behavior and gas release of the physostome sprat (Sprattus sprattus) in ice-free and ice-covered waters

KAUST Repository

Solberg, Ingrid

2013-10-04

Upward-facing echosounders that provided continuous, long-term measurements were applied to address the surfacing behavior and gas release of the physostome sprat (Sprattus sprattus) throughout an entire winter in a 150-m-deep Norwegian fjord. During ice-free conditions, the sprat surfaced and released gas bubbles at night with an estimated surfacing rate of 3.5 times per fish day-1. The vertical swimming speeds during surfacing were considerably higher (~10 times) than during diel vertical migrations, especially when returning from the surface, and particularly when the fjord was not ice covered. The sprat released gas a few hours after surfacing, suggesting that the sprat gulped atmospheric air during its excursions to the surface. While the surface activity increased after the fjord became ice covered, the records of gas release decreased sharply. The under-ice fish then displayed a behavior interpreted as "searching for the surface" by repeatedly ascending toward the ice, apparently with limited success of filling the swim bladder. This interpretation was supported by lower acoustic target strength in ice-covered waters. The frequent surfacing behavior demonstrated in this study indicates that gulping of atmospheric air is an important element in the life of sprat. While at least part of the population endured overwintering in the ice-covered habitat, ice covering may constrain those physostome fishes that lack a gas-generating gland in ways that remain to be established. 2013 The Author(s).

DOC removal paradigms in highly humic aquatic ecosystems.

Science.gov (United States)

Farjalla, Vinicius F; Amado, André M; Suhett, Albert L; Meirelles-Pereira, Frederico

2009-07-01

Dissolved humic substances (HS) usually comprise 50-80% of the dissolved organic carbon (DOC) in aquatic ecosystems. From a trophic and biogeochemical perspective, HS has been considered to be highly refractory and is supposed to accumulate in the water. The upsurge of the microbial loop paradigm and the studies on HS photo-degradation into labile DOC gave rise to the belief that microbial processing of DOC should sustain aquatic food webs in humic waters. However, this has not been extensively supported by the literature, since most HS and their photo-products are often oxidized by microbes through respiration in most nutrient-poor humic waters. Here, we review basic concepts, classical studies, and recent data on bacterial and photo-degradation of DOC, comparing the rates of these processes in highly humic ecosystems and other aquatic ecosystems. We based our review on classical and recent findings from the fields of biogeochemistry and microbial ecology, highlighting some odd results from highly humic Brazilian tropical lagoons, which can reach up to 160 mg C L(-1). Highly humic tropical lagoons showed proportionally lower bacterial production rates and higher bacterial respiration rates (i.e., lower bacterial growth efficiency) than other lakes. Zooplankton showed similar delta(13)C to microalgae but not to humic DOC in these highly humic lagoons. Thus, the data reviewed here do not support the microbial loop as an efficient matter transfer pathway in highly humic ecosystems, where it is supposed to play its major role. In addition, we found that some tropical humic ecosystems presented the highest potential DOC photo-chemical mineralization (PM) rates reported in the literature, exceeding up to threefold the rates reported for temperate humic ecosystems. We propose that these atypically high PM rates are the result of a joint effect of the seasonal dynamics of allochthonous humic DOC input to these ecosystems and the high sunlight incidence throughout the year

How are soap bubbles blown? Fluid dynamics of soap bubble blowing

Science.gov (United States)

Davidson, John; Lambert, Lori; Sherman, Erica; Wei, Timothy; Ryu, Sangjin

2013-11-01

Soap bubbles are a common interfacial fluid dynamics phenomenon having a long history of delighting not only children and artists but also scientists. In contrast to the dynamics of liquid droplets in gas and gas bubbles in liquid, the dynamics of soap bubbles has not been well documented. This is possibly because studying soap bubbles is more challenging due to there existing two gas-liquid interfaces. Having the thin-film interface seems to alter the characteristics of the bubble/drop creation process since the interface has limiting factors such as thickness. Thus, the main objective of this study is to determine how the thin-film interface differentiates soap bubbles from gas bubbles and liquid drops. To investigate the creation process of soap bubbles, we constructed an experimental model consisting of air jet flow and a soap film, which consistently replicates the conditions that a human produces when blowing soap bubbles, and examined the interaction between the jet and the soap film using the high-speed videography and the particle image velocimetry.

Net ecosystem production in a Little Ice Age moraine: the role of plant functional traits

Science.gov (United States)

Varolo, E.; Zanotelli, D.; Tagliavini, M.; Zerbe, S.; Montagnani, L.

2015-07-01

Current glacier retreat allows vast mountain ranges available for vegetation establishment and growth. Little is known about the effective carbon (C) budget of these new ecosystems and how the presence of different vegetation communities, characterized by their specific physiology and life forms influences C fluxes. In this study, using a comparative analysis of the C fluxes of two contrasting vegetation types, we intend to evaluate if the different physiologies of the main species have an effect on Ecosystem Respiration (Reco), Gross Primary Production (GPP), annual cumulated Net Ecosystem Exchange (NEE), and long-term carbon accumulation in soil. The NEE of two plant communities present on a Little Ice Age moraine in the Matsch glacier forefield (Alps, Italy) was measured over two growing seasons. They are a typical C3 grassland, dominated by Festuca halleri All. and a community dominated by CAM rosettes Sempervivum montanum L. on rocky soils. Using transparent and opaque chambers, we extrapolated the ecophysiological responses to the main environmental drivers and performed the partition of NEE into Reco and GPP. Soil samples were collected from the same site to measure long-term C accumulation in the ecosystem. The two communities showed contrasting GPP but similar Reco patterns and as a result significantly different in NEE. The grassland acted mainly as a carbon sink with a total cumulated value of -46.4 ± 35.5 g C m-2 NEE while the plots dominated by the CAM rosettes acted as a source with 31.9 ± 22.4 g C m-2. In spite of the NEE being different in the two plant communities, soil analysis did not reveal significant differences in carbon accumulation. Grasslands showed 1.76 ± 0.12 kg C m-2, while CAM rosettes showed 2.06 ± 0.23 kg C m-2. This study demonstrates that carbon dynamics of two vegetation communities can be distinct even though the growing environment is similar. The physiological traits of the dominant species determine large differences in

Nitrogen transformations in stratified aquatic microbial ecosystems

DEFF Research Database (Denmark)

Revsbech, Niels Peter; Risgaard-Petersen, N.; Schramm, Andreas

2006-01-01

Abstract  New analytical methods such as advanced molecular techniques and microsensors have resulted in new insights about how nitrogen transformations in stratified microbial systems such as sediments and biofilms are regulated at a µm-mm scale. A large and ever-expanding knowledge base about n...... performing dissimilatory reduction of nitrate to ammonium have given new dimensions to the understanding of nitrogen cycling in nature, and the occurrence of these organisms and processes in stratified microbial communities will be described in detail.......Abstract  New analytical methods such as advanced molecular techniques and microsensors have resulted in new insights about how nitrogen transformations in stratified microbial systems such as sediments and biofilms are regulated at a µm-mm scale. A large and ever-expanding knowledge base about...... nitrogen fixation, nitrification, denitrification, and dissimilatory reduction of nitrate to ammonium, and about the microorganisms performing the processes, has been produced by use of these techniques. During the last decade the discovery of anammmox bacteria and migrating, nitrate accumulating bacteria...

Divergence of dominant factors in soil microbial communities and functions in forest ecosystems along a climatic gradient

Science.gov (United States)

Xu, Zhiwei; Yu, Guirui; Zhang, Xinyu; He, Nianpeng; Wang, Qiufeng; Wang, Shengzhong; Xu, Xiaofeng; Wang, Ruili; Zhao, Ning

2018-03-01

Soil microorganisms play an important role in regulating nutrient cycling in terrestrial ecosystems. Most of the studies conducted thus far have been confined to a single forest biome or have focused on one or two controlling factors, and few have dealt with the integrated effects of climate, vegetation, and soil substrate availability on soil microbial communities and functions among different forests. In this study, we used phospholipid-derived fatty acid (PLFA) analysis to investigate soil microbial community structure and extracellular enzymatic activities to evaluate the functional potential of soil microbes of different types of forests in three different climatic zones along the north-south transect in eastern China (NSTEC). Both climate and forest type had significant effects on soil enzyme activities and microbial communities with considerable interactive effects. Except for soil acid phosphatase (AP), the other three enzyme activities were much higher in the warm temperate zone than in the temperate and the subtropical climate zones. The soil total PLFAs and bacteria were much higher in the temperate zone than in the warm temperate and the subtropical zones. The soil β-glucosidase (BG) and N-acetylglucosaminidase (NAG) activities were highest in the coniferous forest. Except for the soil fungi and fungi-bacteria (F/B), the different groups of microbial PLFAs were much higher in the conifer broad-leaved mixed forests than in the coniferous forests and the broad-leaved forests. In general, soil enzyme activities and microbial PLFAs were higher in primary forests than in secondary forests in temperate and warm temperate regions. In the subtropical region, soil enzyme activities were lower in the primary forests than in the secondary forests and microbial PLFAs did not differ significantly between primary and secondary forests. Different compositions of the tree species may cause variations in soil microbial communities and enzyme activities. Our results

Sticky bubbles

NARCIS (Netherlands)

Antoniuk, O.; Bos, van der A.; Driessen, T.W.; Es, van B.; Jeurissen, R.J.M.; Michler, D.; Reinten, H.; Schenker, M.; Snoeijer, J.H.; Srivastava, S.; Toschi, F.; Wijshoff, H.M.A.

2011-01-01

We discuss the physical forces that are required to remove an air bubble immersed in a liquid from a corner. This is relevant for inkjet printing technology, as the presence of air bubbles in the channels of a printhead perturbs the jetting of droplets. A simple strategy to remove the bubble is to

Development and Antarctic Testing of a Maneuverable Probe for Clean In-Situ Analysis and Sampling of Subsurface Ice and Subglacial Aquatic Ecosystems

Science.gov (United States)

Francke, G.; Dachwald, B.; Kowalski, J.; Digel, I.; Tulaczyk, S. M.; Mikucki, J.; Feldmann, M.; Espe, C.; Schöngarth, S.; Hiecker, S.; Blandfort, D.; Schüller, K.; Plescher, E.

2016-12-01

There is significant interest in sampling subglacial environments for geochemical and microbiological studies, but those environments are difficult to access. Such environments exist not only on Earth but are also expected beneath the icy crusts of some outer solar system bodies, like the Jovian moon Europa and the Saturnian moon Enceladus. Existing ice drilling technologies make it cumbersome to maintain microbiologically clean access for sample acquisition and environmental stewardship of potentially fragile subglacial aquatic ecosystems. The "IceMole" is a maneuverable subsurface ice probe for clean in-situ analysis and sampling of glacial ice and subglacial materials. The design is based on combining melting and mechanical propulsion, using an ice screw at the tip of the melting head to maintain firm contact between the melting head and the ice. It can change melting direction by differential heating of the melting head and optional side wall heaters. The first two prototypes were successfully tested between 2010 and 2012 on glaciers in Switzerland and Iceland, where they demonstrated downward, horizontal and upward melting, as well as curve driving and dirt layer penetration. Hence, the IceMole allows maneuvers which may be necessary for obstacle avoidance or target selection. Maneuverability, however, necessitates a sophisticated on-board navigation system capable of autonomous operations. Therefore, between 2012 and 2014, a more advanced probe was developed as part of the "Enceladus Explorer" (EnEx) project. The EnEx-IceMole offers systems for relative positioning based on in-ice attitude determination, acoustic positioning, ultrasonic obstacle and target detection, which is all integrated through a high-level sensor fusion. In December 2014, it was used for clean access into a unique subglacial aquatic environment at Blood Falls, Antarctica, where a subglacial brine sample was successfully obtained after about 17 meters of oblique melting. Particular

Formation and evolution of bubbly screens in confined oscillating bubbly liquids

Science.gov (United States)

Shklyaev, Sergey; Straube, Arthur V.

2010-01-01

We consider the dynamics of dilute monodisperse bubbly liquid confined by two plane solid walls and subject to small-amplitude high-frequency oscillations normal to the walls. The initial state corresponds to the uniform distribution of bubbles and motionless liquid. The period of external driving is assumed much smaller than typical relaxation times for a single bubble but larger than the period of volume eigenoscillations. The time-averaged description accounting for the two-way coupling between the liquid and the bubbles is applied. We show that the model predicts accumulation of bubbles in thin sheets parallel to the walls. These singular structures, which are formally characterized by infinitely thin width and infinitely high concentration, are referred to as bubbly screens. The formation of a bubbly screen is described analytically in terms of a self-similar solution, which is in agreement with numerical simulations. We study the evolution of bubbly screens and detect a one-dimensional stationary state, which is shown to be unconditionally unstable.

Exploring the Habitability of Ice-covered Waterworlds: The Deep-Sea Hydrothermal System of the Aurora Mount at Gakkel Ridge, Arctic Ocean (82°54' N, 6°15W, 3900 m)

Science.gov (United States)

Boetius, A.; Bach, W.; Borowski, C.; Diehl, A.; German, C. R.; Kaul, N. E.; Koehler, J.; Marcon, Y.; Mertens, C.; Molari, M.; Schlindwein, V. S. N.; Tuerke, A.; Wegener, G.

2014-12-01

The geographic remoteness of the ultraslow Gakkel Ridge in the ice-covered Arctic Ocean raises many questions about the nature and biogeography of its habitats. In 2001, the two-ice-breaker mission AMORE (RV POLARSTERN and USCGC HEALY) detected hydrothermal plumes and evidence for seafloor venting associated with volcanic ridges rising from the rift valley floor of 4.2 km depth (Edmonds et al., 2003; Michael et al., 2003). The AURORA expedition in July 2014 (RV POLARSTERN Cruise PS86) targeted this "Aurora" field at the SW limit of Gakkel Ridge, to investigate its habitats, communities and their energy sources. No robots can yet be deployed through ice-cover to explore such deep habitats and ice-breaking research vessels cannot hold position in the thick multiyear ice. Instead, we estimated ice-drift to predict suitable start positions, then attached POLARSTERN to a matching ice floe, to achieve the bottom trajectories that we required for targeted exploration. The Aurora mount is volcanic in origin formed from mounded pillow basalts overlain by about a meter of sediment and cut through by steep cliffs revealing basalt pillows in outcrop and in talus piles. We identified persistent plume activity in the water column above the mount at 3100-3600 m (800-300 m off-bottom of its top) characterized by anomalies in turbidity, Eh, methane, temperature, density, and elevated microbial chemoautotrophic activity. Using a towed camera-, and multisensor- platform (OFOS) we located active venting as the source of this plume together with inactive chimneys and associated craters on the SW flank of Mt.Aurora. Its dominantly filter-feeding fauna is apparently sustained by venting of energy-rich fluids and microbial transfer of this geofuel into nutrition. This communication presents first results of our recent fieldwork and experimental investigations in Summer 2014 to explore deep-sea ecosystems in ice-covered oceans.

Characterization of Bubble Size Distributions within a Bubble Column

OpenAIRE

Shahrouz Mohagheghian; Brian R. Elbing

2018-01-01

The current study experimentally examines bubble size distribution (BSD) within a bubble column and the associated characteristic length scales. Air was injected into a column of water via a single injection tube. The column diameter (63–102 mm), injection tube diameter (0.8–1.6 mm) and superficial gas velocity (1.4–55 mm/s) were varied. Large samples (up to 54,000 bubbles) of bubble sizes measured via 2D imaging were used to produce probability density functions (PDFs). The PDFs were used to...

Ice core carbonyl sulfide measurements from a new South Pole ice core (SPICECORE)

Science.gov (United States)

Aydin, M.; Nicewonger, M. R.; Saltzman, E. S.

2017-12-01

Carbonyl sulfide (COS) is the most abundant sulfur gas in the troposphere with a present-day mixing ratio of about 500 ppt. Direct and indirect emissions from the oceans are the predominant sources of atmospheric COS. The primary removal mechanism is uptake by terrestrial plants during photosynthesis. Because plants do not respire COS, atmospheric COS levels are linked to terrestrial gross primary productivity (GPP). Ancient air trapped in polar ice cores has been used to reconstruct COS records of the past atmosphere, which can be used to infer past GPP variability and potential changes in oceanic COS emission. We are currently analyzing samples from a newly drilled intermediate depth ice core from South Pole, Antarctica (SPICECORE). This core is advantageous for studying COS because the cold temperatures of South Pole ice lead to very slow rates of in situ loss due to hydrolysis. One hundred and eighty-four bubbly ice core samples have been analyzed to date with gas ages ranging from about 9.2 thousand (733 m depth) to 75 years (126 m depth) before present. After a 2% correction for gravitational enrichment in the firn, the mean COS mixing ratio for the data set is 312±15 ppt (±1s), with the data set median also equal to 312 ppt. The only significant long-term trend in the record is a 5-10% increase in COS during the last 2-3 thousand years of the Holocene. The SPICECORE data agree with previously published ice core COS records from other Antarctic sites during times of overlap, confirming earlier estimates of COS loss rates to in situ hydrolysis in ice cores. Antarctic ice core data place strict constraints on the COS mixing ratio and its range of variability in the southern hemisphere atmosphere during the last several millennia. Implications for the atmospheric COS budget will be discussed.

Bayesian analysis of non-linear differential equation models with application to a gut microbial ecosystem.

Science.gov (United States)

Lawson, Daniel J; Holtrop, Grietje; Flint, Harry

2011-07-01

Process models specified by non-linear dynamic differential equations contain many parameters, which often must be inferred from a limited amount of data. We discuss a hierarchical Bayesian approach combining data from multiple related experiments in a meaningful way, which permits more powerful inference than treating each experiment as independent. The approach is illustrated with a simulation study and example data from experiments replicating the aspects of the human gut microbial ecosystem. A predictive model is obtained that contains prediction uncertainty caused by uncertainty in the parameters, and we extend the model to capture situations of interest that cannot easily be studied experimentally. Copyright © 2011 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Rational equity bubbles

OpenAIRE

Zhou, Ge

2012-01-01

This paper discusses the existence of a bubble in the pricing of an asset that pays positive dividends. I show that rational bubbles can exist in a growing economy. The existence of bubbles depends on the relative magnitudes of risk aversion to consumption and to wealth. Furthermore, I examine how an exogenous shock in technology might trigger bubbles.

Determining the specific microbial populations and their spatial distribution within the stromatolite ecosystem of Shark Bay.

Science.gov (United States)

Goh, Falicia; Allen, Michelle A; Leuko, Stefan; Kawaguchi, Tomohiro; Decho, Alan W; Burns, Brendan P; Neilan, Brett A

2009-04-01

The stromatolites at Shark Bay, Western Australia, are analogues of some of the oldest evidence of life on Earth. The aim of this study was to identify and spatially characterize the specific microbial communities associated with Shark Bay intertidal columnar stromatolites. Conventional culturing methods and construction of 16S rDNA clone libraries from community genomic DNA with both universal and specific PCR primers were employed. The estimated coverage, richness and diversity of stromatolite microbial populations were compared with earlier studies on these ecosystems. The estimated coverage for all clone libraries indicated that population coverage was comprehensive. Phylogenetic analyses of stromatolite and surrounding seawater sequences were performed in ARB with the Greengenes database of full-length non-chimaeric 16S rRNA genes. The communities identified exhibited extensive diversity. The most abundant sequences from the stromatolites were alpha- and gamma-proteobacteria (58%), whereas the cyanobacterial community was characterized by sequences related to the genera Euhalothece, Gloeocapsa, Gloeothece, Chroococcidiopsis, Dermocarpella, Acaryochloris, Geitlerinema and Schizothrix. All clones from the archaeal-specific clone libraries were related to the halophilic archaea; however, no archaeal sequence was identified from the surrounding seawater. Fluorescence in situ hybridization also revealed stromatolite surfaces to be dominated by unicellular cyanobacteria, in contrast to the sub-surface archaea and sulphate-reducing bacteria. This study is the first to compare the microbial composition of morphologically similar stromatolites over time and examine the spatial distribution of specific microorganismic groups in these intertidal structures and the surrounding seawater at Shark Bay. The results provide a platform for identifying the key microbial physiology groups and their potential roles in modern stromatolite morphogenesis and ecology.

Cavitation and water fluxes driven by ice water potential in Juglans regia during freeze-thaw cycles.

Science.gov (United States)

Charra-Vaskou, Katline; Badel, Eric; Charrier, Guillaume; Ponomarenko, Alexandre; Bonhomme, Marc; Foucat, Loïc; Mayr, Stefan; Améglio, Thierry

2016-02-01

Freeze-thaw cycles induce major hydraulic changes due to liquid-to-ice transition within tree stems. The very low water potential at the ice-liquid interface is crucial as it may cause lysis of living cells as well as water fluxes and embolism in sap conduits, which impacts whole tree-water relations. We investigated water fluxes induced by ice formation during freeze-thaw cycles in Juglans regia L. stems using four non-invasive and complementary approaches: a microdendrometer, magnetic resonance imaging, X-ray microtomography, and ultrasonic acoustic emissions analysis. When the temperature dropped, ice nucleation occurred, probably in the cambium or pith areas, inducing high water potential gradients within the stem. The water was therefore redistributed within the stem toward the ice front. We could thus observe dehydration of the bark's living cells leading to drastic shrinkage of this tissue, as well as high tension within wood conduits reaching the cavitation threshold in sap vessels. Ultrasonic emissions, which were strictly emitted only during freezing, indicated cavitation events (i.e. bubble formation) following ice formation in the xylem sap. However, embolism formation (i.e. bubble expansion) in stems was observed only on thawing via X-ray microtomography for the first time on the same sample. Ultrasonic emissions were detected during freezing and were not directly related to embolism formation. These results provide new insights into the complex process and dynamics of water movements and ice formation during freeze-thaw cycles in tree stems. © The Author 2015. Published by Oxford University Press on behalf of the Society for Experimental Biology.

Chaotic bubbling and nonstagnant foams.

Science.gov (United States)

Tufaile, Alberto; Sartorelli, José Carlos; Jeandet, Philippe; Liger-Belair, Gerard

2007-06-01

We present an experimental investigation of the agglomeration of bubbles obtained from a nozzle working in different bubbling regimes. This experiment consists of a continuous production of bubbles from a nozzle at the bottom of a liquid column, and these bubbles create a two-dimensional (2D) foam (or a bubble raft) at the top of this column. The bubbles can assemble in various dynamically stable arrangement, forming different kinds of foams in a liquid mixture of water and glycerol, with the effect that the bubble formation regimes influence the foam obtained from this agglomeration of bubbles. The average number of bubbles in the foam is related to the bubble formation frequency and the bubble mean lifetime. The periodic bubbling can generate regular or irregular foam, while a chaotic bubbling only generates irregular foam.

MELCOR 1.8.1 assessment: PNL Ice Condenser Aerosol Experiments

International Nuclear Information System (INIS)

Gross, R.J.

1993-06-01

The MELCOR code was used to simulate PNL's Ice Condenser Experiments 11-6 and 16-11. In these experiments, ZnS was injected into a mixing chamber, and the combined steam/air/aerosol mixture flowed into an ice condenser which was l4.7m tall. Experiment 11-6 was a low flow test; Experiment l6-1l was a high flow test. Temperatures in the ice condenser region and particle retention were measured in these tests. MELCOR predictions compared very well to the experimental data. The MELCOR calculations were also compared to CONTAIN code calculations for the same tests. A number of sensitivity studies were performed. It as found that simulation time step, aerosol parameters such as the number of MAEROS components and sections used and the particle density, and ice condenser parameters such as the energy capacity of the ice, ice heat transfer coefficient multiplier, and ice heat structure characteristic length all could affect the results. Thermal/hydraulic parameters such as control volume equilibrium assumptions, flow loss coefficients, and the bubble rise model were found to affect the results less significantly. MELCOR results were not machine dependent for this problem

Ecology under lake ice

NARCIS (Netherlands)

Hampton, Stephanie E.; Galloway, Aaron W. E.; Powers, Stephen M.; Ozersky, Ted; Woo, Kara H.; Batt, Ryan D.; Labou, Stephanie G.; O'Reilly, Catherine M.; Sharma, Sapna; Lottig, Noah R.; Stanley, Emily H.; North, Rebecca L.; Stockwell, Jason D.; Adrian, Rita; Weyhenmeyer, Gesa A.; Arvola, Lauri; Baulch, Helen M.; Bertani, Isabella; Bowman, Larry L., Jr.; Carey, Cayelan C.; Catalan, Jordi; Colom-Montero, William; Domine, Leah M.; Felip, Marisol; Granados, Ignacio; Gries, Corinna; Grossart, Hans-Peter; Haberman, Juta; Haldna, Marina; Hayden, Brian; Higgins, Scott N.; Jolley, Jeff C.; Kahilainen, Kimmo K.; Kaup, Enn; Kehoe, Michael J.; MacIntyre, Sally; Mackay, Anson W.; Mariash, Heather L.; Mckay, Robert M.; Nixdorf, Brigitte; Noges, Peeter; Noges, Tiina; Palmer, Michelle; Pierson, Don C.; Post, David M.; Pruett, Matthew J.; Rautio, Milla; Read, Jordan S.; Roberts, Sarah L.; Ruecker, Jacqueline; Sadro, Steven; Silow, Eugene A.; Smith, Derek E.; Sterner, Robert W.; Swann, George E. A.; Timofeyev, Maxim A.; Toro, Manuel; Twiss, Michael R.; Vogt, Richard J.; Watson, Susan B.; Whiteford, Erika J.; Xenopoulos, Marguerite A.

Winter conditions are rapidly changing in temperate ecosystems, particularly for those that experi-ence periods of snow and ice cover. Relatively little is known of winter ecology in these systems,due to a historical research focus on summer ‘growing seasons’. We executed the first global

A review of modern instrumental techniques for measurements of ice cream characteristics.

Science.gov (United States)

Bahram-Parvar, Maryam

2015-12-01

There is an increasing demand of the food industries and research institutes to have means of measurement allowing the characterization of foods. Ice cream, as a complex food system, consists of a frozen matrix containing air bubbles, fat globules, ice crystals, and an unfrozen serum phase. Some deficiencies in conventional methods for testing this product encourage the use of alternative techniques such as rheometry, spectroscopy, X-ray, electro-analytical techniques, ultrasound, and laser. Despite the development of novel instrumental applications in food science, use of some of them in ice cream testing is few, but has shown promising results. Developing the novel methods should increase our understanding of characteristics of ice cream and may allow online testing of the product. This review article discusses the potential of destructive and non-destructive methodologies in determining the quality and characteristics of ice cream and similar products. Copyright © 2015. Published by Elsevier Ltd.

Habitat constraints on the functional significance of soil microbial communities

Science.gov (United States)

Nunan, Naoise; Leloup, Julie; Ruamps, Léo; Pouteau, Valérie; Chenu, Claire

2017-04-01

An underlying assumption of most ecosystem models is that soil microbial communities are functionally equivalent; in other words, that microbial activity under given set of conditions is not dependent on the composition or diversity of the communities. Although a number of studies have suggested that this assumption is incorrect, ecosystem models can adequately describe ecosystem processes, such as soil C dynamics, without an explicit description of microbial functioning. Here, we provide a mechanistic basis for reconciling this apparent discrepancy. In a reciprocal transplant experiment, we show that microbial communities are not always functionally equivalent. The data suggest that when the supply of substrate is restricted, then the functioning of different microbial communities cannot be distinguished, but when the supply is less restricted, the intrinsic functional differences among communities can be expressed. When the supply of C is restricted then C dynamics are related to the properties of the physical and chemical environment of the soil. We conclude that soil C dynamics may depend on microbial community structure or diversity in environments such as the rhizosphere or the litter layer, but are less likely to do so in oligotrophic environments such as the mineral layers of soil.

Bubble levitation and translation under single-bubble sonoluminescence conditions.

Science.gov (United States)

Matula, Thomas J

2003-08-01

Bubble levitation in an acoustic standing wave is re-examined for conditions relevant to single-bubble sonoluminescence. Unlike a previous examination [Matula et al., J. Acoust. Soc. Am. 102, 1522-1527 (1997)], the stable parameter space [Pa,R0] is accounted for in this realization. Forces such as the added mass force and drag are included, and the results are compared with a simple force balance that equates the Bjerknes force to the buoyancy force. Under normal sonoluminescence conditions, the comparison is quite favorable. A more complete accounting of the forces shows that a stably levitated bubble does undergo periodic translational motion. The asymmetries associated with translational motion are hypothesized to generate instabilities in the spherical shape of the bubble. A reduction in gravity results in reduced translational motion. It is hypothesized that such conditions may lead to increased light output from sonoluminescing bubbles.

Cavitation bubble nucleation induced by shock-bubble interaction in a gelatin gel

Science.gov (United States)

Oguri, Ryota; Ando, Keita

2018-05-01

An optical visualization technique is developed to study cavitation bubble nucleation that results from interaction between a laser-induced shock and a preexisting gas bubble in a 10 wt. % gelatin gel; images of the nucleated cavitation bubbles are captured and the cavitation inception pressure is determined based on Euler flow simulation. A spherical gas cavity is generated by focusing an infrared laser pulse into a gas-supersaturated gel and the size of the laser-generated bubble in mechanical equilibrium is tuned via mass transfer of the dissolved gas into the bubble. A spherical shock is then generated, through rapid expansion of plasma induced by the laser focusing, in the vicinity of the gas bubble. The shock-bubble interaction is recorded by a CCD camera with flash illumination of a nanosecond green laser pulse. The observation captures cavitation inception in the gel under tension that results from acoustic impedance mismatching at the bubble interface interacting with the shock. We measure the probability of cavitation inception from a series of the repeated experiments, by varying the bubble radius and the standoff distance. The threshold pressure is defined at the cavitation inception probability equal to one half and is calculated, through comparisons to Euler flow simulation, at -24.4 MPa. This threshold value is similar to that from shock-bubble interaction experiments using water, meaning that viscoelasticity of the 10 wt. % gelatin gel has a limited impact on bubble nucleation dynamics.

Late winter under ice pelagic microbial communities in the high Arctic Ocean and the impact of short-term exposure to elevated CO2 levels

Directory of Open Access Journals (Sweden)

Adam eMonier

2014-09-01

Full Text Available Polar Oceans are natural CO2 sinks because of the enhanced solubility of CO2 in cold water. The Arctic Ocean is at additional risk of accelerated ocean acidification (OA because of freshwater inputs from sea ice and rivers, which influence the carbonate system. Winter conditions in the Arctic are of interest because of both cold temperatures and limited CO2 venting to the atmosphere when sea ice is present. Earlier OA experiments on Arctic microbial communities conducted in the absence of ice cover, hinted at shifts in taxa dominance and diversity under lowered pH. The Catlin Arctic Survey provided an opportunity to conduct in situ, under-ice, OA experiments during late Arctic winter. Seawater was collected from under the sea ice off Ellef Ringnes Island, and communities were exposed to three CO2 levels for 6 days. Phylogenetic diversity was greater in the attached fraction compared to the free-living fraction in situ, in the controls and in the treatments. The dominant taxa in all cases were Gammaproteobacteria but acidification had little effect compared to the effects of containment. Phylogenetic net relatedness indices suggested that acidification may have decreased the diversity within some bacterial orders, but overall there was no clear trend. Within the experimental communities, alkalinity best explained the variance among samples and replicates, suggesting subtle changes in the carbonate system need to be considered in such experiments. We conclude that under ice communities have the capacity to respond either by selection or phenotypic plasticity to heightened CO2 levels over the short term.

Biodiversity of Arctic marine ecosystems and responses to climate change

DEFF Research Database (Denmark)

Michel, C.; Bluhm, B.; Gallucci, V.

2012-01-01

The Arctic Ocean is undergoing major changes in many of its fundamental physical constituents, from a shift from multi- to first-year ice, shorter ice-covered periods, increasing freshwater runoff and surface stratification, to warming and alteration in the distribution of water masses....... These changes have important impacts on the chemical and biological processes that are at the root of marine food webs, influencing their structure, function and biodiversity. Here we summarise current knowledge on the biodiversity of Arctic marine ecosystems and provide an overview of fundamental factors...... that structure ecosystem biodiversity in the Arctic Ocean. We also discuss climateassociated effects on the biodiversity of Arctic marine ecosystems and discuss implications for the functioning of Arctic marine food webs. Based on the complexity and regional character of Arctic ecosystem reponses...

A novel ice storm manipulation experiment in a northern hardwood forest

Science.gov (United States)

Lindsey E. Rustad; John L. Campbell

2012-01-01

Ice storms are an important natural disturbance within forest ecosystems of the northeastern United States. Current models suggest that the frequency and severity of ice storms may increase in the coming decades in response to changes in climate. Because of the stochastic nature of ice storms and difficulties in predicting their occurrence, most past investigations of...

Microbial biotechnology addressing the plastic waste disaster.

Science.gov (United States)

Narancic, Tanja; O'Connor, Kevin E

2017-09-01

Oceans are a major source of biodiversity, they provide livelihood, and regulate the global ecosystem by absorbing heat and CO 2 . However, they are highly polluted with plastic waste. We are discussing here microbial biotechnology advances with the view to improve the start and the end of life of biodegradable polymers, which could contribute to the sustainable use of marine and coastal ecosystems (UN Sustainability development goal 14). © 2017 The Authors. Microbial Biotechnology published by John Wiley & Sons Ltd and Society for Applied Microbiology.

Bubbling away

Energy Technology Data Exchange (ETDEWEB)

Anon.

1993-10-15

Bubble chambers may have almost vanished from the front line of physics research, but the vivid memory of their intricate and sometimes beautiful patterns of particle tracks lives on, and has greatly influenced the computer graphics of track reconstruction in today's big experiments. 'Seeing' an interaction makes it more understandable. Bubble chambers, with their big collaborations of physicists from many widely scattered research institutes, started another ball rolling. The groups formed are even now only surpassed in size by the big collaborations working on today's major detectors at colliding beam machines. From 14-16 July, about 130 physicists gathered at CERN to commemorate the 40th anniversary of the invention of the bubble chamber by Donald Glaser. The meeting, organized by Derek C. Colley from Birmingham, gave a comprehensive overview of bubble chamber contributions to physics, their challenging technology, and the usefulness of bubble chamber photographs in education, both for physics and the public at large. After opening remarks by CERN Director Carlo Rubbia, Donald Glaser began with a brief review of the work which led to his invention - there was much more to it than idly watching beer bubbles rise up the wall of the glass - before turning to his present line of research, biophysics, also very visually oriented.

Visual-stratigraphic dating of the GISP2 ice core: Basis, reproducibility, and application

Science.gov (United States)

Alley, R. B.; Shuman, C. A.; Meese, D. A.; Gow, A. J.; Taylor, K. C.; Cuffey, K. M.; Fitzpatrick, J. J.; Grootes, P. M.; Zielinski, G. A.; Ram, M.; Spinelli, G.; Elder, B.

1997-11-01

Annual layers are visible in the Greenland Ice Sheet Project 2 ice core from central Greenland, allowing rapid dating of the core. Changes in bubble and grain structure caused by near-surface, primarily summertime formation of hoar complexes provide the main visible annual marker in the Holocene, and changes in "cloudiness" of the ice correlated with dustiness mark Wisconsinan annual cycles; both markers are evident and have been intercalibrated in early Holocene ice. Layer counts are reproducible between different workers and for one worker at different times, with 1% error over century-length times in the Holocene. Reproducibility is typically 5% in Wisconsinan ice-age ice and decreases with increasing age and depth. Cumulative ages from visible stratigraphy are not significantly different from independent ages of prominent events for ice older than the historical record and younger than approximately 50,000 years. Visible observations are not greatly degraded by "brittle ice" or many other core-quality problems, allowing construction of long, consistently sampled time series. High accuracy requires careful study of the core by dedicated observers.

Effect of bubble interface parameters on predicted of bubble departure diameter in a narrow channel

International Nuclear Information System (INIS)

Xu Jianjun; Xie Tianzhou; Zhou Wenbin; Chen Bingde; Huang Yanping

2014-01-01

The predicted model on the bubble departure diameter in a narrow channel is built by analysis of forces acting on the bubble, and effects of bubble interface parameters such as the bubble inclination angle, upstream contact angle, downstream contact angle and bubble contact diameter on predicted bubble departure diameters in a narrow channel are analysed by comparing with the visual experimental data. Based on the above results, the bubble interface parameters as the input parameters used to obtain the bubble departure diameter in a narrow channel are assured, and the bubble departure diameters in a narrow channel are predicted by solving the force equation. The predicted bubble departure diameters are verified by the 58 bubble departure diameters obtained from the vertical and inclined visual experiment, and the predicted results agree with the experimental results. The different forces acting on the bubble are obtained and the effect of thermal parameters in this experiment on bubble departure diameters is analysed. (authors)

Radiative transfer in atmosphere-sea ice-ocean system

Energy Technology Data Exchange (ETDEWEB)

Jin, Z.; Stamnes, K.; Weeks, W.F. [Univ. of Alaska, Fairbanks, AK (United States); Tsay, S.C. [NASA Goddard Space Flight Center, Greenbelt, MD (United States)

1996-04-01

Radiative energy is critical in controlling the heat and mass balance of sea ice, which significantly affects the polar climate. In the polar oceans, light transmission through the atmosphere and sea ice is essential to the growth of plankton and algae and, consequently, to the microbial community both in the ice and in the ocean. Therefore, the study of radiative transfer in the polar atmosphere, sea ice, and ocean system is of particular importance. Lacking a properly coupled radiative transfer model for the atmosphere-sea ice-ocean system, a consistent study of the radiative transfer in the polar atmosphere, snow, sea ice, and ocean system has not been undertaken before. The radiative transfer processes in the atmosphere and in the ice and ocean have been treated separately. Because the radiation processes in the atmosphere, sea ice, and ocean depend on each other, this separate treatment is inconsistent. To study the radiative interaction between the atmosphere, clouds, snow, sea ice, and ocean, a radiative transfer model with consistent treatment of radiation in the coupled system is needed and is under development.

Proliferation of MISS-related microbial mats following the end-Permian mass extinction in terrestrial ecosystems: Evidence from the Lower Triassic of the Yiyang area, Henan Province, North China

Science.gov (United States)

Tu, Chenyi; Chen, Zhong-Qiang; Retallack, Gregory J.; Huang, Yuangeng; Fang, Yuheng

2016-03-01

Microbially induced sedimentary structures (MISSs) are commonly present in siliciclastic shallow marine settings following the end-Permian mass extinction, but have been rarely reported in the post-extinction terrestrial ecosystems. Here, we present six types of well-preserved MISSs from the upper Sunjiagou Formation and lower Liujiagou Formation of Induan (Early Triassic) age in the Yiyang area, Henan Province, North China. These MISSs include: polygonal sand cracks, worm-like structures, wrinkle structures, sponge pore fabrics, gas domes, and leveled ripple marks. Microanalysis shows that these MISSs are characterized by thin clayey laminae and filamentous mica grains arranged parallel to bedding plane as well as oriented matrix supported quartz grains, which are indicative of biogenic origin. Facies analysis suggests that the MISS-hosting sediments were deposited in a fluvial sedimentary system during the Early Triassic, including lake delta, riverbeds/point bars, and flood plain paleoenvironments. Abundant MISSs from Yiyang indicate that microbes also proliferated in terrestrial ecosystems in the aftermath of the Permian-Triassic (P-Tr) biocrisis, like they behaved in marine ecosystems. Microbial blooms, together with dramatic loss of metazoans, may reflect environmental stress and degradation of terrestrial ecosystems or arid climate immediately after the severe Permian-Triassic ecologic crisis.

Bubble Collision in Curved Spacetime

International Nuclear Information System (INIS)

Hwang, Dong-il; Lee, Bum-Hoon; Lee, Wonwoo; Yeom, Dong-han

2014-01-01

We study vacuum bubble collisions in curved spacetime, in which vacuum bubbles were nucleated in the initial metastable vacuum state by quantum tunneling. The bubbles materialize randomly at different times and then start to grow. It is known that the percolation by true vacuum bubbles is not possible due to the exponential expansion of the space among the bubbles. In this paper, we consider two bubbles of the same size with a preferred axis and assume that two bubbles form very near each other to collide. The two bubbles have the same field value. When the bubbles collide, the collided region oscillates back-and-forth and then the collided region eventually decays and disappears. We discuss radiation and gravitational wave resulting from the collision of two bubbles

Interfacial Bubble Deformations

Science.gov (United States)

Seymour, Brian; Shabane, Parvis; Cypull, Olivia; Cheng, Shengfeng; Feitosa, Klebert

Soap bubbles floating at an air-water experience deformations as a result of surface tension and hydrostatic forces. In this experiment, we investigate the nature of such deformations by taking cross-sectional images of bubbles of different volumes. The results show that as their volume increases, bubbles transition from spherical to hemispherical shape. The deformation of the interface also changes with bubble volume with the capillary rise converging to the capillary length as volume increases. The profile of the top and bottom of the bubble and the capillary rise are completely determined by the volume and pressure differences. James Madison University Department of Physics and Astronomy, 4VA Consortium, Research Corporation for Advancement of Science.

Characterization of Bubble Size Distributions within a Bubble Column

Directory of Open Access Journals (Sweden)

Shahrouz Mohagheghian

2018-02-01

Full Text Available The current study experimentally examines bubble size distribution (BSD within a bubble column and the associated characteristic length scales. Air was injected into a column of water via a single injection tube. The column diameter (63–102 mm, injection tube diameter (0.8–1.6 mm and superficial gas velocity (1.4–55 mm/s were varied. Large samples (up to 54,000 bubbles of bubble sizes measured via 2D imaging were used to produce probability density functions (PDFs. The PDFs were used to identify an alternative length scale termed the most frequent bubble size (dmf and defined as the peak in the PDF. This length scale as well as the traditional Sauter mean diameter were used to assess the sensitivity of the BSD to gas injection rate, injector tube diameter, injection tube angle and column diameter. The dmf was relatively insensitive to most variation, which indicates these bubbles are produced by the turbulent wakes. In addition, the current work examines higher order statistics (standard deviation, skewness and kurtosis and notes that there is evidence in support of using these statistics to quantify the influence of specific parameters on the flow-field as well as a potential indicator of regime transitions.

Oxygen exchange and ice melt measured at the ice-water interface by eddy correlation

DEFF Research Database (Denmark)

Long, M.H.; Koopmans, D.; Berg, P.

2012-01-01

heterotrophic with a daily gross primary production of 0.69 mmol O2 mĝ̂'2 dĝ̂'1 and a respiration rate of ĝ̂'2.13 mmol O2 mĝ̂'2 dĝ̂'1 leading to a net ecosystem metabolism of ĝ̂'1.45 mmol O2 mĝ̂'2 dĝ̂'1. This application of the eddy correlation technique produced high temporal resolution O2 fluxes and ice melt......This study examined fluxes across the ice-water interface utilizing the eddy correlation technique. Temperature eddy correlation systems were used to determine rates of ice melting and freezing, and O2 eddy correlation systems were used to examine O2 exchange rates driven by biological and physical...

Fama on bubbles

DEFF Research Database (Denmark)

Engsted, Tom

Eugene Fama has repeatedly expressed his discontent with the notion of an irrational bubble. However, he has never publicly expressed his opinion on rational bubbles. This is peculiar since such bubbles build naturally from the rational efficient markets paradigm that Fama strongly adheres to...

Environmental regulation in a network of simulated microbial ecosystems.

Science.gov (United States)

Williams, Hywel T P; Lenton, Timothy M

2008-07-29

The Earth possesses a number of regulatory feedback mechanisms involving life. In the absence of a population of competing biospheres, it has proved hard to find a robust evolutionary mechanism that would generate environmental regulation. It has been suggested that regulation must require altruistic environmental alterations by organisms and, therefore, would be evolutionarily unstable. This need not be the case if organisms alter the environment as a selectively neutral by-product of their metabolism, as in the majority of biogeochemical reactions, but a question then arises: Why should the combined by-product effects of the biota have a stabilizing, rather than destabilizing, influence on the environment? Under certain conditions, selection acting above the level of the individual can be an effective adaptive force. Here we present an evolutionary simulation model in which environmental regulation involving higher-level selection robustly emerges in a network of interconnected microbial ecosystems. Spatial structure creates conditions for a limited form of higher-level selection to act on the collective environment-altering properties of local communities. Local communities that improve their environmental conditions achieve larger populations and are better colonizers of available space, whereas local communities that degrade their environment shrink and become susceptible to invasion. The spread of environment-improving communities alters the global environment toward the optimal conditions for growth and tends to regulate against external perturbations. This work suggests a mechanism for environmental regulation that is consistent with evolutionary theory.

Past climate changes derived from isotope measurements in polar ice cores

International Nuclear Information System (INIS)

Beer, J.; Muscheler, R.; Wagner, G.; Kubik, P.K.

2002-01-01

Measurements of stable and radioactive isotopes in polar ice cores provide a wealth of information on the climate conditions of the past. Stable isotopes (δ 18 O, δD) reflect mainly the temperature, whereas δ 18 O of oxygen in air bubbles reveals predominantly the global ice volume and the biospheric activity. Cosmic ray produced radioisotopes (cosmogenic nuclides) such as 10 Be and 36 Cl record information on the solar variability and possibly also on the solar irradiance. If the flux of a cosmogenic nuclide into the ice is known the accumulation rate can be derived from the measured concentration. The comparison of 10 Be from ice with 14 C from tree rings allows deciding whether observed 14 C variations are caused by production or system effects. Finally, isotope measurements are very useful for establishing and improving time scales. The 10 Be/ 36 Cl ratio changes with an apparent half-life of 376,000 years and is therefore well suited to date old ice. Significant abrupt changes in the records of 10 Be, 36 Cl from ice and of δ 18 O from atmospheric oxygen representing global signals can be used to synchronize ice and sediment cores. (author)

Differential sensitivity of total and active soil microbial communities to drought and forest management.

Science.gov (United States)

Bastida, Felipe; Torres, Irene F; Andrés-Abellán, Manuela; Baldrian, Petr; López-Mondéjar, Rubén; Větrovský, Tomáš; Richnow, Hans H; Starke, Robert; Ondoño, Sara; García, Carlos; López-Serrano, Francisco R; Jehmlich, Nico

2017-10-01

Climate change will affect semiarid ecosystems through severe droughts that increase the competition for resources in plant and microbial communities. In these habitats, adaptations to climate change may consist of thinning-that reduces competition for resources through a decrease in tree density and the promotion of plant survival. We deciphered the functional and phylogenetic responses of the microbial community to 6 years of drought induced by rainfall exclusion and how forest management affects its resistance to drought, in a semiarid forest ecosystem dominated by Pinus halepensis Mill. A multiOMIC approach was applied to reveal novel, community-based strategies in the face of climate change. The diversity and the composition of the total and active soil microbiome were evaluated by 16S rRNA gene (bacteria) and ITS (fungal) sequencing, and by metaproteomics. The microbial biomass was analyzed by phospholipid fatty acids (PLFAs), and the microbially mediated ecosystem multifunctionality was studied by the integration of soil enzyme activities related to the cycles of C, N, and P. The microbial biomass and ecosystem multifunctionality decreased in drought-plots, as a consequence of the lower soil moisture and poorer plant development, but this decrease was more notable in unthinned plots. The structure and diversity of the total bacterial community was unaffected by drought at phylum and order level, but did so at genus level, and was influenced by seasonality. However, the total fungal community and the active microbial community were more sensitive to drought and were related to ecosystem multifunctionality. Thinning in plots without drought increased the active diversity while the total diversity was not affected. Thinning promoted the resistance of ecosystem multifunctionality to drought through changes in the active microbial community. The integration of total and active microbiome analyses avoids misinterpretations of the links between the soil microbial

Metabolic modeling of synthesis gas fermentation in bubble column reactors.

Science.gov (United States)

Chen, Jin; Gomez, Jose A; Höffner, Kai; Barton, Paul I; Henson, Michael A

2015-01-01

A promising route to renewable liquid fuels and chemicals is the fermentation of synthesis gas (syngas) streams to synthesize desired products such as ethanol and 2,3-butanediol. While commercial development of syngas fermentation technology is underway, an unmet need is the development of integrated metabolic and transport models for industrially relevant syngas bubble column reactors. We developed and evaluated a spatiotemporal metabolic model for bubble column reactors with the syngas fermenting bacterium Clostridium ljungdahlii as the microbial catalyst. Our modeling approach involved combining a genome-scale reconstruction of C. ljungdahlii metabolism with multiphase transport equations that govern convective and dispersive processes within the spatially varying column. The reactor model was spatially discretized to yield a large set of ordinary differential equations (ODEs) in time with embedded linear programs (LPs) and solved using the MATLAB based code DFBAlab. Simulations were performed to analyze the effects of important process and cellular parameters on key measures of reactor performance including ethanol titer, ethanol-to-acetate ratio, and CO and H2 conversions. Our computational study demonstrated that mathematical modeling provides a complementary tool to experimentation for understanding, predicting, and optimizing syngas fermentation reactors. These model predictions could guide future cellular and process engineering efforts aimed at alleviating bottlenecks to biochemical production in syngas bubble column reactors.

Bubbling away

International Nuclear Information System (INIS)

Anon.

1993-01-01

Bubble chambers may have almost vanished from the front line of physics research, but the vivid memory of their intricate and sometimes beautiful patterns of particle tracks lives on, and has greatly influenced the computer graphics of track reconstruction in today's big experiments. 'Seeing' an interaction makes it more understandable. Bubble chambers, with their big collaborations of physicists from many widely scattered research institutes, started another ball rolling. The groups formed are even now only surpassed in size by the big collaborations working on today's major detectors at colliding beam machines. From 14-16 July, about 130 physicists gathered at CERN to commemorate the 40th anniversary of the invention of the bubble chamber by Donald Glaser. The meeting, organized by Derek C. Colley from Birmingham, gave a comprehensive overview of bubble chamber contributions to physics, their challenging technology, and the usefulness of bubble chamber photographs in education, both for physics and the public at large. After opening remarks by CERN Director Carlo Rubbia, Donald Glaser began with a brief review of the work which led to his invention - there was much more to it than idly watching beer bubbles rise up the wall of the glass - before turning to his present line of research, biophysics, also very visually oriented

Key players and team play: anaerobic microbial communities in hydrocarbon-contaminated aquifers.

Science.gov (United States)

Kleinsteuber, Sabine; Schleinitz, Kathleen M; Vogt, Carsten

2012-05-01

Biodegradation of anthropogenic pollutants in shallow aquifers is an important microbial ecosystem service which is mainly brought about by indigenous anaerobic microorganisms. For the management of contaminated sites, risk assessment and control of natural attenuation, the assessment of in situ biodegradation and the underlying microbial processes is essential. The development of novel molecular methods, "omics" approaches, and high-throughput techniques has revealed new insight into complex microbial communities and their functions in anoxic environmental systems. This review summarizes recent advances in the application of molecular methods to study anaerobic microbial communities in contaminated terrestrial subsurface ecosystems. We focus on current approaches to analyze composition, dynamics, and functional diversity of subsurface communities, to link identity to activity and metabolic function, and to identify the ecophysiological role of not yet cultured microbes and syntrophic consortia. We discuss recent molecular surveys of contaminated sites from an ecological viewpoint regarding degrader ecotypes, abiotic factors shaping anaerobic communities, and biotic interactions underpinning the importance of microbial cooperation for microbial ecosystem services such as contaminant degradation.

Study of CO2 bubble dynamics in seawater from QICS field Experiment

Science.gov (United States)

Chen, B.; Dewar, M.; Sellami, N.; Stahl, H.; Blackford, J.

2013-12-01

One of the concerns of employing CCS at engineering scale is the risk of leakage of storage CO2 on the environment and especially on the marine life. QICS, a scientific research project was launched with an aim to study the effects of a potential leak from a CCS system on the UK marine environment [1]. The project involves the injection of CO2 from a shore-based lab into shallow marine sediments. One of the main objectives of the project is to generate experimental data to be compared with the developed physical models. The results of the models are vital for the biogeochemical and ecological models in order to predict the impact of a CO2 leak in a variety of situations. For the evaluation of the fate of the CO2 bubbles into the surrounding seawater, the physical model requires two key parameters to be used as input which are: (i) a correlation of the drag coefficient as function of the CO2 bubble Reynolds number and (ii) the CO2 bubble size distribution. By precisely measuring the CO2 bubble size and rising speed, these two parameters can be established. For this purpose, the dynamical characteristics of the rising CO2 bubbles in Scottish seawater were investigated experimentally within the QICS project. Observations of the CO2 bubbles plume rising freely in the in seawater column were captured by video survey using a ruler positioned at the leakage pockmark as dimension reference. This observation made it possible, for the first time, to discuss the dynamics of the CO2 bubbles released in seawater. [1] QICS, QICS: Quantifying and Monitoring Potential Ecosystem Impacts of Geological Carbon Storage. (Accessed 15.07.13), http://www.bgs.ac.uk/qics/home.html

Microorganisms Trapped Within Permafrost Ice In The Fox Permafrost Tunnel, Alaska

Science.gov (United States)

Katayama, T.; Tanaka, M.; Douglas, T. A.; Cai, Y.; Tomita, F.; Asano, K.; Fukuda, M.

2008-12-01

Several different types of massive ice are common in permafrost. Ice wedges are easily recognized by their shape and foliated structure. They grow syngenetically or epigenetically as a result of repeated cycles of frost cracking followed by the infiltration of snow, melt water, soil or other material into the open frost cracks. Material incorporated into ice wedges becomes frozen and preserved. Pool ice, another massive ice type, is formed by the freezing of water resting on top of frozen thermokarst sediment or melting wedges and is not foliated. The Fox Permafrost Tunnel in Fairbanks was excavated within the discontinuous permafrost zone of central Alaska and it contains permafrost, ice wedges, and pool ice preserved at roughly -3°C. We collected samples from five ice wedges and three pool ice structures in the Fox Permafrost Tunnel. If the microorganisms were incorporated into the ice during its formation, a community analysis of the microorganisms could elucidate the environment in which the ice was formed. Organic material from sediments in the tunnel was radiocarbon-dated between 14,000 and 30,000 years BP. However, it is still not clear when the ice wedges were formed or subsequently deformed because they are only partially exposed and their upper surfaces are above the tunnel walls. The objectives of our study were to determine the biogeochemical conditions during massive ice formation and to analyze the microbial community within the ices by incubation-based and DNA-based analyses. The geochemical profile and the PCR-DGGE band patterns of bacteria among five ice wedge and 3 portions of pool ice samples were markedly different. The DGGE band patterns of fungi were simple with a few bands of fungi or yeast. The dominant bands of ice wedge and pool ice samples were affiliated with the genus Geomyces and Doratomyces, respectively. Phylogenetic analysis using rRNA gene ITS regions indicated isolates of Geomyces spp. from different ice wedges were affiliated

Distinct responses of soil microbial communities to elevated CO2 and O3 in a soybean agro-ecosystem.

Science.gov (United States)

He, Zhili; Xiong, Jinbo; Kent, Angela D; Deng, Ye; Xue, Kai; Wang, Gejiao; Wu, Liyou; Van Nostrand, Joy D; Zhou, Jizhong

2014-03-01

The concentrations of atmospheric carbon dioxide (CO2) and tropospheric ozone (O3) have been rising due to human activities. However, little is known about how such increases influence soil microbial communities. We hypothesized that elevated CO2 (eCO2) and elevated O3 (eO3) would significantly affect the functional composition, structure and metabolic potential of soil microbial communities, and that various functional groups would respond to such atmospheric changes differentially. To test these hypotheses, we analyzed 96 soil samples from a soybean free-air CO2 enrichment (SoyFACE) experimental site using a comprehensive functional gene microarray (GeoChip 3.0). The results showed the overall functional composition and structure of soil microbial communities shifted under eCO2, eO3 or eCO2+eO3. Key functional genes involved in carbon fixation and degradation, nitrogen fixation, denitrification and methane metabolism were stimulated under eCO2, whereas those involved in N fixation, denitrification and N mineralization were suppressed under eO3, resulting in the fact that the abundance of some eO3-supressed genes was promoted to ambient, or eCO2-induced levels by the interaction of eCO2+eO3. Such effects appeared distinct for each treatment and significantly correlated with soil properties and soybean yield. Overall, our analysis suggests possible mechanisms of microbial responses to global atmospheric change factors through the stimulation of C and N cycling by eCO2, the inhibition of N functional processes by eO3 and the interaction by eCO2 and eO3. This study provides new insights into our understanding of microbial functional processes in response to global atmospheric change in soybean agro-ecosystems.

Mapping Arctic Bottomfast Sea Ice Using SAR Interferometry

Directory of Open Access Journals (Sweden)

Dyre O. Dammann

2018-05-01

Full Text Available Bottomfast sea ice is an integral part of many near-coastal Arctic ecosystems with implications for subsea permafrost, coastal stability and morphology. Bottomfast sea ice is also of great relevance to over-ice travel by coastal communities, industrial ice roads, and marine habitats. There are currently large uncertainties around where and how much bottomfast ice is present in the Arctic due to the lack of effective approaches for detecting bottomfast sea ice on large spatial scales. Here, we suggest a robust method capable of detecting bottomfast sea ice using spaceborne synthetic aperture radar interferometry. This approach is used to discriminate between slowly deforming floating ice and completely stationary bottomfast ice based on the interferometric phase. We validate the approach over freshwater ice in the Mackenzie Delta, Canada, and over sea ice in the Colville Delta and Elson Lagoon, Alaska. For these areas, bottomfast ice, as interpreted from the interferometric phase, shows high correlation with local bathymetry and in-situ ice auger and ground penetrating radar measurements. The technique is further used to track the seasonal evolution of bottomfast ice in the Kasegaluk Lagoon, Alaska, by identifying freeze-up progression and areas of liquid water throughout winter.

Molecular characterization of dissolved organic matter associated with the Greenland ice sheet

Science.gov (United States)

Bhatia, Maya P.; Das, Sarah B.; Longnecker, Krista; Charette, Matthew A.; Kujawinski, Elizabeth B.

2010-07-01

Subsurface microbial oxidation of overridden soils and vegetation beneath glaciers and ice sheets may affect global carbon budgets on glacial-interglacial timescales. The likelihood and magnitude of this process depends on the chemical nature and reactivity of the subglacial organic carbon stores. We examined the composition of carbon pools associated with different regions of the Greenland ice sheet (subglacial, supraglacial, proglacial) in order to elucidate the type of dissolved organic matter (DOM) present in the subglacial discharge over a melt season. Electrospray ionization (ESI) Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometry coupled to multivariate statistics permitted unprecedented molecular level characterization of this material and revealed that carbon pools associated with discrete glacial regions are comprised of different compound classes. Specifically, a larger proportion of protein-like compounds were observed in the supraglacial samples and in the early melt season (spring) subglacial discharge. In contrast, the late melt season (summer) subglacial discharge contained a greater fraction of lignin-like and other material presumably derived from underlying vegetation and soil. These results suggest (1) that the majority of supraglacial DOM originates from autochthonous microbial processes on the ice sheet surface, (2) that the subglacial DOM contains allochthonous carbon derived from overridden soils and vegetation as well as autochthonous carbon derived from in situ microbial metabolism, and (3) that the relative contribution of allochthonous and autochthonous material in subglacial discharge varies during the melt season. These conclusions are consistent with the hypothesis that, given sufficient time (e.g., overwinter storage), resident subglacial microbial communities may oxidize terrestrial material beneath the Greenland ice sheet.

Multitrophic microbial interactions for eco- and agro-biotechnological processes: theory and practice.

Science.gov (United States)

Saleem, Muhammad; Moe, Luke A

2014-10-01

Multitrophic level microbial loop interactions mediated by protist predators, bacteria, and viruses drive eco- and agro-biotechnological processes such as bioremediation, wastewater treatment, plant growth promotion, and ecosystem functioning. To what extent these microbial interactions are context-dependent in performing biotechnological and ecosystem processes remains largely unstudied. Theory-driven research may advance the understanding of eco-evolutionary processes underlying the patterns and functioning of microbial interactions for successful development of microbe-based biotechnologies for real world applications. This could also be a great avenue to test the validity or limitations of ecology theory for managing diverse microbial resources in an era of altering microbial niches, multitrophic interactions, and microbial diversity loss caused by climate and land use changes. Copyright © 2014 Elsevier Ltd. All rights reserved.

Under-Ice Phytoplankton Blooms Inhibited by Spring Convective Mixing in Refreezing Leads

Science.gov (United States)

Lowry, Kate E.; Pickart, Robert S.; Selz, Virginia; Mills, Matthew M.; Pacini, Astrid; Lewis, Kate M.; Joy-Warren, Hannah L.; Nobre, Carolina; van Dijken, Gert L.; Grondin, Pierre-Luc; Ferland, Joannie; Arrigo, Kevin R.

2018-01-01

Spring phytoplankton growth in polar marine ecosystems is limited by light availability beneath ice-covered waters, particularly early in the season prior to snowmelt and melt pond formation. Leads of open water increase light transmission to the ice-covered ocean and are sites of air-sea exchange. We explore the role of leads in controlling phytoplankton bloom dynamics within the sea ice zone of the Arctic Ocean. Data are presented from spring measurements in the Chukchi Sea during the Study of Under-ice Blooms In the Chukchi Ecosystem (SUBICE) program in May and June 2014. We observed that fully consolidated sea ice supported modest under-ice blooms, while waters beneath sea ice with leads had significantly lower phytoplankton biomass, despite high nutrient availability. Through an analysis of hydrographic and biological properties, we attribute this counterintuitive finding to springtime convective mixing in refreezing leads of open water. Our results demonstrate that waters beneath loosely consolidated sea ice (84-95% ice concentration) had weak stratification and were frequently mixed below the critical depth (the depth at which depth-integrated production balances depth-integrated respiration). These findings are supported by theoretical model calculations of under-ice light, primary production, and critical depth at varied lead fractions. The model demonstrates that under-ice blooms can form even beneath snow-covered sea ice in the absence of mixing but not in more deeply mixed waters beneath sea ice with refreezing leads. Future estimates of primary production should account for these phytoplankton dynamics in ice-covered waters.

Proceedings of the 8. International Symposium on Microbial Ecology : microbial biosystems : new frontiers

International Nuclear Information System (INIS)

Bell, C.R.; Brylinsky, M.; Johnson-Green, P.

2000-01-01

A wide range of disciplines were presented at this conference which reflected the importance of microbial ecology and provided an understanding of the factors that determine the growth and activities of microorganisms. The conference attracted 1444 delegates from 54 countries. The research emerging from the rapidly expanding frontier of microbial ecosystems was presented in 62 oral presentation and 817 poster presentations. The two volumes of these proceedings presented a total of 27 areas in microbial ecology, some of which included terrestrial biosystems, aquatic, estuarine, surface and subsurface microbial ecology. Other topics included bioremediation, microbial ecology in industry and microbial ecology of oil fields. Some of the papers highlighted the research that is underway to determine the feasibility of using microorganisms for enhanced oil recovery (EOR). Research has shown that microbial EOR can increase production at lower costs than conventional oil recovery. The use of bacteria has also proven to be a feasible treatment method in the biodegradation of hydrocarbons associated with oil spills. refs., tabs., figs

Tropical forest carbon balance in a warmer world: a critical review spanning microbial- to ecosystem-scale processes

Science.gov (United States)

Wood, Tana E.; Cavaleri, Molly A.; Reed, Sasha C.

2012-01-01

Tropical forests play a major role in regulating global carbon (C) fluxes and stocks, and even small changes to C cycling in this productive biome could dramatically affect atmospheric carbon dioxide (CO2) concentrations. Temperature is expected to increase over all land surfaces in the future, yet we have a surprisingly poor understanding of how tropical forests will respond to this significant climatic change. Here we present a contemporary synthesis of the existing data and what they suggest about how tropical forests will respond to increasing temperatures. Our goals were to: (i) determine whether there is enough evidence to support the conclusion that increased temperature will affect tropical forest C balance; (ii) if there is sufficient evidence, determine what direction this effect will take; and, (iii) establish what steps should to be taken to resolve the uncertainties surrounding tropical forest responses to increasing temperatures. We approach these questions from a mass-balance perspective and therefore focus primarily on the effects of temperature on inputs and outputs of C, spanning microbial- to ecosystem-scale responses. We found that, while there is the strong potential for temperature to affect processes related to C cycling and storage in tropical forests, a notable lack of data combined with the physical, biological and chemical diversity of the forests themselves make it difficult to resolve this issue with certainty. We suggest a variety of experimental approaches that could help elucidate how tropical forests will respond to warming, including large-scale in situ manipulation experiments, longer term field experiments, the incorporation of a range of scales in the investigation of warming effects (both spatial and temporal), as well as the inclusion of a diversity of tropical forest sites. Finally, we highlight areas of tropical forest research where notably few data are available, including temperature effects on: nutrient cycling

In Situ Field Sequencing and Life Detection in Remote (79°26′N Canadian High Arctic Permafrost Ice Wedge Microbial Communities

Directory of Open Access Journals (Sweden)

J. Goordial

2017-12-01

Full Text Available Significant progress is being made in the development of the next generation of low cost life detection instrumentation with much smaller size, mass and energy requirements. Here, we describe in situ life detection and sequencing in the field in soils over laying ice wedges in polygonal permafrost terrain on Axel Heiberg Island, located in the Canadian high Arctic (79°26′N, an analog to the polygonal permafrost terrain observed on Mars. The life detection methods used here include (1 the cryo-iPlate for culturing microorganisms using diffusion of in situ nutrients into semi-solid media (2 a Microbial Activity Microassay (MAM plate (BIOLOG Ecoplate for detecting viable extant microorganisms through a colourimetric assay, and (3 the Oxford Nanopore MinION for nucleic acid detection and sequencing of environmental samples and the products of MAM plate and cryo-iPlate. We obtained 39 microbial isolates using the cryo-iPlate, which included several putatively novel strains based on the 16S rRNA gene, including a Pedobacter sp. (96% closest similarity in GenBank which we partially genome sequenced using the MinION. The MAM plate successfully identified an active community capable of L-serine metabolism, which was used for metagenomic sequencing with the MinION to identify the active and enriched community. A metagenome on environmental ice wedge soil samples was completed, with base calling and uplink/downlink carried out via satellite internet. Validation of MinION sequencing using the Illumina MiSeq platform was consistent with the results obtained with the MinION. The instrumentation and technology utilized here is pre-existing, low cost, low mass, low volume, and offers the prospect of equipping micro-rovers and micro-penetrators with aggressive astrobiological capabilities. Since potentially habitable astrobiology targets have been identified (RSLs on Mars, near subsurface water ice on Mars, the plumes and oceans of Europa and Enceladus

Astrobiology of Comets

Science.gov (United States)

Hoover, Richard B.; Wickramasinghe, Nalin C.; Wallis, Max K.; Sheldon, Robert B.

2004-01-01

We review the current state of knowledge concerning microbial extremophiles and comets and the potential significance of comets to Astrobiology. We model the thermal history of a cometary body, regarded as an assemblage of boulders, dust, ices and organics, as it approaches a perihelion distance of - IAU. The transfer of incident energy from sunlight into the interior leads to the melting of near surface ices, some under stable porous crust, providing possible habitats for a wide range of microorganisms. We provide data concerning new evidence for indigenous microfossils in CI meteorites, which may be the remains of extinct cometary cores. We discuss the dominant microbial communities of polar sea-ice, Antarctic ice sheet, and cryoconite environments as possible analogs for microbial ecosystems that may grow in sub-crustal pools or in ice/water films in comets.

Dormancy contributes to the maintenance of microbial diversity.

Science.gov (United States)

Jones, Stuart E; Lennon, Jay T

2010-03-30

Dormancy is a bet-hedging strategy used by a variety of organisms to overcome unfavorable environmental conditions. By entering a reversible state of low metabolic activity, dormant individuals become members of a seed bank, which can determine community dynamics in future generations. Although microbiologists have documented dormancy in both clinical and natural settings, the importance of seed banks for the diversity and functioning of microbial communities remains untested. Here, we develop a theoretical model demonstrating that microbial communities are structured by environmental cues that trigger dormancy. A molecular survey of lake ecosystems revealed that dormancy plays a more important role in shaping bacterial communities than eukaryotic microbial communities. The proportion of dormant bacteria was relatively low in productive ecosystems but accounted for up to 40% of taxon richness in nutrient-poor systems. Our simulations and empirical data suggest that regional environmental cues and dormancy synchronize the composition of active communities across the landscape while decoupling active microbes from the total community at local scales. Furthermore, we observed that rare bacterial taxa were disproportionately active relative to common bacterial taxa, suggesting that microbial rank-abundance curves are more dynamic than previously considered. We propose that repeated transitions to and from the seed bank may help maintain the high levels of microbial biodiversity that are observed in nearly all ecosystems.

Magnetic-bubble devices

International Nuclear Information System (INIS)

Fairholme, R.J.

1978-01-01

Magnetic bubbles were first described only ten years ago when research workers were discussing orthoferrites containing μm diameter bubbles. However, problems of material fabrication limit crystals to a few mm across which severely curtailed device development. Since then materials have changed and rare-earth-iron garnet films can be grown up 3 inches in diameter with bubble diameters down to sizes below 1 μm. The first commercial products have device capacities in the range 64 000 to 100 000 bits with bubble diameters between 4 and 6 μm. Chip capacities of 1 Mbit are presently under development in the laboratory, as are new techniques to use submicrometre bubbles. The operation and fabrication of a bubble device is described using the serial loop devices currently being manufactured at Plessey as models. Chip organization is one important variable which directly affects the access time. A range of access times and capacities is available which offers a wide range of market opportunities, ranging from consumer products to fixed head disc replacements. some of the application areas are described. (author)

Nonlinear Bubble Dynamics And The Effects On Propagation Through Near-Surface Bubble Layers

Science.gov (United States)

Leighton, Timothy G.

2004-11-01

Nonlinear bubble dynamics are often viewed as the unfortunate consequence of having to use high acoustic pressure amplitudes when the void fraction in the near-surface oceanic bubble layer is great enough to cause severe attenuation (e.g. >50 dB/m). This is seen as unfortunate since existing models for acoustic propagation in bubbly liquids are based on linear bubble dynamics. However, the development of nonlinear models does more than just allow quantification of the errors associated with the use of linear models. It also offers the possibility of propagation modeling and acoustic inversions which appropriately incorporate the bubble nonlinearity. Furthermore, it allows exploration and quantification of possible nonlinear effects which may be exploited. As a result, high acoustic pressure amplitudes may be desirable even in low void fractions, because they offer opportunities to gain information about the bubble cloud from the nonlinearities, and options to exploit the nonlinearities to enhance communication and sonar in bubbly waters. This paper presents a method for calculating the nonlinear acoustic cross-sections, scatter, attenuations and sound speeds from bubble clouds which may be inhomogeneous. The method allows prediction of the time dependency of these quantities, both because the cloud may vary and because the incident acoustic pulse may have finite and arbitrary time history. The method can be readily adapted for bubbles in other environments (e.g. clouds of interacting bubbles, sediments, structures, in vivo, reverberant conditions etc.). The possible exploitation of bubble acoustics by marine mammals, and for sonar enhancement, is explored.

High contributions of sea ice derived carbon in polar bear (Ursus maritimus) tissue.

Science.gov (United States)

Brown, Thomas A; Galicia, Melissa P; Thiemann, Gregory W; Belt, Simon T; Yurkowski, David J; Dyck, Markus G

2018-01-01

Polar bears (Ursus maritimus) rely upon Arctic sea ice as a physical habitat. Consequently, conservation assessments of polar bears identify the ongoing reduction in sea ice to represent a significant threat to their survival. However, the additional role of sea ice as a potential, indirect, source of energy to bears has been overlooked. Here we used the highly branched isoprenoid lipid biomarker-based index (H-Print) approach in combination with quantitative fatty acid signature analysis to show that sympagic (sea ice-associated), rather than pelagic, carbon contributions dominated the marine component of polar bear diet (72-100%; 99% CI, n = 55), irrespective of differences in diet composition. The lowest mean estimates of sympagic carbon were found in Baffin Bay bears, which were also exposed to the most rapidly increasing open water season. Therefore, our data illustrate that for future Arctic ecosystems that are likely to be characterised by reduced sea ice cover, polar bears will not only be impacted by a change in their physical habitat, but also potentially in the supply of energy to the ecosystems upon which they depend. This data represents the first quantifiable baseline that is critical for the assessment of likely ongoing changes in energy supply to Arctic predators as we move into an increasingly uncertain future for polar ecosystems.

Prospects for bubble fusion

Energy Technology Data Exchange (ETDEWEB)

Nigmatulin, R.I. [Tyumen Institute of Mechanics of Multiphase Systems (TIMMS), Marx (Russian Federation); Lahey, R.T. Jr. [Rensselaer Polytechnic Institute, Troy, NY (United States)

1995-09-01

In this paper a new method for the realization of fusion energy is presented. This method is based on the superhigh compression of a gas bubble (deuterium or deuterium/thritium) in heavy water or another liquid. The superhigh compression of a gas bubble in a liquid is achieved through forced non-linear, non-periodic resonance oscillations using moderate amplitudes of forcing pressure. The key feature of this new method is a coordination of the forced liquid pressure change with the change of bubble volume. The corresponding regime of the bubble oscillation has been called {open_quotes}basketball dribbling (BD) regime{close_quotes}. The analytical solution describing this process for spherically symmetric bubble oscillations, neglecting dissipation and compressibility of the liquid, has been obtained. This solution shown no limitation on the supercompression of the bubble and the corresponding maximum temperature. The various dissipation mechanisms, including viscous, conductive and radiation heat losses have been considered. It is shown that in spite of these losses it is possible to achieve very high gas bubble temperatures. This because the time duration of the gas bubble supercompression becomes very short when increasing the intensity of compression, thus limiting the energy losses. Significantly, the calculated maximum gas temperatures have shown that nuclear fusion may be possible. First estimations of the affect of liquid compressibility have been made to determine possible limitations on gas bubble compression. The next step will be to investigate the role of interfacial instability and breaking down of the bubble, shock wave phenomena around and in the bubble and mutual diffusion of the gas and the liquid.

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

Bubble parameters analysis of gas-liquid two-phase sparse bubbly flow based on image method

International Nuclear Information System (INIS)

Zhou Yunlong; Zhou Hongjuan; Song Lianzhuang; Liu Qian

2012-01-01

The sparse rising bubbles of gas-liquid two-phase flow in vertical pipe were measured and studied based on image method. The bubble images were acquired by high-speed video camera systems, the characteristic parameters of bubbles were extracted by using image processing techniques. Then velocity variation of rising bubbles were drawn. Area and centroid variation of single bubble were also drawn. And then parameters and movement law of bubbles were analyzed and studied. The test results showed that parameters of bubbles had been analyzed well by using image method. (authors)

Letter: Entrapment and interaction of an air bubble with an oscillating cavitation bubble

Science.gov (United States)

Kannan, Y. S.; Karri, Badarinath; Sahu, Kirti Chandra

2018-04-01

The mechanism of the formation of an air bubble due to an oscillating cavitation bubble in its vicinity is reported from an experimental study using high-speed imaging. The cavitation bubble is created close to the free surface of water using a low-voltage spark circuit comprising two copper electrodes in contact with each other. Before the bubble is created, a third copper wire is positioned in contact with the free surface of water close to the two crossing electrodes. Due to the surface tension at the triple point (wire-water-air) interface, a small dip is observed in the free surface at the point where the wire is immersed. When the cavitation bubble is created, the bubble pushes at the dip while expanding and pulls at it while collapsing. The collapse phase leads to the entrapment of an air bubble at the wire immersion point. During this phase, the air bubble undergoes a "catapult" effect, i.e., it expands to a maximum size and then collapses with a microjet at the free surface. To the best of our knowledge, this mechanism has not been reported so far. A parametric study is also conducted to understand the effects of wire orientation and bubble distance from the free surface.

In search of in-situ radiocarbon in Law Dome ice and firn

CERN Document Server

Smith, A M; Etheridge, D M; Lowe, D C; Hua, Q; Trudinger, C M; Zoppi, U; El-Cheikh, A

2000-01-01

Results of AMS radiocarbon measurements on CO and CO sub 2 separated from firn air directly pumped from the ice sheet, and on CO sub 2 separated from air extracted from ice cores by a dry grating technique, are presented. The firn air samples and ice cores used in this study were collected from the region of Law Dome, Antarctica. No evidence of in-situ sup 1 sup 4 CO sub 2 was found in the firn air samples or the ice core air samples from one site although a slight enhancement of sup 1 sup 4 CO above expected polar atmospheric concentrations was observed for some firn air samples. A clear in-situ sup 1 sup 4 CO sub 2 signal for ice pre-dating the radiocarbon bomb pulse was found, however, in air samples extracted from an ice core from a second site. We compare these results and propose an hypothesis to explain this apparent contradiction. The degree to which in-situ sup 1 sup 4 C is released from the ice crystals during trapping and bubble formation is considered and discussed. The selectivity of the dry grat...

Spring fasting behavior in a marine apex predator provides an index of ecosystem productivity

Science.gov (United States)

Rode, Karyn D.; Wilson, Ryan R.; Douglas, David C.; Muhlenbruch, Vanessa L; Atwood, Todd C.; Regehr, Eric V.; Richardson, Evan; Pilfold, Nicholas; Derocher, Andrew E.; Durner, George M.; Stirling, Ian; Amstrup, Steven C.; St Martin, Michelle; Pagano, Anthony M.; Simac, Kristin

2018-01-01

The effects of declining Arctic sea ice on local ecosystem productivity are not well understood but have been shown to vary inter-specifically, spatially, and temporally. Because marine mammals occupy upper trophic levels in Arctic food webs, they may be useful indicators for understanding variation in ecosystem productivity. Polar bears (Ursus maritimus) are apex predators that primarily consume benthic and pelagic-feeding ice-associated seals. As such, their productivity integrates sea ice conditions and the ecosystem supporting them. Declining sea ice availability has been linked to negative population effects for polar bears but does not fully explain observed population changes. We examined relationships between spring foraging success of polar bears and sea ice conditions, prey productivity, and general patterns of ecosystem productivity in the Beaufort and Chukchi Seas (CSs). Fasting status (≥7 days) was estimated using serum urea and creatinine levels of 1,448 samples collected from 1,177 adult and subadult bears across three subpopulations. Fasting increased in the Beaufort Sea between 1983–1999 and 2000–2016 and was related to an index of ringed seal body condition. This change was concurrent with declines in body condition of polar bears and observed changes in the diet, condition and/or reproduction of four other vertebrate consumers within the food chain. In contrast, fasting declined in CS polar bears between periods and was less common than in the two Beaufort Sea subpopulations consistent with studies demonstrating higher primary productivity and maintenance or improved body condition in polar bears, ringed seals, and bearded seals despite recent sea ice loss in this region. Consistency between regional and temporal variation in spring polar bear fasting and food web productivity suggests that polar bears may be a useful indicator species. Furthermore, our results suggest that spatial and temporal ecological variation is important in

Impact of bubble wakes on a developing bubble flow in a vertical pipe

International Nuclear Information System (INIS)

Tomiyama, A.; Makino, Y.; Miyoshi, K.; Tamai, H.; Serizawa, A.; Zun, I.

1998-01-01

Three-dimensional two-way bubble tracking simulation of single large air bubbles rising through a stagnant water filled in a vertical pipe was conducted to investigate the structures of bubble wakes. Spatial distributions of time-averaged liquid velocity field, turbulent intensity and Reynolds stress caused by bubble wakes were deduced from the calculated local instantaneous liquid velocities. It was confirmed that wake structures are completely different from the ones estimated by a conventional wake model. Then, we developed a simple wake model based on the predicted time-averaged wake velocity fields, and implemented it into a 3D one-way bubble tracking method to examine the impact of bubble wake structures on time-spatial evolution of a developing air-water bubble flow in a vertical pipe. As a results, we confirmed that the developed wake model can give better prediction for flow pattern evolution than a conventional wake model

Pathogen self defense: mechanisms to counteract microbial antagonism

NARCIS (Netherlands)

Duffy, B.K.; Schouten, A.; Raaijmakers, J.M.

2003-01-01

Natural and agricultural ecosystems harbor a wide variety of microorganisms that play an integral role in plant health, crop productivity, and preservation of multiple ecosystem functions. Interactions within and among microbial communities are numerous and range from synergistic and mutualistic to

Effects of different types of moderate severity disturbance on forest structural complexity and ecosystem functioning: A story of ice and fire

Science.gov (United States)

Fahey, R. T.; Atkins, J.; Gough, C. M.; Hardiman, B. S.; Haber, L.; Stuart-Haentjens, E.; David, O.; Campbell, J. L.; Rustad, L.; Duffy, M.

2017-12-01

Disturbances that alter the structure and function of forest ecosystems occur along a continuum of severity. In contrast to the extremes of the disturbance gradient (i.e., stand-replacing disturbance and small gap formation), moderate severity disturbances are poorly understood, even though they make up the majority of the gradient and their spatial extent (and likely overall importance to regional disturbance regimes) often exceeds that of more severe disturbances. Moderate severity disturbances originate from a variety of causes, such as fires, ice storms, or pest and pathogen outbreaks, and each of these could reshape structure and function in different ways. Observational data from a limited number of sites shows that moderate disturbance can increase ecosystem complexity, but the generality of this effect has not been tested across a broad range of disturbance types and severities. Here, we utilize data from a set of five case studies of experimental or natural moderate disturbance to assess the effects of different types and severities of disturbance on forest canopy structural complexity (CSC) and the relationship of canopy structure with ecosystem functioning. Using pre- and post-disturbance measures of CSC derived from aerial and terrestrial LiDAR, UAV imagery, and Landsat data we quantified changes in CSC following an experimental ice storm, a low-severity surface fire, Beech Bark Disease and Hemlock Wooly Adelgid outbreaks, and experimental accelerated succession. Our initial findings indicate that different disturbance types have highly variable effects on CSC, and also that progressive increases in disturbance severity alter CSC differently among disturbance types. Differential effects of variable disturbance types on CSC has implications for the carbon cycle, as forest structure is strongly linked with both growth-limiting resource (e.g., nutrients and light) acquisition and net primary productivity. Understanding how different types and severities of

A three field two fluid CFD model for the bubbly-cap bubble regime

International Nuclear Information System (INIS)

Martin Lopez de Bertodano; Xiaodong Sun; Mamoru Ishii; Asim Ulke

2005-01-01

Full text of publication follows: The lateral phase distribution of a two phase duct flow in the cap bubble regime is analyzed with a three dimensional three field two-fluid CFD model based on the turbulent k-ε model for bubbly flows developed by Lopez de Bertodano et. al. [2]. The turbulent diffusion of the bubbles is the dominant phase distribution mechanism. A new analytic result is presented to support the development of the model for the bubble induced turbulent diffusion force. New experimental data obtained with a state-of-the-art four sensor miniature conductivity probe are used to validate the two-fluid model. The focus of this work is modeling the transport of the dispersed phase. Previous work (e.g., Lopez de Bertodano et. al.) was focused on the interfacial forces of drag, lift and virtual mass. However, the dispersion of the bubbles by the turbulent eddies of the continuous phase must be considered too. The rigorous formulation of a model for the turbulent dispersion of the bubbles results in a turbulent diffusion force which is obtained from a probability distribution function average (i.e., Boltzmann averaging) of the dispersed phase momentum equation. This force was recently applied to a turbulent bubbly jet with small bubbles (i.e., 1 mm diameter) without adjusting any coefficient. However, the application of this force to industrial conditions (i.e., larger bubbles) requires specific two-phase flow experimental data to calibrate the model due to the uncertainties of the flow around large bubbles. In particular the void distribution and the interfacial area concentration are measured in a mixture of big and small bubbles. The state-of-the-art miniaturized four-sensor conductivity probe developed by Kim et al. [3] is used to obtain the interfacial area concentration in complex two-phase flow situations. This probe can discriminate between small and large bubbles so it offers an opportunity to perform further developments of the multidimensional two

Ecosystem variability in the offshore northeastern Chukchi Sea

Science.gov (United States)

Blanchard, Arny L.; Day, Robert H.; Gall, Adrian E.; Aerts, Lisanne A. M.; Delarue, Julien; Dobbins, Elizabeth L.; Hopcroft, Russell R.; Questel, Jennifer M.; Weingartner, Thomas J.; Wisdom, Sheyna S.

2017-12-01

Understanding influences of cumulative effects from multiple stressors in marine ecosystems requires an understanding of the sources for and scales of variability. A multidisciplinary ecosystem study in the offshore northeastern Chukchi Sea during 2008-2013 investigated the variability of the study area's two adjacent sub-ecosystems: a pelagic system influenced by interannual and/or seasonal temporal variation at large, oceanographic (regional) scales, and a benthic-associated system more influenced by small-scale spatial variations. Variability in zooplankton communities reflected interannual oceanographic differences in waters advected northward from the Bering Sea, whereas variation in benthic communities was associated with seafloor and bottom-water characteristics. Variations in the planktivorous seabird community were correlated with prey distributions, whereas interaction effects in ANOVA for walruses were related to declines of sea-ice. Long-term shifts in seabird distributions were also related to changes in sea-ice distributions that led to more open water. Although characteristics of the lower trophic-level animals within sub-ecosystems result from oceanographic variations and interactions with seafloor topography, distributions of apex predators were related to sea-ice as a feeding platform (walruses) or to its absence (i.e., open water) for feeding (seabirds). The stability of prey resources appears to be a key factor in mediating predator interactions with other ocean characteristics. Seabirds reliant on highly-variable zooplankton prey show long-term changes as open water increases, whereas walruses taking benthic prey in biomass hotspots respond to sea-ice changes in the short-term. A better understanding of how variability scales up from prey to predators and how prey resource stability (including how critical prey respond to environmental changes over space and time) might be altered by climate and anthropogenic stressors is essential to

Linking the development and functioning of a carnivorous pitcher plant's microbial digestive community.

Science.gov (United States)

Armitage, David W

2017-11-01

Ecosystem development theory predicts that successional turnover in community composition can influence ecosystem functioning. However, tests of this theory in natural systems are made difficult by a lack of replicable and tractable model systems. Using the microbial digestive associates of a carnivorous pitcher plant, I tested hypotheses linking host age-driven microbial community development to host functioning. Monitoring the yearlong development of independent microbial digestive communities in two pitcher plant populations revealed a number of trends in community succession matching theoretical predictions. These included mid-successional peaks in bacterial diversity and metabolic substrate use, predictable and parallel successional trajectories among microbial communities, and convergence giving way to divergence in community composition and carbon substrate use. Bacterial composition, biomass, and diversity positively influenced the rate of prey decomposition, which was in turn positively associated with a host leaf's nitrogen uptake efficiency. Overall digestive performance was greatest during late summer. These results highlight links between community succession and ecosystem functioning and extend succession theory to host-associated microbial communities.

Representing Microbial Dormancy in Soil Decomposition Models Improves Model Performance and Reveals Key Ecosystem Controls on Microbial Activity

Science.gov (United States)

He, Y.; Yang, J.; Zhuang, Q.; Wang, G.; Liu, Y.

2014-12-01

Climate feedbacks from soils can result from environmental change and subsequent responses of plant and microbial communities and nutrient cycling. Explicit consideration of microbial life history traits and strategy may be necessary to predict climate feedbacks due to microbial physiology and community changes and their associated effect on carbon cycling. In this study, we developed an explicit microbial-enzyme decomposition model and examined model performance with and without representation of dormancy at six temperate forest sites with observed soil efflux ranged from 4 to 10 years across different forest types. We then extrapolated the model to all temperate forests in the Northern Hemisphere (25-50°N) to investigate spatial controls on microbial and soil C dynamics. Both models captured the observed soil heterotrophic respiration (RH), yet no-dormancy model consistently exhibited large seasonal amplitude and overestimation in microbial biomass. Spatially, the total RH from temperate forests based on dormancy model amounts to 6.88PgC/yr, and 7.99PgC/yr based on no-dormancy model. However, no-dormancy model notably overestimated the ratio of microbial biomass to SOC. Spatial correlation analysis revealed key controls of soil C:N ratio on the active proportion of microbial biomass, whereas local dormancy is primarily controlled by soil moisture and temperature, indicating scale-dependent environmental and biotic controls on microbial and SOC dynamics. These developments should provide essential support to modeling future soil carbon dynamics and enhance the avenue for collaboration between empirical soil experiment and modeling in the sense that more microbial physiological measurements are needed to better constrain and evaluate the models.

Bubble bath soap poisoning

Science.gov (United States)

... medlineplus.gov/ency/article/002762.htm Bubble bath soap poisoning To use the sharing features on this page, please enable JavaScript. Bubble bath soap poisoning occurs when someone swallows bubble bath soap. ...

A Quantitative Proxy for Sea-Ice Based on Diatoms: A Cautionary Tale.

Science.gov (United States)

Nesterovich, A.; Caissie, B.

2016-12-01

Sea ice in the Polar Regions supports unique and productive ecosystems, but the current decline in the Arctic sea ice extent prompts questions about previous sea ice declines and the response of ice related ecosystems. Since satellite data only extend back to 1978, the study of sea ice before this time requires a proxy. Being one of the most productive, diatom-dominated regions in the world and having a wide range of sea ice concentrations, the Bering and Chukchi seas are a perfect place to find a relationship between the presence of sea ice and diatom community composition. The aim of this work is to develop a diatom-based proxy for the sea ice extent. A total of 473 species have been identified in 104 sediment samples, most of which were collected on board the US Coast Guard Cutter Healy ice breaker (2006, 2007) and the Norseman II (2008). The study also included some of the archived diatom smear slides made from sediments collected in 1969. The assemblages were compared to satellite-derived sea ice extent data averaged over the 10 years preceding the sampling. Previous studies in the Arctic and Antarctic regions demonstrated that the Generalized Additive Model (GAM) is one of the best choices for proxy construction. It has the advantage of using only several species instead of the whole assemblage, thus including only sea ice-associated species and minimizing the noise created by species responding to other environmental factors. Our GAM on three species (Connia compita, Fragilariopsis reginae-jahniae, and Neodenticula seminae) has low standard deviation, high level of explained variation, and holds under the ten-fold cross-validation; the standard residual analysis is acceptable. However, a spatial residual analysis revealed that the model consistently over predicts in the Chukchi Sea and under predicts in the Bering Sea. Including a spatial model into the GAM didn't improve the situation. This has led us to test other methods, including a non-parametric model

Impact of ice particle shape on short-wave radiative forcing: A case study for an arctic ice cloud

International Nuclear Information System (INIS)

Kahnert, Michael; Sandvik, Anne Dagrun; Biryulina, Marina; Stamnes, Jakob J.; Stamnes, Knut

2008-01-01

We used four different non-spherical particle models to compute optical properties of an arctic ice cloud and to simulate corresponding cloud radiative forcings and fluxes. One important finding is that differences in cloud forcing, downward flux at the surface, and absorbed flux in the atmosphere resulting from the use of the four different ice cloud particle models are comparable to differences in these quantities resulting from changing the surface albedo from 0.4 to 0.8, or by varying the ice water content (IWC) by a factor of 2. These findings show that the use of a suitable non-spherical ice cloud particle model is very important for a realistic assessment of the radiative impact of arctic ice clouds. The differences in radiative broadband fluxes predicted by the four different particle models were found to be caused mainly by differences in the optical depth and the asymmetry parameter. These two parameters were found to have nearly the same impact on the predicted cloud forcing. Computations were performed first by assuming a given vertical profile of the particle number density, then by assuming a given profile of the IWC. In both cases, the differences between the cloud radiative forcings computed with the four different non-spherical particle models were found to be of comparable magnitude. This finding shows that precise knowledge of ice particle number density or particle mass is not sufficient for accurate prediction of ice cloud radiative forcing. It is equally important to employ a non-spherical shape model that accurately reproduces the ice particle's dimension-to-volume ratio and its asymmetry parameter. The hexagonal column/plate model with air-bubble inclusions seems to offer the highest degree of flexibility

Geochemical and physical drivers of microbial community structure in hot spring ecosystems

Science.gov (United States)

Havig, J. R.; Hamilton, T. L.; Boyd, E. S.; Meyer-Dombard, D. R.; Shock, E.

2012-12-01

Microbial communities in natural systems are typically characterized using samples collected from a single time point, thereby neglecting the temporal dynamics that characterize natural systems. The composition of these communities obtained from single point samples is then related to the geochemistry and physical parameters of the environment. Since most microbial life is adapted to a relatively narrow ecological niche (multiplicity of physical and chemical parameters that characterize a local habitat), these assessments provide only modest insight into the controls on community composition. Temporal variation in temperature or geochemical composition would be expected to add another dimension to the complexity of niche space available to support microbial diversity, with systems that experience greater variation supporting a greater biodiversity until a point where the variability is too extreme. . Hot springs often exhibit significant temporal variation, both in physical as well as chemical characteristics. This is a result of subsurface processes including boiling, phase separation, and differential mixing of liquid and vapor phase constituents. These characteristics of geothermal systems, which vary significantly over short periods of time, provide ideal natural laboratories for investigating how i) the extent of microbial community biodiversity and ii) the composition of those communities are shaped by temporal fluctuations in geochemistry. Geochemical and molecular samples were collected from 17 temporally variable hot springs across Yellowstone National Park, Wyoming. Temperature measurements using data-logging thermocouples, allowing accurate determination of temperature maximums, minimums, and ranges for each collection site, were collected in parallel, along with multiple geochemical characterizations as conditions varied. There were significant variations in temperature maxima (54.5 to 90.5°C), minima (12.5 to 82.5°C), and range (3.5 to 77.5°C) for

Visualization of airflow growing soap bubbles

Science.gov (United States)

Al Rahbi, Hamood; Bock, Matthew; Ryu, Sangjin

2016-11-01

Visualizing airflow inside growing soap bubbles can answer questions regarding the fluid dynamics of soap bubble blowing, which is a model system for flows with a gas-liquid-gas interface. Also, understanding the soap bubble blowing process is practical because it can contribute to controlling industrial processes similar to soap bubble blowing. In this study, we visualized airflow which grows soap bubbles using the smoke wire technique to understand how airflow blows soap bubbles. The soap bubble blower setup was built to mimic the human blowing process of soap bubbles, which consists of a blower, a nozzle and a bubble ring. The smoke wire was placed between the nozzle and the bubble ring, and smoke-visualized airflow was captured using a high speed camera. Our visualization shows how air jet flows into the growing soap bubble on the ring and how the airflow interacts with the soap film of growing bubble.

A derivation of the stable cavitation threshold accounting for bubble-bubble interactions.

Science.gov (United States)

Guédra, Matthieu; Cornu, Corentin; Inserra, Claude

2017-09-01

The subharmonic emission of sound coming from the nonlinear response of a bubble population is the most used indicator for stable cavitation. When driven at twice their resonance frequency, bubbles can exhibit subharmonic spherical oscillations if the acoustic pressure amplitude exceeds a threshold value. Although various theoretical derivations exist for the subharmonic emission by free or coated bubbles, they all rest on the single bubble model. In this paper, we propose an analytical expression of the subharmonic threshold for interacting bubbles in a homogeneous, monodisperse cloud. This theory predicts a shift of the subharmonic resonance frequency and a decrease of the corresponding pressure threshold due to the interactions. For a given sonication frequency, these results show that an optimal value of the interaction strength (i.e. the number density of bubbles) can be found for which the subharmonic threshold is minimum, which is consistent with recently published experiments conducted on ultrasound contrast agents. Copyright © 2017 Elsevier B.V. All rights reserved.

Soil microbial respiration beneath Stipa tenacissima L. and in surrounding bare soil

Directory of Open Access Journals (Sweden)

Irena Novosádová

2011-01-01

Full Text Available Open steppes dominated by Stipa tenacissima L. constitute one of the most representative ecosystems of the semi-arid zones of Eastern Mediterranean Basin (Iberian Peninsula, North of Africa. Ecosystem functioning of these steppes is strongly related to the spatial pattern of grass tussocks. Soils beneath Stipa tenacissima L. grass show different fertility and different microclimatic conditions than in surrounding bare soil. The objective of this study was to assess the effect of Stipa tenacissima L. on the key soil microbial activities under controlled incubation conditions (basal and potential respiration. Basal and potential microbial respirations in the soils beneath Stipa tenacissima L. were, in general, not significantly different from the bare soils. The differences were less than 10%. Significantly less ethylene produced by microbial activity in soils beneath Stipa tenacissima L. after the addition of glucose could indicate the dependence of rhizospheric microbial communities on available carbon compounds. It can be concluded, that the soil respiration in semi-arid Mediterranean ecosystems is not necessarily associated with the patchy plant distribution and that some microbial activities characteristics can be unexpectedly homogenous.

Bubble nucleation in an explosive micro-bubble actuator

International Nuclear Information System (INIS)

Van den Broek, D M; Elwenspoek, M

2008-01-01

Explosive evaporation occurs when a thin layer of liquid reaches a temperature close to the critical temperature in a very short time. At these temperatures spontaneous nucleation takes place. The nucleated bubbles instantly coalesce forming a vapour film followed by rapid growth due to the pressure impulse. In this paper we take a closer look at the bubble nucleation. The moment of bubble nucleation was determined by both stroboscopic imaging and resistance thermometry. Two nucleation regimes could be distinguished. Several different heater designs were investigated under heat fluxes of hundreds of W mm −2 . A close correspondence between current density in the heater and point of nucleation was found. This results in design rules for effective heaters

Aspherical bubble dynamics and oscillation times

Energy Technology Data Exchange (ETDEWEB)

Godwin, R.P.; Chapyak, E.J. [Los Alamos National Lab., NM (United States); Noack, J.; Vogel, A. [Medizinisches Laserzentrum Luebeck (Germany)

1999-03-01

The cavitation bubbles common in laser medicine are rarely perfectly spherical and are often located near tissue boundaries, in vessels, etc., which introduce aspherical dynamics. Here, novel features of aspherical bubble dynamics are explored. Time-resolved experimental photographs and simulations of large aspect ratio (length:diameter {approximately}20) cylindrical bubble dynamics are presented. The experiments and calculations exhibit similar dynamics. A small high-pressure cylindrical bubble initially expands radially with hardly any axial motion. Then, after reaching its maximum volume, a cylindrical bubble collapses along its long axis with relatively little radial motion. The growth-collapse period of these very aspherical bubbles differs only sightly from twice the Rayleigh collapse time for a spherical bubble with an equivalent maximum volume. This fact justifies using the temporal interval between the acoustic signals emitted upon bubble creation and collapse to estimate the maximum bubble volume. As a result, hydrophone measurements can provide an estimate of the bubble energy even for aspherical bubbles. The prolongation of the oscillation period of bubbles near solid boundaries relative to that of isolated spherical bubbles is also discussed.

Numerical simulation of bubbles motion in lifting pipe of bubble pump for lithium bromide absorption chillers

International Nuclear Information System (INIS)

Gao, Hongtao; Liu, Bingbing; Yan, Yuying

2017-01-01

A bubble pump is proposed to replace the traditional mechanical solution pump in lithium bromide absorption chillers, for its advantageous feature that can be driven by industrial waste heat or solar energy or other low-grade energy. In two-stage bubble pump driven lithium bromide absorption refrigeration system, flow patterns in lifting pipe have significant effects on the performance of bubble pump. In this paper, the single bubble motion and the double bubbles coalescence in vertical ascending pipe are simulated by an improved free energy model of lattice Boltzmann method, in which the two-phase liquid to gas density ratio is 2778. The details of bubbles coalescence process are studied. Density and velocity of bubbles have been obtained. The computational results show that the initial radius of each bubble has a great influence on the coalescence time. The larger the initial bubble radius, the shorter the coalescence time. The pipe diameter has a little effect on the two bubbles coalescence time while it has a significant effect on the bubble velocity. As the pipe diameter increases, the bubble velocity increases. The obtained results are helpful for studying the transition mechanisms of two-phase flow patterns and useful for improving the bubble pump performance by controlling the flow patterns in lifting pipe.

HCDA bubble experiment, (2)

International Nuclear Information System (INIS)

Sakata, Kaoru; Mashiko, Hiroyuki; Oka, Yoshiaki; An, Shigehiro; Isozaki, Tadashi.

1981-06-01

An experiment simulating the behavior of the very large steam bubbles generated at the time of an accident of core collapse was carried out with a warm water tank, and the applicability of the theory of very small bubble disappearance known at present was examined. The bubbles generated in HCDA (hypothetical core disruptive accident) are expected to be very large, containing sodium, fuel, FP gas and so on, and play important role in the mechanism of emitting radioactive substances in the safety analysis of LMFBRs. In this experiment, the degree of subcool of the warm water pool, the initial radii of steam bubbles and the blowoff pressure of steam were taken as the parameters. The radius of the steam bubbles generated in the experiment was about 6.5 cm, and the state of disappearance was different above and below the degree of unsaturation of 10 deg C. Comparing the disappearance curve obtained by the experiment with the theory of disappearance of small bubbles, the experimental values were between inertia-controlled disappearance and heat transfer-controlled disappearance, and this result was able to be explained generally with the model taking the pressure change within steam bubbles into account. The rise of bubbles was also observed. (Kako, I.)

Study of droplet entrainment from bubbling surface in a bubble column

International Nuclear Information System (INIS)

Ramirez de Santiago, M.

1991-05-01

In a bubble column droplets are ejected from the free surface by bubble bursting or splashing. Depending on their size, the droplets are partly carried away by the streaming gas or fall back to the bubbling surface by gravity force. Experiments have been carried out to determine the void fraction in the column by means of an optical probe. In the interfacial zone the bubble bursting process was captured with a high-speed video camera. Simultaneous measurements were made of size and velocity of droplets at several distances from the bubbling surface with a Phase-Doppler Anemometry. The bubble column can be divided into three regions: A lower zone with a flat profile of the local void fraction, a central zone where the flow regime is steady and an upper zone where the local void fraction grows rapidly. A two-parameter log-normal distribution function was proposed in order to describe the polydisperse distribution of droplet-size. Results were obtained concerning the entrainment, concentration, volume fraction and interfacial area of droplets. Finally, it was found that the turbulence intensity affects the droplet terminal velocity for droplets smaller than the Kolmogorov microscale [fr

CICE, The Los Alamos Sea Ice Model

Energy Technology Data Exchange (ETDEWEB)

2017-05-12

The Los Alamos sea ice model (CICE) is the result of an effort to develop a computationally efficient sea ice component for a fully coupled atmosphere–land–ocean–ice global climate model. It was originally designed to be compatible with the Parallel Ocean Program (POP), an ocean circulation model developed at Los Alamos National Laboratory for use on massively parallel computers. CICE has several interacting components: a vertical thermodynamic model that computes local growth rates of snow and ice due to vertical conductive, radiative and turbulent fluxes, along with snowfall; an elastic-viscous-plastic model of ice dynamics, which predicts the velocity field of the ice pack based on a model of the material strength of the ice; an incremental remapping transport model that describes horizontal advection of the areal concentration, ice and snow volume and other state variables; and a ridging parameterization that transfers ice among thickness categories based on energetic balances and rates of strain. It also includes a biogeochemical model that describes evolution of the ice ecosystem. The CICE sea ice model is used for climate research as one component of complex global earth system models that include atmosphere, land, ocean and biogeochemistry components. It is also used for operational sea ice forecasting in the polar regions and in numerical weather prediction models.

Autochthonous and allochthonous contributions of organic carbon to microbial food webs in Svalbard fjords

OpenAIRE

Holding, J.M.; Duarte, C.M.; Delgado-Huertas, A.; Soetaert, K.; Vonk, J.E.; Agusti, S.; Wassmann, P.; Middelburg, J.

2017-01-01

Rising temperatures in the Arctic Ocean are causing sea ice and glaciers to melt at record breaking rates, which has consequences for carbon cycling in the Arctic Ocean that are yet to be fully understood. Microbial carbon cycling is driven by internal processing of in situ produced organic carbon (OC), however recent research suggests that melt water from sea ice and glaciers could introduce an allochthonous source of OC to the microbial food web with ramifications for the metabolic balance ...

Optimization of the bubble radius in a moving single bubble sonoluminescence

International Nuclear Information System (INIS)

Mirheydari, Mona; Sadighi-Bonabi, Rasoul; Rezaee, Nastaran; Ebrahimi, Homa

2011-01-01

A complete study of the hydrodynamic force on a moving single bubble sonoluminescence in N-methylformamide is presented in this work. All forces exerted, trajectory, interior temperature and gas pressure are discussed. The maximum values of the calculated components of the hydrodynamic force for three different radii at the same driving pressure were compared, while the optimum bubble radius was determined. The maximum value of the buoyancy force appears at the start of bubble collapse, earlier than the other forces whose maximum values appear at the moment of bubble collapse. We verified that for radii larger than the optimum radius, the temperature peak value decreases.

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

Large-scale environmental controls on microbial biofilms in high-alpine streams

Directory of Open Access Journals (Sweden)

T. J. Battin

2004-01-01

Full Text Available Glaciers are highly responsive to global warming and important agents of landscape heterogeneity. While it is well established that glacial ablation and snowmelt regulate stream discharge, linkage among streams and streamwater geochemistry, the controls of these factors on stream microbial biofilms remain insufficiently understood. We investigated glacial (metakryal, hypokryal, groundwater-fed (krenal and snow-fed (rhithral streams - all of them representative for alpine stream networks - and present evidence that these hydrologic and hydrogeochemical factors differentially affect sediment microbial biofilms. Average microbial biomass and bacterial carbon production were low in the glacial streams, whereas bacterial cell size, biomass, and carbon production were higher in the tributaries, most notably in the krenal stream. Whole-cell in situ fluorescence hybridization revealed reduced detection rates of the Eubacteria and higher abundance of α-Proteobacteria in the glacial stream, a pattern that most probably reflects the trophic status of this ecosystem. Our data suggest low flow during the onset of snowmelt and autumn as a short period (hot moment of favorable environmental conditions with pulsed inputs of allochthonous nitrate and dissolved organic carbon, and with disproportionately high microbial growth. Tributaries are relatively more constant and favorable environments than kryal streams, and serve as possible sources of microbes and organic matter to the main glacial channel during periods (e.g., snowmelt of elevated hydrologic linkage among streams. Ice and snow dynamics - and their impact on the amount and composition of dissolved organic matter - have a crucial impact on stream biofilms, and we thus need to consider microbes and critical hydrological episodes in future models of alpine stream communities.

Development of three-dimensional individual bubble-velocity measurement method by bubble tracking

International Nuclear Information System (INIS)

Kanai, Taizo; Furuya, Masahiro; Arai, Takahiro; Shirakawa, Kenetsu; Nishi, Yoshihisa

2012-01-01

A gas-liquid two-phase flow in a large diameter pipe exhibits a three-dimensional flow structure. Wire-Mesh Sensor (WMS) consists of a pair of parallel wire layers located at the cross section of a pipe. Both the parallel wires cross at 90o with a small gap and each intersection acts as an electrode. The WMS allows the measurement of the instantaneous two-dimensional void-fraction distribution over the cross-section of a pipe, based on the difference between the local instantaneous conductivity of the two-phase flow. Furthermore, the WMS can acquire a phasic-velocity on the basis of the time lag of void signals between two sets of WMS. Previously, the acquired phasic velocity was one-dimensional with time-averaged distributions. The authors propose a method to estimate the three-dimensional bubble-velocity individually WMS data. The bubble velocity is determined by the tracing method. In this tracing method, each bubble is separated from WMS signal, volume and center coordinates of the bubble is acquired. Two bubbles with near volume at two WMS are considered as the same bubble and bubble velocity is estimated from the displacement of the center coordinates of the two bubbles. The validity of this method is verified by a swirl flow. The proposed method can successfully visualize a swirl flow structure and the results of this method agree with the results of cross-correlation analysis. (author)

Microbiological Contamination of Ice Cream Commercially Available in Korea and its Irradiation Effect

International Nuclear Information System (INIS)

Yook, H.S.; Kim, H.J.; Jo, C.U.; Kim, D.S.; Byun, M.W.

2005-01-01

The microbial contamination of ice cream product commercially available in Korea was determined using ice bar, ice cream, ice milk and non-milk fat ice cream. Irradiation effect on enhancement of microbiological safety was also investigated at doses of 1, 3, and 5 kGy. In all products, yeast and molds were not detected, however, total aerobic and coliform bacteria were detected at 1~2 and 1~1.5 Log CFU/g level, respectively. According to the different flavor used in ice cream, total aerobic bacteria were detected as 2.30, 2.90, and 3.32 Log CFU/g level in vanilla, chocolate, and strawberry ice cream, respectively. Yeast and mold was not detected in vanilla ice cream but 2.30 and 2.70 Log CFU/g in chocolate and strawberry ice cream, respectively

Nitrogen transformations in stratified aquatic microbial ecosystems

DEFF Research Database (Denmark)

Revsbech, N. P.; Risgaard-Petersen, N.; Schramm, A.

2006-01-01

Abstract  New analytical methods such as advanced molecular techniques and microsensors have resulted in new insights about how nitrogen transformations in stratified microbial systems such as sediments and biofilms are regulated at a µm-mm scale. A large and ever-expanding knowledge base about n...

High contributions of sea ice derived carbon in polar bear (Ursus maritimus tissue.

Directory of Open Access Journals (Sweden)

Thomas A Brown

Full Text Available Polar bears (Ursus maritimus rely upon Arctic sea ice as a physical habitat. Consequently, conservation assessments of polar bears identify the ongoing reduction in sea ice to represent a significant threat to their survival. However, the additional role of sea ice as a potential, indirect, source of energy to bears has been overlooked. Here we used the highly branched isoprenoid lipid biomarker-based index (H-Print approach in combination with quantitative fatty acid signature analysis to show that sympagic (sea ice-associated, rather than pelagic, carbon contributions dominated the marine component of polar bear diet (72-100%; 99% CI, n = 55, irrespective of differences in diet composition. The lowest mean estimates of sympagic carbon were found in Baffin Bay bears, which were also exposed to the most rapidly increasing open water season. Therefore, our data illustrate that for future Arctic ecosystems that are likely to be characterised by reduced sea ice cover, polar bears will not only be impacted by a change in their physical habitat, but also potentially in the supply of energy to the ecosystems upon which they depend. This data represents the first quantifiable baseline that is critical for the assessment of likely ongoing changes in energy supply to Arctic predators as we move into an increasingly uncertain future for polar ecosystems.

Experimental study of ice accretion effects on aerodynamic performance of an NACA 23012 airfoil

Directory of Open Access Journals (Sweden)

Sohrab Gholamhosein Pouryoussefi

2016-06-01

Full Text Available In this paper, the effects of icing on an NACA 23012 airfoil have been studied. Experiments were applied on the clean airfoil, runback ice, horn ice, and spanwise ridge ice at a Reynolds number of 0.6 × 106 over angles of attack from −8° to 20°, and then results are compared. Generally, it is found that ice accretion on the airfoil can contribute to formation of a flow separation bubble on the upper surface downstream from the leading edge. In addition, it is made clear that spanwise ridge ice provides the greatest negative effect on the aerodynamic performance of the airfoil. In this case, the stall angle drops about 10° and the maximum lift coefficient reduces about 50% which is hazardous for an airplane. While horn ice leads to a stall angle drop of about 4° and a maximum lift coefficient reduction to 21%, runback ice has the least effect on the flow pattern around the airfoil and the aerodynamic coefficients so as the stall angle decreases 2° and the maximum lift reduces about 8%.

Microbial ecology of artisanal italian cheese: Molecular microbial characterization by culture-independent method

International Nuclear Information System (INIS)

Colombo, E.; Scarpellini, M.; Franzatti, L.; Dioguardi, L.

2009-01-01

Present study will treat the next topics: ecology of the natural and man made environments and functional diversity of bacteria. The microbial communities in artisanal goat cheeses produced in mountain pastures (typical farms) in Piemonte mountain (North of Italy) change a lot during precessing and ripening time. Moreover cheese microbial ecosystems are different in each small dairy because adventitious microflora can come from the environment and contamination the milk before the cheese making process and the product during manufacture and ripening. (Author)

Microbial ecology of artisanal italian cheese: Molecular microbial characterization by culture-independent method

Energy Technology Data Exchange (ETDEWEB)

Colombo, E.; Scarpellini, M.; Franzatti, L.; Dioguardi, L.

2009-07-01

Present study will treat the next topics: ecology of the natural and man made environments and functional diversity of bacteria. The microbial communities in artisanal goat cheeses produced in mountain pastures (typical farms) in Piemonte mountain (North of Italy) change a lot during precessing and ripening time. Moreover cheese microbial ecosystems are different in each small dairy because adventitious microflora can come from the environment and contamination the milk before the cheese making process and the product during manufacture and ripening. (Author)

Observations of the PCB distribution within and in-between ice, snow, ice-rafted debris, ice-interstitial water, and seawater in the Barents Sea marginal ice zone and the North Pole area.

Science.gov (United States)

Gustafsson, O; Andersson, P; Axelman, J; Bucheli, T D; Kömp, P; McLachlan, M S; Sobek, A; Thörngren, J-O

2005-04-15

gradients, both in-between different matrices and over the Eurasian Arctic basin scale, suggest that ice is not an important long-range transport purveyor of POPs to the Arctic MIZ ecosystem.

Observations of the PCB distribution within and in-between ice, snow, ice-rafted debris, ice-interstitial water, and seawater in the Barents Sea marginal ice zone and the North Pole area

International Nuclear Information System (INIS)

Gustafsson, Oe.; Andersson, P.; Axelman, J.; Bucheli, T.D.; Koemp, P.; McLachlan, M.S.; Sobek, A.; Thoerngren, J.-O.

2005-01-01

in-between different matrices and over the Eurasian Arctic basin scale, suggest that ice is not an important long-range transport purveyor of POPs to the Arctic MIZ ecosystem

Do not shoot the messenger: ICES advice for an ecosystem approach to fisheries management in the European Union

DEFF Research Database (Denmark)

Ballesteros, Marta; Chapela, Rosa; Monsalve, Maria Paulina Ramirez

2017-01-01

in the ICES’ capacity to produce and evaluate ecosystem knowledge, which is integrated into operational products. However, the results also indicate shortcomings related to content, process, resources and policies coherence. Our findings support the following conclusions: (i) ICES has taken a leading role...... in generating the EAFM framework in which management decisions could operate; (ii) advice suppliers and advice users agree on the capability of using existing knowledge to “do EAFM now”; (iii) some shortcomings can be addressed in-house, but other require concerted action in both the advisory system...... provide. First, we summarize the policy context shaping advisory demands and analyse the advice that is currently being provided. Second, we present the stakeholders’ advice needs for putting the EAFM into practice, elucidated through structured dialogues in 22 events. The results show advances...

Dynamics of bubble-bubble interaction in sheared low-viscosity magma imaged by X-ray computed micro-tomography

Science.gov (United States)

Helo, C.; Flaws, A.; Hess, K.-U.; Franz, A.; Clague, D. A.; Dingwell, D. B.

2012-04-01

X-ray computed tomography of vesicles in basaltic pyroclastic glass fragments has been used to investigate the syn-eruptive shear environment and resulting bubble-bubble interaction during mild pyroclastic eruptions in a mid-ocean ridge environment. We have imaged vesicles present in two different types of pyroclastic fragments produced by mildly explosive activity on Axial Seamount, limu o Pele, that is, thin glass films often described as bubble walls, and tube scoria fragments. Rapid quenching of the glass has prevented extensive bubble relaxation preserving the syn-eruptive geometry of the bubbles in these fragments. Isolated, ellipsoid-shaped vesicles in low-vesicular limu o Pele indicate deformation in a simple shear environment. Under these shear conditions higher vesiculated parts of the erupting magma show strong bubble-bubble interactions partially leading to coalscence and formation of tubular vesicles. These tubular vesicles can reach significant lengths, exceeding the dimensions of the small glass fragments (2 mm). Their unreformed radius can be more then one order of magnitude larger than that of the isolated vesicles in the limu o Pele fragments. We can distinguish two principle modes of interaction based on the relative orientation of the bubbles. Interaction along the sidewalls of two bubbles, and tip-to-tip interaction. At interdistances of less than a few tens of micrometre, interaction of the sidewalls results in deformation of the bubbles to more irregular shapes, with depressions caused by close, small bubbles or in some cases bubbles being partially mantled around tubular bubbles. This often leads to a more close packing of bubbles. At distances of less than a few microns, the melt films between the bubbles destabilize leading to coalescence. This mechanism appears to involve a bulging of the larger bubble into the smaller, followed by melt film rapture and coalescence. The complete digestion of one bubble by the other is the slow rate

Fermi Bubble: Giant Gamma-Ray Bubbles in the Milky Way

Science.gov (United States)

Su, Meng

Data from the Fermi-LAT reveal two gigantic gamma-ray emitting bubble structures (known as the Fermibubbles), extending˜50° above and below the Galactic center symmetric about the Galactic plane, with a width of˜40∘ in longitude. The gamma-ray emission associated with these bubbles has a significantly harder spectrum ({dN}/{dE} ˜ {E}^{-2}) than the inverse Compton emission from known cosmic ray electrons in the Galactic disk, or the gamma-rays produced by decay of pions from proton-ISM collisions. The bubbles are spatially correlated with the hard-spectrum microwave excess known as the WMAPhaze; the edges of the bubbles also line up with features in the ROSATsoft X-ray maps at 1.5-2keV. The Fermibubble is most likely created by some large episode of energy injection in the Galactic center, such as past accretion events onto the central massive black hole, or a nuclear starburst in the last˜10Myr. Study of the origin and evolution of the bubbles also has the potential to improve our understanding of recent energetic events in the inner Galaxy and the high-latitude cosmic ray population.

Colliding with a crunching bubble

Energy Technology Data Exchange (ETDEWEB)

Freivogel, Ben; Freivogel, Ben; Horowitz, Gary T.; Shenker, Stephen

2007-03-26

In the context of eternal inflation we discuss the fate of Lambda = 0 bubbles when they collide with Lambda< 0 crunching bubbles. When the Lambda = 0 bubble is supersymmetric, it is not completely destroyed by collisions. If the domain wall separating the bubbles has higher tension than the BPS bound, it is expelled from the Lambda = 0 bubble and does not alter its long time behavior. If the domain wall saturates the BPS bound, then it stays inside the Lambda = 0 bubble and removes a finite fraction of future infinity. In this case, the crunch singularity is hidden behind the horizon of a stable hyperbolic black hole.

Metagenomics and Bioinformatics in Microbial Ecology: Current Status and Beyond.

Science.gov (United States)

Hiraoka, Satoshi; Yang, Ching-Chia; Iwasaki, Wataru

2016-09-29

Metagenomic approaches are now commonly used in microbial ecology to study microbial communities in more detail, including many strains that cannot be cultivated in the laboratory. Bioinformatic analyses make it possible to mine huge metagenomic datasets and discover general patterns that govern microbial ecosystems. However, the findings of typical metagenomic and bioinformatic analyses still do not completely describe the ecology and evolution of microbes in their environments. Most analyses still depend on straightforward sequence similarity searches against reference databases. We herein review the current state of metagenomics and bioinformatics in microbial ecology and discuss future directions for the field. New techniques will allow us to go beyond routine analyses and broaden our knowledge of microbial ecosystems. We need to enrich reference databases, promote platforms that enable meta- or comprehensive analyses of diverse metagenomic datasets, devise methods that utilize long-read sequence information, and develop more powerful bioinformatic methods to analyze data from diverse perspectives.

Impact of ecosystem management on microbial community level physiological profiles of postmining forest rehabilitation.

Science.gov (United States)

Cookson, W R; O'Donnell, A J; Grant, C D; Grierson, P F; Murphy, D V

2008-02-01

acids also tended to increase with increasing soil total C and organic C contents but decreased with increasing nitrate content, whereas the opposite was true for carboxylic acids. Only 45% of the variance in CLPP was explained using a multivariate multiple regression model, but soil C and N pools and litter mass were significant predictors of CLPP. Differences in soil textural components between treatments were also correlated with CLPP; likely causes of these differences are discussed. Our results suggest that 1 year after treatment, CLPP from this mined forest ecosystem are resilient to a spring prescribed fire but not forest thinning. We conclude that differences in CLPP are likely to result from complex interactions among soil properties that mediate substrate availability, microbial nutrient demand, and microbial community composition.

Bubbles & Squat

DEFF Research Database (Denmark)

Højbjerre Larsen, Signe

, a new concept called ‘Bubbles & Squat’, where fitness training is combined with Champagne and a live DJ. One of the invitations for this event describes how “we spice up your friday training with live DJ and lots of refreshing bubbles, to make sure that you are ready for the weekend (...).” Before New...

A grid-independent EMMS/bubbling drag model for bubbling and turbulent fluidization

DEFF Research Database (Denmark)

Luo, Hao; Lu, Bona; Zhang, Jingyuan

2017-01-01

The EMMS/bubbling drag model takes the effects of meso-scale structures (i.e. bubbles) into modeling of drag coefficient and thus improves coarse-grid simulation of bubbling and turbulent fluidized beds. However, its dependence on grid size has not been fully investigated. In this article, we adopt...... a two-step scheme to extend the EMMS/bubbling model to the sub-grid level. Thus the heterogeneity index, HD, which accounts for the hydrodynamic disparity between homogeneous and heterogeneous fluidization, can be correlated as a function of both local voidage and slip velocity. Simulations over...... a periodic domain show the new drag model is less sensitive to grid size because of the additional dependence on local slip velocity. When applying the new drag model to simulations of realistic bubbling and turbulent fluidized beds, we find grid-independent results are easier to obtain for high...

Aerobic Granular Sludge: Effect of Salt and Insights into Microbial Ecology

KAUST Repository

Wang, Zhongwei

2017-01-01

Like other artificial microbial ecosystems (e.g. CAS plant and anaerobic digester), a firm understanding of the microbial ecology of AGS system is essential for process design and optimization. The second part

Microbial Communities Are Well Adapted to Disturbances in Energy Input.

Science.gov (United States)

Fernandez-Gonzalez, Nuria; Huber, Julie A; Vallino, Joseph J

2016-01-01

Although microbial systems are well suited for studying concepts in ecological theory, little is known about how microbial communities respond to long-term periodic perturbations beyond diel oscillations. Taking advantage of an ongoing microcosm experiment, we studied how methanotrophic microbial communities adapted to disturbances in energy input over a 20-day cycle period. Sequencing of bacterial 16S rRNA genes together with quantification of microbial abundance and ecosystem function were used to explore the long-term dynamics (510 days) of methanotrophic communities under continuous versus cyclic chemical energy supply. We observed that microbial communities appeared inherently well adapted to disturbances in energy input and that changes in community structure in both treatments were more dependent on internal dynamics than on external forcing. The results also showed that the rare biosphere was critical to seeding the internal community dynamics, perhaps due to cross-feeding or other strategies. We conclude that in our experimental system, internal feedbacks were more important than external drivers in shaping the community dynamics over time, suggesting that ecosystems can maintain their function despite inherently unstable community dynamics. IMPORTANCE Within the broader ecological context, biological communities are often viewed as stable and as only experiencing succession or replacement when subject to external perturbations, such as changes in food availability or the introduction of exotic species. Our findings indicate that microbial communities can exhibit strong internal dynamics that may be more important in shaping community succession than external drivers. Dynamic "unstable" communities may be important for ecosystem functional stability, with rare organisms playing an important role in community restructuring. Understanding the mechanisms responsible for internal community dynamics will certainly be required for understanding and manipulating

Effects of Conservation Agriculture and Fertilization on Soil Microbial Diversity and Activity

Directory of Open Access Journals (Sweden)

Johan Habig

2015-07-01

Full Text Available Soil microbial communities perform critical functions in ecosystem processes. These functions can be used to assess the impact of agricultural practices on sustainable crop production. In this five-year study, the effect of various agricultural practices on soil microbial diversity and activity was investigated in a summer rainfall area under South African dryland conditions. Microbial diversity and activity were measured in the 0–15 cm layer of a field trial consisting of two fertilizer levels, three cropping systems, and two tillage systems. Using the Shannon–Weaver and Evenness diversity indices, soil microbial species richness and abundance were measured. Microbial enzymatic activities: β-glucosidase, phosphatase and urease, were used to evaluate ecosystem functioning. Cluster analysis revealed a shift in soil microbial community diversity and activity over time. Microbial diversity and activity were higher under no-till than conventional tillage. Fertilizer levels seemed to play a minor role in determining microbial diversity and activity, whereas the cropping systems played a more important role in determining the activity of soil microbial communities. Conservation agriculture yielded the highest soil microbial diversity and activity in diversified cropping systems under no-till.

Radiative Transfer Modeling to Estimate the Impact of CDOM on Light Absorption within Changing Arctic Sea Ice

Science.gov (United States)

Carns, R.; Light, B.; Frey, K. E.

2016-12-01

First-year sea ice differs from multi-year sea ice in several ways that can influence its optical properties. It is thinner than multi-year ice, which tends to increase light transmission. Also, first-year ice retains higher brine volumes in comparison to more heavily drained multi-year ice, in isolated pockets and channels. During melt season, patterns of pond formation on first-year sea ice differ from those on multi-year ice. As first-year sea ice comprises an increasingly large fraction of Arctic sea ice, it becomes more important to understand how much sunlight reaches the ecosystems within the ice, and how those changing ecosystems can feed back into the transmission of light. Colored dissolved organic matter (CDOM) and chlorophyll within the ice can absorb light, heating the ice and reducing transmission to the ocean below. Light also encourages algal growth within the ice while degrading CDOM, creating complex feedbacks. We use radiative transfer models to determine the overall effect of colored dissolved organic matter on the light regime within sea ice, both on the overall amount of energy transmitted and on the spectral distribution of energy. Using models allows us to estimate the impact of varying CDOM levels on a wide range of sea ice types, improving our ability to respond to conditions in a rapidly changing Arctic and predict important phenomena such as algal blooms.

Lessons from Suiyo Seamount studies, for understanding extreme (ancient?) microbial ecosystems in the deep-sea hydrothermal fields

Science.gov (United States)

Maruyama, A.; Higashi, Y.; Sunamura, M.; Urabe, T.

2004-12-01

Deep-sea hydrothermal ecosystems are driven with various geo-thermally modified, mainly reduced, compounds delivered from extremely hot subsurface environments. To date, several unique microbes including thermophilic archaeons have been isolated from/around vent chimneys. However, there is little information about microbes in over-vent and sub-vent fields. Here, we report several new findings on microbial diversity and ecology of the Suiyo Seamount that locates on the Izu-Bonin Arc in the northwest Pacific Ocean, as a result of the Japanese Archaean Park project, with special concern to the sub-vent biosphere. At first, we succeeded to reveal a very unique microbial ecosystem in hydrothermal plume reserved within the outer rim of the seamount crater, that is, it consisted of almost all metabolically active microbes belonged to only two Bacteria phylotypes, probably of sulfur oxidizers. In the center of the caldera seafloor (ca. 1,388-m deep) consisted mainly of whitish sands and pumices, we found many small chimneys (ca. 5-10 cm) and bivalve colonies distributed looking like gray to black patches. These geo/ecological features of the seafloor were supposed to be from a complex mixing of hydrothermal venting and strong water current near the seafloor. Through quantitative FISH analysis for various environmental samples, one of the two representative groups in the plume was assessed to be from some of the bivalve colonies. Using the Benthic Multi-coring System (BMS), total 10 points were drilled and 6 boreholes were maintained with stainless or titanium casing pipes. In the following submersible surveys, newly developed catheter- and column-type in situ growth chambers were deployed in and on the boreholes, respectively, for collecting indigenous sub-vent microbes. Finally, we succeeded to detect several new phylotypes of microbes in these chamber samples, e.g., within epsilon-Proteobacteria, a photosynthetic group of alpha-Proteobacteria, and hyperthermophile

Evidence for marine origin and microbial-viral habitability of sub-zero hypersaline aqueous inclusions within permafrost near Barrow, Alaska.

Science.gov (United States)

Colangelo-Lillis, J; Eicken, H; Carpenter, S D; Deming, J W

2016-05-01

Cryopegs are sub-surface hypersaline brines at sub-zero temperatures within permafrost; their global extent and distribution are unknown. The permafrost barrier to surface and groundwater advection maintains these brines as semi-isolated systems over geological time. A cryopeg 7 m below ground near Barrow, Alaska, was sampled for geochemical and microbiological analysis. Sub-surface brines (in situtemperature of -6 °C, salinity of 115 ppt), and an associated sediment-infused ice wedge (melt salinity of 0.04 ppt) were sampled using sterile technique. Major ionic concentrations in the brine corresponded more closely to other (Siberian) cryopegs than to Standard seawater or the ice wedge. Ionic ratios and stable isotope analysis of water conformed to a marine or brackish origin with subsequent Rayleigh fractionation. The brine contained ∼1000× more bacteria than surrounding ice, relatively high viral numbers suggestive of infection and reproduction, and an unusually high ratio of particulate to dissolved extracellular polysaccharide substances. A viral metagenome indicated a high frequency of temperate viruses and limited viral diversity compared to surface environments, with closest similarity to low water activity environments. Interpretations of the results underscore the isolation of these underexplored microbial ecosystems from past and present oceans. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

A New Remotely Operated Sensor Platform for Interdisciplinary Observations under Sea Ice

Directory of Open Access Journals (Sweden)

Christian Katlein

2017-09-01

Full Text Available Observation of the climate and ecosystem of ice covered polar seas is a timely task for the scientific community. The goal is to assess the drastic and imminent changes of the polar sea ice cover induced by climate change. Retreating and thinning sea ice affects the planets energy budget, atmospheric, and oceanic circulation patterns as well as the ecosystem associated with this unique habitat. To increase the observational capabilities of sea ice scientists, we equipped a remotely operated vehicle (ROV as sensor platform for interdisciplinary research at the ice water interface. Here, we present the technical details and operation scheme of the new vehicle and provide data examples from a first campaign in the Arctic in autumn 2016 to demonstrate the vehicle's capabilities. The vehicle is designed for efficient operations in the harsh polar conditions. Redundant modular design allows operation by three scientists simultaneously operating a wide variety of sensors. Sensors from physical, chemical, and biological oceanography are combined with optical and acoustic sea ice sensors to provide a comprehensive picture of the underside of sea ice. The sensor suite provides comprehensive capabilities and can be further extended as additional ports for power and communication are available. The vehicle provides full six degrees of freedom in navigation, enabling intervention, and manipulation skills despite its simple one function manipulator arm.

Assumptions behind size-based ecosystem models are realistic

DEFF Research Database (Denmark)

Andersen, Ken Haste; Blanchard, Julia L.; Fulton, Elizabeth A.

2016-01-01

A recent publication about balanced harvesting (Froese et al., ICES Journal of Marine Science; doi:10.1093/icesjms/fsv122) contains several erroneous statements about size-spectrum models. We refute the statements by showing that the assumptions pertaining to size-spectrum models discussed by Fro...... that there is indeed a constructive role for a wide suite of ecosystem models to evaluate fishing strategies in an ecosystem context...

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.

Measurement of spectral sea ice albedo at Qaanaaq fjord in northwest Greenland

Science.gov (United States)

Tanikawa, T.

2017-12-01

The spectral albedos of sea ice were measured at Qaanaaq fjord in northwest Greenland. Spectral measurements were conducted for sea ice covered with snow and sea ice without snow where snow was artificially removed around measurement point. Thickness of the sea ice was approximately 1.3 m with 5 cm of snow over the sea ice. The measurements show that the spectral albedos of the sea ice with snow were lower than those of natural pure snow especially in the visible regions though the spectral shapes were similar to each other. This is because the spectral albedos in the visible region have information of not only the snow but also the sea ice under the snow. The spectral albedos of the sea ice without the snow were approximately 0.4 - 0.5 in the visible region, 0.05-0.25 in the near-infrared region and almost constant of approximately 0.05 in the region of 1500 - 2500 nm. In the visible region, it would be due to multiple scattering by an air bubble within the sea ice. In contrast, in the near-infrared and shortwave infrared wavelengths, surface reflection at the sea ice surface would be dominant. Since a light absorption by the ice in these regions is relatively strong comparing to the visible region, the light could not be penetrated deeply within the sea ice, resulting that surface reflection based on Fresnel reflection would be dominant. In this presentation we also show the results of comparison between the radiative transfer calculation and spectral measurement data.

Ice crystallization in ultrafine water-salt aerosols: nucleation, ice-solution equilibrium, and internal structure.

Science.gov (United States)

Hudait, Arpa; Molinero, Valeria

2014-06-04

Atmospheric aerosols have a strong influence on Earth's climate. Elucidating the physical state and internal structure of atmospheric aqueous aerosols is essential to predict their gas and water uptake, and the locus and rate of atmospherically important heterogeneous reactions. Ultrafine aerosols with sizes between 3 and 15 nm have been detected in large numbers in the troposphere and tropopause. Nanoscopic aerosols arising from bubble bursting of natural and artificial seawater have been identified in laboratory and field experiments. The internal structure and phase state of these aerosols, however, cannot yet be determined in experiments. Here we use molecular simulations to investigate the phase behavior and internal structure of liquid, vitrified, and crystallized water-salt ultrafine aerosols with radii from 2.5 to 9.5 nm and with up to 10% moles of ions. We find that both ice crystallization and vitrification of the nanodroplets lead to demixing of pure water from the solutions. Vitrification of aqueous nanodroplets yields nanodomains of pure low-density amorphous ice in coexistence with vitrified solute rich aqueous glass. The melting temperature of ice in the aerosols decreases monotonically with an increase of solute fraction and decrease of radius. The simulations reveal that nucleation of ice occurs homogeneously at the subsurface of the water-salt nanoparticles. Subsequent ice growth yields phase-segregated, internally mixed, aerosols with two phases in equilibrium: a concentrated water-salt amorphous mixture and a spherical cap-like ice nanophase. The surface of the crystallized aerosols is heterogeneous, with ice and solution exposed to the vapor. Free energy calculations indicate that as the concentration of salt in the particles, the advance of the crystallization, or the size of the particles increase, the stability of the spherical cap structure increases with respect to the alternative structure in which a core of ice is fully surrounded by

Particle-bubble aggregate stability on static bubble generated by single nozzle on flotation process

Science.gov (United States)

Warjito, Harinaldi, Setyantono, Manus; Siregar, Sahala D.

2016-06-01

There are three sub-processes on flotation. These processes are intervening liquid film into critical thickness, rupture of liquid film forming three phase contact line, and expansion three phase contact line forming aggregate stability. Aggregate stability factor contribute to determine flotation efficiency. Aggregate stability has some important factors such as reagent and particle geometry. This research focussed on to understand effect of particle geometry to aggregate stability. Experimental setup consists of 9 x 9 x26 cm flotation column made of glass, bubble generator, particle feeding system, and high speed video camera. Bubble generator made from single nozzle with 0.3 mm diameter attached to programmable syringe pump. Particle feeding system made of pipette. Particle used in this research is taken from open pit Grasberg in Timika, Papua. Particle has sub-angular geometry and its size varies from 38 to 300 µm. Bubble-particle interaction are recorded using high speed video camera. Recordings from high speed video camera analyzed using image processing software. Experiment result shows that aggregate particle-bubble and induction time depends on particle size. Small particle (38-106 µm) has long induction time and able to rupture liquid film and also forming three phase contact line. Big particle (150-300 µm) has short induction time, so it unable to attach with bubble easily. This phenomenon is caused by apparent gravity work on particle-bubble interaction. Apparent gravity worked during particle sliding on bubble surface experience increase and reached its maximum magnitude at bubble equator. After particle passed bubble equator, apparent gravity force experience decrease. In conclusion particle size from 38-300 µm can form stable aggregate if particle attached with bubble in certain condition.

Bubble transport in bifurcations

Science.gov (United States)

Bull, Joseph; Qamar, Adnan

2017-11-01

Motivated by a developmental gas embolotherapy technique for cancer treatment, we examine the transport of bubbles entrained in liquid. In gas embolotherapy, infarction of tumors is induced by selectively formed vascular gas bubbles that originate from acoustic vaporization of vascular droplets. In the case of non-functionalized droplets with the objective of vessel occlusion, the bubbles are transported by flow through vessel bifurcations, where they may split prior to eventually reach vessels small enough that they become lodged. This splitting behavior affects the distribution of bubbles and the efficacy of flow occlusion and the treatment. In these studies, we investigated bubble transport in bifurcations using computational and theoretical modeling. The model reproduces the variety of experimentally observed splitting behaviors. Splitting homogeneity and maximum shear stress along the vessel walls is predicted over a variety of physical parameters. Maximum shear stresses were found to decrease with increasing Reynolds number. The initial bubble length was found to affect the splitting behavior in the presence of gravitational asymmetry. This work was supported by NIH Grant R01EB006476.

Environmental and Microbial Features Affecting Denitrification and Anammox Hotspots in an Estuarine Ecosystem

Science.gov (United States)

Lisa, J.; Song, B.; Lefcheck, J. S.; Tobias, C. R.

2016-02-01

Biogeochemical hotspots are characterized as a few sites that exhibit extremely high reaction rates relative to surrounding area, and often account for a high percentage of the overall reaction rates in an ecosystem. Criteria for quantitatively identifying these sites have not been well established. Further, the underlying mechanisms of hotspots have been described in terms of environmental conditions, with little attention paid to the microbial community. The objectives of this study were to establish quantitative criteria to identify denitrification and anammox hotspots, and determine the underlying microbial and environmental factors responsible for elevated N2 production. We used 15N isotope pairing incubation experiments to measure denitrification and anammox rates in the New River Estuary, NC. Quantitative PCR assays of nitrous oxide reductase (nosZ Clades I and II) and hydrazine oxidoreductase (hzo) genes were conducted to estimate denitrifier and anammox abundance. Structural Equation Modeling (SEM) was used to elucidate complex causal relationships between environmental and biological variables. Denitrification hotspots, quantitatively defined as statistical outliers, accounted for 35.6% total denitrification while comprising only 7.3% of the sites. Anammox hotspots,10.6% of the sites, accounted for 60.9% of total anammox. SEM revealed increased sediment organics at lower salinities supported higher functional gene abundance, which in turn resulted in higher N2 production. Surprisingly, denitrification rates were significantly and positively correlated with nosZ Clade II gene abundance, after accounting for the non-significant contributions of the naturally more abundant nosZ Clade I, and other environmental covariates. This is the first time that a quantitative definition of biogeochemical hotspots was put forth and used to determine the importance of anammox and denitrification hotspots in estuarine nitrogen removal capacity. Despite the low area

Supraglacial bacterial community structures vary across the Greenland ice sheet

DEFF Research Database (Denmark)

Cameron, Karen A.; Stibal, Marek; Zarsky, Jakub D.

2016-01-01

The composition and spatial variability of microbial communities that reside within the extensive (>200 000 km(2)) biologically active area encompassing the Greenland ice sheet (GrIS) is hypothesized to be variable. We examined bacterial communities from cryoconite debris and surface ice across...... the GrIS, using sequence analysis and quantitative PCR of 16S rRNA genes from co-extracted DNA and RNA. Communities were found to differ across the ice sheet, with 82.8% of the total calculated variation attributed to spatial distribution on a scale of tens of kilometers separation. Amplicons related...... to Sphingobacteriaceae, Pseudanabaenaceae and WPS-2 accounted for the greatest portion of calculated dissimilarities. The bacterial communities of ice and cryoconite were moderately similar (global R = 0.360, P = 0.002) and the sampled surface type (ice versus cryoconite) did not contribute heavily towards community...

Bubble Dynamics and Shock Waves

CERN Document Server

2013-01-01

This volume of the Shock Wave Science and Technology Reference Library is concerned with the interplay between bubble dynamics and shock waves. It is divided into four parts containing twelve chapters written by eminent scientists. Topics discussed include shock wave emission by laser generated bubbles (W Lauterborn, A Vogel), pulsating bubbles near boundaries (DM Leppinen, QX Wang, JR Blake), interaction of shock waves with bubble clouds (CD Ohl, SW Ohl), shock propagation in polydispersed bubbly liquids by model equations (K Ando, T Colonius, CE Brennen. T Yano, T Kanagawa,  M Watanabe, S Fujikawa) and by DNS (G Tryggvason, S Dabiri), shocks in cavitating flows (NA Adams, SJ Schmidt, CF Delale, GH Schnerr, S Pasinlioglu) together with applications involving encapsulated bubble dynamics in imaging (AA Doinikov, A Novell, JM Escoffre, A Bouakaz),  shock wave lithotripsy (P Zhong), sterilization of ships’ ballast water (A Abe, H Mimura) and bubbly flow model of volcano eruptions ((VK Kedrinskii, K Takayama...

Bubble Coalescence: Effect of Bubble Approach Velocity and Liquid Viscosity

Czech Academy of Sciences Publication Activity Database

Orvalho, Sandra; Růžička, Marek; Olivieri, G.; Marzocchella, A.

2015-01-01

Roč. 134, SEP 29 (2015), s. 205-216 ISSN 0009-2509 R&D Projects: GA MŠk(CZ) LD13018 Institutional support: RVO:67985858 Keywords : bubble coalescence * bubble approach velocity * liquid viscosity Subject RIV: CI - Industrial Chemistry, Chemical Engineering Impact factor: 2.750, year: 2015

Bubble propagation on a rail: a concept for sorting bubbles by size

Science.gov (United States)

Franco-Gómez, Andrés; Thompson, Alice B.; Hazel, Andrew L.; Juel, Anne

We demonstrate experimentally that the introduction of a rail, a small height constriction, within the cross-section of a rectangular channel could be used as a robust passive sorting device in two-phase fluid flows. Single air bubbles carried within silicone oil are generally transported on one side of the rail. However, for flow rates marginally larger than a critical value, a narrow band of bubble sizes can propagate (stably) over the rail, while bubbles of other sizes segregate to the side of the rail. The width of this band of bubble sizes increases with flow rate and the size of the most stable bubble can be tuned by varying the rail width. We present a complementary theoretical analysis based on a depth-averaged theory, which is in qualitative agreement with the experiments. The theoretical study reveals that the mechanism relies on a non-trivial interaction between capillary and viscous forces that is fully dynamic, rather than being a simple modification of capillary static solutions.

Microbial dynamics in petroleum oilfields and their relationship with physiological properties of petroleum oil reservoirs.

Science.gov (United States)

Varjani, Sunita J; Gnansounou, Edgard

2017-12-01

Petroleum is produced by thermal decay of buried organic material over millions of years. Petroleum oilfield ecosystems represent resource of reduced carbon which favours microbial growth. Therefore, it is obvious that many microorganisms have adapted to harsh environmental conditions of these ecosystems specifically temperature, oxygen availability and pressure. Knowledge of microorganisms present in ecosystems of petroleum oil reservoirs; their physiological and biological properties help in successful exploration of petroleum. Understanding microbiology of petroleum oilfield(s) can be used to enhance oil recovery, as microorganisms in oil reservoirs produce various metabolites viz. gases, acids, solvents, biopolymers and biosurfactants. The aim of this review is to discuss characteristics of petroleum oil reservoirs. This review also provides an updated literature on microbial ecology of these extreme ecosystems including microbial origin as well as various types of microorganisms such as methanogens; iron, nitrate and sulphate reducing bacteria, and fermentative microbes present in petroleum oilfield ecosystems. Copyright © 2017 Elsevier Ltd. All rights reserved.

Microbial community functional change during vertebrate carrion decomposition.

Directory of Open Access Journals (Sweden)

Jennifer L Pechal

Full Text Available Microorganisms play a critical role in the decomposition of organic matter, which contributes to energy and nutrient transformation in every ecosystem. Yet, little is known about the functional activity of epinecrotic microbial communities associated with carrion. The objective of this study was to provide a description of the carrion associated microbial community functional activity using differential carbon source use throughout decomposition over seasons, between years and when microbial communities were isolated from eukaryotic colonizers (e.g., necrophagous insects. Additionally, microbial communities were identified at the phyletic level using high throughput sequencing during a single study. We hypothesized that carrion microbial community functional profiles would change over the duration of decomposition, and that this change would depend on season, year and presence of necrophagous insect colonization. Biolog EcoPlates™ were used to measure the variation in epinecrotic microbial community function by the differential use of 29 carbon sources throughout vertebrate carrion decomposition. Pyrosequencing was used to describe the bacterial community composition in one experiment to identify key phyla associated with community functional changes. Overall, microbial functional activity increased throughout decomposition in spring, summer and winter while it decreased in autumn. Additionally, microbial functional activity was higher in 2011 when necrophagous arthropod colonizer effects were tested. There were inconsistent trends in the microbial function of communities isolated from remains colonized by necrophagous insects between 2010 and 2011, suggesting a greater need for a mechanistic understanding of the process. These data indicate that functional analyses can be implemented in carrion studies and will be important in understanding the influence of microbial communities on an essential ecosystem process, carrion decomposition.

Bubble Formation in Basalt-like Melts

DEFF Research Database (Denmark)

Jensen, Martin; Keding, Ralf; Yue, Yuanzheng

2011-01-01

and their diameter. The variation in melting temperature has little influence on the overall bubble volume. However, the size distribution of the bubbles varies with the melting temperature. When the melt is slowly cooled, the bubble volume increases, implying decreased solubility of the gaseous species. Mass...... spectroscopy analysis of gases liberated during heating of the glass reveals that small bubbles contain predominantly CH4, CO and CO2, whereas large bubbles bear N2, SO2 and H2S. The methodology utilised in this work can, besides mapping the bubbles in a glass, be applied to shed light on the sources of bubble...

Deep Microbial Ecosystems in the U.S. Great Basin: A Second Home for Desulforudis audaxviator?

Science.gov (United States)

Moser, D. P.

2012-12-01

Deep subsurface microbial ecosystems have attracted scientific and public interest in recent years. Of deep habitats so far investigated, continental hard rock environments may be the least understood. Our Census of Deep Life (CoDL) project targets deep microbial ecosystems of three little explored (for microbiology), North American geological provinces: the Basin and Range, Black Hills, and Canadian Shield. Here we focus on the Basin and Range, specifically radioactive fluids from nuclear device test cavities (U12N.10 tunnel and ER-EC-11) at the Nevada National Security Site (NNSS) and non-radioactive samples from a deep dolomite aquifer associated with Death Valley, CA (BLM-1 and Nevares Deep Well 2). Six pyrotag sequencing runs were attempted at the Marine Biology Lab (MBL) (bacterial v6v4 amplification for all sites and archaeal v6v4 amplification for BLM-1 and Nevares DW2). Of these, DNA extracts from five samples (all but Nevares DW2 Arch) successfully amplified. Bacterial libraries were generally dominated by Proteobacteria, Firmicutes, and Nitrospirae (ER-EC-11: Proteobacteria (45%), Deinococcus-Thermus (35%), Firmicutes (15%); U12N.10: Proteobacteria (37%), Firmicutes (32%), Nitrospirae (15%), Bacteroidetes (11%); BLM-1 (Bact): Firmicutes (93%); and Nevares DW2: Firmicutes (51%), Proteobacteria (16%), Nitrospirae (15%)). The BLM-1 (Arch) library contained >99% Euryarchaeota, with 98% of sequences represented by a single uncharacterized species of Methanothermobacter. Alpha diversity was calculated using the MBL VAMPS (Visualization and Analysis of Microbial Population Structures) system; showing the highest richness at both the phylum and genus levels in U12N.10 (Sp = 42; Sg = 341), and the lowest (Sp = 3; Sg = 11) in the BLM-1(Arch) library. Diversity was covered well at this depth of sequencing (~20,000 reads per sample) based on rarefaction analysis. One Firmicute lineage, candidatus D. audaxviator, has been shown to dominate microbial communities from

The role of ecological theory in microbial ecology.

Science.gov (United States)

Prosser, James I; Bohannan, Brendan J M; Curtis, Tom P; Ellis, Richard J; Firestone, Mary K; Freckleton, Rob P; Green, Jessica L; Green, Laura E; Killham, Ken; Lennon, Jack J; Osborn, A Mark; Solan, Martin; van der Gast, Christopher J; Young, J Peter W

2007-05-01

Microbial ecology is currently undergoing a revolution, with repercussions spreading throughout microbiology, ecology and ecosystem science. The rapid accumulation of molecular data is uncovering vast diversity, abundant uncultivated microbial groups and novel microbial functions. This accumulation of data requires the application of theory to provide organization, structure, mechanistic insight and, ultimately, predictive power that is of practical value, but the application of theory in microbial ecology is currently very limited. Here we argue that the full potential of the ongoing revolution will not be realized if research is not directed and driven by theory, and that the generality of established ecological theory must be tested using microbial systems.

Calibration and analysis of genome-based models for microbial ecology.

Science.gov (United States)

Louca, Stilianos; Doebeli, Michael

2015-10-16

Microbial ecosystem modeling is complicated by the large number of unknown parameters and the lack of appropriate calibration tools. Here we present a novel computational framework for modeling microbial ecosystems, which combines genome-based model construction with statistical analysis and calibration to experimental data. Using this framework, we examined the dynamics of a community of Escherichia coli strains that emerged in laboratory evolution experiments, during which an ancestral strain diversified into two coexisting ecotypes. We constructed a microbial community model comprising the ancestral and the evolved strains, which we calibrated using separate monoculture experiments. Simulations reproduced the successional dynamics in the evolution experiments, and pathway activation patterns observed in microarray transcript profiles. Our approach yielded detailed insights into the metabolic processes that drove bacterial diversification, involving acetate cross-feeding and competition for organic carbon and oxygen. Our framework provides a missing link towards a data-driven mechanistic microbial ecology.

Experimental study of vapor bubble dynamics

International Nuclear Information System (INIS)

Pasquini, Maria-Elena

2015-01-01

The object of this thesis is an experimental study of vapor bubble dynamics in sub-cooled nucleate boiling. The test section is locally heated by focusing a laser beam: heat fluxes from 1 e4 to 1.5 e6 W/m 2 and water temperature between 100 and 88 C have been considered. Three boiling regimes have been observed. Under saturated conditions and with low heat fluxes a developed nucleate boiling regime has been observed. Under higher sub-cooling and still with low heat fluxes an equilibrium regime has been observed in which the liquid flowrate evaporating at the bubble base is compensated by the vapor condensing flowrate at bubble top. A third regime have been observed at high heat fluxes for all water conditions: it is characterized by the formation of a large dry spot on the heated surface that keeps the nucleation site dry after bubble detachment. The condensation phase starts after bubble detachment. Bubble equivalent radius at detachment varies between 1 and 2.5 mm. Bubble properties have been measured and non-dimensional groups have been used to characterize bubble dynamics. Capillary waves have been observed on the bubble surface thanks to high-speed images acquisition. Two main phenomena have been proposed to explain capillary waves effects on bubble condensation: increasing of the phases interface area and decreasing of vapor bubble translation velocity, because of the increased drag force on the deformed bubble. (author) [fr

Supporting evidence from the EPICA Dronning Maud Land ice core for atmospheric CO2 changes during the past millennium

International Nuclear Information System (INIS)

Siegenthaler, Urs; Monnin, Eric; Kawamura, Kenji; Spahni, Renato; Schwander, Jakob; Stauffer, Bernhard; Stocker, Thomas F.; Fischer, Hubertus

2005-01-01

The most direct method of investigating past variations of the atmospheric CO 2 concentration before 1958, when continuous direct atmospheric CO 2 measurements started, is the analysis of air extracted from suitable ice cores. Here we present a new detailed CO 2 record from the Dronning Maud Land (DML) ice core, drilled in the framework of the European Project for Ice Coring in Antarctica (EPICA) and some new measurements on a previously drilled ice core from the South Pole. The DML CO 2 record shows an increase from about 278 to 282 parts per million by volume (ppmv) between ad 1000 and ad 1200 and a fairly continuous decrease to a mean value of about 277 ppmv around ad 1700. While the new South Pole measurements agree well with DML at the minimum at ad 1700 they are on average about 2 ppmv lower during the period ad 1000-1500. Published measurements from the coastal high-accumulation site Law Dome are considered as very reliable because of the reproducibility of the measurements, high temporal resolution and an accurate time scale. Other Antarctic ice cores could not, or only partly, reproduce the pre-industrial measurements from Law Dome. A comparison of the trends of DML and Law Dome shows a general agreement. However we should be able to rule out co-variations caused by the same artefact. Two possible effects are discussed, first production of CO 2 by chemical reactions and second diffusion of dissolved air through the ice matrix into the bubbles. While the first effect cannot be totally excluded, comparison of the Law Dome and DML record shows that dissolved air diffusing to bubbles cannot be responsible for the pre-industrial variation. Therefore, the new record is not a proof of the Law Dome results but the first very strong support from an ice core of the Antarctic plateau

Formation of brine channels in sea ice.

Science.gov (United States)

Morawetz, Klaus; Thoms, Silke; Kutschan, Bernd

2017-03-01

Liquid salty micro-channels (brine) between growing ice platelets in sea ice are an important habitat for CO 2 -binding microalgaea with great impact on polar ecosystems. The structure formation of ice platelets is microscopically described and a phase field model is developed. The pattern formation during solidification of the two-dimensional interstitial liquid is considered by two coupled order parameters, the tetrahedricity as structure of ice and the salinity. The coupling and time evolution of these order parameters are described by a consistent set of three model parameters. They determine the velocity of the freezing process and the structure formation, the phase diagram, the super-cooling and super-heating region, and the specific heat. The model is used to calculate the short-time frozen micro-structures. The obtained morphological structure is compared with the vertical brine pore space obtained from X-ray computed tomography.

Changes in Arctic sea ice result in increasing light transmittance and absorption

OpenAIRE

Nicolaus, Marcel; Katlein, Christian; Maslanik, J.; Hendricks, Stefan

2012-01-01

Arctic sea ice has declined and become thinner and younger (more seasonal) during the last decade. One consequence of this is that the surface energy budget of the Arctic Ocean is changing. While the role of surface albedo has been studied intensively, it is still widely unknown how much light penetrates through sea ice into the upper ocean, affecting seaice mass balance, ecosystems, and geochemical processes. Here we present the first large-scale under-ice light measurem...

Single bubble sonoluminescence

NARCIS (Netherlands)

Brenner, Michael P.; Hilgenfeldt, Sascha; Lohse, Detlef

2002-01-01

Single-bubble sonoluminescence occurs when an acoustically trapped and periodically driven gas bubble collapses so strongly that the energy focusing at collapse leads to light emission. Detailed experiments have demonstrated the unique properties of this system: the spectrum of the emitted light

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.

Estimation of Antarctic Land-Fast Sea Ice Algal Biomass and Snow Thickness From Under-Ice Radiance Spectra in Two Contrasting Areas

Science.gov (United States)

Wongpan, P.; Meiners, K. M.; Langhorne, P. J.; Heil, P.; Smith, I. J.; Leonard, G. H.; Massom, R. A.; Clementson, L. A.; Haskell, T. G.

2018-03-01

Fast ice is an important component of Antarctic coastal marine ecosystems, providing a prolific habitat for ice algal communities. This work examines the relationships between normalized difference indices (NDI) calculated from under-ice radiance measurements and sea ice algal biomass and snow thickness for Antarctic fast ice. While this technique has been calibrated to assess biomass in Arctic fast ice and pack ice, as well as Antarctic pack ice, relationships are currently lacking for Antarctic fast ice characterized by bottom ice algae communities with high algal biomass. We analyze measurements along transects at two contrasting Antarctic fast ice sites in terms of platelet ice presence: near and distant from an ice shelf, i.e., in McMurdo Sound and off Davis Station, respectively. Snow and ice thickness, and ice salinity and temperature measurements support our paired in situ optical and biological measurements. Analyses show that NDI wavelength pairs near the first chlorophyll a (chl a) absorption peak (≈440 nm) explain up to 70% of the total variability in algal biomass. Eighty-eight percent of snow thickness variability is explained using an NDI with a wavelength pair of 648 and 567 nm. Accounting for pigment packaging effects by including the ratio of chl a-specific absorption coefficients improved the NDI-based algal biomass estimation only slightly. Our new observation-based algorithms can be used to estimate Antarctic fast ice algal biomass and snow thickness noninvasively, for example, by using moored sensors (time series) or mapping their spatial distributions using underwater vehicles.

Droplets, Bubbles and Ultrasound Interactions.

Science.gov (United States)

Shpak, Oleksandr; Verweij, Martin; de Jong, Nico; Versluis, Michel

2016-01-01

The interaction of droplets and bubbles with ultrasound has been studied extensively in the last 25 years. Microbubbles are broadly used in diagnostic and therapeutic medical applications, for instance, as ultrasound contrast agents. They have a similar size as red blood cells, and thus are able to circulate within blood vessels. Perfluorocarbon liquid droplets can be a potential new generation of microbubble agents as ultrasound can trigger their conversion into gas bubbles. Prior to activation, they are at least five times smaller in diameter than the resulting bubbles. Together with the violent nature of the phase-transition, the droplets can be used for local drug delivery, embolotherapy, HIFU enhancement and tumor imaging. Here we explain the basics of bubble dynamics, described by the Rayleigh-Plesset equation, bubble resonance frequency, damping and quality factor. We show the elegant calculation of the above characteristics for the case of small amplitude oscillations by linearizing the equations. The effect and importance of a bubble coating and effective surface tension are also discussed. We give the main characteristics of the power spectrum of bubble oscillations. Preceding bubble dynamics, ultrasound propagation is introduced. We explain the speed of sound, nonlinearity and attenuation terms. We examine bubble ultrasound scattering and how it depends on the wave-shape of the incident wave. Finally, we introduce droplet interaction with ultrasound. We elucidate the ultrasound-focusing concept within a droplets sphere, droplet shaking due to media compressibility and droplet phase-conversion dynamics.

Soil ecosystem functioning under climate change: plant species and community effects

Energy Technology Data Exchange (ETDEWEB)

Kardol, Paul [ORNL; Cregger, Melissa [ORNL; Campany, Courtney E [ORNL; Classen, Aimee T [ORNL

2010-01-01

Feedbacks of terrestrial ecosystems to climate change depend on soil ecosystem dynamics. Soil ecosystems can directly and indirectly respond to climate change. For example, warming directly alters microbial communities by increasing their activity. Climate change may also alter plant community composition, thus indirectly altering the microbial communities that feed on their inputs. To better understand how climate change may directly and indirectly alter soil ecosystem functioning, we investigated old-field plant community and soil ecosystem responses to single and combined effects of elevated [CO2], warming, and water availability. Specifically, we collected soils at the plot level (plant community soils), and beneath dominant plant species (plant-specific soils). We used microbial enzyme activities and soil nematodes as indicators for soil ecosystem functioning. Our study resulted in two main findings: 1) Overall, while there were some interactions, water, relative to increases in [CO2] and warming, had the largest impact on plant community composition, soil enzyme activities, and soil nematodes. Multiple climate change factors can interact to shape ecosystems, but in this case, those interactions were largely driven by changes in water availability. 2) Indirect effects of climate change, via changes in plant communities, had a significant impact on soil ecosystem functioning and this impact was not obvious when looking at plant community soils. Climate change effects on enzyme activities and soil nematode abundance and community structure strongly differed between plant community soils and plant-specific soils, but also within plant-specific soils. In sum, these results indicate that accurate assessments of climate change impacts on soil ecosystem functioning require incorporating the concurrent changes in plant function and plant community composition. Climate change-induced shifts in plant community composition will likely modify or counteract the direct

Quantifying the Importance of the Rare Biosphere for Microbial Community Response to Organic Pollutants in a Freshwater Ecosystem.

Science.gov (United States)

Wang, Yuanqi; Hatt, Janet K; Tsementzi, Despina; Rodriguez-R, Luis M; Ruiz-Pérez, Carlos A; Weigand, Michael R; Kizer, Heidi; Maresca, Gina; Krishnan, Raj; Poretsky, Rachel; Spain, Jim C; Konstantinidis, Konstantinos T

2017-04-15

value of this astonishing biodiversity for ecosystem functioning remains poorly understood, primarily due to the fact that microbial community analysis frequently focuses on abundant organisms. Using a combination of culture-dependent and culture-independent (metagenomics) techniques, we showed that rare taxa and genes commonly contribute to the microbial community response to organic pollutants. Our findings should have implications for future studies that aim to study the role of rare species in environmental processes, including environmental bioremediation efforts of oil spills or other contaminants. Copyright © 2017 American Society for Microbiology.

BIOMASS AND MICROBIAL ACTIVITY UNDER DIFFERENT FOREST COVERS

Directory of Open Access Journals (Sweden)

Rafael Malfitano Braga

2016-06-01

Full Text Available This study evaluated the soil fertility, biomass and microbial activity of the soil under forest cover of Eucalyptus grandis, Eucalyptus pilularis, Eucalyptus cloeziana and Corymbia maculata; Pinus Caribbean var. hondurensis, 40 years old, and a fragment of Semideciduous Forest, located on the campus of the Federal University of Lavras. In soil samples collected in the 0-5 cm layer were determined fertility parameters, basal respiration and microbial biomass carbon. The results showed that for the species E. grandis and E. cloeziana the carbon of biomass microbial content was higher than for any other ecosystem evaluated, and equal to those observed under native forest. In contrast, the ground under Pinus had the lowest microbiological indexes. Under C. maculata and E. pilularis the contents were intermediate for this parameter. The basal respiration of all ecosystems was equal. The fertility level was very low in all types of evaluated vegetation.

Bubble dynamics equations in Newton fluid

International Nuclear Information System (INIS)

Xiao, J

2008-01-01

For the high-speed flow of Newton fluid, bubble is produced and expanded when it moves toward the surface of fluid. Bubble dynamics is a very important research field to understand the intrinsic feature of bubble production and motion. This research formulates the bubble expansion by expansion-local rotation transformation, which can be calculated by the measured velocity field. Then, the related dynamic equations are established to describe the interaction between the fluid and the bubble. The research shows that the bubble production condition can be expressed by critical vortex value and fluid pressure; and the bubble expansion rate can be obtained by solving the non-linear dynamic equation of bubble motion. The results may help the related research as it shows a special kind of fluid motion in theoretic sense. As an application example, the nanofiber radium-voltage relation and threshold voltage-surface tension relation in electrospinning process are discussed

Bidirectional cinematography of steam-bubble growth

Energy Technology Data Exchange (ETDEWEB)

Deason, V.A.; Reynolds, L.D.

1982-01-01

Single steam bubbles were generated in superheated water in an optical cell. The growth process of the bubbles was recorded with a high-speed motion picture camera at 5000 and 10,000 frames per second. A technique was developed to simultaneously image two orthogonal views of the bubbles on each frame of film. The vertical and horizontal diameters of the bubbles were measured on a frame-by-frame basis, and the data analyzed to determine oscillatory frequencies. The analysis also attempted to determine whether the bubbles were undergoing volumetric oscillations during early growth or whether simple surface wave/rotational behavior caused the observed periodic variations in bubble dimensions. For the bubbles studied, typical oscillation frequencies for the diameters were in the range of 100 to 500 Hz.

Bidirectional cinematography of steam-bubble growth

International Nuclear Information System (INIS)

Deason, V.A.; Reynolds, L.D.

1982-01-01

Single steam bubbles were generated in superheated water in an optical cell. The growth process of the bubbles was recorded with a high-speed motion picture camera at 5000 and 10,000 frames per second. A technique was developed to simultaneously image two orthogonal views of the bubbles on each frame of film. The vertical and horizontal diameters of the bubbles were measured on a frame-by-frame basis, and the data analyzed to determine oscillatory frequencies. The analysis also attempted to determine whether the bubbles were undergoing volumetric oscillations during early growth or whether simple surface wave/rotational behavior caused the observed periodic variations in bubble dimensions. For the bubbles studied, typical oscillation frequencies for the diameters were in the range of 100 to 500 Hz

Microbial production of ice crystals in clouds as a novel atmospheric biosignature

Science.gov (United States)

Santl-Temkiv, T.; Sahyoun, M.; Kjeldsen, H.; Ling, M.; Boesen, T.; Karlson, U. G.; Finster, K.

2014-03-01

A diverse assembly of exoplanets has been discovered during recent decades (Howard 2013), their atmospheres providing some of the most accessible evidence for the presence of biological activity on these planets. Metabolic gases have been commonly proposed as atmospheric biosignatures (Seager et al 2012). However, airborne microbes are also involved in cloud- and precipitation formation on Earth. Thus, meteorological phenomena may serve as alternative atmospheric biosignatures, for which appropriate observational techniques have yet to be developed. The atmospheric part of the Earth's water cycle heavily relies on the presence of nucleating particles, which promote the condensation and freezing of atmospheric water, both potentially leading to precipitation. While cloud condensation nuclei are diverse and relatively common, ice nuclei are poorly understood and comparably rare airborne particles. According to current knowledge, most ice nucleation below ñ15∞C is driven by the presence of inorganic dust particles, which are considered inactive at higher temperatures. Biogenic IN are the only reported particles that promote ice formation above ñ10∞C. Some bacteria, e.g. Pseudomonas syringae, produce Ice Nucleation Active (INA) proteins that are most efficient ice nuclei currently known. These INA bacteria are common in the atmosphere, and may thus be involved in precipitation processes of mixed phase clouds (Möhler et al 2007). We investigate the relevance of bacterial INA proteins for atmospheric processes using three approaches: (i) study of the presence of INA bacteria and their INA proteins in the atmosphere, (ii) a detailed molecular and physical study of isolated INA proteins, and finally (iii) a modeling study of the importance of INA proteins for ice-path in clouds as well as their importance for precipitation. During 14 precipitation events, we observed that 12% of isolated bacteria carried INA genes. INA bacteria had likely been emitted to the

An equation of motion for bubble growth

International Nuclear Information System (INIS)

Lesage, F.J.; Cotton, J.S.; Robinson, A.J.

2009-01-01

A mathematical model is developed which describes asymmetric bubble growth, either during boiling or bubble injection from submerged orifices. The model is developed using the integral form of the continuity and momentum equations, resulting in a general expression for the acceleration of the bubble's centre of gravity. The proposed model highlights the need to include acceleration due to an asymmetric gain or loss of mass in order to accurately predict bubble motion. Some scenarios are posed by which the growth of bubbles, particularly idealized bubbles that remain a section of a sphere, must include the fact that bubble growth can be asymmetric. In particular, for approximately hemispherical bubble growth the sum of the forces acting on the bubble is negligible compared with the asymmetric term. Further, for bubble injection from a submerged needle this component in the equation of motion is very significant during the initial rapid growth phase as the bubble issues from the nozzle changing from a near hemisphere to truncated sphere geometry. (author)

Optical properties of melting first-year Arctic sea ice

Science.gov (United States)

Light, Bonnie; Perovich, Donald K.; Webster, Melinda A.; Polashenski, Christopher; Dadic, Ruzica

2015-11-01

The albedo and transmittance of melting, first-year Arctic sea ice were measured during two cruises of the Impacts of Climate on the Eco-Systems and Chemistry of the Arctic Pacific Environment (ICESCAPE) project during the summers of 2010 and 2011. Spectral measurements were made for both bare and ponded ice types at a total of 19 ice stations in the Chukchi and Beaufort Seas. These data, along with irradiance profiles taken within boreholes, laboratory measurements of the optical properties of core samples, ice physical property observations, and radiative transfer model simulations are employed to describe representative optical properties for melting first-year Arctic sea ice. Ponded ice was found to transmit roughly 4.4 times more total energy into the ocean, relative to nearby bare ice. The ubiquitous surface-scattering layer and drained layer present on bare, melting sea ice are responsible for its relatively high albedo and relatively low transmittance. Light transmittance through ponded ice depends on the physical thickness of the ice and the magnitude of the scattering coefficient in the ice interior. Bare ice reflects nearly three-quarters of the incident sunlight, enhancing its resiliency to absorption by solar insolation. In contrast, ponded ice absorbs or transmits to the ocean more than three-quarters of the incident sunlight. Characterization of the heat balance of a summertime ice cover is largely dictated by its pond coverage, and light transmittance through ponded ice shows strong contrast between first-year and multiyear Arctic ice covers.

Study of stream flow effects on bubble motion

International Nuclear Information System (INIS)

Sami, S.S.

1983-01-01

The formation of air bubbles at constant-pressure by submerged orifices was investigated in both quiescent and moving streams inside a vertical tube. Parameters affecting the bubble rise velocity, such as bubble generating frequency and diameter, were studied and analyzed for bubbles rising in a chain and homogeneous mixture. A special technique for measuring bubble motion parameters has been developed, tested, and employed throughout the experimental investigation. The method is based on a water-air impedance variation. Results obtained in stagnant liquid show that increasing the bubble diameter serves to increase bubble rise velocity, while an opposite trend has been observed for stream liquid where the bubble diameter increase reduces the bubble rise velocity. The increase of bubble generation frequency generally increases the bubble rise velocity. Experimental data covered with bubble radial distribution showed symmetrical profiles of bubble velocity and frequency, and the radial distribution of the velocity profiles sometimes has two maxima and one minimum depending on the liquid velocity. Finally, in stagnant liquid, a normalized correlation has been developed to predict the terminal rise velocity in terms of bubble generating frequency, bubble diameter, single bubble rise velocity, and conduit dimensions. Another correlation is presented for forced bubbly flow, where the bubble rise velocity is expressed as a function of bubble generating frequency, bubble diameter, and water superficial velocity

Microbial diversity in Brazilian mangrove sediments – a mini review

Science.gov (United States)

Ghizelini, Angela Michelato; Mendonça-Hagler, Leda Cristina Santana; Macrae, Andrew

2012-01-01

The importance and protection of mangrove ecosystems has been recognized in Brazilian Federal law since 1965. Being protected in law, however, has not always guaranteed their protection in practice. Mangroves are found in coastal and estuarine locations, which are prime real estate for the growth of cities, ports and other economic activities important for Brazilian development. In this mini-review we introduce what mangroves are and why they are so important. We give a brief overview of the microbial diversity found in mangrove sediments and then focus on diversity studies from Brazilian mangroves. We highlight the breadth and depth of knowledge about mangrove microbial communities gained from studying Brazilian mangroves. We report on the exciting findings of molecular microbial ecology methods that have been very successfully applied to study bacterial communities. We note that there have been fewer studies that focus on fungal communities and that fungal diversity studies deserve more attention. The review ends with a look at how a combination of new molecular biology methods and isolation studies are being developed to monitor and conserve mangrove ecosystems and their associated microbial communities. These recent studies are having a global impact and we hope they will help to protect and re-establish mangrove ecosystems. PMID:24031949

Microbial biomass carbon and enzyme activities of urban soils in Beijing.

Science.gov (United States)

Wang, Meie; Markert, Bernd; Shen, Wenming; Chen, Weiping; Peng, Chi; Ouyang, Zhiyun

2011-07-01

To promote rational and sustainable use of soil resources and to maintain the urban soil quality, it is essential to assess urban ecosystem health. In this study, the microbiological properties of urban soils in Beijing and their spatial distribution patterns across the city were evaluated based on measurements of microbial biomass carbon and urease and invertase activities of the soils for the purpose of assessing the urban ecosystem health of Beijing. Grid sampling design, normal Kriging technique, and the multiple comparisons among different land use types were used in soil sampling and data treatment. The inherent chemical characteristics of urban soils in Beijing, e.g., soil pH, electronic conductivity, heavy metal contents, total N, P and K contents, and soil organic matter contents were detected. The size and diversity of microbial community and the extent of microbial activity in Beijing urban soils were measured as the microbial biomass carbon content and the ratio of microbial biomass carbon content to total soil organic carbon. The microbial community health measured in terms of microbial biomass carbon, urease, and invertase activities varied with the organic substrate and nutrient contents of the soils and were not adversely affected by the presence of heavy metals at p urban soils influenced the nature and activities of the microbial communities.

Linking genes to ecosystem trace gas fluxes in a large-scale model system

Science.gov (United States)

Meredith, L. K.; Cueva, A.; Volkmann, T. H. M.; Sengupta, A.; Troch, P. A.

2017-12-01

Soil microorganisms mediate biogeochemical cycles through biosphere-atmosphere gas exchange with significant impact on atmospheric trace gas composition. Improving process-based understanding of these microbial populations and linking their genomic potential to the ecosystem-scale is a challenge, particularly in soil systems, which are heterogeneous in biodiversity, chemistry, and structure. In oligotrophic systems, such as the Landscape Evolution Observatory (LEO) at Biosphere 2, atmospheric trace gas scavenging may supply critical metabolic needs to microbial communities, thereby promoting tight linkages between microbial genomics and trace gas utilization. This large-scale model system of three initially homogenous and highly instrumented hillslopes facilitates high temporal resolution characterization of subsurface trace gas fluxes at hundreds of sampling points, making LEO an ideal location to study microbe-mediated trace gas fluxes from the gene to ecosystem scales. Specifically, we focus on the metabolism of ubiquitous atmospheric reduced trace gases hydrogen (H2), carbon monoxide (CO), and methane (CH4), which may have wide-reaching impacts on microbial community establishment, survival, and function. Additionally, microbial activity on LEO may facilitate weathering of the basalt matrix, which can be studied with trace gas measurements of carbonyl sulfide (COS/OCS) and carbon dioxide (O-isotopes in CO2), and presents an additional opportunity for gene to ecosystem study. This work will present initial measurements of this suite of trace gases to characterize soil microbial metabolic activity, as well as links between spatial and temporal variability of microbe-mediated trace gas fluxes in LEO and their relation to genomic-based characterization of microbial community structure (phylogenetic amplicons) and genetic potential (metagenomics). Results from the LEO model system will help build understanding of the importance of atmospheric inputs to

Bubbles in graphene

DEFF Research Database (Denmark)

Settnes, Mikkel; Power, Stephen; Lin, Jun

2015-01-01

Strain-induced deformations in graphene are predicted to give rise to large pseudomagnetic fields. We examine theoretically the case of gas-inflated bubbles to determine whether signatures of such fields are present in the local density of states. Sharp-edged bubbles are found to induce Friedel...

What is microbial community ecology?

Science.gov (United States)

Konopka, Allan

2009-11-01

The activities of complex communities of microbes affect biogeochemical transformations in natural, managed and engineered ecosystems. Meaningfully defining what constitutes a community of interacting microbial populations is not trivial, but is important for rigorous progress in the field. Important elements of research in microbial community ecology include the analysis of functional pathways for nutrient resource and energy flows, mechanistic understanding of interactions between microbial populations and their environment, and the emergent properties of the complex community. Some emergent properties mirror those analyzed by community ecologists who study plants and animals: biological diversity, functional redundancy and system stability. However, because microbes possess mechanisms for the horizontal transfer of genetic information, the metagenome may also be considered as a community property.

Growth process of helium bubbles in aluminium

International Nuclear Information System (INIS)

Shiraishi, Haruki; Sakairi, Hideo; Yagi, Eiichi; Karasawa, Takashi; Hashiguti, R.R.

1975-01-01

The growth process of helium bubbles in α-particle bombarded pure aluminum during isothermal anneal ranging 200 to 645 0 C and 1 to 100 hr was observed by a transmission electron microscope and the possible growth mechanisms are discussed. The effects of helium concentration and cold work were investigated. The helium bubbles are detectable only at the anneal above 550 0 C in both annealed and cold worked samples. The cold work does not cause any extra coarsening trend of bubbles. The observed types of bubble distribution in the grain interior are divided into two categories, irrespective of helium concentration and cold work; (1) the fine and uniform bubble distribution, in which case the average size is limited to about 200 A or less in diameter even at the anneal just below the melting point, and (2) the coarsened and non-uniform bubble distribution ranging 500 to 4000 A in diameter. The intermediate size bubbles are scarcely found in any cases. In the above fine bubble distribution, the increase of helium concentration by a factor of two increases the density by the same factor of two, but does not change the mean size of bubbles. Corresponding to the above two characteristic bubble distributions, it is concluded that two different mechanisms are operative in this experiment; (1) the growth of bubbles by the Brownian motion, in which the growth rate of bubbles is decreased to almost zero by bubble faceting and this results in the bubble size constancy during the prolonged annealing, and (2) the growth of bubbles by the grain boundary sweep-out mechanism, by which the abrupt coarsening of bubbles is caused. The lack of existence of the intermediate size bubbles is explained in this way. (auth.)

Nuttier bubbles

International Nuclear Information System (INIS)

Astefanesei, Dumitru; Mann, Robert B.; Stelea, Cristian

2006-01-01

We construct new explicit solutions of general relativity from double analytic continuations of Taub-NUT spacetimes. This generalizes previous studies of 4-dimensional nutty bubbles. One 5-dimensional locally asymptotically AdS solution in particular has a special conformal boundary structure of AdS 3 x S 1 . We compute its boundary stress tensor and relate it to the properties of the dual field theory. Interestingly enough, we also find consistent 6-dimensional bubble solutions that have only one timelike direction. The existence of such spacetimes with non-trivial topology is closely related to the existence of the Taub-NUT(-AdS) solutions with more than one NUT charge. Finally, we begin an investigation of generating new solutions from Taub-NUT spacetimes and nuttier bubbles. Using the so-called Hopf duality, we provide new explicit time-dependent backgrounds in six dimensions

Compartmentalized metabolic network reconstruction of microbial communities to determine the effect of agricultural intervention on soils

Science.gov (United States)

Álvarez-Yela, Astrid Catalina; Gómez-Cano, Fabio; Zambrano, María Mercedes; Husserl, Johana; Danies, Giovanna; Restrepo, Silvia; González-Barrios, Andrés Fernando

2017-01-01

Soil microbial communities are responsible for a wide range of ecological processes and have an important economic impact in agriculture. Determining the metabolic processes performed by microbial communities is crucial for understanding and managing ecosystem properties. Metagenomic approaches allow the elucidation of the main metabolic processes that determine the performance of microbial communities under different environmental conditions and perturbations. Here we present the first compartmentalized metabolic reconstruction at a metagenomics scale of a microbial ecosystem. This systematic approach conceives a meta-organism without boundaries between individual organisms and allows the in silico evaluation of the effect of agricultural intervention on soils at a metagenomics level. To characterize the microbial ecosystems, topological properties, taxonomic and metabolic profiles, as well as a Flux Balance Analysis (FBA) were considered. Furthermore, topological and optimization algorithms were implemented to carry out the curation of the models, to ensure the continuity of the fluxes between the metabolic pathways, and to confirm the metabolite exchange between subcellular compartments. The proposed models provide specific information about ecosystems that are generally overlooked in non-compartmentalized or non-curated networks, like the influence of transport reactions in the metabolic processes, especially the important effect on mitochondrial processes, as well as provide more accurate results of the fluxes used to optimize the metabolic processes within the microbial community. PMID:28767679

Compartmentalized metabolic network reconstruction of microbial communities to determine the effect of agricultural intervention on soils.

Directory of Open Access Journals (Sweden)

María Camila Alvarez-Silva

Full Text Available Soil microbial communities are responsible for a wide range of ecological processes and have an important economic impact in agriculture. Determining the metabolic processes performed by microbial communities is crucial for understanding and managing ecosystem properties. Metagenomic approaches allow the elucidation of the main metabolic processes that determine the performance of microbial communities under different environmental conditions and perturbations. Here we present the first compartmentalized metabolic reconstruction at a metagenomics scale of a microbial ecosystem. This systematic approach conceives a meta-organism without boundaries between individual organisms and allows the in silico evaluation of the effect of agricultural intervention on soils at a metagenomics level. To characterize the microbial ecosystems, topological properties, taxonomic and metabolic profiles, as well as a Flux Balance Analysis (FBA were considered. Furthermore, topological and optimization algorithms were implemented to carry out the curation of the models, to ensure the continuity of the fluxes between the metabolic pathways, and to confirm the metabolite exchange between subcellular compartments. The proposed models provide specific information about ecosystems that are generally overlooked in non-compartmentalized or non-curated networks, like the influence of transport reactions in the metabolic processes, especially the important effect on mitochondrial processes, as well as provide more accurate results of the fluxes used to optimize the metabolic processes within the microbial community.

Sinking bubbles in stout beers

Science.gov (United States)

Lee, W. T.; Kaar, S.; O'Brien, S. B. G.

2018-04-01

A surprising phenomenon witnessed by many is the sinking bubbles seen in a settling pint of stout beer. Bubbles are less dense than the surrounding fluid so how does this happen? Previous work has shown that the explanation lies in a circulation of fluid promoted by the tilted sides of the glass. However, this work has relied heavily on computational fluid dynamics (CFD) simulations. Here, we show that the phenomenon of sinking bubbles can be predicted using a simple analytic model. To make the model analytically tractable, we work in the limit of small bubbles and consider a simplified geometry. The model confirms both the existence of sinking bubbles and the previously proposed mechanism.

Projected polar bear sea ice habitat in the Canadian Arctic Archipelago.

Science.gov (United States)

Hamilton, Stephen G; Castro de la Guardia, Laura; Derocher, Andrew E; Sahanatien, Vicki; Tremblay, Bruno; Huard, David

2014-01-01

Sea ice across the Arctic is declining and altering physical characteristics of marine ecosystems. Polar bears (Ursus maritimus) have been identified as vulnerable to changes in sea ice conditions. We use sea ice projections for the Canadian Arctic Archipelago from 2006 - 2100 to gain insight into the conservation challenges for polar bears with respect to habitat loss using metrics developed from polar bear energetics modeling. Shifts away from multiyear ice to annual ice cover throughout the region, as well as lengthening ice-free periods, may become critical for polar bears before the end of the 21st century with projected warming. Each polar bear population in the Archipelago may undergo 2-5 months of ice-free conditions, where no such conditions exist presently. We identify spatially and temporally explicit ice-free periods that extend beyond what polar bears require for nutritional and reproductive demands. Under business-as-usual climate projections, polar bears may face starvation and reproductive failure across the entire Archipelago by the year 2100.

Interaction mechanism of double bubbles in hydrodynamic cavitation

Science.gov (United States)

Li, Fengchao; Cai, Jun; Huai, Xiulan; Liu, Bin

2013-06-01

Bubble-bubble interaction is an important factor in cavitation bubble dynamics. In this paper, the dynamic behaviors of double cavitation bubbles driven by varying pressure field downstream of an orifice plate in hydrodynamic cavitation reactor are examined. The bubble-bubble interaction between two bubbles with different radii is considered. We have shown the different dynamic behaviors between double cavitation bubbles and a single bubble by solving two coupling nonlinear equations using the Runge-Kutta fourth order method with adaptive step size control. The simulation results indicate that, when considering the role of the neighbor smaller bubble, the oscillation of the bigger bubble gradually exhibits a lag in comparison with the single-bubble case, and the extent of the lag becomes much more obvious as time goes by. This phenomenon is more easily observed with the increase of the initial radius of the smaller bubble. In comparison with the single-bubble case, the oscillation of the bigger bubble is enhanced by the neighbor smaller bubble. Especially, the pressure pulse of the bigger bubble rises intensely when the sizes of two bubbles approach, and a series of peak values for different initial radii are acquired when the initial radius ratio of two bubbles is in the range of 0.9˜1.0. Although the increase of the center distance between two bubbles can weaken the mutual interaction, it has no significant influence on the enhancement trend. On the one hand, the interaction between two bubbles with different radii can suppress the growth of the smaller bubble; on the other hand, it also can enhance the growth of the bigger one at the same time. The significant enhancement effect due to the interaction of multi-bubbles should be paid more attention because it can be used to reinforce the cavitation intensity for various potential applications in future.

The Relationship Between Debris and Grain Growth in Polycrystalline Ice

Science.gov (United States)

Rivera, A.; McCarthy, C.

2017-12-01

An understanding of the mechanisms of ice flow, as well as the factors that affect it, must be improved in order to make more accurate predictions of glacial melting rates, and hence, sea level rise. Both field and laboratory studies have made an association between smaller grain sizes of ice and more rapid deformation. Therefore, it is essential to understand the different factors that affect grain size. Observations from ice cores have shown a correlation between debris content in layers of ice with smaller grain sizes, whereas layers with very little debris have larger grain sizes. Static grain growth rates for both pure ice and ice containing bubbles are well constrained, but the effect of small rock/dust particles has received less attention. We tested the relationship between debris and grain growth in polycrystalline ice with controlled annealing at -5°C and microstructural characterization. Three samples, two containing fine rock powder and one without, were fabricated, annealed, and imaged over time. The samples containing powder had different initial grain sizes due to solidification temperature during fabrication. Microstructural analysis was done on all samples after initial fabrication and at various times during the anneal using a light microscope housed in a cold room. Microstructural images were analyzed by the linear-intercept method. When comparing average grain size over time between pure ice and ice with debris, it was found that the rate of growth for the pure ice was larger than the rate of growth for the ice with debris at both initial grain sizes. These results confirm the observations seen in nature, and suggest that small grain size is indeed influenced by debris content. By understanding this, scientists could gain a more in-depth understanding of internal ice deformation and the mechanisms of ice flow. This, in turn, helps improve the accuracy of glacial melting predictions, and sea level rise in the future.

Elevated temperature alters carbon cycling in a model microbial community

Science.gov (United States)

Mosier, A.; Li, Z.; Thomas, B. C.; Hettich, R. L.; Pan, C.; Banfield, J. F.

2013-12-01

Earth's climate is regulated by biogeochemical carbon exchanges between the land, oceans and atmosphere that are chiefly driven by microorganisms. Microbial communities are therefore indispensible to the study of carbon cycling and its impacts on the global climate system. In spite of the critical role of microbial communities in carbon cycling processes, microbial activity is currently minimally represented or altogether absent from most Earth System Models. Method development and hypothesis-driven experimentation on tractable model ecosystems of reduced complexity, as presented here, are essential for building molecularly resolved, benchmarked carbon-climate models. Here, we use chemoautotropic acid mine drainage biofilms as a model community to determine how elevated temperature, a key parameter of global climate change, regulates the flow of carbon through microbial-based ecosystems. This study represents the first community proteomics analysis using tandem mass tags (TMT), which enable accurate, precise, and reproducible quantification of proteins. We compare protein expression levels of biofilms growing over a narrow temperature range expected to occur with predicted climate changes. We show that elevated temperature leads to up-regulation of proteins involved in amino acid metabolism and protein modification, and down-regulation of proteins involved in growth and reproduction. Closely related bacterial genotypes differ in their response to temperature: Elevated temperature represses carbon fixation by two Leptospirillum genotypes, whereas carbon fixation is significantly up-regulated at higher temperature by a third closely related genotypic group. Leptospirillum group III bacteria are more susceptible to viral stress at elevated temperature, which may lead to greater carbon turnover in the microbial food web through the release of viral lysate. Overall, this proteogenomics approach revealed the effects of climate change on carbon cycling pathways and other

An equation of motion for bubble growth

Energy Technology Data Exchange (ETDEWEB)

Lesage, F.J. [College d' Enseignement General et Professionnel de L' Outaouais, Gatineau, Quebec (Canada). Dept. of Mathematics; Cotton, J.S. [McMaster University, Hamilton, ON (Canada). Dept. of Mechanical Engineering; Robinson, A.J. [Trinity College Dublin (Ireland). Dept. of Mechanical and Manufacturing Engineering

2009-07-01

A mathematical model is developed which describes asymmetric bubble growth, either during boiling or bubble injection from submerged orifices. The model is developed using the integral form of the continuity and momentum equations, resulting in a general expression for the acceleration of the bubble's centre of gravity. The proposed model highlights the need to include acceleration due to an asymmetric gain or loss of mass in order to accurately predict bubble motion. Some scenarios are posed by which the growth of bubbles, particularly idealized bubbles that remain a section of a sphere, must include the fact that bubble growth can be asymmetric. In particular, for approximately hemispherical bubble growth the sum of the forces acting on the bubble is negligible compared with the asymmetric term. Further, for bubble injection from a submerged needle this component in the equation of motion is very significant during the initial rapid growth phase as the bubble issues from the nozzle changing from a near hemisphere to truncated sphere geometry. (author)

Board-invited review: Rumen microbiology: leading the way in microbial ecology.

Science.gov (United States)

Krause, D O; Nagaraja, T G; Wright, A D G; Callaway, T R

2013-01-01

Robert Hungate, considered the father of rumen microbiology, was the first to initiate a systematic exploration of the microbial ecosystem of the rumen, but he was not alone. The techniques he developed to isolate and identify cellulose-digesting bacteria from the rumen have had a major impact not only in delineating the complex ecosystem of the rumen but also in clinical microbiology and in the exploration of a number of other anaerobic ecosystems, including the human hindgut. Rumen microbiology has pioneered our understanding of much of microbial ecology and has broadened our knowledge of ecology in general, as well as improved the ability to feed ruminants more efficiently. The discovery of anaerobic fungi as a component of the ruminal flora disproved the central dogma in microbiology that all fungi are aerobic organisms. Further novel interactions between bacterial species such as nutrient cross feeding and interspecies H2 transfer were first described in ruminal microorganisms. The complexity and diversity present in the rumen make it an ideal testing ground for microbial theories (e.g., the effects of nutrient limitation and excess) and techniques (such as 16S rRNA), which have rewarded the investigators that have used this easily accessed ecosystem to understand larger truths. Our understanding of characteristics of the ruminal microbial population has opened new avenues of microbial ecology, such as the existence of hyperammonia-producing bacteria and how they can be used to improve N efficiency in ruminants. In this review, we examine some of the contributions to science that were first made in the rumen, which have not been recognized in a broader sense.

Computing bubble-points of CO

NARCIS (Netherlands)

Ramdin, M.; Balaji, S.P.; Vicent Luna, J.M.; Torres-Knoop, A; Chen, Q.; Dubbeldam, D.; Calero, S; de Loos, T.W.; Vlugt, T.J.H.

2016-01-01

Computing bubble-points of multicomponent mixtures using Monte Carlo simulations is a non-trivial task. A new method is used to compute gas compositions from a known temperature, bubble-point pressure, and liquid composition. Monte Carlo simulations are used to calculate the bubble-points of

Scaling Soil Microbe-Water Interactions from Pores to Ecosystems

Science.gov (United States)

Manzoni, S.; Katul, G. G.

2014-12-01

The spatial scales relevant to soil microbial activity are much finer than scales relevant to whole-ecosystem function and biogeochemical cycling. On the one hand, how to link such different scales and develop scale-aware biogeochemical and ecohydrological models remains a major challenge. On the other hand, resolving these linkages is becoming necessary for testing ecological hypotheses and resolving data-theory inconsistencies. Here, the relation between microbial respiration and soil moisture expressed in water potential is explored. Such relation mediates the water availability effects on ecosystem-level heterotrophic respiration and is of paramount importance for understanding CO2 emissions under increasingly variable rainfall regimes. Respiration has been shown to decline as the soil dries in a remarkably consistent way across climates and soil types (open triangles in Figure). Empirical models based on these respiration-moisture relations are routinely used in Earth System Models to predict moisture effects on ecosystem respiration. It has been hypothesized that this consistency in microbial respiration decline is due to breakage of water film continuity causing in turn solute diffusion limitations in dry conditions. However, this hypothesis appears to be at odds with what is known about soil hydraulic properties. Water film continuity estimated from soil water retention (SWR) measurements at the 'Darcy' scale breaks at far less negative water potential (micro-level relevant to microbial activity. Such downscaling resolves the inconsistency between respiration thresholds and hydrological thresholds. This result, together with observations of residual microbial activity well below -15 MPa (dashed back curve in Figure), lends support to the hypothesis that soil microbes are substrate-limited in dry conditions.

Microbial Mechanisms Enhancing Soil C Storage

Energy Technology Data Exchange (ETDEWEB)

Zak, Donald [Univ. of Michigan, Ann Arbor, MI (United States)

2015-09-24

Human activity has globally increased the amount of nitrogen (N) entering ecosystems, which could foster higher rates of C sequestration in the N-limited forests of the Northern Hemisphere. Presently, these ecosystems are a large global sink for atmospheric CO2, the magnitude of which could be influenced by the input of human-derived N from the atmosphere. Nevertheless, empirical studies and simulation models suggest that anthropogenic N deposition could have either an important or inconsequential effect on C storage in forests of the Northern Hemisphere, a set of observations that continues to fuel scientific discourse. Although a relatively simple set of physiological processes control the C balance of terrestrial ecosystems, we still fail to understand how these processes directly and indirectly respond to greater N availability in the environment. The uptake of anthropogenic N by N-limited forest trees and a subsequent enhancement of net primary productivity have been the primary mechanisms thought to increase ecosystem C storage in Northern Hemisphere forests. However, there are reasons to expect that anthropogenic N deposition could slow microbial activity in soil, decrease litter decay, and increase soil C storage. Fungi dominate the decay of plant detritus in forests and, under laboratory conditions, high inorganic N concentrations can repress the transcription of genes coding for enzymes which depolymerize lignin in plant detritus; this observation presents the possibility that anthropogenic N deposition could elicit a similar effect under field conditions. In our 18-yr-long field experiment, we have been able to document that simulated N deposition, at a rate expected in the near future, resulted in a significant decline in cellulolytic and lignolytic microbial activity, slowed plant litter decay, and increased soil C storage (+10%); this response is not portrayed in any biogeochemical model simulating the effect of atmospheric N deposition on ecosystem C

Bubble bursting at an interface

Science.gov (United States)

Kulkarni, Varun; Sajjad, Kumayl; Anand, Sushant; Fezzaa, Kamel

2017-11-01

Bubble bursting is crucial to understanding the life span of bubbles at an interface and more importantly the nature of interaction between the bulk liquid and the outside environment from the point of view of chemical and biological material transport. The dynamics of the bubble as it rises from inside the liquid bulk to its disappearance on the interface after bursting is an intriguing process, many aspects of which are still being explored. In our study, we make detailed high speed imaging measurements to examine carefully the hole initiation and growth in bursting bubbles that unearth some interesting features of the process. Previous analyses available in literature are revisited based on our novel experimental visualizations. Using a combination of experiments and theory we investigate the role of various forces during the rupturing process. This work aims to further our current knowledge of bubble dynamics at an interface with an aim of predicting better the bubble evolution from its growth to its eventual integration with the liquid bulk.

Scales and structures in bubbly flows. Experimental analysis of the flow in bubble columns and in bubbling fluidized beds

NARCIS (Netherlands)

Groen, J.S.

2004-01-01

In this project a detailed experimental analysis was performed of the dynamic flow field in bubbly flows, with the purpose of determining local hydrodynamics and scale effects. Measurements were done in gas-liquid systems (air-water bubble columns) and in gas-solid systems (air-sand bubbing

A physiological model of the interaction between tissue bubbles and the formation of blood-borne bubbles under decompression

International Nuclear Information System (INIS)

Chappell, M A; Payne, S J

2006-01-01

Under decompression, bubbles can form in the human body, and these can be found both within the body tissues and the bloodstream. Mathematical models for the growth of both types of bubbles have previously been presented, but they have not been coupled together. This work thus explores the interaction between the growth of tissue and blood-borne bubbles under decompression, specifically looking at the extent to which they compete for the common resource of inert gas held in solution in the tissues. The influence of tissue bubbles is found to be significant for densities as low as 10 ml -1 for tissues which are poorly perfused. However, the effects of formation of bubbles in the blood are not found until the density of bubble production sites reaches 10 6 ml -1 . From comparison of the model predictions with experimental evidence for bubbles produced in animals and man under decompression, it is concluded that the density of tissue bubbles is likely to have a significant effect on the number of bubbles produced in the blood. However, the density of nucleation sites in the blood is unlikely to be sufficiently high in humans for the formation of bubbles in the blood to have a significant impact on the growth of the bubbles in the tissue

Using community trait-distributions to assign microbial responses to pH changes and Cd in forest soils treated with wood ash

DEFF Research Database (Denmark)

Cruz Paredes, Carla; Wallander, Håkan; Kjøller, Rasmus

2017-01-01

is the current land-use. In forestry, wood ash has been proposed as a liming agent and a fertilizer, but has been questioned due to the risk associated with its Cd content. The aim of this study was to determine the effects of wood ash on the structure and function of decomposer microbial communities in forest......The identification of causal links between microbial community structure and ecosystem functions are required for a mechanistic understanding of ecosystem responses to environmental change. One of the most influential factors affecting plants and microbial communities in soil in managed ecosystems...... soils and to assign them to causal mechanisms. To do this, we assessed the responses to wood ash application of (i) the microbial community size and structure, (ii) microbial community trait-distributions, including bacterial pH relationships and Cd-tolerance, to assign the microbial responses to p...

Mechanics of gas-vapor bubbles

NARCIS (Netherlands)

Hao, Yue; Zhang, Yuhang; Prosperetti, Andrea

2017-01-01

Most bubbles contain a mixture of vapor and incondensible gases. While the limit cases of pure vapor and pure gas bubbles are well studied, much less is known about the more realistic case of a mixture. The bubble contents continuously change due to the combined effects of evaporation and

Sonoluminescence and bubble fusion

OpenAIRE

Arakeri, Vijay H

2003-01-01

Sonoluminescence (SL), the phenomenon of light emission from nonlinear motion of a gas bubble, involves an extreme degree of energy focusing. The conditions within the bubble during the last stages of the nearly catastrophic implosion are thought to parallel the efforts aimed at developing inertial confinement fusion. A limited review on the topic of SL and its possible connection to bubble nuclear fusion is presented here. The emphasis is on looking for a link between the various forms o...

Soil biochemical properties of grassland ecosystems under anthropogenic emission of nitrogen compounds

Science.gov (United States)

Kudrevatykh, Irina; Ivashchenko, Kristina; Ananyeva, Nadezhda

2016-04-01

Inflow of pollutants in terrestrial ecosystems nowadays increases dramatically, that might be led to disturbance of natural biogeochemical cycles and landscapes structure. Production of nitrogen fertilizers is one of the air pollution sources, namely by nitrogen compounds (NH4+, NO3-, NO2-). Air pollution by nitrogen compounds of terrestrial ecosystems might be affected on soil biochemical properties, which results increasing mineral nitrogen content in soil, changing soil P/N and Al/Ca ratios, and, finally, the deterioration of soil microbial community functioning. The research is focused on the assessment of anthropogenic emission of nitrogen compounds on soil properties of grassland ecosystems in European Russia. Soil samples (Voronic Chernozem Pachic, upper 10 cm mineral layer, totally 10) were taken from grassland ecosystem: near (5-10 m) nitrogen fertilizer factory (NFF), and far from it (20-30 km, served as a control) in Tula region. In soil samples the NH4+ and NO3- (Kudeyarov's photocolorimetric method), P, Ca, Al (X-ray fluorescence method) contents were measured. Soil microbial biomass carbon (Cmic) was analyzed by substrate-induced respiration method. Soil microbial respiration (MR) was assessed by CO2 rate production. Soil microbial metabolic quotient (qCO2) was calculated as MR/Cmic ratio. Near NFF the soil ammonium and nitrate nitrogen contents were a strongly varied, variation coefficient (CV) was 42 and 86This study was supported by Russian Foundation of Basic Research Grant No. 14-04-00098, 15-44-03220, 15-04-00915.

Byers Peninsula: A reference site for coastal, terrestrial and limnetic ecosystem studies in maritime Antarctica

Science.gov (United States)

Quesada, A.; Camacho, A.; Rochera, C.; Velázquez, D.

2009-11-01

This article describes the development of an international and multidisciplinary project funded by the Spanish Polar Programme on Byers Peninsula (Livingston Island, South Shetlands). The project adopted Byers Peninsula as an international reference site for coastal and terrestrial (including inland waters) research within the framework of the International Polar Year initiative. Over 30 scientists from 12 countries and 26 institutions participated in the field work, and many others participated in the processing of the samples. The main themes investigated were: Holocene changes in climate, using both lacustrine sediment cores and palaeo-nests of penguins; limnology of the lakes, ponds, rivers and wetlands; microbiology of microbial mats, ecology of microbial food webs and viral effects on aquatic ecosystems; ornithology, with investigations on a Gentoo penguin rookery ( Pygoscelis papua) as well as the flying ornithofauna; biocomplexity and life cycles of species from different taxonomic groups; analysis of a complete watershed unit from a landscape perspective; and human impacts, specifically the effect of trampling on soil characteristics and biota. Byers Peninsula offers many features as an international reference site given it is one of the largest ice-free areas in the Antarctic Peninsula region, it has a variety of different landscape units, and it hosts diverse aquatic ecosystems. Moreover, the Byers Peninsula is a hotspot for Antarctic biodiversity, and because of its high level of environmental protection, it has been very little affected by human activities. Finally, the proximity to the Spanish polar installations on Livingston Island and the experience derived from previous expeditions to the site make it logistically feasible as a site for ongoing monitoring and research.

Aerosolization, Chemical Characterization, Hygroscopicity and Ice Formation of Marine Biogenic Particles

Science.gov (United States)

Alpert, P. A.; Radway, J.; Kilthau, W.; Bothe, D.; Knopf, D. A.; Aller, J. Y.

2013-12-01

The oceans cover the majority of the earth's surface, host nearly half the total global primary productivity and are a major source of atmospheric aerosol particles. However, effects of biological activity on sea spray generation and composition, and subsequent cloud formation are not well understood. Our goal is to elucidate these effects which will be particularly important over nutrient rich seas, where microorganisms can reach concentrations of 10^9 per mL and along with transparent exopolymer particles (TEP) can become aerosolized. Here we report the results of mesocosm experiments in which bubbles were generated by two methods, either recirculating impinging water jets or glass frits, in natural or artificial seawater containing bacteria and unialgal cultures of three representative phytoplankton species, Thalassiosira pseudonana, Emiliania huxleyi, and Nannochloris atomus. Over time we followed the size distribution of aerosolized particles as well as their hygroscopicity, heterogeneous ice nucleation potential, and individual physical-chemical characteristics. Numbers of cells and the mass of dissolved and particulate organic carbon (DOC, POC), TEP (which includes polysaccharide-containing microgels and nanogels >0.4 μm in diameter) were determined in the bulk water, the surface microlayer, and aerosolized material. Aerosolized particles were also impacted onto substrates for ice nucleation and water uptake experiments, elemental analysis using computer controlled scanning electron microscopy and energy dispersive analysis of X-rays (CCSEM/EDX), and determination of carbon bonding with scanning transmission X-ray microscopy and near-edge X-ray absorption fine structure spectroscopy (STXM/NEXAFS). Regardless of bubble generation method, the overall concentration of aerosol particles, TEP, POC and DOC increased as concentrations of bacterial and phytoplankton cells increased, stabilized, and subsequently declined. Particles cloud formation and potential

Atmospheric H2O2 measurement: comparison of cold trap method with impinger bubbling method

Science.gov (United States)

Sakugawa, H.; Kaplan, I. R.

1987-01-01

Collection of atmospheric H2O2 was performed by a cold trap method using dry ice-acetone as the refrigerant. The air was drawn by a pump into a glass gas trap immersed in the dry ice-acetone slush in a dewar flask at a flow rate of 2.5 l min-1 for approximately 2 h. Collection efficiency was > 99% and negligible interferences by O3, SO2 or organic matter with the collected H2O2 in the trap were observed. This method was compared with the air impinger bubbling method which has been previously described (Kok et al., 1978a, b, Envir. Sci. Technol. 12, 1072-1080). The measured total peroxide (H2O2 + organic peroxide) values in a series of aim samples collected by the impinger bubbling method (0.06-3.7 ppb) were always higher than those obtained by the cold trap method (0.02-1.2 ppb). Laboratory experiments suggest that the difference in values between the two methods probably results from the aqueous phase generation of H2O2 and organic peroxide in the impinger solution by a reaction of atmospheric O3 with olefinic and aromatic compounds. If these O3-organic compound reactions which occur in the impinger also occur in aqueous droplets in the atmosphere, the process could be very important for aqueous phase generation of H2O2 in clouds and rainwater.

Microbial ecology to manage processes in environmental biotechnology.

Science.gov (United States)

Rittmann, Bruce E

2006-06-01

Microbial ecology and environmental biotechnology are inherently tied to each other. The concepts and tools of microbial ecology are the basis for managing processes in environmental biotechnology; and these processes provide interesting ecosystems to advance the concepts and tools of microbial ecology. Revolutionary advancements in molecular tools to understand the structure and function of microbial communities are bolstering the power of microbial ecology. A push from advances in modern materials along with a pull from a societal need to become more sustainable is enabling environmental biotechnology to create novel processes. How do these two fields work together? Five principles illuminate the way: (i) aim for big benefits; (ii) develop and apply more powerful tools to understand microbial communities; (iii) follow the electrons; (iv) retain slow-growing biomass; and (v) integrate, integrate, integrate.

New mechanism for bubble nucleation: Classical transitions

International Nuclear Information System (INIS)

Easther, Richard; Giblin, John T. Jr; Hui Lam; Lim, Eugene A.

2009-01-01

Given a scalar field with metastable minima, bubbles nucleate quantum mechanically. When bubbles collide, energy stored in the bubble walls is converted into kinetic energy of the field. This kinetic energy can facilitate the classical nucleation of new bubbles in minima that lie below those of the 'parent' bubbles. This process is efficient and classical, and changes the dynamics and statistics of bubble formation in models with multiple vacua, relative to that derived from quantum tunneling.

Leverage bubble

Science.gov (United States)

Yan, Wanfeng; Woodard, Ryan; Sornette, Didier

2012-01-01

Leverage is strongly related to liquidity in a market and lack of liquidity is considered a cause and/or consequence of the recent financial crisis. A repurchase agreement is a financial instrument where a security is sold simultaneously with an agreement to buy it back at a later date. Repurchase agreement (repo) market size is a very important element in calculating the overall leverage in a financial market. Therefore, studying the behavior of repo market size can help to understand a process that can contribute to the birth of a financial crisis. We hypothesize that herding behavior among large investors led to massive over-leveraging through the use of repos, resulting in a bubble (built up over the previous years) and subsequent crash in this market in early 2008. We use the Johansen-Ledoit-Sornette (JLS) model of rational expectation bubbles and behavioral finance to study the dynamics of the repo market that led to the crash. The JLS model qualifies a bubble by the presence of characteristic patterns in the price dynamics, called log-periodic power law (LPPL) behavior. We show that there was significant LPPL behavior in the market before that crash and that the predicted range of times predicted by the model for the end of the bubble is consistent with the observations.

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

Directory of Open Access Journals (Sweden)

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.

Armoring confined bubbles in concentrated colloidal suspensions

Science.gov (United States)

Yu, Yingxian; Khodaparast, Sepideh; Stone, Howard

2016-11-01

Encapsulation of a bubble with microparticles is known to significantly improve the stability of the bubble. This phenomenon has recently gained increasing attention due to its application in a variety of technologies such as foam stabilization, drug encapsulation and colloidosomes. Nevertheless, the production of such colloidal armored bubble with controlled size and particle coverage ratio is still a great challenge industrially. We study the coating process of a long air bubble by microparticles in a circular tube filled with a concentrated microparticles colloidal suspension. As the bubble proceeds in the suspension of particles, a monolayer of micro-particles forms on the interface of the bubble, which eventually results in a fully armored bubble. We investigate the phenomenon that triggers and controls the evolution of the particle accumulation on the bubble interface. Moreover, we examine the effects of the mean flow velocity, the size of the colloids and concentration of the suspension on the dynamics of the armored bubble. The results of this study can potentially be applied to production of particle-encapsulated bubbles, surface-cleaning techniques, and gas-assisted injection molding.

Microbial biotechnology addressing the plastic waste disaster

OpenAIRE

Narancic, Tanja; O'Connor, Kevin E.

2017-01-01

Oceans are a major source of biodiversity, they provide livelihood, and regulate the global ecosystem by absorbing heat and CO 2. However, they are highly polluted with plastic waste. We are discussing here microbial biotechnology advances with the view to improve the start and the end of life of biodegradable polymers, which could contribute to the sustainable use of marine and coastal ecosystems (UN Sustainability development goal 14).

Autochthonous and allochthonous contributions of organic carbon to microbial food webs in Svalbard fjords

KAUST Repository

Holding, Johnna M.; Duarte, Carlos M.; Delgado-Huertas, Antonio; Soetaert, Karline; Vonk, Jorien E.; Agusti, Susana; Wassmann, Paul; Middelburg, Jack J.

2017-01-01

Rising temperatures in the Arctic Ocean are causing sea ice and glaciers to melt at record breaking rates, which has consequences for carbon cycling in the Arctic Ocean that are yet to be fully understood. Microbial carbon cycling is driven by internal processing of in situ produced organic carbon (OC), however recent research suggests that melt water from sea ice and glaciers could introduce an allochthonous source of OC to the microbial food web with ramifications for the metabolic balance of plankton communities. In this study, we characterized autochthonous and allochthonous sources of OC to the Western Svalbard fjord system using stable isotopes of carbon. We quantified δ13C of eukaryotic and prokaryotic planktonic groups using polar lipid-derived fatty acids as biomarkers in addition to measuring δ13C of marine particulate OC and dissolved OC from glacial runoff. δ13C of bacteria (−22.5‰) was higher than that of glacial runoff OC (−28.5‰) and other phytoplankton groups (−24.7 to −29.1‰), which suggests that marine bacteria preferentially use a third source of OC. We present a Bayesian three-source δ13C mixing model whereby ∼ 60% of bacteria carbon is derived from OC in sea ice, and the remaining carbon is derived from autochthonous production and glacial-derived OC. These results suggest that subsidies of OC from melting glaciers will not likely influence microbial carbon cycling in Svalbard fjords in the future and that further research is needed to determine the effects of melting sea ice on microbial carbon cycling in fjord systems and elsewhere in the Arctic Ocean.

Autochthonous and allochthonous contributions of organic carbon to microbial food webs in Svalbard fjords

KAUST Repository

Holding, Johnna M.

2017-03-27

Rising temperatures in the Arctic Ocean are causing sea ice and glaciers to melt at record breaking rates, which has consequences for carbon cycling in the Arctic Ocean that are yet to be fully understood. Microbial carbon cycling is driven by internal processing of in situ produced organic carbon (OC), however recent research suggests that melt water from sea ice and glaciers could introduce an allochthonous source of OC to the microbial food web with ramifications for the metabolic balance of plankton communities. In this study, we characterized autochthonous and allochthonous sources of OC to the Western Svalbard fjord system using stable isotopes of carbon. We quantified δ13C of eukaryotic and prokaryotic planktonic groups using polar lipid-derived fatty acids as biomarkers in addition to measuring δ13C of marine particulate OC and dissolved OC from glacial runoff. δ13C of bacteria (−22.5‰) was higher than that of glacial runoff OC (−28.5‰) and other phytoplankton groups (−24.7 to −29.1‰), which suggests that marine bacteria preferentially use a third source of OC. We present a Bayesian three-source δ13C mixing model whereby ∼ 60% of bacteria carbon is derived from OC in sea ice, and the remaining carbon is derived from autochthonous production and glacial-derived OC. These results suggest that subsidies of OC from melting glaciers will not likely influence microbial carbon cycling in Svalbard fjords in the future and that further research is needed to determine the effects of melting sea ice on microbial carbon cycling in fjord systems and elsewhere in the Arctic Ocean.

Microbial diversity and metabolic networks in acid mine drainage habitats

Directory of Open Access Journals (Sweden)

Celia eMendez-Garcia

2015-05-01

Full Text Available Acid mine drainage (AMD emplacements are low-complexity natural systems. Low-pH conditions appear to be the main factor underlying the limited diversity of the microbial populations thriving in these environments, although temperature, ionic composition, total organic carbon and dissolved oxygen are also considered to significantly influence their microbial life. This natural reduction in diversity driven by extreme conditions was reflected in several studies on the microbial populations inhabiting the various micro-environments present in such ecosystems. Early studies based on the physiology of the autochthonous microbiota and the growing success of omics technologies have enabled a better understanding of microbial ecology and function in low-pH mine outflows; however, complementary omics-derived data should be included to completely describe their microbial ecology. Furthermore, recent updates on the distribution of eukaryotes and ultra-micro-archaea demand their inclusion in the microbial characterisation of AMD systems. In this review, we present a complete overview of the bacterial, archaeal (including ultra-micro-archaeal and eukaryotic diversity in these ecosystems and include a thorough depiction of the metabolism and element cycling in AMD habitats. We also review different metabolic network structures at the organismal level, which is necessary to disentangle the role of each member of the AMD communities described thus far.

Manipulating bubbles with secondary Bjerknes forces

Energy Technology Data Exchange (ETDEWEB)