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Sample records for active microbial populations

  1. Evaluating digestion efficiency in full-scale anaerobic digesters by identifying active microbial populations through the lens of microbial activity

    Mei, Ran; Narihiro, Takashi; Nobu, Masaru K.; Kuroda, Kyohei; Liu, Wen-Tso

    2016-01-01

    Anaerobic digestion is a common technology to biologically stabilize wasted solids produced in municipal wastewater treatment. Its efficiency is usually evaluated by calculating the reduction in volatile solids, which assumes no biomass growth associated with digestion. To determine whether this assumption is valid and further evaluate digestion efficiency, this study sampled 35 digester sludge from different reactors at multiple time points together with the feed biomass in a full-scale water reclamation plant at Chicago, Illinois. The microbial communities were characterized using Illumina sequencing technology based on 16S rRNA and 16S rRNA gene (rDNA). 74 core microbial populations were identified and represented 58.7% of the entire digester community. Among them, active populations were first identified using the ratio of 16S rRNA and 16S rDNA (rRNA/rDNA) for individual populations, but this approach failed to generate consistent results. Subsequently, a recently proposed mass balance model was applied to calculate the specific growth rate (μ), and this approach successfully identified active microbial populations in digester (positive μ) that could play important roles than those with negative μ. It was further estimated that 82% of microbial populations in the feed sludge were digested in comparison with less than 50% calculated using current equations. PMID:27666090

  2. Evaluating digestion efficiency in full-scale anaerobic digesters by identifying active microbial populations through the lens of microbial activity

    Mei, Ran; Narihiro, Takashi; Nobu, Masaru K.; Kuroda, Kyohei; Liu, Wen-Tso

    2016-09-01

    Anaerobic digestion is a common technology to biologically stabilize wasted solids produced in municipal wastewater treatment. Its efficiency is usually evaluated by calculating the reduction in volatile solids, which assumes no biomass growth associated with digestion. To determine whether this assumption is valid and further evaluate digestion efficiency, this study sampled 35 digester sludge from different reactors at multiple time points together with the feed biomass in a full-scale water reclamation plant at Chicago, Illinois. The microbial communities were characterized using Illumina sequencing technology based on 16S rRNA and 16S rRNA gene (rDNA). 74 core microbial populations were identified and represented 58.7% of the entire digester community. Among them, active populations were first identified using the ratio of 16S rRNA and 16S rDNA (rRNA/rDNA) for individual populations, but this approach failed to generate consistent results. Subsequently, a recently proposed mass balance model was applied to calculate the specific growth rate (μ), and this approach successfully identified active microbial populations in digester (positive μ) that could play important roles than those with negative μ. It was further estimated that 82% of microbial populations in the feed sludge were digested in comparison with less than 50% calculated using current equations.

  3. Phosphatase Activity of Microbial Populations in Different Milk Samples in Relation to Protein and Carbohydrate Content

    Sosanka Protim SANDILYA

    2014-12-01

    Full Text Available Cattle milk is a rich source of protein, carbohydrate, vitamins, minerals and all other major and micro nutrients. At a moderate pH, milk is an excellent media for the growth of microbes and thus, intake of raw milk is precarious. In this study, attempt was made for a qualitative study of eight raw milk samples of different varieties of cow and goat milk, collected from Jorhat district of Assam, India, on the basis of nutritional value and microbial population. The highest microbial population was found in the milk collected from cross hybrid variety of cow, whereas microbial contamination was the least in Jersey cow milk. Samples of C1 (Jersey cow variety showed presence of the highest amount of protein and carbohydrate content as compared to the others. Almost all the milk samples showed positive acid and alkaline phosphatase activity. Maximum acid phosphatase activity was observed in cross hybrid cow milk, whereas local cow milk exhibited the highest alkaline phosphatase activity. Phosphatase activity did not show any co-relationship with microbial population of the milk samples. Similarly, the protein and carbohydrate content of the samples did not have any significant impact on both acid and alkaline phosphatase activity.

  4. STATUS OF SOIL MICROBIAL POPULATION, ENZYMATIC ACTIVITY AND BIOMASS OF SELECTED NATURAL, SECONDARY AND REHABILITATED FORESTS

    K. S. Daljit Singh

    2013-01-01

    Full Text Available Substantial clearance of forests and conversion of forest into various land use types contribute to deterioration of soil fertility and associated nutrients loss. Soils from natural and rehabilitated forest in Chikus Forest Reserve and also enrichment planting forest and secondary forest of Tapah Hill Forest Reserve, Perak, Malaysia were selected in order to assess the influence of land use change on biological properties. This study was carried out to provide fundamental information on soil biological properties and also to compare the differences between natural forest, mono-rehabilitated forest, mixed planting forest and natural regenerated forest (secondary forest. Six subplots (20×20 m were established at each study plot and soil samples were collected at the depths of 0-15 cm (topsoil and 15-30 cm (subsoil. Soil microbial population was determined using spread-plate technique. Fluorescein Diacetate (FDA hydrolysis was used to assess the amount of microbial enzymatic activity for each forest plot. Soil Microbial Biomass C (MBC and N (MBN were extracted using chloroform fumigation extraction technique and the amount of MBC was determined by dichromate digestion, while MBN via Kjeldahl digestion technique. Soil acidity was determined by pH meter and moisture content was elucidated using gravimetric method. The levels of microbial population of bacterial and fungal at natural significantly exceeded the corresponding values of rehabilitated and secondary forest. However, microbial population is much higher in rehabilitated forest of Tapah Hill compared to that of secondary forest and also Chikus Forest Reserve planted forest which proves that rehabilitation activities do help increase the level of microbial community in the soils. Longer period of time after planting as in enrichment planting compared to mono planting of S. leprosula plantation showed that restoring and recovery of the planted forest needed time. Deforestation activities

  5. Bioremediation of hydrocarbon degradation in a petroleum-contaminated soil and microbial population and activity determination.

    Wu, Manli; Li, Wei; Dick, Warren A; Ye, Xiqiong; Chen, Kaili; Kost, David; Chen, Liming

    2017-02-01

    Bioremediation of hydrocarbon degradation in petroleum-polluted soil is carried out by various microorganisms. However, little information is available for the relationships between hydrocarbon degradation rates in petroleum-contaminated soil and microbial population and activity in laboratory assay. In a microcosm study, degradation rate and efficiency of total petroleum hydrocarbons (TPH), alkanes, and polycyclic aromatic hydrocarbons (PAH) in a petroleum-contaminated soil were determined using an infrared photometer oil content analyzer and a gas chromatography mass spectrometry (GC-MS). Also, the populations of TPH, alkane, and PAH degraders were enumerated by a modified most probable number (MPN) procedure, and the hydrocarbon degrading activities of these degraders were determined by the Biolog (MT2) MicroPlates assay. Results showed linear correlations between the TPH and alkane degradation rates and the population and activity increases of TPH and alkane degraders, but no correlation was observed between the PAH degradation rates and the PAH population and activity increases. Petroleum hydrocarbon degrading microbial population measured by MPN was significantly correlated with metabolic activity in the Biolog assay. The results suggest that the MPN procedure and the Biolog assay are efficient methods for assessing the rates of TPH and alkane, but not PAH, bioremediation in oil-contaminated soil in laboratory.

  6. Changes in microbial populations and enzyme activities during the bioremediation of oil-contaminated soil.

    Lin, Xin; Li, Xiaojun; Sun, Tieheng; Li, Peijun; Zhou, Qixing; Sun, Lina; Hu, Xiaojun

    2009-10-01

    In the process of bioremediation in the soil contaminated by different oil concentrations, the changes in the microbial numbers (bacteria and fungi) and the enzyme (catalase (CAT), polyphenol oxidase (PPO) and lipase) activities were evaluated over a 2-year period. The results showed that the microbial numbers after 2-year bioremediation were one to ten times higher than those in the initial. The changes in the bacterial and the fungal populations were different during the bioremediation, and the highest microbial numbers for bacteria and fungi were 5.51 x 10(9) CFU g(-1) dry soil in treatment 3 (10,000 mg kg(-1)) in the initial and 5.54 x 10(5) CFU g(-1) dry soil in treatment 5 (50,000 mg kg(-1)) after the 2-year bioremediation period, respectively. The CAT and PPO activities in the contaminated soil decreased with increasing oil concentration, while the lipase activity increased. The activities of CAT and PPO improved after the bioremediation, but lipase activity was on the contrary. The CAT activity was more sensible to the oil than others, and could be alternative to monitor the bioremediation process.

  7. Root Zone Microbial Populations, Urease Activities, and Purification Efficiency for a Constructed Wetland

    LIANG Wei; WU Zhen-Bin; ZHAN Fa-Cui; DENG Jia-Qi

    2004-01-01

    In order to investigate the effects of microorganisms and their urease activities in macrophytic root zones on pollutant removal, four small-scale plots (SSPs) of vertical/reverse-vertical flow wetlands were set up to determine: a) the relationship between the abundance of microorganisms in the root zones and water purification efficiency; and b) the relationship between urease activities in the root zones and pollutant removal in a constructed wetland system. Total numbers of the microbial population (bacteria, fungi, and actinomyces) along with urease activities in the macrophytic root zones were determined. In addition, the relationships between microbial populations and urease activities as well as the wastewater purification efficiencies of total phosphorus (TP), total Kjeldahl nitrogen (TKN), biochemical oxygen demand in 5 days (BOD5), and chemical oxygen demand (COD) were also analyzed. The results showed that there was a highly significant positive correlation (r = 0.9772, P < 0.01) between the number of bacteria in the root zones and BOD5 removal efficiency and a significant negative correlation (r = -0.9092, P < 0.05) between the number of fungi and the removal efficiency of TKN. Meanwhile, there was a significant positive correlation (r -- 0.8830, P < 0.05) between urease activities in the root zones and the removal efficiency of TKN. Thus, during wastewater treatment in a constructed wetland system,microorganism and urease activities in the root zones were very important factors.

  8. Soil microbial population and enzyme activity related to grazing pressure in alpine meadows of Nanda Devi Biosphere Reserve.

    Singh, Sanjeeva K; Rai, J P N

    2004-01-01

    The present study aims to analyze the interaction of prevailing biotic pressure on soil environment with emphasis on its physicochemical and microbiological characteristics determining soil fertility status and thus supporting plant and animal biodiversity in Nanda Devi Biosphere Reserve (NDBR) which is located in northern part of Uttaranchal hills between 79 degrees 40'E to 80 degrees 05'E longitude and 30 degrees 17'N to 30 degrees 41'E latitude. The experimental results revealed that the physico-chemical characteristics (viz., moisture, pH, EC, C, N, P, K, CEC) of soil were maximum in moderately grazed meadow and minimum in intensively grazed meadow. Soil microbial analysis measured in terms of total viable count (TVC) exhibited grazing sensitivity trend being maximum population of bacteria > fungi > actinomycetes. The soil microbial population was positively correlated with soil respiration, dehydrogenase activity, acid phosphatase and microbial biomass, which exhibited uneven trend with grazing pressure. Soil from moderately grazed meadow showed highest microbial count and enzyme activities, whilst intensively grazed meadow showed lowest microbial count and enzyme activities. This depicts the beneficial role of prescribed grazing up to limited extent in management of soil fertility, which might have supported luxuriant growth of a variety of grasses.

  9. Effects of butachlor on microbial populations and enzyme activities in paddy soil.

    Min, H; Ye, Y F; Chen, Z Y; Wu, W X; Yufeng, D

    2001-09-01

    This paper reports the influences of the herbicide butachlor (n-butoxymethlchloro -2', 6'-diethylacetnilide) on microbial populations, respiration, nitrogen fixation and nitrification, and on the activities of dehydrogenase and hydrogen peroxidase in paddy soil. The results showed that the number of actinomycetes declined significantly after the application of butachlor at different concentrations ranging from 5.5 microg g(-1) to 22.0 microg g(-1) dried soil, while that of bacteria and fungi increased. Fungi were easily affected by butachlor compared to the bacteria. The growth of fungi was retarded by butachlor at higher concentrations. Butachlor however, stimulated the growth of anaerobic hydrolytic fermentative bacteria, sulfate-reducing bacteria (SRB) and denitrifying bacteria. The increased concentration of butachlor applied resulted in the higher number of SRB. Butachlor inhibited the growth of hydrogen-producing acetogenic bacteria. The effect of butachlor varied on methane-producing bacteria (MPB) at different concentrations. Butachlor at the concentration of 1.0 microg g(-1) dried soil or less than this concentration accelerated the growth of MPB, while at 22.0 microg g(-1) dried soil showed an inhibition. Butachlor enhanced the activity of dehydrogenase at increasing concentrations. The soil dehydrogenase showed the highest activity on the 16th day after application of 22.0 microg g(-1) dried soil of butachlor. The hydrogen peroxidase could be stimulated by butachlor. The soil respiration was depressed during the period from several days to more than 20 days, depending on concentrations of butachlor applied. Both the nitrogen fixation and nitrification were stimulated in the beginning but reduced greatly afterwards in paddy soil.

  10. Effect of untreated sewage effluent irrigation on heavy metal content, microbial population and enzymatic activities of soils in Aligarh.

    Bansal, O P; Singh, Gajraj; Katiyar, Pragati

    2014-07-01

    The study pertains to the impact of domestic and industrial sewage water irrigation on the chemical, biological and enzymatic activities in alluvial soils of Aligarh District. Results showed that soil enzymatic [dehydogenase (DHA), acid and alkaline phosphatase, urease and catalase] activities in the soils increased up to 14 days of incubation and thereafter inhibited significantly. The enzymatic activity were in the order sewage effluent > partial sewage effluent > ground water irrigated soils. Increase in soil enzymatic activities up to 2nd week of incubation was due to decomposition of organic matter. Maximum inhibition of enzymatic activities, after 14 days of incubation were found in sewage effluent irrigated soils and minimum in ground water irrigated soils. Similar trend was also seen for microbial population. Soil enzymatic activities and microbial population were significantly and positively correlated with soil organic matter. Results also indicated that the microbial population and enzymatic activities in sewage irrigated soils decreased continually with irrigation period. The average concentration of total heavy metals in sewage irrigated soils and partial sewage irrigated soils increased and was 3 and 2 times higher for Zn; 4.5 and 1.7 times higher for Cu; 3.8 and 2.4 times higher for Cr; 5.7 and 3.5 times higher for Pb; 3.5 and 2.2 times higher for Cd and 2.7 and 2.0 times higher for Ni respectively than that of ground water irrigated soils. Results also showed that though total heavy metals concentration increased with period of sewage irrigation but the concentration of diethylene triamine pentaacetic acid (DTPA) extractable heavy metals in partial sewage irrigated and sewage irrigated soils remained almost same, which might be due to deposition of heavy metals in crops grown on the soils.

  11. Comparative study on the rumen microbial populations, hydrolytic enzyme activities and dry matter degradability between different species of ruminant.

    Moon, Yea Hwang; Ok, Ji Un; Lee, Shin Ja; Ha, Jong Kyu; Lee, Sung Sill

    2010-12-01

    A comparative study among Korean native cow (Hanwoo), Holstein dairy cow, Korean native goat and crossbred sheep on the population and marker concentration of ruminal microbes, the activities of carboxymethylcellulase (CMCase), xylanase and amylase, and in situ dry matter (DM) degradability were conducted. Twelve ruminally cannulated animals, three of each species, were used. Animals were fed the same diet containing 40% formula feed and 60% rice straw at the level of 2.5% of body weight. Total viable microbial populations in the rumen fluid were significantly (P < 0.01) greater for bacteria and fungi in goat than those of Holstein. The protozoan population among ruminant species was the reverse from that of bacteria. The concentrations of 2,6-diaminopimelic acid and chitin as markers for bacteria and fungi in the rumen fluid, respectively, were highest in goat, which is in accordance with the above population data. The concentration of aminoethylphosphonic acid as marker of protozoa was highest in Hanwoo and lowest in sheep (P < 0.01). Goat had the highest (P < 0.01) activities of all the enzymes investigated among ruminants. In situ effective degradation of the DM of rice straw was approximately 19% higher in the rumen of goat compared with other animals.

  12. Microbial diversity--insights from population genetics.

    Mes, Ted H M

    2008-01-01

    Although many environmental microbial populations are large and genetically diverse, both the level of diversity and the extent to which it is ecologically relevant remain enigmatic. Because the effective (or long-term) population size, N(e), is one of the parameters that determines population genetic diversity, tests and simulations that assume selectively neutral mutations may help to identify the processes that have shaped microbial diversity. Using ecologically important genes, tests of selective neutrality suggest that adaptive as well as non-adaptive types of selection act and that departure from neutrality may be widespread or restricted to small groups of genotypes. Population genetic simulations using population sizes between 10(3) and 10(7) suggest extremely high levels of microbial diversity in environments that sustain large populations. However, census and effective population sizes may differ considerably, and because we know nothing of the evolutionary history of environmental microbial populations, we also have no idea what N(e) of environmental populations is. On the one hand, this reflects our ignorance of the microbial world. On the other hand, the tests and simulations illustrate interactions between microbial diversity and microbial population genetics that should inform our thinking in microbial ecology. Because of the different views on microbial diversity across these disciplines, such interactions are crucial if we are to understand the role of genes in microbial communities.

  13. Microbial populations in contaminant plumes

    Haack, Sheridan K.; Bekins, Barbara A.

    Efficient biodegradation of subsurface contaminants requires two elements: (1) microbial populations with the necessary degradative capabilities, and (2) favorable subsurface geochemical and hydrological conditions. Practical constraints on experimental design and interpretation in both the hydrogeological and microbiological sciences have resulted in limited knowledge of the interaction between hydrogeological and microbiological features of subsurface environments. These practical constraints include: (1) inconsistencies between the scales of investigation in the hydrogeological and microbiological sciences, and (2) practical limitations on the ability to accurately define microbial populations in environmental samples. However, advances in application of small-scale sampling methods and interdisciplinary approaches to site investigations are beginning to significantly improve understanding of hydrogeological and microbiological interactions. Likewise, culture-based and molecular analyses of microbial populations in subsurface contaminant plumes have revealed significant adaptation of microbial populations to plume environmental conditions. Results of recent studies suggest that variability in subsurface geochemical and hydrological conditions significantly influences subsurface microbial-community structure. Combined investigations of site conditions and microbial-community structure provide the knowledge needed to understand interactions between subsurface microbial populations, plume geochemistry, and contaminant biodegradation. La biodégradation efficace des polluants souterrains requiert deux éléments: des populations microbiennes possédant les aptitudes nécessaires à la dégradation, et des conditions géochimiques et hydrologiques souterraines favorables. Des contraintes pratiques sur la conception et l'interprétation des expériences à la fois en microbiologie et en hydrogéologie ont conduit à une connaissance limitée des interactions entre les

  14. Modeling Approaches for Describing Microbial Population Heterogeneity

    Lencastre Fernandes, Rita

    , ethanol and biomass throughout the reactor. This work has proven that the integration of CFD and population balance models, for describing the growth of a microbial population in a spatially heterogeneous reactor, is feasible, and that valuable insight on the interplay between flow and the dynamics......Although microbial populations are typically described by averaged properties, individual cells present a certain degree of variability. Indeed, initially clonal microbial populations develop into heterogeneous populations, even when growing in a homogeneous environment. A heterogeneous microbial......) to predict distributions of certain population properties including particle size, mass or volume, and molecular weight. Similarly, PBM allow for a mathematical description of distributed cell properties within microbial populations. Cell total protein content distributions (a measure of cell mass) have been...

  15. Wetland restoration and methanogenesis: the activity of microbial populations and competition for substrates at different temperatures

    V. Jerman

    2009-02-01

    Full Text Available Ljubljana marsh in Slovenia is a 16 000 ha area of partly drained fen, intended to be flooded to restore its ecological functions. The resultant water-logging may create anoxic conditions, eventually stimulating production and emission of methane, the most important greenhouse gas next to carbon dioxide. We examined the upper layer (~30 cm of Ljubljana marsh soil for microbial processes that would predominate in water-saturated conditions, focusing on the potential for iron reduction, carbon mineralization (CO2 and CH4 production, and methane emission. Methane emission from water-saturated microcosms was near minimum detectable levels even after extended periods of flooding (>5 months. Methane production in anoxic soil slurries started only after a lag period and was inversely related to iron reduction, which suggested that iron reduction out-competed methanogenesis for electron donors, such as H2 and acetate. Methane production was observed only in samples incubated at 14–38°C. At the beginning of methanogenesis, acetoclastic methanogenesis dominated. In accordance with the preferred substrate, most (91% mcrA (encoding the methyl coenzyme-M reductase, a key gene in methanogenesis clone sequences could be affiliated to the acetoclastic genus Methanosarcina. No methanogens were detected in the original soil. However, a diverse community of iron-reducing Geobacteraceae was found. Our results suggest that methane emission can remain transient and low if water-table fluctuations allow re-oxidation of ferrous iron, sustaining iron reduction as the most important process in terminal carbon mineralization.

  16. Wetland restoration and methanogenesis: the activity of microbial populations and competition for substrates at different temperatures

    V. Jerman

    2009-06-01

    Full Text Available Ljubljana marsh in Slovenia is a 16 000 ha area of partly drained fen, intended to be flooded to restore its ecological functions. The resultant water-logging may create anoxic conditions, eventually stimulating production and emission of methane, the most important greenhouse gas next to carbon dioxide. We examined the upper layer (~30 cm of Ljubljana marsh soil for microbial processes that would predominate in water-saturated conditions, focusing on the potential for iron reduction, carbon mineralization (CO2 and CH4 production, and methane emission. Methane emission from water-saturated microcosms was near minimum detectable levels even after extended periods of flooding (>5 months. Methane production in anoxic soil slurries started only after a lag period of 84 d at 15°C and a minimum of 7 d at 37°C, the optimum temperature for methanogenesis. This lag was inversely related to iron reduction, which suggested that iron reduction out-competed methanogenesis for electron donors, such as H2 and acetate. Methane production was observed only in samples incubated at 14–38°C. At the beginning of methanogenesis, acetoclastic methanogenesis dominated. In accordance with the preferred substrate, most (91% mcrA (encoding the methyl coenzyme-M reductase, a key gene in methanogenesis clone sequences could be affiliated to the acetoclastic genus Methanosarcina. No methanogens were detected in the original soil. However, a diverse community of iron-reducing Geobacteraceae was found. Our results suggest that methane emission can remain transient and low if water-table fluctuations allow re-oxidation of ferrous iron, sustaining iron reduction as the most important process in terminal carbon mineralization.

  17. Effect of Dissolved Oxygen on Microbial Population and Settling of Dairy Activated Sludge

    T. Subramani

    2014-12-01

    Full Text Available The study was carried out to identify and study the settling characteristics of the dairy activated sludge. The causes and the control measure for the sludge bulking were studied. The activated sludge was generated by running a batch reactor of capacity of 10 liters for a θC of 10 days. It was operated until steady state conditions were reached. pH, DO, MLSS and COD were taken as the parameters. The settling studies were carried out for different MLSS concentrations ranging from 2g/L to 20g/L. The addition of Chlorine was selected as the control measure and was added for various doses such as 1 ml, 2 ml and 3 ml of Bleaching powder solution (1 ml of Bleaching powder solution contains 0.515 mg of Chlorine. Settling curves between interface height and time were observed before and after the addition of the Chlorine. From the settling curve the limiting solids flux were obtained. After the addition of Chlorine, there was a considerable increase in the settling velocity that improves the settling nature of the sludge. Area of Secondary settling tank was calculated from the modified solids flux method.

  18. Impact of rhizobial populations and their host legumes on microbial activity in soils of arid regions in Tunisia

    Fterich, A.; Mahdhi, M.; Mars, M.

    2009-07-01

    Nitrogen fixing legumes and their microsymbionts are a fundamental contributor to soil fertility and prevent their degradation in arid and semi arid ecosystems. In Tunisia, few data are available on the contribution of these legumes in microbial activity in the arid soil. In this objective, a study was undertaken on five leguminous species from different arid regions to evaluate their ability to regenerate microbiological processes of the soil: Genista saharea, Genista microcephala, Acacia tortilis sspr raddiana, Retama raetam and Prosopis stephaniana. (Author)

  19. Microbial diversity - insights from population genetics

    Mes, T.H.M.

    2008-01-01

    Although many environmental microbial populations are large and genetically diverse, both the level of diversity and the extent to which it is ecologically relevant remain enigmatic. Because the effective (or long-term) population size, Ne, is one of the parameters that determines population genetic

  20. Impact of Fungicide Mancozeb at Different Application Rates on Soil Microbial Populations, Soil Biological Processes, and Enzyme Activities in Soil

    Abhishek Walia

    2014-01-01

    Full Text Available The use of fungicides is the continuous exercise particularly in orchard crops where fungal diseases, such as white root rot, have the potential to destroy horticultural crops rendering them unsaleable. In view of above problem, the present study examines the effect of different concentrations of mancozeb (0–2000 ppm at different incubation periods for their harmful side effects on various microbiological processes, soil microflora, and soil enzymes in alluvial soil (pH 6.8 collected from apple orchards of Shimla in Himachal Pradesh (India. Low concentrations of mancozeb were found to be deleterious towards fungal and actinomycetes population while higher concentrations (1000 and 2000 ppm were found to be detrimental to soil bacteria. Mancozeb impaired the process of ammonification and nitrification. Similar results were observed for nitrifying and ammonifying bacteria. Phosphorus solubilization was increased by higher concentration of mancozeb, that is, 250 ppm and above. In unamended soil, microbial biomass carbon and carbon mineralization were adversely affected by mancozeb. Soil enzymes, that is, amylase, invertase, and phosphatase showed adverse and disruptive effect when mancozeb used was above 10 ppm in unamended soil. These results conclude that, to lessen the harmful effects in soil biological processes caused by this fungicide, addition of higher amount of nitrogen based fertilizers is required.

  1. Septic tank additive impacts on microbial populations.

    Pradhan, S; Hoover, M T; Clark, G H; Gumpertz, M; Wollum, A G; Cobb, C; Strock, J

    2008-01-01

    Environmental health specialists, other onsite wastewater professionals, scientists, and homeowners have questioned the effectiveness of septic tank additives. This paper describes an independent, third-party, field scale, research study of the effects of three liquid bacterial septic tank additives and a control (no additive) on septic tank microbial populations. Microbial populations were measured quarterly in a field study for 12 months in 48 full-size, functioning septic tanks. Bacterial populations in the 48 septic tanks were statistically analyzed with a mixed linear model. Additive effects were assessed for three septic tank maintenance levels (low, intermediate, and high). Dunnett's t-test for tank bacteria (alpha = .05) indicated that none of the treatments were significantly different, overall, from the control at the statistical level tested. In addition, the additives had no significant effects on septic tank bacterial populations at any of the septic tank maintenance levels. Additional controlled, field-based research iswarranted, however, to address additional additives and experimental conditions.

  2. Effects of Secondary Plant Metabolites on Microbial Populations: Changes in Community Structure and Metabolic Activity in Contaminated Environments

    Musilova, Lucie; Ridl, Jakub; Polivkova, Marketa; Macek, Tomas; Uhlik, Ondrej

    2016-01-01

    Secondary plant metabolites (SPMEs) play an important role in plant survival in the environment and serve to establish ecological relationships between plants and other organisms. Communication between plants and microorganisms via SPMEs contained in root exudates or derived from litter decomposition is an example of this phenomenon. In this review, the general aspects of rhizodeposition together with the significance of terpenes and phenolic compounds are discussed in detail. We focus specifically on the effect of SPMEs on microbial community structure and metabolic activity in environments contaminated by polychlorinated biphenyls (PCBs) and polyaromatic hydrocarbons (PAHs). Furthermore, a section is devoted to a complex effect of plants and/or their metabolites contained in litter on bioremediation of contaminated sites. New insights are introduced from a study evaluating the effects of SPMEs derived during decomposition of grapefruit peel, lemon peel, and pears on bacterial communities and their ability to degrade PCBs in a long-term contaminated soil. The presented review supports the “secondary compound hypothesis” and demonstrates the potential of SPMEs for increasing the effectiveness of bioremediation processes. PMID:27483244

  3. Microbial activity in soils following steam treatment.

    Richardson, Ruth E; James, C Andrew; Bhupathiraju, Vishvesh K; Alvarez-Cohen, Lisa

    2002-01-01

    Steam enhanced extraction (SEE) is an aquifer remediation technique that can be effective at removing the bulk of non-aqueous phase liquid (NAPL) contamination from the subsurface, particularly highly volatile contaminants. However, low volatility compounds such as polynuclear aromatic hydrocarbons (PAHs) are less efficiently removed by this process. This research evaluated the effects of steam injection on soil microbial activity, community structure, and the potential for biodegradation of contaminants following steam treatment. Three different soils were evaluated: a laboratory-prepared microbially-enriched soil, soil from a creosote contaminated field site, and soil from a chlorinated solvent and waste oil contaminated field site. Results from field-scale steaming are also presented. Microbial activity before and after steam treatment was evaluated using direct epifluorescent microscopy (DEM) using the respiratory activity dye 5-cyano-2,3, ditolyl tetrazolium chloride (CTC) in conjunction with the fluorochrome 5-(4,6-dichlorotriazinyl) aminofluorescein (DTAF) to yield a quantitative assessment of active and total microbial numbers. DEM results indicate that steamed soils that were analyzed while still hot exhibited microbial activity levels that were below detection. However, soil samples that were slowly cooled, more closely reflecting the conditions of applied SEE, exhibited microbial activity levels that were comparable to presteamed soils. Samples from a field-site where steam was applied continuously for 6 weeks also showed high levels of microbial activity following cooling. The metabolic capabilities of the steamed communities were investigated by measuring cell growth in enrichment cultures on various substrates. These studies provided evidence that organisms capable of biodegradation were among the mesophilic populations that survived steam treatment. Fluorescent in situ hybridization (FISH) analysis of the soils with domain-level rRNA probes suggest

  4. The influence of mineral fertilizer combined with a nitrification inhibitor on microbial populations and activities in calcareous Uzbekistanian soil under cotton cultivation.

    Egamberdiyeva, D; Mamiev, M; Poberejskaya, S K

    2001-10-30

    Application of fertilizers combined with nitrification inhibitors affects soil microbial biomass and activity. The objective of this research was to determine the effects of fertilizer application combined with the nitrification inhibitor potassium oxalate (PO) on soil microbial population and activities in nitrogen-poor soil under cotton cultivation in Uzbekistan. Fertilizer treatments were N as urea, P as ammophos, and K as potassium chloride. The nitrification inhibitor PO was added to urea and ammophos at the rate of 2%. Three treatments--N200 P140 K60 (T1), N200 PO P140 K60 (T2), and N200 P140 PO K60 (T3) mg kg(-1) soil--were applied for this study. The control (C) was without fertilizer and PO. The populations of oligotrophic bacteria, ammonifying bacteria, nitrifying bacteria, denitrifying bacteria, mineral assimilating bacteria, oligonitrophilic bacteria, and bacteria group Azotobacter were determined by the most probable number method. The treatments T2 and T3 increased the number of oligonitrophilic bacteria and utilization mineral forms of nitrogen on the background of reducing number of ammonifying bacteria. T2 and T3 also decreased the number of nitrifying bacteria, denitrifying bacteria, and net nitrification. In conclusion, our experiments showed that PO combined with mineral fertilizer is one of the most promising compounds for inhibiting nitrification rate, which was reflected in the increased availability and efficiency of fertilizer nitrogen to the cotton plants. PO combined with mineral fertilizer has no negative effects on nitrogen-fixing bacteria Azotobacter and oligo-nitrophilic bacteria.

  5. The Influence of Mineral Fertilizer Combined With a Nitrification Inhibitor on Microbial Populations and Activities in Calcareous Uzbekistanian Soil Under Cotton Cultivation

    Dilfuza Egamberdiyeva

    2001-01-01

    Full Text Available Application of fertilizers combined with nitrification inhibitors affects soil microbial biomass and activity. The objective of this research was to determine the effects of fertilizer application combined with the nitrification inhibitor potassium oxalate (PO on soil microbial population and activities in nitrogen-poor soil under cotton cultivation in Uzbekistan. Fertilizer treatments were N as urea, P as ammophos, and K as potassium chloride. The nitrification inhibitor PO was added to urea and ammophos at the rate of 2%. Three treatments—N200P140K60 (T1, N200 P140 POK60 (T2, and N200 P140 POK60 (T3 mg kg-1 soil—were applied for this study. The control (C was without fertilizer and PO. The populations of oligotrophic bacteria, ammonifying bacteria, nitrifying bacteria, denitrifying bacteria, mineral assimilating bacteria, oligonitrophilic bacteria, and bacteria group Azotobacter were determined by the most probable number method. The treatments T2 and T3 increased the number of oligonitrophilic bacteria and utilization mineral forms of nitrogen on the background of reducing number of ammonifying bacteria. T2 and T3 also decreased the number of nitrifying bacteria, denitrifying bacteria, and net nitrification. In conclusion, our experiments showed that PO combined with mineral fertilizer is one of the most promising compounds for inhibiting nitrification rate, which was reflected in the increased availability and efficiency of fertilizer nitrogen to the cotton plants. PO combined with mineral fertilizer has no negative effects on nitrogen-fixing bacteria Azotobacter and oligo-nitrophilic bacteria.

  6. Minimal models of growth and decline of microbial populations.

    Juška, Alfonsas

    2011-01-21

    Dynamics of growth and decline of microbial populations were analysed and respective models were developed in this investigation. Analysis of the dynamics was based on general considerations concerning the main properties of microorganisms and their interactions with the environment which was supposed to be affected by the activity of the population. Those considerations were expressed mathematically by differential equations or systems of the equations containing minimal sets of parameters characterizing those properties. It has been found that: (1) the factors leading to the decline of the population have to be considered separately, namely, accumulation of metabolites (toxins) in the medium and the exhaustion of resources; the latter have to be separated again into renewable ('building materials') and non-renewable (sources of energy); (2) decline of the population is caused by the exhaustion of sources of energy but no decline is predicted by the model because of the exhaustion of renewable resources; (3) the model determined by the accumulation of metabolites (toxins) in the medium does not suggest the existence of a separate 'stationary phase'; (4) in the model determined by the exhaustion of energy resources the 'stationary' and 'decline' phases are quite discernible; and (5) there is no symmetry in microbial population dynamics, the decline being slower than the rise. Mathematical models are expected to be useful in getting insight into the process of control of the dynamics of microbial populations. The models are in agreement with the experimental data.

  7. Interactions between Ipomoea aquatica and Microbial Populations

    Kan; Yuanqing; Sun; Ling; Zhang; Ying

    2014-01-01

    [Objective]This paper was to research the water purification mechanism of Ipomoea aquatica and its correlation with algae and rotifer. [Methods]Taking I. aquatica as the test material,Chlorella vulgaris,Scenedesmus obliquus,Microcystis aeroginosa and rotifer Adineta vaga with different densities were added to the hydroponics nutrients solutions of I. aquatica by the hydroponic ecological simulation method. The growth characteristics of I. aquatica,changes of microbial populations and the consumption status of nutrients in the nutritional solution were determined. And the interactions between the plant and the microbial populations were researched. [Results]When I. aquatica seedlings grew to a certain stage,growth of principal root stopped; while the lateral roots emerged greatly; and the nutrition absorption efficiency enhanced. As the inoculation concentration of C. vulgaris increased,root length of I. aquatica increased relatively great due to the competition for nutrients. The competition and allelopathy of M. aeroginosa and S. obliquus restricted the development of root system of I. aquatica. The grazing pressure of Chlorella vulgaris had little effects on M. aeroginosa,but restricted the rapid growth of S. obliquus. [Conclusions]This research provided data support for the application of fish-shrimp-vegetable aquaculture system.

  8. 污水处理活性污泥微生物群落多样性研究%Microbial Population Diversity of Activated Sludge for Wastewater Treatment

    金浩; 李柏林; 欧杰; 陈兰明

    2012-01-01

    为研究污水处理活性污泥微生物多样性,提取了活性污泥宏基因组DNA,并采用细菌通用引物27F和1492R扩增了上海污泥厂活性污泥细菌16S rDNA片段,构建了细菌16S rDNA克隆文库,并对该文库中的微生物群落进行了分析.共获得200条高质量序列并建立系统发育树,结果显示活性污泥主要的细菌类群为变形菌门(Proteobacteria)(91.9%)、厚壁菌门(Firmicures)(4.6%)、拟杆菌门(Bacteroidetes)(2%)、绿弯菌门(Chloroflexi)(0.5%)、硝化螺菌门(Nitrospirae)(1%).其中,明显的优势菌群为Alcaligenes feacalis(55%)、Pseudomonas aeruginosa(12.8%)和Stenotrophomonas(12.8%),优势菌的产酶能力在活性污泥中显示生态修复功能菌的作用.%In order to study the microbial diversity of activated sludge (AS) for wastewater treatment, the macro-ge-nomic DNA of the AS was extracted from a wastewater factory in Shanghai. The 16S rDNA of the AS bacteria was amplified using bacteria general primers 27F and 1492R to construct the bacterial 16S rDNA clone library, and analyzed the microbial population of the library. All together 200 bands of high quality sequences were obtained and established a phylogenetic tree. The results showed that the main bacterial population of the AS was the phyla of Proteobacteria (91.9% ) , Firmicutes (4.6% ) , Bacteroidetes (2% ) , Chloroflexi (0.5% ) , Nitrospirae (1% ). Among them Al-caligenes feacalis (55% ) , Pseudomonas aeruginosa ( 12. 8% ) , and Stenolrophomonas ( 12. 8% ) were noticeably dominant bacterial population, enzyme production capacity of the dominant bacteria showed the ecological restoration function in the AS.

  9. Single gene-based distinction of individual microbial genomes from a mixed population of microbial cells

    Manu Valtteri Tamminen

    2015-03-01

    Full Text Available Recent progress in environmental microbiology has revealed vast populations of microbes in any given habitat that cannot be detected by conventional culturing strategies. The use of sensitive genetic detection methods such as CARD-FISH and in situ PCR have been limited by the cell wall permeabilization requirement that cannot be performed similarly on all cell types without lysing some and leaving some unpermeabilized. Furthermore, the detection of low copy targets such as genes present in single copies in the microbial genomes, has remained problematic. We describe an emulsion-based procedure to trap individual microbial cells into picoliter-volume polyacrylamide droplets that provide a rigid support for genetic material and therefore allow complete degradation of cellular material to expose the individual genomes. The polyacrylamide droplets are subsequently converted into picoliter-scale reactors for genome amplification. The amplified genomes are labelled based on the presence of a target gene and differentiated from those that do not contain the gene by flow cytometry. Using the Escherichia coli strains XL1 and MC1061, which differ with respect to the presence (XL1 or absence (MC1061 of a single copy of a tetracycline resistance gene per genome, we demonstrate that XL1 genomes present at 0.1% of MC1061 genomes can be differentiated using this method. Using a spiked sediment microbial sample, we demonstrate that the method is applicable to highly complex environmental microbial communities as a target gene-based screen for individual microbes. The method provides a novel tool for enumerating functional cell populations in complex microbial communities. We envision that the method could be optimized for fluorescence-activated cell sorting to enrich genetic material of interest from complex environmental samples.

  10. Multi-population model of a microbial electrolysis cell.

    Pinto, R P; Srinivasan, B; Escapa, A; Tartakovsky, B

    2011-06-01

    This work presents a multi-population dynamic model of a microbial electrolysis cell (MEC). The model describes the growth and metabolic activity of fermentative, electricigenic, methanogenic acetoclastic, and methanogenic hydrogenophilic microorganisms and is capable of simulating hydrogen production in a MEC fed with complex organic matter, such as wastewater. The model parameters were estimated with the experimental results obtained in continuous flow MECs fed with acetate or synthetic wastewater. Following successful model validation with an independent data set, the model was used to analyze and discuss the influence of applied voltage and organic load on hydrogen production and COD removal.

  11. Characterization of Microbial Population Shifts During Sample Storage

    Heath J. Mills

    2012-02-01

    Full Text Available The objective of this study was to determine shifts in the microbial community structure and potential function based on standard Integrated Ocean Drilling Program storage procedures for sediment cores. Standard long-term storage protocols maintain sediment temperature at 4oC for mineralogy, geochemical, and/or geotechnical analysis whereas standard microbiological sampling immediately preserves sediments at -80oC. Storage at 4oC does not take into account populations may remain active over geologic time scales at temperatures similar to storage conditions. Identification of active populations within the stored core would suggest geochemical and geophysical conditions within the core change over time. To test this potential, the metabolically active fraction of the total microbial community was characterized from IODP Expedition 325 Great Barrier Reef sediment cores prior to and following a three-month storage period. Total RNA was extracted from complementary 2, 20, and 40 m below seafloor sediment samples, reverse transcribed to cDNA and then sequenced using 454 FLX sequencing technology, yielding over 14,800 sequences from the six samples. Interestingly, 97.3% of the sequences detected were associated with lineages that changed in detection frequency during the storage period including key biogeochemically relevant lineages associated with nitrogen, iron and sulfur cycling. These lineages have the potential to permanently alter the physical and chemical characteristics of the sediment promoting misleading conclusions about the in situ biogeochemical environment. In addition, the detection of new lineages after storage increases the potential for a wider range of viable lineages within the subsurface that may be underestimated during standard community characterizations.

  12. Microbial biomass and activity in subsurface sediments from Vejen, Denmark

    Albrechtsen, Hans-Jørgen; Winding, Anne

    1992-01-01

    of bacteria varied from 0.5 to 1,203 x 103 colony forming units/g dry weight (gdw); total numbers of bacteria acridine orange direct counts (AODC) varied from 1.7 to 147 × 107 cells/gdw; growth rates (incorporation of [3H]-thymidine) varied from 1.4 to 60.7 × 104 cells/(gdw · day); and rate constants...... a single abiotic parameter that could explain the variation of size and activity of the microbial population. The microbial data obtained in these geologically young sediments were compared to literature data from older sediments, and this comparison showed that age and type of geological formation might...... be important for the size and activity of the microbial populations....

  13. Diversity Generation in Evolving Microbial Populations

    Markussen, Trine

    in relation to chronic infection is a major concern as high population diversity has been predicted to result in survival and persistence of the infecting microbe. Therefore, understanding within-host dynamics and population diversification is necessary for optimal diagnosis and therapeutic treatment. Chronic...... diversity has been documented in contemporary respiratory specimens, it is less clear to what extent within-patient diversity contributes to the overall population structure and whether the population is geographically or homogeneously distributed throughout the airways. The focus of this thesis has been...... to get a better understanding of how bacterial populations adapt to new, complex and heterogeneous environments with multiple selective pressures over long periods, and to analyse diversification during this adaptation. Using the P. aeruginosa chronic infection as a model system, and by combining...

  14. Microbial ecology on the microcosm level: Activity and population dynamics of methanotrophic bacteria during early succession in a flooded rice field soil

    Krause, S.; Frenzel, P.

    2009-04-01

    Methane oxidizing bacteria (methanotrophs) play an important role in natural wetlands and rice fields preventing large amounts of methane from escaping into the atmosphere. The occurrence of both type I and type II methanotrophs in the soil surface layer has been demonstrated in many studies. However, there is no profound understanding which of them are responsible for the oxidizing activity and how they differ ecologically. Hence, a gradient microcosm system was applied simulating oxic-anoxic interfaces of water saturated soils to unravel population dynamics in early succession of methanotrophs in a flooded rice paddy. Additionally, environmental parameters were analyzed to link environment, populations, and their specific activity. We measured pmoA-based (particulate methane monooxygenase) terminal restriction fragment length polymorphism (T-RFLP) profiles both on transcription and population level. DNA T-RFLP patterns showed no major differences in the methanotrophic community structure remaining relatively constant over time. In contrast the active methanotrophic community structure as detected by pmoA mRNA T-RFLP analysis clearly demonstrated a distinct pattern from DNA T-RFLP profiles. While type II represented the most prominent group on the population level it seems to play a minor role on the transcription level. Furthermore there were no clear implications towards a link between soil parameters (e.g. NH4+ concentration) and methanotrophic community structure.

  15. Microbial population heterogeneity versus bioreactor heterogeneity: evaluation of Redox Sensor Green as an exogenous metabolic biosensor

    Baert, Jonathan; Delepierre, Anissa; Telek, Samuel

    2016-01-01

    performances (i.e. microbial population heterogeneity). In this work, we have evaluated the relevance of Redox Sensor Green (RSG) as an exogenous biosensor of metabolic activity at the single cell level. RSG signal is proportional to the activity of the electron transport chain and its signal is strongly...

  16. Microbial activities and communities in oil sands tailings ponds

    Gieg, Lisa; Ramos, Esther; Clothier, Lindsay; Bordenave, Sylvain; Lin, Shiping; Voordouw, Gerrit; Dong, Xiaoli; Sensen, Christoph [University of Calgary (Canada)

    2011-07-01

    This paper discusses how the microbial communities and their activity play a vital role in tailings ponds. The ponds contain microorganisms along with metals, hydrocarbon diluent, naphthenic acid and others. The ponds play an important role in mining operations because they store bitumen extraction waste and also allow water to be re-used in the bitumen extraction process. Pond management presents a few challenges that include, among others, gas emissions and the presence of toxic and corrosive acids. Microbial activities and communities help in managing these ponds. Microbial activity measurement in active and inactive ponds is described and analyzed and the results are presented. The conditions for reducing sulfate, nitrate and iron are also presented. From the results it can be concluded that naphthenic acids can potentially serve as substrates for anaerobic populations in tailings ponds.

  17. Temporal variation in airborne microbial populations and microbially-derived allergens in a tropical urban landscape

    Woo, Anthony C.; Brar, Manreetpal S.; Chan, Yuki; Lau, Maggie C. Y.; Leung, Frederick C. C.; Scott, James A.; Vrijmoed, Lilian L. P.; Zawar-Reza, Peyman; Pointing, Stephen B.

    2013-08-01

    The microbial component of outdoor aerosols was assessed along a gradient of urban development from inner-city to rural in the seasonal-tropical metropolis of Hong Kong. Sampling over a continuous one-year period was conducted, with molecular analyses to characterize bacterial and eukaryal microbial populations, immuno-assays to detect microbially-derived allergens and extensive environmental and meteorological observations. The data revealed bio-aerosol populations were not significantly impacted by the level of urban development as measured by anthropogenic pollutants and human population levels, but instead exhibited a strong seasonal trend related to general climatic variables. We applied back-trajectory analysis to establish sources of air masses and this allowed further explanation of urban bio-aerosols largely in terms of summer-marine and winter-continental origins. We also evaluated bio-aerosols for the potential to detect human health threats. Many samples supported bacterial and fungal phylotypes indicative of known pathogenic taxa, together with common indicators of human presence. The occurrence of allergenic endotoxins and beta-glucans generally tracked trends in microbial populations, with levels known to induce symptoms detected during summer months when microbial loading was higher. This strengthens calls for bio-aerosols to be considered in future risk assessments and surveillance of air quality, along with existing chemical and particulate indices.

  18. 2007 Microbial Population Biology (July 22-26, 2007)

    Anthony M. Dean

    2008-04-01

    Microbial Population Biology covers a diverse range of cutting edge issues in the microbial sciences and beyond. Firmly founded in evolutionary biology and with a strongly integrative approach, past meetings have covered topics ranging from the dynamics and genetics of adaptation to the evolution of mutation rate, community ecology, evolutionary genomics, altruism, and epidemiology. This meeting is never dull: some of the most significant and contentious issues in biology have been thrashed out here. We anticipate the 2007 meeting being no exception. The final form of the 2007 meeting is yet to be decided, but the following topics are likely to be included: evolutionary emergence of infectious disease and antibiotic resistance, genetic architecture and implications for the evolution of microbial populations, ageing in bacteria, biogeography, evolution of symbioses, the role of microbes in ecosystem function, and ecological genomics.

  19. Microbial activity at Yucca Mountain

    Horn, J.M.; Meike, A.

    1995-09-25

    The U.S. Department of Energy is engaged in a suitability study for a potential geological repository at Yucca Mountain, Nevada, for the containment and storage of commercially generated spent fuel and defense high-level nuclear waste. There is growing recognition of the role that biotic factors could play in this repository, either directly through microbially induced corrosion (MIC), or indirectly by altering the chemical environment or contributing to the transport of radionuclides. As a first step toward describing and predicting these processes, a workshop was held on April 10-12, 1995, in Lafayette, California. The immediate aims of the workshop were: (1) To identify microbially related processes relevant to the design of a radioactive waste repository under conditions similar to those at Yucca Mountain. (2) To determine parameters that are critical to the evaluation of a disturbed subterranean environment. (3) To define the most effective means of investigating the factors thus identified.

  20. MICROBIAL POPULATION ANALYSIS AS A MEASURE OF ECOSYSTEM RESTORATION

    During a controlled oil spill study in a freshwater wetland, four methods were used to track changes in microbial populations in response to in situ remediation treatments, including nutrient amendments and the removal of surface vegetation. Most probable number (MPN) esimates o...

  1. Growth dynamics and the evolution of cooperation in microbial populations

    Jonas Cremer; Anna Melbinger; Erwin Frey

    2012-01-01

    Microbes providing public goods are widespread in nature despite running the risk of being exploited by free-riders. However, the precise ecological factors supporting cooperation are still puzzling. Following recent experiments, we consider the role of population growth and the repetitive fragmentation of populations into new colonies mimicking simple microbial life-cycles. Individual-based modeling reveals that demographic fluctuations, which lead to a large variance in the composition of c...

  2. Strain-level microbial epidemiology and population genomics from shotgun metagenomics.

    Scholz, Matthias; Ward, Doyle V; Pasolli, Edoardo; Tolio, Thomas; Zolfo, Moreno; Asnicar, Francesco; Truong, Duy Tin; Tett, Adrian; Morrow, Ardythe L; Segata, Nicola

    2016-05-01

    Identifying microbial strains and characterizing their functional potential is essential for pathogen discovery, epidemiology and population genomics. We present pangenome-based phylogenomic analysis (PanPhlAn; http://segatalab.cibio.unitn.it/tools/panphlan), a tool that uses metagenomic data to achieve strain-level microbial profiling resolution. PanPhlAn recognized outbreak strains, produced the largest strain-level population genomic study of human-associated bacteria and, in combination with metatranscriptomics, profiled the transcriptional activity of strains in complex communities.

  3. Self-driven jamming in growing microbial populations

    Delarue, Morgan; Hartung, Jörn; Schreck, Carl; Gniewek, Pawel; Hu, Lucy; Herminghaus, Stephan; Hallatschek, Oskar

    2016-08-01

    In natural settings, microbes tend to grow in dense populations where they need to push against their surroundings to accommodate space for new cells. The associated contact forces play a critical role in a variety of population-level processes, including biofilm formation, the colonization of porous media, and the invasion of biological tissues. Although mechanical forces have been characterized at the single-cell level, it remains elusive how collective pushing forces result from the combination of single-cell forces. Here, we reveal a collective mechanism of confinement, which we call self-driven jamming, that promotes the build-up of large mechanical pressures in microbial populations. Microfluidic experiments on budding yeast populations in space-limited environments show that self-driven jamming arises from the gradual formation and sudden collapse of force chains driven by microbial proliferation, extending the framework of driven granular matter. The resulting contact pressures can become large enough to slow down cell growth, to delay the cell cycle in the G1 phase, and to strain or even destroy the micro-environment through crack propagation. Our results suggest that self-driven jamming and build-up of large mechanical pressures is a natural tendency of microbes growing in confined spaces, contributing to microbial pathogenesis and biofouling.

  4. Effects of dietary inclusion of fermented cottonseed meal on growth, cecal microbial population, small intestinal morphology, and digestive enzyme activity of broilers.

    Sun, Hong; Tang, Jiang-wu; Yao, Xiao-hong; Wu, Yi-fei; Wang, Xin; Feng, Jie

    2013-04-01

    Two experiments were conducted to test the feeding value of fermented cottonseed meal (FCSM) in broilers. In experiment 1, 480 1-day-old male yellow-feathered broilers were allocated into 4 dietary treatments with 6 replicates (20 birds per replicate) to examine the effects of FCSM on the growth response of chickens. Experimental feeding was performed for 6 weeks in two phases (starter, days 0 to 21; finisher, days 22 to 42). FCSM was used at 0, 40, 80, and 120 g/kg levels to replace soybean meal in the basal diet. The dietary inclusion of 40 and 80 g/kg FCSM increased (quadratic (Q): pmicrobial populations, intestinal morphology, and digestive enzyme activity of broilers. The number of lactobacilli in the cecal digesta increased at day 21 (pamylase and protease at day 21, as well as protease at day 42. In conclusion, the appropriate inclusion of FCSM improves growth, cecal microflora, intestinal morphology, and digestive enzyme activity in yellow-feathered broilers.

  5. Microbial activity in bentonite buffers. Literature study

    Ratto, M.; Itavaara, M.

    2012-07-01

    The proposed disposal concept for high-level radioactive wastes involves storing the wastes underground in copper-iron containers embedded in buffer material of compacted bentonite. Hydrogen sulphide production by sulphate-reducing prokaryotes is a potential mechanism that could cause corrosion of waste containers in repository conditions. The prevailing conditions in compacted bentonite buffer will be harsh. The swelling pressure is 7-8 MPa, the amount of free water is low and the average pore and pore throat diameters are small. This literature study aims to assess the potential of microbial activity in bentonite buffers. Literature on the environmental limits of microbial life in extreme conditions and the occurrence of sulphatereducing prokaryotes in extreme environments is reviewed briefly and the results of published studies characterizing microbes and microbial processes in repository conditions or in relevant subsurface environments are presented. The presence of bacteria, including SRBs, has been confirmed in deep groundwater and bentonite-based materials. Sulphate reducers have been detected in various high-pressure environments, and sulphate-reduction based on hydrogen as an energy source is considered a major microbial process in deep subsurface environments. In bentonite, microbial activity is strongly suppressed, mainly due to the low amount of free water and small pores, which limit the transport of microbes and nutrients. Spore-forming bacteria have been shown to survive in compacted bentonite as dormant spores, and they are able to resume a metabolically active state after decompaction. Thus, microbial sulphide production may increase in repository conditions if the dry density of the bentonite buffer is locally reduced. (orig.)

  6. Microbial populations responsible for specific soil suppressiveness to plant pathogens

    Weller, D.M.; Raaijmakers, J.M.; McSpadden Gardener, B.B.; Thomashow, L.S.

    2002-01-01

    Agricultural soils suppressive to soilborne plant pathogens occur worldwide, and for several of these soils the biological basis of suppressiveness has been described. Two classical types of suppressiveness are known. General suppression owes its activity to the total microbial biomass in soil and i

  7. Characteristics of the soil microbial population in forest land irrigated with saline water in the desert area

    2010-01-01

    The study of soil microbial populations and diversity is an important way to understanding the soil energy process.In this study we analyzed the characteristics of soil microbial populations of the Tarim Desert Highway shelter-forest,by identifying microbial fatty acids and using methods of conventional cul-tivation.The results illustrated that the amount of soil microbial activity and the diversity of soil microbial fatty acid increased significantly with the plantation age of the shelter-forest;the soil microbial population was dominated by bacteria.The fatty acids of C14︰0,C15︰0,C16︰0,C17︰0,C18︰1ω9,C18︰0,C18︰2ω6 and C21︰0 were found to be dominant soil microbial fatty acids in the shelter-forest soil.Prin-cipal analysis and regression analysis showed that(1) concentrations of fatty acids of C14︰0,C16︰0 and C18︰0 could be used as indicators of total soil microbial population;(2) soil bacteria and actinomycetes populations were closely correlated with the amount of fatty acids of C15︰0 and C17︰0;and(3) soil fungi were closely correlated with the amount of fatty acids of C18︰1ω9 and C18︰2ω6.

  8. Facilitation as Attenuating of Environmental Stress among Structured Microbial Populations

    Suzana Cláudia Silveira Martins

    2016-01-01

    Full Text Available There is currently an intense debate in microbial societies on whether evolution in complex communities is driven by competition or cooperation. Since Darwin, competition for scarce food resources has been considered the main ecological interaction shaping population dynamics and community structure both in vivo and in vitro. However, facilitation may be widespread across several animal and plant species. This could also be true in microbial strains growing under environmental stress. Pure and mixed strains of Serratia marcescens and Candida rugosa were grown in mineral culture media containing phenol. Growth rates were estimated as the angular coefficients computed from linearized growth curves. Fitness index was estimated as the quotient between growth rates computed for lineages grown in isolation and in mixed cultures. The growth rates were significantly higher in associated cultures than in pure cultures and fitness index was greater than 1 for both microbial species showing that the interaction between Serratia marcescens and Candida rugosa yielded more efficient phenol utilization by both lineages. This result corroborates the hypothesis that facilitation between microbial strains can increase their fitness and performance in environmental bioremediation.

  9. Effect of oil spill on the microbial population in Andaman Sea around Nicobar Island

    Gupta, R.

    The microbial studiees of the follow up cruise by FORV Sagar Sampada (cruise No. 113), 9 months after the oil spill in the Andaman Sea due to accident of VLCC Maersk Navigator revealed disturbance in the natural microbial population. Higher...

  10. Milankovitch-scale correlations between deeply buried microbial populations and biogenic ooze lithology

    Aiello, I.W.; Bekins, B.A.

    2010-01-01

    The recent discoveries of large, active populations of microbes in the subseafloor of the world's oceans supports the impact of the deep biosphere biota on global biogeochemical cycles and raises important questions concerning the functioning of these extreme environments for life. These investigations demonstrated that subseafloor microbes are unevenly distributed and that cell abundances and metabolic activities are often independent from sediment depths, with increased prokaryotic activity at geochemical and/or sedimentary interfaces. In this study we demonstrate that microbial populations vary at the scale of individual beds in the biogenic oozes of a drill site in the eastern equatorial Pacific (Ocean Drilling Program Leg 201, Site 1226). We relate bedding-scale changes in biogenic ooze sediment composition to organic carbon (OC) and microbial cell concentrations using high-resolution color reflectance data as proxy for lithology. Our analyses demonstrate that microbial concentrations are an order of magnitude higher in the more organic-rich diatom oozes than in the nannofossil oozes. The variations mimic small-scale variations in diatom abundance and OC, indicating that the modern distribution of microbial biomass is ultimately controlled by Milankovitch-frequency variations in past oceanographic conditions. ?? 2010 Geological Society of America.

  11. Organic nitrogen rearranges both structure and activity of the soil-borne microbial seedbank

    Leite, Márcio F. A.; Pan, Yao; Bloem, Jaap; Berge, Hein ten; Kuramae, Eiko E.

    2017-01-01

    Use of organic amendments is a valuable strategy for crop production. However, it remains unclear how organic amendments shape both soil microbial community structure and activity, and how these changes impact nutrient mineralization rates. We evaluated the effect of various organic amendments, which range in Carbon/Nitrogen (C/N) ratio and degradability, on the soil microbiome in a mesocosm study at 32, 69 and 132 days. Soil samples were collected to determine community structure (assessed by 16S and 18S rRNA gene sequences), microbial biomass (fungi and bacteria), microbial activity (leucine incorporation and active hyphal length), and carbon and nitrogen mineralization rates. We considered the microbial soil DNA as the microbial seedbank. High C/N ratio favored fungal presence, while low C/N favored dominance of bacterial populations. Our results suggest that organic amendments shape the soil microbial community structure through a feedback mechanism by which microbial activity responds to changing organic inputs and rearranges composition of the microbial seedbank. We hypothesize that the microbial seedbank composition responds to changing organic inputs according to the resistance and resilience of individual species, while changes in microbial activity may result in increases or decreases in availability of various soil nutrients that affect plant nutrient uptake. PMID:28198425

  12. Unravelling the active microbial community in a thermophilic anaerobic digester-microbial electrolysis cell coupled system under different conditions.

    Cerrillo, Míriam; Viñas, Marc; Bonmatí, August

    2017-03-01

    Thermophilic anaerobic digestion (AD) of pig slurry coupled to a microbial electrolysis cell (MEC) with a recirculation loop was studied at lab-scale as a strategy to increase AD stability when submitted to organic and nitrogen overloads. The system performance was studied, with the recirculation loop both connected and disconnected, in terms of AD methane production, chemical oxygen demand removal (COD) and volatile fatty acid (VFA) concentrations. Furthermore, the microbial population was quantitatively and qualitatively assessed through DNA and RNA-based qPCR and high throughput sequencing (MiSeq), respectively to identify the RNA-based active microbial populations from the total DNA-based microbial community composition both in the AD and MEC reactors under different operational conditions. Suppression of the recirculation loop reduced the AD COD removal efficiency (from 40% to 22%) and the methane production (from 0.32 to 0.03 m(3) m(-3) d(-1)). Restoring the recirculation loop led to a methane production of 0.55 m(3) m(-3) d(-1) concomitant with maximum MEC COD and ammonium removal efficiencies of 29% and 34%, respectively. Regarding microbial analysis, the composition of the AD and MEC anode populations differed from really active microorganisms. Desulfuromonadaceae was revealed as the most active family in the MEC (18%-19% of the RNA relative abundance), while hydrogenotrophic methanogens (Methanobacteriaceae) dominated the AD biomass.

  13. [Formation of microbial populations on the surface of protective coatings].

    Kopteva, Zh P; Zanina, V V; Piliashenko-Novokhatnyĭ, A I; Kopteva, A E; Kozlova, I A

    2001-01-01

    Formation of microbial cenosis on the surface of polyethylene-, polyurethane- and oil-bitumen-based protective coatings was studied in dynamics during 1, 3, 7, 14 and 21 days. It has been shown that the biofilm was formed on the protective materials during 14 days and consisted of ammonifying, denitrifying, hydrocarbon-oxidizing and sulphate-reducing bacteria referred to Pseudomonas, Arthrobacter, Bacillus and Kesulfovibrio genera. The bacteria which form the biofilm on coatings possess high denitrifying and sulphate-reducing activities. Corrosion inhibitors-biocydes, introduced in composition of oil-bitumen coatings suppressed growth and metabolic activity of corrosion-active bacteria.

  14. Microbial Community Structure and Enzyme Activities in Semiarid Agricultural Soils

    Acosta-Martinez, V. A.; Zobeck, T. M.; Gill, T. E.; Kennedy, A. C.

    2002-12-01

    The effect of agricultural management practices on the microbial community structure and enzyme activities of semiarid soils of different textures in the Southern High Plains of Texas were investigated. The soils (sandy clay loam, fine sandy loam and loam) were under continuous cotton (Gossypium hirsutum L.) or in rotations with peanut (Arachis hypogaea L.), sorghum (Sorghum bicolor L.) or wheat (Triticum aestivum L.), and had different water management (irrigated or dryland) and tillage (conservation or conventional). Microbial community structure was investigated using fatty acid methyl ester (FAME) analysis by gas chromatography and enzyme activities, involved in C, N, P and S cycling of soils, were measured (mg product released per kg soil per h). The activities of b-glucosidase, b-glucosaminidase, alkaline phosphatase, and arylsulfatase were significantly (Pconservation tillage in comparison to continuous cotton under conventional tillage. Principal component analysis showed FAME profiles of these soils separated distinctly along PC1 (20 %) and PC2 (13 %) due to their differences in soil texture and management. No significant differences were detected in FAME profiles due to management practices for the same soils in this sampling period. Enzyme activities provide early indications of the benefits in microbial populations and activities and soil organic matter under crop rotations and conservation tillage in comparison to the typical practices in semiarid regions of continuous cotton and conventional tillage.

  15. Microbial populations responsible for specific soil suppressiveness to plant pathogens.

    Weller, David M; Raaijmakers, Jos M; Gardener, Brian B McSpadden; Thomashow, Linda S

    2002-01-01

    Agricultural soils suppressive to soilborne plant pathogens occur worldwide, and for several of these soils the biological basis of suppressiveness has been described. Two classical types of suppressiveness are known. General suppression owes its activity to the total microbial biomass in soil and is not transferable between soils. Specific suppression owes its activity to the effects of individual or select groups of microorganisms and is transferable. The microbial basis of specific suppression to four diseases, Fusarium wilts, potato scab, apple replant disease, and take-all, is discussed. One of the best-described examples occurs in take-all decline soils. In Washington State, take-all decline results from the buildup of fluorescent Pseudomonas spp. that produce the antifungal metabolite 2,4-diacetylphloroglucinol. Producers of this metabolite may have a broader role in disease-suppressive soils worldwide. By coupling molecular technologies with traditional approaches used in plant pathology and microbiology, it is possible to dissect the microbial composition and complex interactions in suppressive soils.

  16. Microbial populations causing off-flavour in recirculated aquaculture systems

    Lukassen, Mie Bech; Nielsen, Jeppe Lund; Schramm, Edward

    Microbial production of geosmin, a secondary metabolite with an earthy off-flavour is a serious economic problem in wine production, drinking water and aquaculture. Geosmin is produced by a small group of bacteria all harboring the geosmin synthetase gene (geoA). Sequencing and analyzing the dist......Microbial production of geosmin, a secondary metabolite with an earthy off-flavour is a serious economic problem in wine production, drinking water and aquaculture. Geosmin is produced by a small group of bacteria all harboring the geosmin synthetase gene (geoA). Sequencing and analyzing...... and activity. These findings are useful for the future optimization and management of full-scale aquaculture plants, and can be used as a diagnostic tool in developing strategies to limit the presence and growth of geosmin-producing bacteria....

  17. Uranium Biomineralization By Natural Microbial Phosphatase Activities in the Subsurface

    Taillefert, Martial [Georgia Tech Research Corporation, Atlanta, GA (United States)

    2015-04-01

    This project investigated the geochemical and microbial processes associated with the biomineralization of radionuclides in subsurface soils. During this study, it was determined that microbial communities from the Oak Ridge Field Research subsurface are able to express phosphatase activities that hydrolyze exogenous organophosphate compounds and result in the non-reductive bioimmobilization of U(VI) phosphate minerals in both aerobic and anaerobic conditions. The changes of the microbial community structure associated with the biomineralization of U(VI) was determined to identify the main organisms involved in the biomineralization process, and the complete genome of two isolates was sequenced. In addition, it was determined that both phytate, the main source of natural organophosphate compounds in natural environments, and polyphosphate accumulated in cells could also be hydrolyzed by native microbial population to liberate enough orthophosphate and precipitate uranium phosphate minerals. Finally, the minerals produced during this process are stable in low pH conditions or environments where the production of dissolved inorganic carbon is moderate. These findings suggest that the biomineralization of U(VI) phosphate minerals is an attractive bioremediation strategy to uranium bioreduction in low pH uranium-contaminated environments. These efforts support the goals of the SBR long-term performance measure by providing key information on "biological processes influencing the form and mobility of DOE contaminants in the subsurface".

  18. The Microbial Database for Danish wastewater treatment plants with nutrient removal (MiDas-DK) – a tool for understanding activated sludge population dynamics and community stability

    Mielczarek, Artur Tomasz; Saunders, Aaron Marc; Larsen, Poul

    2013-01-01

    ecosystems, and, besides many scientific articles on fundamental issues on mixed communities encompassing nitrifiers, denitrifiers, bacteria involved in P-removal, hydrolysis, fermentation, and foaming, the project has provided results that can be used to optimize the operation of full-scale plants and carry...... plants, there seemed to be plant-specific factors that controlled the population composition thereby keeping it unique in each plant over time. Statistical analyses of FISH and operational data revealed some correlations, but less than expected. MiDas-DK (www.midasdk.dk) will continue over the next years...

  19. Effects of different forest stand improvement models on soil enzyme activities and microbial population%不同林分改造模式对土壤酶活性及微生物数量的影响

    郭雄飞; 陈璇; 黎华寿; 冼丽铧; 董奇妤; 陈红跃

    2015-01-01

    以广东省佛山市南海区的4种宫胁法改造林地、传统法改造林地和不进行林分改造的对照样地为研究对象,对不同样地的土壤酶活性和土壤微生物数量进行研究,以探讨不同林分改造类型的土壤生物学特性。结果显示:不同林分改造类型的林地土壤酶活性差异显著,其中宫胁法2和传统法林地土壤酶活性显著高于其它改造类型,宫胁法2改造林地土壤脲酶、磷酸酶和过氧化氢酶活性均居最高水平,宫胁法3和宫胁法4最低;不同的林分改造措施土壤微生物各生理类群的数量差异显著,但均表现为细菌数量最多,放线菌次之,真菌最少;各改造类型中,宫胁法2在土壤细菌、真菌、放线菌数量和微生物总量中均表现最高,宫胁法1在细菌、真菌和微生物总量均表现最低,说明宫胁法2在增加土壤微生物数量上表现最为显著。因此,宫胁法2最有利于改善土壤生物学特性,从而能创造植被恢复过程中良好的微生态环境。%In order to investigate the improvement effects of soil biological characteristics in different types of forest stand in Nanhai District, Foshan city, Guangdong province (with 4 kinds of Miyawaki methods, traditional transforming method and no improved), the soil enzyme activities and microbial population of the sample plots were studied toifnd out the soil biological properties with different forest transforming types. The results show that soil enzyme activities under different stand improvement models was different, of them Miyawaki method No.2 and traditional method had signiifcantly higher soil enzyme activities than those of other improvement models; The activities of soil urease, phosphatase and catalase in the lands transformed with Miyawaki method No.2 were the highest of all, those of Miyawaki method No.3 and Miyawaki method No.4were the lowest; The soil microbial quantity of different physiological

  20. Impact of Microbial Inoculants on Microbial Quantity, Enzyme Activity and Available Nutrient Content in Paddy Soil

    Liu Xiao-jie; Duan Xue-jiao; Ma Na; Sun Tao; Xu Jing-gang

    2015-01-01

    The experiment was conducted to study the impact of application of microbial inoculants, compared with no microbial fertilizer, on enzyme activity, microbial biomass and available nutrient contents in paddy soil in Heilongjiang Province. The application ofsoil phosphorus activator was able to increase the quantity of bacteria and fungi in soil, but its effect on actinomycetes in soil was not significant. The application of microbial inoculants increased the urease and sucrase activities in soil over the growing season, but only at the maturing stage soil acid phosphatase activity was enhanced with the applying soil phosphorus activator. The application of soil phosphorus activator increased alkali-hydrolyzable nitrogen and available phosphorus contents in soil, but did not increase available potassium content in soil. The optimal microbial inoculant application rate as applied as soil phosphorus activator was 7.5 kg•hm-2.

  1. Activity assessment of microbial fibrinolytic enzymes.

    Kotb, Essam

    2013-08-01

    Conversion of fibrinogen to fibrin inside blood vessels results in thrombosis, leading to myocardial infarction and other cardiovascular diseases. In general, there are four therapy options: surgical operation, intake of antiplatelets, anticoagulants, or fibrinolytic enzymes. Microbial fibrinolytic enzymes have attracted much more attention than typical thrombolytic agents because of the expensive prices and the side effects of the latter. The fibrinolytic enzymes were successively discovered from different microorganisms, the most important among which is the genus Bacillus. Microbial fibrinolytic enzymes, especially those from food-grade microorganisms, have the potential to be developed as functional food additives and drugs to prevent or cure thrombosis and other related diseases. There are several assay methods for these enzymes; this may due to the insolubility of substrate, fibrin. Existing assay methods can be divided into three major groups. The first group consists of assay of fibrinolytic activity with natural proteins as substrates, e.g., fibrin plate methods. The second and third groups of assays are suitable for kinetic studies and are based on the determination of hydrolysis of synthetic peptide esters. This review will deal primarily with the microorganisms that have been reported in literature to produce fibrinolytic enzymes and the first review discussing the methods used to assay the fibrinolytic activity.

  2. Dynamics of organic matter and microbial populations in amended soil: a multidisciplinary approach

    Gigliotti, Giovanni; Pezzolla, Daniela; Zadra, Claudia; Albertini, Emidio; Marconi, Gianpiero; Turchetti, Benedetta; Buzzini, Pietro

    2013-04-01

    The application of organic amendments to soils, such as pig slurry, sewage sludge and compost is considered a tool for improving soil fertility and enhancing C stock. The addition of these different organic materials allows a good supply of nutrients for plants but also contributes to C sequestration, affects the microbial activity and the transformation of soil organic matter (SOM). Moreover, the addition of organic amendment has gained importance as a source of greenhouse gas (GHG) emissions and then as a cause of the "Global Warming". Therefore, it is important to investigate the factors controlling the SOM mineralization in order to improve soil C sequestration and decreasing at the same time the GHG emissions. The quality of organic matter added to the soil will play an important role in these dynamics, affecting the microbial activity and the changes in microbial community structure. A laboratory, multidisciplinary experiment was carried out to test the effect of the amendment by anaerobic digested livestock-derived organic materials on labile organic matter evolution and on dynamics of microbial population, this latter both in terms of consistence of microbial biomass, as well as in terms of microbial biodiversity. Different approaches were used to study the microbial community structure: chemical (CO2 fluxes, WEOC, C-biomass, PLFA), microbiological (microbial enumeration) and molecular (DNA extraction and Roche 454, Next Generation Sequencing, NGS). The application of fresh digestate, derived from the anaerobic treatment of animal wastes, affected the short-term dynamics of microbial community, as reflected by the increase of CO2 emissions immediately after the amendment compared to the control soil. This is probably due to the addition of easily available C added with the digestate, demonstrating that this organic material was only partially stabilized by the anaerobic process. In fact, the digestate contained a high amounts of available C, which led to

  3. MICROBIAL DEGRADATION OF SEVEN AMIDES BY SUSPENDED BACTERIAL POPULATIONS

    Microbial transformation rate constants were determined for seven amides in natural pond water. A second-order mathematical rate expression served as the model for describing the microbial transformation. Also investigated was the relationship between the infrared spectra and the...

  4. Effects of Aluminum Phosphide on Soil Microbial Population and Enzyme Activities%磷化铝对土壤微生物数量和酶活性的影响

    仉欢; 朱玉坤; 乔康; 王开运

    2012-01-01

    Effects of aluminum phosphide (0.1, 1 mg·g-1 and 10 mg·g-1) on soil microbial population and enzyme activities were studied under laboratory control condition. The results indicated that, all concentrations of aluminum phosphide had inhibitory effect on soil bacteria, fungi and actinomyces and the inhibitory effect was more obvious with concentration increased. However, the effect caused by low concentration (0.1 mg·g-1) returned to the control level after a period of treatment. Aluminum phosphide had inhibitory effect on soil urease, and the inhibitory effect increased with the increasing concentration. Low concentration of aluminum phosphide had no significant inhibitory effect on soil invertase, while the treatment with the highest concentration (10 mg·g-1) had the greatest inhibition all the time. All concentrations of aluminum phosphide had inhibitory or stimulatory effect on soil hydrogen peroxidase in the early stage, while the effect returned to the control level on 30 days after treatment. The present data supported the conclusion that aluminum phosphide at the routine dose had certain effect on soil microbial population and enzyme activities, but the effect disappeared and recovered to the control level after a period.%为明确磷化铝对土壤微生物数量和酶活性的影响,采用室内培养的方法,研究了经0.1、1 mg? g4和10 mg?g-1 3个浓度磷化铝熏蒸处理后,供试土壤中微生物数量和土壤酶活性的变化.结果表明,磷化铝处理土壤后,各个浓度的磷化铝对土壤细菌、真菌和放线菌数量具有抑制作用,浓度越高,抑制作用越强,但一段时间后低浓度(0.1 mg?g-1)处理对土壤微生物数量的影响恢复至对照水平.磷化铝对土壤脲酶表现为抑制作用,并随浓度升高而增强;低浓度处理对土壤中的蔗糖酶活性抑制作用不明显,而高浓度(10mg?g-1)处理表现为强烈的抑制作用;各浓度处理初期对土壤过氧化氢酶表现为

  5. Biomass and microbial activity in a biofilter during backwashing

    BAI Yu; ZHANG Jie; LI Yi-fan; GAO Yu-nan; LI Yong

    2005-01-01

    Biomass and microbial activity in backwashing processes of a biofilter for tertiary treatment were investigated. The microbial groups revealed new distribution along the biofilter depth after low flow rate backwashing for a short time. Then the start-up process was accelerated by backwashing. The biomass profile and microbial activity profile both varying with depth before and after backwashing, can be mathematically described by quadratic equations. Using the profiles, the difference of oxygen demand can be calculated to determine the airflow rate during backwashing. Combined with the difference between biofilters and rapid gravity filters, analysis of biomass and microbial activity can determine more accurately the required airflow rate during backwashing.

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

    Dong, Qian; Shi, Hanchang; Liu, Yanchen

    2017-01-01

    The undesired sulfur cycle derived by microbial population can ultimately causes the serious problems of sewerage systems. However, the microbial community characters under dynamic environment factors in actual sewerage system is still not enough. This current study aimed to character the distributions and compositions of microbial communities that participate in the sulfur cycle under the dynamic environmental conditions in a local sewerage system. To accomplish this, microbial community compositions were assessed using 454 high-throughput sequencing (16S rDNA) combined with dsrB gene-based denaturing gradient gel electrophoresis. The results indicated that a higher diversity of microbial species was present at locations in sewers with high concentrations of H2S. Actinobacteria and Proteobacteria were dominant in the sewerage system, while Actinobacteria alone were dominant in regions with high concentrations of H2S. Specifically, the unique operational taxonomic units could aid to characterize the distinct microbial communities within a sewerage manhole. The proportion of sulfate-reducing bacteria, each sulfur-oxidizing bacteria (SOB) were strongly correlated with the liquid parameters (DO, ORP, COD, Sulfide, NH3-N), while the Mycobacterium and Acidophilic SOB (M&A) was strongly correlated with gaseous factors within the sewer, such as H2S, CH4, and CO. Identifying the distributions and proportions of critical microbial communities within sewerage systems could provide insights into how the microbial sulfur cycle is affected by the dynamic environmental conditions that exist in sewers and might be useful for explaining the potential sewerage problems. PMID:28261160

  7. feedback between population and evolutionary dynamics determines the fate of social microbial populations.

    Alvaro Sanchez

    Full Text Available The evolutionary spread of cheater strategies can destabilize populations engaging in social cooperative behaviors, thus demonstrating that evolutionary changes can have profound implications for population dynamics. At the same time, the relative fitness of cooperative traits often depends upon population density, thus leading to the potential for bi-directional coupling between population density and the evolution of a cooperative trait. Despite the potential importance of these eco-evolutionary feedback loops in social species, they have not yet been demonstrated experimentally and their ecological implications are poorly understood. Here, we demonstrate the presence of a strong feedback loop between population dynamics and the evolutionary dynamics of a social microbial gene, SUC2, in laboratory yeast populations whose cooperative growth is mediated by the SUC2 gene. We directly visualize eco-evolutionary trajectories of hundreds of populations over 50-100 generations, allowing us to characterize the phase space describing the interplay of evolution and ecology in this system. Small populations collapse despite continual evolution towards increased cooperative allele frequencies; large populations with a sufficient number of cooperators "spiral" to a stable state of coexistence between cooperator and cheater strategies. The presence of cheaters does not significantly affect the equilibrium population density, but it does reduce the resilience of the population as well as its ability to adapt to a rapidly deteriorating environment. Our results demonstrate the potential ecological importance of coupling between evolutionary dynamics and the population dynamics of cooperatively growing organisms, particularly in microbes. Our study suggests that this interaction may need to be considered in order to explain intraspecific variability in cooperative behaviors, and also that this feedback between evolution and ecology can critically affect the

  8. feedback between population and evolutionary dynamics determines the fate of social microbial populations.

    Sanchez, Alvaro; Gore, Jeff

    2013-01-01

    The evolutionary spread of cheater strategies can destabilize populations engaging in social cooperative behaviors, thus demonstrating that evolutionary changes can have profound implications for population dynamics. At the same time, the relative fitness of cooperative traits often depends upon population density, thus leading to the potential for bi-directional coupling between population density and the evolution of a cooperative trait. Despite the potential importance of these eco-evolutionary feedback loops in social species, they have not yet been demonstrated experimentally and their ecological implications are poorly understood. Here, we demonstrate the presence of a strong feedback loop between population dynamics and the evolutionary dynamics of a social microbial gene, SUC2, in laboratory yeast populations whose cooperative growth is mediated by the SUC2 gene. We directly visualize eco-evolutionary trajectories of hundreds of populations over 50-100 generations, allowing us to characterize the phase space describing the interplay of evolution and ecology in this system. Small populations collapse despite continual evolution towards increased cooperative allele frequencies; large populations with a sufficient number of cooperators "spiral" to a stable state of coexistence between cooperator and cheater strategies. The presence of cheaters does not significantly affect the equilibrium population density, but it does reduce the resilience of the population as well as its ability to adapt to a rapidly deteriorating environment. Our results demonstrate the potential ecological importance of coupling between evolutionary dynamics and the population dynamics of cooperatively growing organisms, particularly in microbes. Our study suggests that this interaction may need to be considered in order to explain intraspecific variability in cooperative behaviors, and also that this feedback between evolution and ecology can critically affect the demographic fate of

  9. Relationship between microbial activity and microbial community structure in six full-scale anaerobic digesters

    Regueiro, L.; Veiga, P.; Figueroa, M.; Alonso-Gutierrez, J.; Stams, A.J.M.; Lema, J.M.; Carballa, M.

    2012-01-01

    High activity levels and balanced anaerobic microbial communities are necessary to attain proper anaerobic digestion performance. Therefore, this work was focused on the kinetic performance and the microbial community structure of six full-scale anaerobic digesters and one lab-scale co-digester. Hyd

  10. Atividade e população microbiana envolvida nas transformações do enxofre em solos com diferentes vegetações Activity and microbial populations involved in sulfur cycling in soils with different vegetations

    Cristiane Rêgo Oliveira Pinto

    2002-12-01

    Full Text Available O objetivo deste trabalho foi determinar as populações microbianas e suas atividades envolvidas no ciclo do S, de solos virgem e cultivado, e as suas relações com as diferentes frações de S no solo. Das populações de microrganismos pesquisados, apenas foram encontradas as bactérias autótrofas oxidantes de S0 em pH 5,0 e as heterótrofas oxidantes de tiossulfato, que representaram menos de 0,1% das bactérias totais. A média das bactérias autótrofas foi o dobro das heterótrofas. As maiores contagens de bactérias totais, autótrofas e heterótrofas foram encontradas nos solos com milho, de pastagem e de floresta integrada, respectivamente. A atividade da arilsulfatase foi maior em solo de floresta integrada e a da rodanase em solo de pastagem. A arilsulfatase correlacionou com as populações de heterotróficos, C orgânico, S total, S orgânico, matéria orgânica e umidade do solo; e a rodanase com C orgânico, S total e S orgânico. Os teores de S orgânico e sulfato foram de 94-98% e 2-6% do S total, respectivamente. Os maiores teores de S total e orgânico foram encontrados no solo de floresta integrada. O S total correlacionou com o S orgânico, umidade e matéria orgânica, e o S orgânico com a matéria orgânica.The objective of this work was to assess the microbial populations and its activities involved in the S cycle, of virgin and cultivated soils, and its relationships with the different fractions of S in the soil. The influence of soils with different vegetations on microbiological and biochemical characteristics was investigated. Out of the different populations of microorganisms examined, only the S0-oxidizing autotrophic bacteria and thiosulfate-oxidizing heterotrophs that represented less than 0.1% of the total bacteria were found. The average of autotrophs was double that of the heterotrophs. The highest counts of total bacteria, autotrophic and heterotrophic microorganisms were found in corn, pasture and forest

  11. New methods for analysis of spatial distribution and coaggregation of microbial populations in complex biofilms.

    Almstrand, Robert; Daims, Holger; Persson, Frank; Sörensson, Fred; Hermansson, Malte

    2013-10-01

    In biofilms, microbial activities form gradients of substrates and electron acceptors, creating a complex landscape of microhabitats, often resulting in structured localization of the microbial populations present. To understand the dynamic interplay between and within these populations, quantitative measurements and statistical analysis of their localization patterns within the biofilms are necessary, and adequate automated tools for such analyses are needed. We have designed and applied new methods for fluorescence in situ hybridization (FISH) and digital image analysis of directionally dependent (anisotropic) multispecies biofilms. A sequential-FISH approach allowed multiple populations to be detected in a biofilm sample. This was combined with an automated tool for vertical-distribution analysis by generating in silico biofilm slices and the recently developed Inflate algorithm for coaggregation analysis of microbial populations in anisotropic biofilms. As a proof of principle, we show distinct stratification patterns of the ammonia oxidizers Nitrosomonas oligotropha subclusters I and II and the nitrite oxidizer Nitrospira sublineage I in three different types of wastewater biofilms, suggesting niche differentiation between the N. oligotropha subclusters, which could explain their coexistence in the same biofilms. Coaggregation analysis showed that N. oligotropha subcluster II aggregated closer to Nitrospira than did N. oligotropha subcluster I in a pilot plant nitrifying trickling filter (NTF) and a moving-bed biofilm reactor (MBBR), but not in a full-scale NTF, indicating important ecophysiological differences between these phylogenetically closely related subclusters. By using high-resolution quantitative methods applicable to any multispecies biofilm in general, the ecological interactions of these complex ecosystems can be understood in more detail.

  12. Molecular characterization of microbial populations in groundwater sources and sand filters for drinking water production.

    de Vet, W W J M; Dinkla, I J T; Muyzer, G; Rietveld, L C; van Loosdrecht, M C M

    2009-01-01

    In full-scale drinking water production from groundwater, subsurface aeration is an effective means of enhancing the often troublesome process of nitrification. Until now the exact mechanism, however, has been unknown. By studying the microbial population we can improve the understanding of this process. Denaturing gradient gel electrophoresis of PCR-amplified 16S rRNA gene fragments of bacteria, archaea and ammonia-oxidizing bacteria was used to characterize the microbial populations in raw groundwater and trickling filters of an active nitrifying surface aerated system and an inactive non-surface aerated system. Only in the active filter were nitrifying microorganisms found above the detection limit of the method. In ammonia oxidation in this groundwater filter both bacteria and archaea played a role, while members belonging to the genus Nitrospira were the only nitrite-oxidizing species found. The subsurface aerated groundwater did not contain any of the nitrifying organisms active in the filter above the detection limit, but did contain Gallionella species that might play a major role in iron oxidation in the filter.

  13. Effect of Lanthanum on Major Microbial Populations in Red Soil

    CHUHAIYAN; WANGJUNHUA; 等

    2001-01-01

    Pure culture and pot culture experiments were carried out to study the effect of lanthanum(La)on bacteria,actinomyces and fungus,and some microbial physiological groups,nitrifir,azotobacter and phos-phobacteria in a red soil taken form the Ecological Experimental Station of Red Soil,the Chinese Academy of Sciences,Jiangxi Province.LaCl3 was added into media at levels of 0,25,50,100,150,200,250 and 500 mg L-1 in the pure culture experiment ,and into soil samples in porcelain pots before rice growing at levles of 0,6,30,150,300,600 and 900 mg kg-1 dry soil in the pot culture experiment.The populations of the three soil microbes in the pure cultre experiment decreased with the addition level of La,indicating that La was toxic to the soil microbes in pure culture ,and the sensitivity of the 3 major mircrobial types to La was in a decreasing order of actinomyces>bacteria>fungus.In the pot experiment,La had slightly stimulaive effect on soil bacteria and actinomyces when applied at olw concentrations while had inhibitory effect on soil bacteria,actinomyces and fungus at high concentrations.When the concentration of La Was low,soil azotobacter was stimulated slightly while soil nitrifier was stimulated strongly and the maximum increase was up to 50%.When the concentration of La was highy,both soil aztobacter and nitrifier ware inhibited ,and the inhibition of La to the nitrifier increased with La conentration,La added at all the levels had stimulative effect on soil inorgaic and organic phosphobacteria.Among the 4 physiological groups,soil nitrifier was most sensitive to La,so,it migh be reasonble to assume that soil nitrifier was a sensitive indicator for evaluating the biological and environmental effects of rare earths.

  14. Microbial populations related to PAH biodegradation in an aged biostimulated creosote-contaminated soil.

    Lladó, Salvador; Jiménez, Nuria; Viñas, Marc; Solanas, Anna Maria

    2009-09-01

    A previous bioremediation survey on a creosote-contaminated soil showed that aeration and optimal humidity promoted depletion of three-ringed polycyclic aromatic hydrocarbons (PAHs), but residual concentrations of four-ringed benzo(a)anthracene (B(a)A) and chrysene (Chry) remained. In order to explain the lack of further degradation of heavier PAHs such as four-ringed PAHs and to analyze the microbial population responsible for PAH biodegradation, a chemical and microbial molecular approach was used. Using a slurry incubation strategy, soil in liquid mineral medium with and without additional B(a)A and Chry was found to contain a powerful PAH-degrading microbial community that eliminated 89% and 53% of the added B(a)A and Chry, respectively. It is hypothesized that the lack of PAH bioavailability hampered their further biodegradation in the unspiked soil. According to the results of the culture-dependent and independent techniques Mycobacterium parmense, Pseudomonas mexicana, and Sphingobacterials group could control B(a)A and Chry degradation in combination with several microorganisms with secondary metabolic activity.

  15. Effect of electrokinetic remediation on indigenous microbial activity and community within diesel contaminated soil.

    Kim, Seong-Hye; Han, Hyo-Yeol; Lee, You-Jin; Kim, Chul Woong; Yang, Ji-Won

    2010-07-15

    Electrokinetic remediation has been successfully used to remove organic contaminants and heavy metals within soil. The electrokinetic process changes basic soil properties, but little is known about the impact of this remediation technology on indigenous soil microbial activities. This study reports on the effects of electrokinetic remediation on indigenous microbial activity and community within diesel contaminated soil. The main removal mechanism of diesel was electroosmosis and most of the bacteria were transported by electroosmosis. After 25 days of electrokinetic remediation (0.63 mA cm(-2)), soil pH developed from pH 3.5 near the anode to pH 10.8 near the cathode. The soil pH change by electrokinetics reduced microbial cell number and microbial diversity. Especially the number of culturable bacteria decreased significantly and only Bacillus and strains in Bacillales were found as culturable bacteria. The use of EDTA as an electrolyte seemed to have detrimental effects on the soil microbial activity, particularly in the soil near the cathode. On the other hand, the soil dehydrogenase activity was enhanced close to the anode and the analysis of microbial community structure showed the increase of several microbial populations after electrokinetics. It is thought that the main causes of changes in microbial activities were soil pH and direct electric current. The results described here suggest that the application of electrokinetics can be a promising soil remediation technology if soil parameters, electric current, and electrolyte are suitably controlled based on the understanding of interaction between electrokinetics, contaminants, and indigenous microbial community.

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

    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.

  17. Microbial solar cells: applying photosynthetic and electrochemically active organisms

    Strik, D.P.B.T.B.; Timmers, R.A.; Helder, M.; Steinbusch, K.J.J.; Hamelers, H.V.M.; Buisman, C.J.N.

    2011-01-01

    Microbial solar cells (MSCs) are recently developed technologies that utilize solar energy to produce electricity or chemicals. MSCs use photoautotrophic microorganisms or higher plants to harvest solar energy, and use electrochemically active microorganisms in the bioelectrochemical system to gener

  18. Microbial Activity and Silica Degradation in Rice Straw

    Kim, Esther Jin-kyung

    Abundantly available agricultural residues like rice straw have the potential to be feedstocks for bioethanol production. Developing optimized conditions for rice straw deconstruction is a key step toward utilizing the biomass to its full potential. One challenge associated with conversion of rice straw to bioenergy is its high silica content as high silica erodes machinery. Another obstacle is the availability of enzymes that hydrolyze polymers in rice straw under industrially relevant conditions. Microbial communities that colonize compost may be a source of enzymes for bioconversion of lignocellulose to products because composting systems operate under thermophilic and high solids conditions that have been shown to be commercially relevant. Compost microbial communities enriched on rice straw could provide insight into a more targeted source of enzymes for the breakdown of rice straw polysaccharides and silica. Because rice straw is low in nitrogen it is important to understand the impact of nitrogen concentrations on the production of enzyme activity by the microbial community. This study aims to address this issue by developing a method to measure microbial silica-degrading activity and measure the effect of nitrogen amendment to rice straw on microbial activity and extracted enzyme activity during a high-solids, thermophilic incubation. An assay was developed to measure silica-degrading enzyme or silicase activity. This process included identifying methods of enzyme extraction from rice straw, identifying a model substrate for the assay, and optimizing measurement techniques. Rice straw incubations were conducted with five different levels of nitrogen added to the biomass. Microbial activity was measured by respiration and enzyme activity. A microbial community analysis was performed to understand the shift in community structure with different treatments. With increased levels of nitrogen, respiration and cellulose and hemicellulose degrading activity

  19. Population information activities in Hungary.

    Csahok, I

    1984-12-01

    The focal point for all population information activities in Hungary is the Central Statistical Office which is responsible for the organization and implementation of the decennial population censuses and of the intercensal population surveys and other data collection activities. The Central Statistical Office publishes a large volume of population information. The results of the censuses are presented partly in special census volumes and partly in statistical yearbooks. The Demographic Yearbook and other publications present results of population studies and Hungarian statistics. The Demographic Research Institute, which is part of the Central Statistical Office, is primarily responsible for research activity. The main task of the Institute is to study and analyze population processes and phenomena, as well as explore main demographic trends, carried out by using Hungarian and international demographic data. Demografia and serial publications present results of research activities of the Institute. The Library and Documentation Service, also part of the Central Statistical Office, provides conventional library services. Its main activity is the collection of both Hungarian and foreign and international official statistical publications, as well as theoretical and methodological works. Of a stock of 650,000 volumes covering a wide range of social and economic sciences, in addition to data material, the library has nearly 120,000 official statistical publications consisting mainly of population statistics and demographic data. Another activity of the Library is the processing and dissemination of documentation and it acts as a 2dary source of both Hungarian and foreign publications, especially on demography. The documentation consists of translating articles, book chapters or documents of international organizations, editing annotated bibliographies and disseminating custom-made, user-oriented profiles. This computerized information retrieval system uses Text

  20. Active microbial soil communities in different agricultural managements

    Landi, S.; Pastorelli, R.

    2009-04-01

    We studied the composition of active eubacterial microflora by RNA extraction from soil (bulk and rhizosphere) under different environmental impact managements, in a hilly basin in Gallura (Sardinia). We contrasted grassy vineyard, in which the soil had been in continuous contact with plant roots for a long period of time, with traditional tilled vineyard. Moreover, we examined permanent grassland, in which plants had been present for some years, with temporary grassland, in which varying plants had been present only during the respective growing seasons. Molecular analysis of total population was carried out by electrophoretic separation by Denaturing Gradient Gel Electrophoresis (DGGE) of amplified cDNA fragments obtained from 16S rRNA. In vineyards UPGMA (Unweighted Pair Group Mathematical Average) analysis made up separate clusters depending on soil management. In spring both clusters showed similarity over 70%, while in autumn the similarity increased, 84% and 90% for grassy and conventional tilled vineyard respectively. Permanent and temporary grassland joined in a single cluster in spring, while in autumn a partial separation was evidenced. The grassy vineyard, permanent and temporary grassland showed higher richness and diversity Shannon-Weiner index values than vineyard with conventional tillage although no significant. In conclusion the expected effect of the rhizosphere was visible: the grass cover influenced positively the diversity of active microbial population.

  1. In situ exposure to low herbicide concentrations affects microbial population composition and catabolic gene frequency in an aerobic shallow aquifer

    de Lipthay, J.R.; Tuxen, Nina; Johnsen, Kaare

    2003-01-01

    and were analyzed for the presence of general microbial populations, Pseudomonas bacteria, and specific phenoxy acid degraders. Both culture-dependent and culture-independent methods were applied. The abundance of microbial phenoxy acid degraders (10(0) to 10(4) g(-1) sediment) was determined by most...... measured by either PCR or plating on selective agar media was higher in sediments subjected to high levels of phenoxy acid. Furthermore, high numbers of CFU compared to direct counting of 4',6-diamidino-2-phenylindole-stained cells in the microscope suggested an increased culturability of the indigenous...... of the aquifer. PCR-restriction fragment length polymorphism measurements demonstrated the presence of different populations of tfd genes, suggesting that the in situ herbicide degradation was caused by the activity of a heterogeneous population of phenoxy acid degraders. The number of Pseudomonas bacteria...

  2. Ileal and cecal microbial populations in broilers given specific essential oil blends and probiotics in two consecutive grow-outs

    Digestive microbial populations (MP) are key components for sustained healthy broiler production. Specific essential oil (EO) blends and probiotics used as feed additives have shown to promote healthy digestive microbials, resulting in improved poultry production. Two consecutive experiments were ...

  3. Measurements of Microbial Community Activities in Individual Soil Macroaggregates

    Bailey, Vanessa L.; Bilskis, Christina L.; Fansler, Sarah J.; McCue, Lee Ann; Smith, Jeff L.; Konopka, Allan

    2012-05-01

    The functional potential of single soil aggregates may provide insights into the localized distribution of microbial activities better than traditional assays conducted on bulk quantities of soil. Thus, we scaled down enzyme assays for {beta}-glucosidase, N-acetyl-{beta}-D-glucosaminidase, lipase, and leucine aminopeptidase to measure of the enzyme potential of individual aggregates (250-1000 {mu}m diameter). Across all enzymes, the smallest aggregates had the greatest activity and the range of enzyme activities observed in all aggregates supports the hypothesis that functional potential in soil may be distributed in a patchy fashion. Paired analyses of ATP as a surrogate for active microbial biomass and {beta}-glucosidase on the same aggregates suggest the presence of both extracellular {beta}-glucosidase functioning in aggregates with no detectable ATP and also of relatively active microbial communities (high ATP) that have low {beta}-glucosidase potentials. Studying function at a scale more consistent with microbial habitat presents greater opportunity to link microbial community structure to microbial community function.

  4. MICROBIAL POPULATION CHANGES DURING BIOREMEDIATION OF AN EXPERIMENTAL OIL SPILL

    Three crude oil bioremediation techniques were applied in a randomized block field experiment simulating a coastal oil-spill. Four treatments (no oil control, oil alone, oil + nutrients, and oil + nutrients + an indigenous inoculum) were applied. In-situ microbial community str...

  5. Metagenomic approach for understanding microbial population from petroleum muck.

    Joshi, M N; Dhebar, S V; Dhebar, S V; Bhargava, P; Pandit, A S; Patel, R P; Saxena, A K; Bagatharia, S B

    2014-05-29

    Petroleum products play a major role in fueling the economy of the world but the pollution they create has become a critical issue. Understanding the diversity present in pipeline muck will help with the exploration of new microbial strains with better hydrocarbon degrading capacities for bioremediation of polluted sites. This study provides an analysis of petroleum muck using next generation sequencing.

  6. Metagenomic Approach for Understanding Microbial Population from Petroleum Muck

    Joshi, M. N.; Dhebar, S. V.; Bhargava, P.; Pandit, A. S.; Patel, R. P.; A K Saxena; Bagatharia, S. B.

    2014-01-01

    Petroleum products play a major role in fueling the economy of the world but the pollution they create has become a critical issue. Understanding the diversity present in pipeline muck will help with the exploration of new microbial strains with better hydrocarbon degrading capacities for bioremediation of polluted sites. This study provides an analysis of petroleum muck using next generation sequencing.

  7. Ecological perspectives on synthetic biology: insights from microbial population biology

    Escalante, Ana E.; Rebolleda-Gómez, María; Benítez, Mariana; Travisano, Michael

    2015-01-01

    The metabolic capabilities of microbes are the basis for many major biotechnological advances, exploiting microbial diversity by selection or engineering of single strains. However, there are limits to the advances that can be achieved with single strains, and attention has turned toward the metabolic potential of consortia and the field of synthetic ecology. The main challenge for the synthetic ecology is that consortia are frequently unstable, largely because evolution by constituent members affects their interactions, which are the basis of collective metabolic functionality. Current practices in modeling consortia largely consider interactions as fixed circuits of chemical reactions, which greatly increases their tractability. This simplification comes at the cost of essential biological realism, stripping out the ecological context in which the metabolic actions occur and the potential for evolutionary change. In other words, evolutionary stability is not engineered into the system. This realization highlights the necessity to better identify the key components that influence the stable coexistence of microorganisms. Inclusion of ecological and evolutionary principles, in addition to biophysical variables and stoichiometric modeling of metabolism, is critical for microbial consortia design. This review aims to bring ecological and evolutionary concepts to the discussion on the stability of microbial consortia. In particular, we focus on the combined effect of spatial structure (connectivity of molecules and cells within the system) and ecological interactions (reciprocal and non-reciprocal) on the persistence of microbial consortia. We discuss exemplary cases to illustrate these ideas from published studies in evolutionary biology and biotechnology. We conclude by making clear the relevance of incorporating evolutionary and ecological principles to the design of microbial consortia, as a way of achieving evolutionarily stable and sustainable systems. PMID

  8. Which Members of the Microbial Communities Are Active? Microarrays

    Morris, Brandon E. L.

    only at the early stages of understanding the microbial processes that occur in petroliferous formations and the surrounding subterranean environment. Important first steps in characterising the microbiology of oilfield systems involve identifying the microbial community structure and determining how population diversity changes are affected by the overall geochemical and biological parameters of the system. This is relatively easy to do today by using general 16S rRNA primers for PCR and building clone libraries. For example, previous studies using molecular methods characterised many dominant prokaryotes in petroleum reservoirs (Orphan et al., 2000) and in two Alaskan North Slope oil facilities (Duncan et al., 2009; Pham et al., 2009). However, the problem is that more traditional molecular biology approaches, such as 16S clone libraries, fail to detect large portions of the community perhaps missing up to half of the biodiversity (see Hong et al., 2009) and require significant laboratory time to construct large libraries necessary to increase the probability of detecting the majority of even bacterial biodiversity. In the energy sector, the overarching desire would be to quickly assess the extent of in situ hydrocarbon biodegradation or to disrupt detrimental processes such as biofouling, and in these cases it may not be necessary to identify specific microbial species. Rather, it would be more critical to evaluate metabolic processes or monitor gene products that are implicated in the specific activity of interest. Research goals such as these are well suited for a tailored application of microarray technology.

  9. Oxygen Effects on Thermophilic Microbial Populations in Biofilters Treating Nitric Oxide Containing Off-Gas Streams

    Lee, Brady Douglas; Apel, William Arnold; Smith, William Aaron

    2004-04-01

    Electricity generation from coal has increased by an average of 51 billion kWh per year over the past 3 years. For this reason cost-effective strategies to control nitrogen oxides (NOx) from coal-fired power plant combustion gases must be developed. Compost biofilters operated at 55°C at an empty bed contact time (EBCT) of 13 seconds were shown to be feasible for removal of nitric oxide (NO) from synthetic flue gas. Denitrifying microbial populations in these biofilters were shown to reduce influent NO feeds by 90 to 95% at inlet NO concentrations of 500 ppmv. Oxygen was shown to have a significant effect on the NO removal efficiency demonstrated by these biofilters. Two biofilters were set up under identical conditions for the purpose of monitoring NO removal as well as changes in the microbial population in the bed medium under anaerobic and aerobic conditions. Changes in the microbial population were monitored to determine the maximum oxygen tolerance of a denitrifying biofilter as well as methods of optimizing microbial populations capable of denitrification in the presence of low oxygen concentrations. Nitric oxide removal dropped to between 10 and 20% when oxygen was present in the influent stream. The inactive compost used to pack the biofilters may have also caused the decreased NO removal efficiency compared to previous biofiltration experiments. Analysis of the bed medium microbial population using environmental scanning electron microscopy indicated significant increases in biomass populating the surface of the compost when compared to unacclimated compost.

  10. Estimation of the Number of Microbial Species Comprising a Population

    2008-03-01

    and journal articles. New methods for estimation are regularly being evaluated for use. It appears from this research that parametric methods hold...Experiments,” Biometrics: 427-438 (1989). Chao, Anne and Lee, Shen-Ming. “Estimating the Number of Classes via Sample Coverage,” Journal of the...Trends in Parasitology : 568-574 (2006). Hong et al.. “Predicting Microbial Species Richness,” PNAS: 117-122 (2006). 90 91 Hughes et al

  11. Modeling the impact of the indigenous microbial population on the maximum population density of Salmonella on alfalfa

    Rijgersberg, H.; Nierop Groot, M.N.; Tromp, S.O.; Franz, E.

    2013-01-01

    Within a microbial risk assessment framework, modeling the maximum population density (MPD) of a pathogenic microorganism is important but often not considered. This paper describes a model predicting the MPD of Salmonella on alfalfa as a function of the initial contamination level, the total count

  12. Culture Independent Geochemical Tools for Adressing Microbial Activity

    Lomstein, B. A.; Langerhuus, A. T.; Jørgensen, B. B.; Alperin, M. J.

    2014-12-01

    Decades of ocean drilling have demonstrated wide-spread microbial life in deep sub-seafloor sediment, and surprisingly high numbers of microbial cells and endospores. Despite the ubiquity of life in the deep biosphere, the large community sizes are not yet understood given the extremely low energy fluxes. We have developed and applied new approaches to the deep sub-seafloor to quantify distributions and turnover times of living microbial biomass, endospores and microbial necromass. The approach combines sensitive analyses of unique bacterial marker molecules (muramic acid and d-amino acids) and the bacterial endospore marker (dipicolinic acid) with a series of models that link microscopic (e.g., racemization dynamics of stereo-isomeric amino acids) and macroscopic (e.g., porewater geochemistry) properties. Model output includes production rates and turnover times of microbial biomass and necromass, concentration profiles of reactive organic carbon, and rates of organic carbon decomposition. In combination, these results allow us to assess the role of microbial activity in the sub-seafloor carbon budget. One key result is that the turnover time of biomass is far longer than turnover times found in cultures and active surface sediments.

  13. Visualizing the population dynamics of microbial communities in the larval zebrafish gut

    Parthasarathy, Raghuveer

    In each of our digestive tracts, trillions of microbes representing hundreds of different species colonize local environments, reproduce, and compete with one another. The resulting ecosystems influence many aspects their host's development and health. Little is known about how gut microbial communities vary in space and time: how they grow, fluctuate, and respond to various perturbations. To address this and investigate microbial colonization of the vertebrate gut, we apply light sheet fluorescence microscopy to a model system that combines a realistic in vivo environment with a high degree of experimental control: larval zebrafish with defined subsets of commensal bacterial species. Light sheet microscopy enables three-dimensional imaging with high resolution over the entire intestine, providing visualizations that would be difficult or impossible to achieve with other techniques. Quantitative analysis of image data enables measurement of bacterial abundances and distributions. I will describe this approach and focus especially on recent experiments in which a colonizing bacterial species is challenged by the invasion of a second species, which leads to the decline of the first group. Imaging reveals dramatic population collapses that differentially affect the two species due to their different biogeographies and morphologies. The collapses are driven by the peristaltic motion of the zebrafish intestine, indicating that the physical activity of the host environment can play a major role in mediating inter-species competition. role in mediating inter-species competition. Supported by the National Science Foundation under Grant No. 0922951 and the National Institutes of Health under Award Number 1P50GM098911.

  14. Effect of pyrene and cadmium on microbial activity and community structure in soil.

    Lu, Mang; Xu, Kui; Chen, Jun

    2013-04-01

    In this study, a greenhouse experiment was conducted to investigate interactive effects of cadmium (Cd) × pyrene × plant treatments on soil microbial activity and community structure. The results demonstrated that the basal respiration, microbial biomass carbon and metabolic quotient in both unplanted and rhizosphere soil were significantly influenced by interaction of Cd and pyrene. The combined application of Cd and pyrene caused a significantly greater biocidal influence on the soil microorganisms than the single spiking of Cd or pyrene. The soil basal respiration increased with the spiking of 2.5 mg kg(-1) Cd in both unplanted and rhizosphere soil. The eco-physiological index of Cd-tolerant populations was significantly different among the unplanted soil, rhizoplane and rhizosphere soil of tall fescue, indicating a slightly uneven distribution of fast- and slow-growing tolerant bacteria. Obvious differences in microbial activity were observed among treatments due to different physicochemical characteristics of the rhizosphere soils depending on the plant species.

  15. Effects of Exogenous Yeast and Bacteria on the Microbial Population Dynamics and Outcomes of Olive Fermentations.

    Zaragoza, Jose; Bendiks, Zachary; Tyler, Charlotte; Kable, Mary E; Williams, Thomas R; Luchkovska, Yelizaveta; Chow, Elaine; Boundy-Mills, Kyria; Marco, Maria L

    2017-01-01

    In this study, we examined Sicilian-style green olive fermentations upon the addition of Saccharomyces cerevisiae UCDFST 09-448 and/or Pichia kudriazevii UCDFST09-427 or the lactic acid bacteria (LAB) Lactobacillus plantarum AJ11R and Leuconostoc pseudomesenteroides BGM3R. Olives containing S. cerevisiae UCDFST 09-448, a strain able to hydrolyze pectin, but not P. kudriazevii UCDFST 09-427, a nonpectinolytic strain, exhibited excessive tissue damage within 4 weeks. DNA sequencing of fungal internal transcribed spacer (ITS) regions and comparisons to a yeast-specific ITS sequence database remarkably showed that neither S. cerevisiae UCDFST 09-448 nor P. kudriazevii UCDFST 09-427 resulted in significant changes to yeast species diversity. Instead, Candida boidinii constituted the majority (>90%) of the total yeast present, independent of whether S. cerevisiae or P. kudriazevii was added. By comparison, Lactobacillus species were enriched in olives inoculated with potential starter LAB L. plantarum AJ11R and L. pseudomesenteroides BGM3R according to community 16S rRNA gene sequence analysis. The bacterial diversity of those olives was significantly reduced and resembled control fermentations incubated for a longer period of time. Importantly, microbial populations were highly dynamic at the strain level, as indicated by the large variations in AJ11R and BGM3R cell numbers over time and reductions in the numbers of yeast isolates expressing polygalacturonase activity. These findings show the distinct effects of exogenous spoilage and starter microbes on indigenous communities in plant-based food fermentations that result in very different impacts on product quality. IMPORTANCE Food fermentations are subject to tremendous selective pressures resulting in the growth and persistence of a limited number of bacterial and fungal taxa. Although these foods are vulnerable to spoilage by unintended contamination of certain microorganisms, or alternatively, can be

  16. Effects of Exogenous Yeast and Bacteria on the Microbial Population Dynamics and Outcomes of Olive Fermentations

    Zaragoza, Jose; Bendiks, Zachary; Tyler, Charlotte; Kable, Mary E.; Williams, Thomas R.; Luchkovska, Yelizaveta; Chow, Elaine; Boundy-Mills, Kyria

    2017-01-01

    ABSTRACT In this study, we examined Sicilian-style green olive fermentations upon the addition of Saccharomyces cerevisiae UCDFST 09-448 and/or Pichia kudriazevii UCDFST09-427 or the lactic acid bacteria (LAB) Lactobacillus plantarum AJ11R and Leuconostoc pseudomesenteroides BGM3R. Olives containing S. cerevisiae UCDFST 09-448, a strain able to hydrolyze pectin, but not P. kudriazevii UCDFST 09-427, a nonpectinolytic strain, exhibited excessive tissue damage within 4 weeks. DNA sequencing of fungal internal transcribed spacer (ITS) regions and comparisons to a yeast-specific ITS sequence database remarkably showed that neither S. cerevisiae UCDFST 09-448 nor P. kudriazevii UCDFST 09-427 resulted in significant changes to yeast species diversity. Instead, Candida boidinii constituted the majority (>90%) of the total yeast present, independent of whether S. cerevisiae or P. kudriazevii was added. By comparison, Lactobacillus species were enriched in olives inoculated with potential starter LAB L. plantarum AJ11R and L. pseudomesenteroides BGM3R according to community 16S rRNA gene sequence analysis. The bacterial diversity of those olives was significantly reduced and resembled control fermentations incubated for a longer period of time. Importantly, microbial populations were highly dynamic at the strain level, as indicated by the large variations in AJ11R and BGM3R cell numbers over time and reductions in the numbers of yeast isolates expressing polygalacturonase activity. These findings show the distinct effects of exogenous spoilage and starter microbes on indigenous communities in plant-based food fermentations that result in very different impacts on product quality. IMPORTANCE Food fermentations are subject to tremendous selective pressures resulting in the growth and persistence of a limited number of bacterial and fungal taxa. Although these foods are vulnerable to spoilage by unintended contamination of certain microorganisms, or alternatively, can

  17. Variations of dominant microbial populations in groundwater in response to the leachate from Laogang Landfill

    TIAN Yang-jie; YANG Hong; LI Dao-tang; LIN Zhi-xin

    2005-01-01

    Temporal changes of dominant microbial populations in groundwater in response to the leachate from Shanghai Laogang Landfill were investigated. Concentrations of dissolved redox-relevant species in groundwater suggested that the dominating redox process had changed from denitrification to methane-production/sulfate-reduction due to landfilling. Dominant microbial populations were determined using restriction fragment length polymorphism(RFLP) analyses of 16S rRNA gene libraries, which were further studied by sequencing and phylogenetic analyses. The results indicated that obvious shifts of dominant microbial populations had occurred in groundwater in response to the pollution of leachate. The closest relatives of some dominant clones are accordant with the dominating redox processes determined by hydrochemical analyses, based on the GenBank's indications on the ability to perform redox reactions.

  18. The Biodiversity Changes in the Microbial Population of Soils Contaminated with Crude Oil.

    Abbasian, Firouz; Lockington, Robin; Megharaj, Mallavarapu; Naidu, Ravi

    2016-06-01

    Crude oil spills resulting from excavation, transportation and downstream processes can cause intensive damage to living organisms and result in changes in the microbial population of that environment. In this study, we used a pyrosequencing analysis to investigate changes in the microbial population of soils contaminated with crude oil. Crude oil contamination in soil resulted in the creation of a more homogenous population of microorganisms dominated by members of the Actinomycetales, Clostridiales and Bacillales (all belonging to Gram-positive bacteria) as well as Flavobacteriales, Pseudomonadales, Burkholderiales, Rhizobiales and Sphingomonadales (all belonging to Gram-negative bacteria). These changes in the biodiversity decreased the ratios of chemoheterotrophic bacteria at higher concentrations of crude oil contamination, with these being replaced by photoheterotrophic bacteria, mainly Rhodospirillales. Several of the dominant microbial orders in the crude oil contaminated soils are able to degrade crude oil hydrocarbons and therefore are potentially useful for remediation of crude oil in contaminated sites.

  19. Suppression of Beneficial Mutations in Dynamic Microbial Populations

    Bittihn, Philip; Hasty, Jeff; Tsimring, Lev S.

    2017-01-01

    Quantitative predictions for the spread of mutations in bacterial populations are essential to interpret evolution experiments and to improve the stability of synthetic gene circuits. We derive analytical expressions for the suppression factor for beneficial mutations in populations that undergo periodic dilutions, covering arbitrary population sizes, dilution factors, and growth advantages in a single stochastic model. We find that the suppression factor grows with the dilution factor and depends nontrivially on the growth advantage, resulting in the preferential elimination of mutations with certain growth advantages. We confirm our results by extensive numerical simulations.

  20. Seasonal Development of Microbial Activity in Soils of Northern Norway

    M. B(O)LTER; N. SOETHE; R. HORN; C. UHLIG

    2005-01-01

    Seasonal development of soil microbial activity and bacterial biomass in sub-polar regions was investigated to determine the impacts of biotic and abiotic factors, such as organic matter content, temperature and moisture. The study was performed during spring thaw from three cultivated meadows and two non-cultivated forest sites near Alta, in northern Norway. Samples from all five sites showed increasing respiration rates directly after the spring thaw with soil respiration activity best related to soil organic matter content. However, distributions of bacterial biomass showed fewer similarities to these two parameters. This could be explained by variations of litter exploitation through the biomass. Microbial activity started immediately after the thaw while root growth had a longer time lag. An influence of root development on soil microbes was proposed for sites where microorganisms and roots had a tight relationship caused by a more intensive root structure. Also a reduction of microbial activity due to soil compaction in the samples from a wheel track could not be observed under laboratory conditions. New methodological approaches of differential staining for live and dead organisms were applied in order to follow changes within the microbial community. Under laboratory conditions freeze and thaw cycles showed a damaging influence on parts of the soil bacteria. Additionally, different patterns for active vs.non-active bacteria were noticeable after freeze-thaw cycles.

  1. Genetic Diversity Affects the Daily Transcriptional Oscillations of Marine Microbial Populations.

    Shilova, Irina N; Robidart, Julie C; DeLong, Edward F; Zehr, Jonathan P

    2016-01-01

    Marine microbial communities are genetically diverse but have robust synchronized daily transcriptional patterns at the genus level that are similar across a wide variety of oceanic regions. We developed a microarray-inspired gene-centric approach to resolve transcription of closely-related but distinct strains/ecotypes in high-throughput sequence data. Applying this approach to the existing metatranscriptomics datasets collected from two different oceanic regions, we found unique and variable patterns of transcription by individual taxa within the abundant picocyanobacteria Prochlorococcus and Synechococcus, the alpha Proteobacterium Pelagibacter and the eukaryotic picophytoplankton Ostreococcus. The results demonstrate that marine microbial taxa respond differentially to variability in space and time in the ocean. These intra-genus individual transcriptional patterns underlie whole microbial community responses, and the approach developed here facilitates deeper insights into microbial population dynamics.

  2. Controlling Salmonella infection in weanling pigs through water delivery of direct-fed microbials or organic acids; Part I. Effects on growth performance, microbial populations and immune status

    Pigs (n=88) weaned at 19 ± 2 d of age were used in a 14 d study to evaluate the effects of water-delivered direct-fed microbials (DFM) or organic acids on immune status, Salmonella infection and shedding, and intestinal microbial populations following a Salmonella Typhimurium challenge. Pigs were ch...

  3. Potential therapeutic applications of microbial surface-active compounds

    Letizia Fracchia

    2015-08-01

    Full Text Available Numerous investigations of microbial surface-active compounds or biosurfactants over the past two decades have led to the discovery of many interesting physicochemical and biological properties including antimicrobial, anti-biofilm and therapeutic among many other pharmaceutical and medical applications. Microbial control and inhibition strategies involving the use of antibiotics are becoming continually challenged due to the emergence of resistant strains mostly embedded within biofilm formations that are difficult to eradicate. Different aspects of antimicrobial and anti-biofilm control are becoming issues of increasing importance in clinical, hygiene, therapeutic and other applications. Biosurfactants research has resulted in increasing interest into their ability to inhibit microbial activity and disperse microbial biofilms in addition to being mostly nontoxic and stable at extremes conditions. Some biosurfactants are now in use in clinical, food and environmental fields, whilst others remain under investigation and development. The dispersal properties of biosurfactants have been shown to rival that of conventional inhibitory agents against bacterial, fungal and yeast biofilms as well as viral membrane structures. This presents them as potential candidates for future uses in new generations of antimicrobial agents or as adjuvants to other antibiotics and use as preservatives for microbial suppression and eradication strategies.

  4. An age-structured population balance model for microbial dynamics

    Duarte M.V.E.

    2003-01-01

    Full Text Available This work presents an age-structured population balance model (ASPBM for a bioprocess in a continuous stirred-tank fermentor. It relates the macroscopic properties and dynamic behavior of biomass to the operational parameters and microscopic properties of cells. Population dynamics is governed by two time- and age-dependent density functions for living and dead cells, accounting for the influence of substrate and dissolved oxygen concentrations on cell division, aging and death processes. The ASPBM described biomass and substrate oscillations in aerobic continuous cultures as experimentally observed. It is noteworthy that a small data set consisting of nonsegregated measurements was sufficient to adjust a complex segregated mathematical model.

  5. Organic matter mineralization in frozen boreal soils-environmental constraints on catabolic and anabolic microbial activity

    Oquist, Mats G.; Sparrman, Tobias; Schleucher, Jürgen; Nilsson, Mats B.

    2014-05-01

    Heterotrophic microbial mineralization of soil organic matter (SOM) and associated production and emission of atmospheric trace gases proceed during the winter months in the frozen soils of high latitude ecosystems. However, in what ways this microbial activity is constrained by the environmental conditions prevailing in a frozen soil matrix is uncertain. This presentation will address how temperature, water availability and substrate availability combine to regulate rates of microbial activity at below freezing temperatures and the implications of this activity for SOM mineralization in the surface layers of boreal forest soils experiencing seasonal freezing. We show that the amount and availability of liquid water is an integral factor regulating rates of microbial activity in the frozen soil matrix and can also explain frequently observed deviations in the temperature responses of biogenic CO2 production in frozen soils, as compared to unfrozen soils. Using stable isotope labeling (13C) we also show that the partitioning of substrate carbon, in the form of monomeric sugar (glucose), for catabolic and anabolic metabolism remain constant in the temperature range of -4C to 9C. This confirms that microbial growth may proceed even when soils are frozen. In addition we present corresponding data for organisms metabolizing polymeric substrates (cellulose) requiring exoenzymatic activity prior to substrate uptake. We conclude that the metabolic response of soil microorganism to controlling factors may change substantially across the freezing point of soil water, and also the patterns of interaction among controlling factors are affected. Thus, it is evident that metabolic response functions derived from investigations of unfrozen soils cannot be superimposed on frozen soils. Nonetheless, the soil microbial population appear very adapted to seasonal freezing with respect to their metabolic performance.

  6. Microbial life in frozen boreal soils-environmental constraints on catabolic and anabolic activity

    Oquist, M. G.; Sparrman, T.; Haei, M.; Segura, J.; Schleucher, J.; Nilsson, M. B.

    2013-12-01

    Microbial activity in frozen soils has recently gained increasing attention and the fact that soil microorganisms can perform significant metabolic activity at temperatures below freezing is apparent. However, to what extent microbial activity is constrained by the environmental conditions prevailing in a frozen soil matrix is still very uncertain. This presentation will address how the fundamental environmental factors of temperature, liquid water availability and substrate availability combine to regulate rates of catabolic and anabolic microbial processes in frozen soils. The presented results are gained from investigations of the surface layers of boreal forest soils with seasonal freezing. We show that the amount and availability of liquid water is an integral factor regulating rates of microbial activity in the frozen soil matrix and can also explain frequently observed deviations in the temperature responses of biogenic CO2 production in frozen soils, as compared to unfrozen soils. In turn, the capacity for a specific soil to retain liquid water at sub-zero temperatures is controlled by the structural composition of the soil, and especially the soil organic matter is of integral importance. We also show that the partitioning of substrate carbon, in the form of monomeric sugar (glucose), for catabolic and anabolic metabolism remain constant in the temperature range of -4C to 9C. This confirms that microbial growth may proceed even when soils are frozen. In addition we present corresponding data for organisms metabolizing polymeric substrates (cellulose) requiring exoenzymatic activity. We conclude that the metabolic response of soil microorganism to controlling factors may change substantially across the freezing point of soil water, and also the patterns of interaction among controlling factors are affected. Thus, it is evident that metabolic response functions derived from investigations of unfrozen soils cannot be superimposed on frozen soils. Nonetheless

  7. Identification of microbial populations driving biopolymer degradation in acidic peatlands by metatranscriptomic analysis.

    Ivanova, Anastasia A; Wegner, Carl-Eric; Kim, Yongkyu; Liesack, Werner; Dedysh, Svetlana N

    2016-10-01

    Northern peatlands play a crucial role in the global carbon balance, serving as a persistent sink for atmospheric CO2 and a global carbon store. Their most extensive type, Sphagnum-dominated acidic peatlands, is inhabited by microorganisms with poorly understood degradation capabilities. Here, we applied a combination of barcoded pyrosequencing of SSU rRNA genes and Illumina RNA-Seq of total RNA (metatranscriptomics) to identify microbial populations and enzymes involved in degrading the major components of Sphagnum-derived litter and exoskeletons of peat-inhabiting arthropods: cellulose, xylan, pectin and chitin. Biopolymer addition to peat induced a threefold to fivefold increase in bacterial cell numbers. Functional community profiles of assembled mRNA differed between experimental treatments. In particular, pectin and xylan triggered increased transcript abundance of genes involved in energy metabolism and central carbon metabolism, such as glycolysis and TCA cycle. Concurrently, the substrate-induced activity of bacteria on these two biopolymers stimulated grazing of peat-inhabiting protozoa. Alveolata (ciliates) was the most responsive protozoa group as confirmed by analysis of both SSU rRNA genes and SSU rRNA. A stimulation of alphaproteobacterial methanotrophs on pectin was consistently shown by rRNA and mRNA data. Most likely, their significant enrichment was due to the utilization of methanol released during the degradation of pectin. Analysis of SSU rRNA and total mRNA revealed a specific response of Acidobacteria and Actinobacteria to chitin and pectin, respectively. Relatives of Telmatobacter bradus were most responsive among the Acidobacteria, while the actinobacterial response was primarily affiliated with Frankiales and Propionibacteriales. The expression of a wide repertoire of carbohydrate-active enzymes (CAZymes) corresponded well to the detection of a highly diverse peat-inhabiting microbial community, which is dominated by yet uncultivated

  8. Aerobic Microbial Community of Insectary Population of Phlebotomus papatasi.

    Naseh Maleki-Ravasan

    2014-06-01

    Full Text Available Microbes particularly bacteria presenting in the gut of haematophagous insects may have an important role in the epidemiology of human infectious disease.The microbial flora of gut and surrounding environmental of a laboratory strain of Phlebotomus papatasi, the main vector of Zoonotic Cutaneous Leishmaniasis (ZCL in the old world, was investigated. Biochemical reactions and 16s rDNA sequencing of the isolated bacteria against 24 sugars and amino acids were used for bacteria species identification. Common mycological media used for fungi identification as well.Most isolates belonged to the Enterobacteriaceae, a large, heterogeneous group of gram-negative rods whose natural habitat is the intestinal tract of humans and animals. Enterobacteriaceae groups included Edwardsiella, Enterobacter, Escherichia, Klebsiella, Kluyvera, Leminorella, Pantoea, Proteus, Providencia, Rahnella, Serratia, Shigella, Tatumella, and Yersinia and non Enterobacteriaceae groups included Bacillus, Staphylococcus and Pseudomonas. The most prevalent isolates were Proteus mirabilis and P. vulgaris. These saprophytic and swarming motile bacteria were isolated from all immature, pupae, and mature fed or unfed male or female sand flies as well as from larval and adult food sources. Five fungi species were also isolated from sand flies, their food sources and colonization materials where Candida sp. was common in all mentioned sources.Midgut microbiota are increasingly seen as an important factor for modulating vector competence in insect vectors so their possible effects of the mirobiota on the biology of P. papatasi and their roles in the sandfly-Leishmania interaction are discussed.

  9. Observations on microbial activity in acidified pig slurry

    Ottosen, Lars Ditlev Mørck; Poulsen, Henrik Vestergaard; Nielsen, Daniel Aagren;

    2009-01-01

    Acidification of pig slurry to pH 5.5 is used as a measure to reduce ammonia emission from pits and storages. The slurry is acidified with sulphuric acid in a process tank and pumped back to the slurry pits or to a storage tank. We investigated the effect of acidification on microbial activity...

  10. Soil disturbance increases soil microbial enzymatic activity in arid ecoregion

    Functional diversity of the soil microbial community is commonly used in the assessment of soil health as it relates to the activity of soil microflora involved in carbon cycling. Soil microbes in different microenvironments will have varying responses to different substrates, thus catabolic fingerp...

  11. Microbial Community Dynamics and Activity Link to Indigo Production from Indole in Bioaugmented Activated Sludge Systems.

    Yuanyuan Qu

    Full Text Available Biosynthesis of the popular dyestuff indigo from indole has been comprehensively studied using pure cultures, but less has been done to characterize the indigo production by microbial communities. In our previous studies, a wild strain Comamonas sp. MQ was isolated from activated sludge and the recombinant Escherichia coli nagAc carrying the naphthalene dioxygenase gene (nag from strain MQ was constructed, both of which were capable of producing indigo from indole. Herein, three activated sludge systems, G1 (non-augmented control, G2 (augmented with Comamonas sp. MQ, and G3 (augmented with recombinant E. coli nagAc, were constructed to investigate indigo production. After 132-day operation, G3 produced the highest yields of indigo (99.5 ± 3.0 mg/l, followed by G2 (27.3 ± 1.3 mg/l and G1 (19.2 ± 1.2 mg/l. The microbial community dynamics and activities associated with indigo production were analyzed by Illumina Miseq sequencing of 16S rRNA gene amplicons. The inoculated strain MQ survived for at least 30 days, whereas E. coli nagAc was undetectable shortly after inoculation. Quantitative real-time PCR analysis suggested the abundance of naphthalene dioxygenase gene (nagAc from both inoculated strains was strongly correlated with indigo yields in early stages (0-30 days (P 0.10 of operation. Based on detrended correspondence analysis (DCA and dissimilarity test results, the communities underwent a noticeable shift during the operation. Among the four major genera (> 1% on average, the commonly reported indigo-producing populations Comamonas and Pseudomonas showed no positive relationship with indigo yields (P > 0.05 based on Pearson correlation test, while Alcaligenes and Aquamicrobium, rarely reported for indigo production, were positively correlated with indigo yields (P < 0.05. This study should provide new insights into our understanding of indigo bio-production by microbial communities.

  12. In situ examination of microbial populations in a model drinking water distribution system

    Martiny, Adam Camillo; Nielsen, Alex Toftgaard; Arvin, Erik

    2002-01-01

    A flow cell set-up was used as a model drinking water distribution system to analyze the in situ microbial population. Biofilm growth was followed by transmission light microscopy for 81 days and showed a biofilm consisting of microcolonies separated by a monolayer of cells. Protozoans (ciliates...

  13. Physiological heterogeneities in microbial populations and implications for physical stress tolerance

    Carlquist, Magnus; Fernandes, Rita Lencastre; Helmark, Søren;

    2012-01-01

    may be unfavourable on the one hand (reduces yields and productivities), but also beneficial on the other hand (facilitates quick adaptation to new conditions - i.e. increases the robustness of the fermentation process). Understanding and control of microbial population heterogeneity is thus of major...

  14. Tracking dynamics of plant biomass composting by changes in substrate structure, microbial community, and enzyme activity

    Wei Hui

    2012-04-01

    Full Text Available Abstract Background Understanding the dynamics of the microbial communities that, along with their secreted enzymes, are involved in the natural process of biomass composting may hold the key to breaking the major bottleneck in biomass-to-biofuels conversion technology, which is the still-costly deconstruction of polymeric biomass carbohydrates to fermentable sugars. However, the complexity of both the structure of plant biomass and its counterpart microbial degradation communities makes it difficult to investigate the composting process. Results In this study, a composter was set up with a mix of yellow poplar (Liriodendron tulipifera wood-chips and mown lawn grass clippings (85:15 in dry-weight and used as a model system. The microbial rDNA abundance data obtained from analyzing weekly-withdrawn composted samples suggested population-shifts from bacteria-dominated to fungus-dominated communities. Further analyses by an array of optical microscopic, transcriptional and enzyme-activity techniques yielded correlated results, suggesting that such population shifts occurred along with early removal of hemicellulose followed by attack on the consequently uncovered cellulose as the composting progressed. Conclusion The observed shifts in dominance by representative microbial groups, along with the observed different patterns in the gene expression and enzymatic activities between cellulases, hemicellulases, and ligninases during the composting process, provide new perspectives for biomass-derived biotechnology such as consolidated bioprocessing (CBP and solid-state fermentation for the production of cellulolytic enzymes and biofuels.

  15. BIOMASS AND MICROBIAL ACTIVITY UNDER DIFFERENT FOREST COVERS

    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.

  16. Microbial activity in the marine deep biosphere: Progress and prospects

    Beth N Orcutt

    2013-07-01

    Full Text Available The vast marine deep biosphere consists of microbial habitats within sediment, pore waters, upper basaltic crust and the fluids that circulate throughout it. A wide range of temperature, pressure, pH, and electron donor and acceptor conditions exists – all of which can combine to affect carbon and nutrient cycling and result in gradients on spatial scales ranging from millimeters to kilometers. Diverse and mostly uncharacterized microorganisms live in these habitats, and potentially play a role in mediating global scale biogeochemical processes. Quantifying the rates at which microbial activity in the subsurface occurs is a challenging endeavor, yet developing an understanding of these rates is essential to determine the impact of subsurface life on Earth's global biogeochemical cycles, and for understanding how microorganisms in these "extreme" environments survive (or even thrive. Here, we synthesize recent advances and discoveries pertaining to microbial activity in the marine deep subsurface, and we highlight topics about which there is still little understanding and suggest potential paths forward to address them. This publication is the result of a workshop held in August 2012 by the NSF-funded Center for Dark Energy Biosphere Investigations (C-DEBI "theme team" on microbial activity (www.darkenergybiosphere.org.

  17. Microbial activity in the marine deep biosphere: progress and prospects.

    Orcutt, Beth N; Larowe, Douglas E; Biddle, Jennifer F; Colwell, Frederick S; Glazer, Brian T; Reese, Brandi Kiel; Kirkpatrick, John B; Lapham, Laura L; Mills, Heath J; Sylvan, Jason B; Wankel, Scott D; Wheat, C Geoff

    2013-01-01

    The vast marine deep biosphere consists of microbial habitats within sediment, pore waters, upper basaltic crust and the fluids that circulate throughout it. A wide range of temperature, pressure, pH, and electron donor and acceptor conditions exists-all of which can combine to affect carbon and nutrient cycling and result in gradients on spatial scales ranging from millimeters to kilometers. Diverse and mostly uncharacterized microorganisms live in these habitats, and potentially play a role in mediating global scale biogeochemical processes. Quantifying the rates at which microbial activity in the subsurface occurs is a challenging endeavor, yet developing an understanding of these rates is essential to determine the impact of subsurface life on Earth's global biogeochemical cycles, and for understanding how microorganisms in these "extreme" environments survive (or even thrive). Here, we synthesize recent advances and discoveries pertaining to microbial activity in the marine deep subsurface, and we highlight topics about which there is still little understanding and suggest potential paths forward to address them. This publication is the result of a workshop held in August 2012 by the NSF-funded Center for Dark Energy Biosphere Investigations (C-DEBI) "theme team" on microbial activity (www.darkenergybiosphere.org).

  18. Microbial activity in the landfill soil.

    Brzezinska, M Swiontek; Burkowska, A; Walczak, M

    2012-01-01

    The research objective was to determine the activity of microorganisms in the soil exposed to direct influence of a landfill, as well as in the soil beyond its influence. Fluorescein diacetate (FDA) hydrolytic activity and respiration in the soil were determined. The highest number of cultivated bacteria was recorded at the site located within the zone of direct influence exerted by the landfill, whereas the least amount was found at a distance of 1000 metres from the landfill. In contrast, the largest numbers of molds were observed in the soil at a distance of 1000 m from the headquarters of the landfill. The highest FDA hydrolytic activity and biological oxygen demand (BOD5) were recorded in the soil by the headquarters of the landfill, and the least parameters were revealed at a distance of 1000 m from the landfill. It was found a high correlation between the number of bacteria and FDA hydrolytic activity of soil and BOD5 in the north-eastern of the landfill. However, in the same place, there is a low correlation between the number of molds, and FDA hydrolytic activity of soil and BOD5.

  19. Effects of fertilizers on soil’s microbial growth and populations: a review

    Ojo OI

    2015-07-01

    Full Text Available Soil nutrients availability and decomposition of organic matter depends on microorganism but there are little available literatures on the possible effects of nutrients fixing chemicals and substances on the survival and population distribution of various microbes. Also, because of importance of organic and inorganic fertilizers to increase the soil microorganisms needed for the growth of plants there is need for comprehensive review of existing literature on the subject. This paper reviewed the effects of fertilizers on soil’s microbial growth and populations in available literatures. Various studies agreed that low microbe population due to lack of organic matter can be easily rectified by amending the soil with fertilizers and organic matter and allowing time for microbial growth therefore jump-starting the reproduction of microbes by adding beneficial microbes along with organic matter. Microbe improves soil structure by the humus they create while digesting organic matter and also help in nitrogen fixing.

  20. Distribution of chromium contamination and microbial activity in soil aggregates.

    Tokunaga, Tetsu K; Wan, Jiamin; Hazen, Terry C; Schwartz, Egbert; Firestone, Mary K; Sutton, Stephen R; Newville, Matthew; Olson, Keith R; Lanzirotti, Antonio; Rao, William

    2003-01-01

    Biogeochemical transformations of redox-sensitive chemicals in soils can be strongly transport-controlled and localized. This was tested through experiments on chromium diffusion and reduction in soil aggregates that were exposed to chromate solutions. Reduction of soluble Cr(VI) to insoluble Cr(II) occurred only within the surface layer of aggregates with higher available organic carbon and higher microbial respiration. Sharply terminated Cr diffusion fronts develop when the reduction rate increases rapidly with depth. The final state of such aggregates consists of a Cr-contaminated exterior, and an uncontaminated core, each having different microbial community compositions and activity. Microbial activity was significantly higher in the more reducing soils, while total microbial biomass was similar in all of the soils. The small fraction of Cr(VI) remaining unreduced resides along external surfaces of aggregates, leaving it potentially available to future transport down the soil profile. Using the Thiele modulus, Cr(VI) reduction in soil aggregates is shown to be diffusion rate- and reaction rate-limited in anaerobic and aerobic aggregates, respectively. Thus, spatially resolved chemical and microbiological measurements are necessary within anaerobic soil aggregates to characterize and predict the fate of Cr contamination. Typical methods of soil sampling and analyses that average over redox gradients within aggregates can erase important biogeochemical spatial relations necessary for understanding these environments.

  1. Efficacy of gaseous ozone against Salmonella and microbial population on dried oregano.

    Torlak, Emrah; Sert, Durmuş; Ulca, Pelin

    2013-08-01

    Interest in potential food applications of ozone has expanded in recent years in response to consumer demands for green technologies. This study was conducted to evaluate the efficacy of gaseous ozone for the microbial reduction and elimination of Salmonella on dried oregano. Ozone treatment was performed up to 120min under continuous stream of two different constant ozone concentrations (2.8 and 5.3mg/L). Significant (Poregano determined as 5.8logCFU/g decreased significantly by 2.8 and 3.7 log after ozonation at 2.8 and 5.3mg/L for 120min, respectively. Sensory evaluation results suggested that over the 2 log reduction in the microbial population can be obtained on dried oregano by gaseous ozone treatments with an acceptable taste, flavor and appearance. The results demonstrated that the gaseous ozone treatment is an effective alternative microbial reduction technique for dried oregano.

  2. Anti-microbial activity of Leucas clarkei

    Surya Narayan Das

    2012-06-01

    Full Text Available The antimicrobial potency of the whole plant of Leucas clarkei have been studied using the soxhlet extracts of petroleum ether, benzene, chloroform and ethanol extract against Gram-positive bacteria (two strains, Gram-negative bacteria (two strains and two fungi strains by disc diffusion method. Micro-dilution methods, for the determination of minimal inhibition concentration (MIC and the minimal bactericidal and fungicidal concentration (MBC, MFC. The ethanol extract at a concentration of 30 to 60 µg/disc and chloroform extract at a concentration 60 µg/disc showed significant activity against all the bacteria and fungus. All the extracts of L. clarkei have got moderate action but chloroform and ethanol extracts have got significant activity against Candida krusei, Candida albicans, Escherichia coli, Salmonella typhi, Staphylococcus aureus, and Bacillus subtilis. This may be due to phytochemicals such as phytosterols, alkaloid, tannins, phenolic compounds and flavonoids present in the extracts.

  3. Seasonal distribution of microbial activity in bioaerosols in the outdoor environment of the Qingdao coastal region

    Zhong, Xi; Qi, Jianhua; Li, Hongtao; Dong, Lijie; Gao, Dongmei

    2016-09-01

    Microbial activities in the atmosphere can indicate the physiological processes of microorganisms and can indirectly affect cloud formation and environmental health. In this study, the microbial activity in bioaerosols collected in the Qingdao coastal region was investigated using the fluorescein diacetate (FDA) hydrolysis method to detect the enzyme activity of microorganisms. The results showed that the microbial activity ranged from 5.49 to 102 ng/m3 sodium fluorescein from March 2013 to February 2014; the average value was 34.4 ng/m3. Microbial activity has no statistical correlation with total microbial quantity. Multiple linear regression analysis showed that meteorological factors such as atmospheric temperature, relative humidity and wind speed accounted for approximately 35.7% of the variation of the microbial activity, although their individual impacts on microbial activity varied. According to the correlation analysis, atmospheric temperature and wind speed had a significant positive and negative influence on microbial activity, respectively, whereas relative humidity and wind direction had no significant influence. The seasonal distribution of microbial activity in bioaerosols was in the order of summer > autumn > winter > spring, with high fluctuations in the summer and autumn. Microbial activity in bioaerosols differed in different weather conditions such as the sunny, foggy, and hazy days of different seasons. Further in situ observations in different weather conditions at different times and places are needed to understand the seasonal distribution characteristics of microbial activity in bioaerosols and the influence factors of microbial activity.

  4. Targeted Proteomics Approaches To Monitor Microbial Activity In Basalt Aquifer

    Paszczynski, A. J.; Paidisetti, R.

    2007-12-01

    Microorganisms play a major role in biogeochemical cycles of the Earth. Information regarding microbial community composition can be very useful for environmental monitoring since the short generation times of microorganisms allows them to respond rapidly to changing environmental conditions. Microbial mediated attenuation of toxic chemicals offers great potential for the restoration of contaminated environments in an ecologically acceptable manner. Current knowledge regarding the structure and functional activities of microbial communities is limited, but more information is being acquired every day through many genomic- and proteomic- based methods. As of today, only a small fraction of the Earth's microorganisms has been cultured, and so most of the information regarding the biodegradation and therapeutic potentials of these uncultured microorganisms remains unknown. Sequence analysis of DNA and/or RNA has been used for identifying specific microorganisms, to study the community composition, and to monitor gene expression providing limited information about metabolic state of given microbial system. Proteomic studies can reveal information regarding the real-time metabolic state of the microbial communities thereby aiding in understanding their interaction with the environment. In research described here the involvement of microbial communities in the degradation of anthropogenic contaminants such as trichloroethylene (TCE) was studied using mass spectrometry-based proteomics. The co- metabolic degradation of TCE in the groundwater of the Snake River Plain Aquifer at the Test Area North (TAN) site of Idaho National Laboratory (INL) was monitored by the characterization of peptide sequences of enzymes such as methane monooxygenases (MMOs). MMOs, expressed by methanotrophic bacteria are involved in the oxidation of methane and non-specific co-metabolic oxidation of TCE. We developed a time- course cell lysis method to release proteins from complex microbial

  5. Active microbial sulfur disproportionation in the Mesoproterozoic.

    Johnston, David T; Wing, Boswell A; Farquhar, James; Kaufman, Alan J; Strauss, Harald; Lyons, Timothy W; Kah, Linda C; Canfield, Donald E

    2005-12-02

    The environmental expression of sulfur compound disproportionation has been placed between 640 and 1050 million years ago (Ma) and linked to increases in atmospheric oxygen. These arguments have their basis in temporal changes in the magnitude of 34S/32S fractionations between sulfate and sulfide. Here, we present a Proterozoic seawater sulfate isotope record that includes the less abundant sulfur isotope 33S. These measurements imply that sulfur compound disproportionation was an active part of the sulfur cycle by 1300 Ma and that progressive Earth surface oxygenation may have characterized the Mesoproterozoic.

  6. Population-reaction model and microbial experimental ecosystems for understanding hierarchical dynamics of ecosystems.

    Hosoda, Kazufumi; Tsuda, Soichiro; Kadowaki, Kohmei; Nakamura, Yutaka; Nakano, Tadashi; Ishii, Kojiro

    2016-02-01

    Understanding ecosystem dynamics is crucial as contemporary human societies face ecosystem degradation. One of the challenges that needs to be recognized is the complex hierarchical dynamics. Conventional dynamic models in ecology often represent only the population level and have yet to include the dynamics of the sub-organism level, which makes an ecosystem a complex adaptive system that shows characteristic behaviors such as resilience and regime shifts. The neglect of the sub-organism level in the conventional dynamic models would be because integrating multiple hierarchical levels makes the models unnecessarily complex unless supporting experimental data are present. Now that large amounts of molecular and ecological data are increasingly accessible in microbial experimental ecosystems, it is worthwhile to tackle the questions of their complex hierarchical dynamics. Here, we propose an approach that combines microbial experimental ecosystems and a hierarchical dynamic model named population-reaction model. We present a simple microbial experimental ecosystem as an example and show how the system can be analyzed by a population-reaction model. We also show that population-reaction models can be applied to various ecological concepts, such as predator-prey interactions, climate change, evolution, and stability of diversity. Our approach will reveal a path to the general understanding of various ecosystems and organisms.

  7. Monitoring the microbial populations and temperatures of fresh broccoli from harvest to retail display.

    Dallaire, R; LeBlanc, D I; Tranchant, C C; Vasseur, L; Delaquis, P; Beaulieu, C

    2006-05-01

    Microbial populations and the temperature of fresh broccoli were monitored at several steps of a supply chain by sampling 33 distinct lots of locally grown produce over two seasons during harvest, storage, wholesale handling, and retail display. Imported broccoli was also sampled, but only at retail display. Microbiological analyses were conducted on the florets of 201 local and 60 imported broccoli samples to determine populations of total aerobic bacteria (aerobic colony count), fecal coliforms, Escherichia coli, and Listeria monocytogenes. All the samples had mean aerobic colony counts ranging between 4 and 6 log CFU/g, but L. monocytogenes was not detected (limit of detection =100 CFU/g). Fecal coliforms and E. coli (limit of detection =20 most probable number per 100 g) were found in 22 of 126 samples of local broccoli collected at various steps of the production and distribution system during the first season. None was found in 75 samples collected in the second season. Fecal coliforms and E. coli were found in 2 of 60 imported broccoli samples. Broccoli temperatures were relatively well controlled throughout the production and distribution system. No clear change in produce microbial populations was evident between harvest and retail display, during both sampling seasons. However, a large experimental variability was found, possibly associated with the high variability of the initial levels of microbial populations on broccoli at harvest.

  8. Microbial Diversity and Population Structure of Extremely Acidic Sulfur-Oxidizing Biofilms From Sulfidic Caves

    Jones, D.; Stoffer, T.; Lyon, E. H.; Macalady, J. L.

    2005-12-01

    Extremely acidic (pH 0-1) microbial biofilms called snottites form on the walls of sulfidic caves where gypsum replacement crusts isolate sulfur-oxidizing microorganisms from the buffering action of limestone host rock. We investigated the phylogeny and population structure of snottites from sulfidic caves in central Italy using full cycle rRNA methods. A small subunit rRNA bacterial clone library from a Frasassi cave complex snottite sample contained a single sequence group (>60 clones) similar to Acidithiobacillus thiooxidans. Bacterial and universal rRNA clone libraries from other Frasassi snottites were only slightly more diverse, containing a maximum of 4 bacterial species and probably 2 archaeal species. Fluorescence in situ hybridization (FISH) of snottites from Frasassi and from the much warmer Rio Garrafo cave complex revealed that all of the communities are simple (low-diversity) and dominated by Acidithiobacillus and/or Ferroplasma species, with smaller populations of an Acidimicrobium species, filamentous fungi, and protists. Our results suggest that sulfidic cave snottites will be excellent model microbial ecosystems suited for ecological and metagenomic studies aimed at elucidating geochemical and ecological controls on microbial diversity, and at mapping the spatial history of microbial evolutionary events such as adaptations, recombinations and gene transfers.

  9. Microbial Activation of Wooden Vats Used for Traditional Cheese Production and Evolution of Neoformed Biofilms.

    Gaglio, Raimondo; Cruciata, Margherita; Di Gerlando, Rosalia; Scatassa, Maria Luisa; Cardamone, Cinzia; Mancuso, Isabella; Sardina, Maria Teresa; Moschetti, Giancarlo; Portolano, Baldassare; Settanni, Luca

    2015-11-06

    Three Lactococcus lactis subsp. cremoris strains were used to develop ad hoc biofilms on the surfaces of virgin wooden vats used for cheese production. Two vats (TZ) were tested under controlled conditions (pilot plant), and two vats (TA) were tested under uncontrolled conditions (industrial plant). In each plant, one vat (TA1 and TZ1) was used for the control, traditional production of PDO Vastedda della Valle del Belìce (Vastedda) cheese, and one (TA2 and TZ2) was used for experimental production performed after lactococcal biofilm activation and the daily addition of a natural whey starter culture (NWSC). Microbiological and scanning electron microscopy analyses showed differences in terms of microbial levels and composition of the neoformed biofilms. The levels of the microbial groups investigated during cheese production showed significant differences between the control trials and between the control and experimental trials, but the differences were not particularly marked between the TA2 and TZ2 productions, which showed the largest numbers of mesophilic lactic acid bacterium (LAB) cocci. LAB populations were characterized phenotypically and genotypically, and 44 dominant strains belonging to 10 species were identified. Direct comparison of the polymorphic profiles of the LAB collected during cheese making showed that the addition of the NWSC reduced their biodiversity. Sensory evaluation showed that the microbial activation of the wooden vats with the multistrain Lactococcus culture generated cheeses with sensory attributes comparable to those of commercial cheese. Thus, neoformed biofilms enable a reduction of microbial variability and stabilize the sensorial attributes of Vastedda cheese.

  10. Uncharted Microbial World: Microbes and Their Activities in the Environment

    Harwood, Caroline; Buckley, Merry.

    2007-12-31

    Microbes are the foundation for all of life. From the air we breathe to the soil we rely on for farming to the water we drink, everything humans need to survive is intimately coupled with the activities of microbes. Major advances have been made in the understanding of disease and the use of microorganisms in the industrial production of drugs, food products and wastewater treatment. However, our understanding of many complicated microbial environments (the gut and teeth), soil fertility, and biogeochemical cycles of the elements is lagging behind due to their enormous complexity. Inadequate technology and limited resources have stymied many lines of investigation. Today, most environmental microorganisms have yet to be isolated and identified, let alone rigorously studied. The American Academy of Microbiology convened a colloquium in Seattle, Washington, in February 2007, to deliberate the way forward in the study of microorganisms and microbial activities in the environment. Researchers in microbiology, marine science, pathobiology, evolutionary biology, medicine, engineering, and other fields discussed ways to build on and extend recent successes in microbiology. The participants made specific recommendations for targeting future research, improving methodologies and techniques, and enhancing training and collaboration in the field. Microbiology has made a great deal of progress in the past 100 years, and the useful applications for these new discoveries are numerous. Microorganisms and microbial products are now used in industrial capacities ranging from bioremediation of toxic chemicals to probiotic therapies for humans and livestock. On the medical front, studies of microbial communities have revealed, among other things, new ways for controlling human pathogens. The immediate future for research in this field is extremely promising. In order to optimize the effectiveness of community research efforts in the future, scientists should include manageable

  11. Effects of heat shocks on microbial community structure and microbial activity of a methanogenic enrichment degrading benzoate.

    Mei, R; Narihiro, T; Nobu, M K; Liu, W-T

    2016-11-01

    In anaerobic digesters, temperature fluctuation could lead to process instability and failure. It is still not well understood how digester microbiota as a whole respond to heat shock, and what specific organisms are vulnerable to perturbation or responsible for process recovery after perturbation. To address these questions, a mesophilic benzoate-degrading methanogenic culture enriched from digester was subjected to different levels of heat shock. Three types of methane production profiles after perturbation were observed in comparison to the control: uninhibited, inhibited with later recovery, and inhibited without recovery. These responses were correlated with the microbial community compositions based on the analyses of 16S rRNA and 16S rRNA gene. Specifically, the primary benzoate-degrading syntroph was highly affected by heat shock, and its abundance and activity were both crucial to the restoration of benzoate degradation after heat shock. In contrast, methanogens were stable regardless whether methane production was inhibited. Populations related to 'Candidatus Cloacimonetes' and Firmicutes showed stimulated growth. These observations indicated distinct physiological traits and ecological niches associated with individual microbial groups. The results obtained after exposure to heat shock can be critical to more comprehensive characterization of digester ecology under perturbations.

  12. Biodegradation of 4-nitrophenol by indigenous microbial populations in Everglades soils.

    Laha, S; Petrova, K P

    The Everglades in South Florida are a unique ecological system. As a result of the widespread use of pesticides and herbicides in agricultural areas upstream from these wetlands, there is a serious potential for pollution problems in the Everglades. The purpose of this study was to evaluate the ability of indigenous microbial populations to degrade xenobiotic organic compounds introduced by agricultural and other activities. Such biodegradation may facilitate the remediation of contaminated soils and water in the Everglades. The model compound selected in this study is 4-nitrophenol, a chemical commonly used in the manufacture of pesticides. The mineralization of 4-nitrophenol at various concentrations was studied in soils collected from the Everglades. At concentrations of 10 and 100 microg/g soil, considerable mineralization occurred within a week. At a higher concentration, i.e., 10 mg/g soil, however, no mineralization of 4-nitrophenol occurred over a 4-month period; such a high concentration apparently produced an inhibitory effect. The rate and extent of 4-nitrophenol mineralization was enhanced on inoculation with previously isolated nitrophenol-degrading microorganisms. The maximum mineralization extent measured, however, was less than 30% suggesting conversion to biomass and/or unidentified intermediate products. These results indicate the potential for natural mechanisms to mitigate the adverse effects of xenobiotic pollutants in a complex system such as the Everglades.

  13. Plant diversity reduces the effect of multiple heavy metal pollution on soil enzyme activities and microbial community structure

    Yang GAO; Chiyuan MIAO; Jun XIA; Liang MAO; Yafeng WANG; Pei ZHOU

    2012-01-01

    It is unclear whether certain plant species and plant diversity could reduce the impacts of multiple heavy metal pollution on soil microbial structure and soil enzyme activities. Random amplified polymorphic DNA (RAPD) was used to analyze the genetic diversity and microbial similarity in planted and unplanted soil under combined cadmium (Cd) and lead (Pb) pollution. A metal hyper- accumulator, Brassica juncea, and a common plant, Festuca arundinacea Schreb, were used in this research. The results showed that microorganism quantity in planted soil significantly increased, compared with that in unplanted soil with Cd and Pb pollution. The order of microbial community sensitivity in response to Cd and Pb stress was as follows: actinomycetes 〉 bacteria 〉 fungi. Respiration, phosphatase, urease and dehydrogenase activity were significantly inhibited due to Cd and Pb stress. Compared with unplanted soil, planted soils have frequently been reported to have higher rates of microbial activity due to the presence of additional surfaces for microbial colonization and organic compounds released by the plant roots. Two coexisting plants could increase microbe population and the activity of phosphatases, dehydrogenases and, in particular, ureases. Soil enzyme activity was higher in B. juncea phytoremediated soil than in F. arundinacea planted soil in this study. Heavy metal pollution decreased the richness of the soil microbial community, but plant diversity increased DNA sequence diversity and maintained DNA sequence diversity at highlevels. The genetic polymorphism under heavy metal stress was higher in B. juncea phytoremediated soil than in F. arundinacea planted soil.

  14. Physiological heterogeneities in microbial populations and implications for physical stress tolerance

    Carlquist, Magnus; Fernandes, Rita Lencastre; Helmark, Søren

    2012-01-01

    may be unfavourable on the one hand (reduces yields and productivities), but also beneficial on the other hand (facilitates quick adaptation to new conditions - i.e. increases the robustness of the fermentation process). Understanding and control of microbial population heterogeneity is thus of major...... importance for improving microbial cell factory processes. Results: In this work, a dual reporter system was developed and applied to map growth and cell fitness heterogeneities within budding yeast populations during aerobic cultivation in well-mixed bioreactors. The reporter strain, which was based...... it was possible to distinguish subpopulations with high and low cell membrane robustness and hence ability to withstand freeze-thaw stress. A strong inverse correlation between growth and cell membrane robustness was observed, which further supports the hypothesis that cellular resources are limited and need...

  15. From field barley to malt: detection and specification of microbial activity for quality aspects.

    Noots, I; Delcour, J A; Michiels, C W

    1999-01-01

    Barley grain carries a numerous, variable, and complex microbial population that mainly consists of bacteria, yeasts, and filamentous fungi and that can partly be detected and quantified using plating methods and microscopic and molecular techniques. The extent and the activity of this microflora are determined by the altering state of the grain and the environmental conditions in the malt production chain. Three ecological systems can be distinguished: the growing cereal in the field, the dry barley grain under storage, and the germinating barley kernel during actual malting. Microorganisms interact with the malting process both by their presence and by their metabolic activity. In this respect, interference with the oxygen uptake by the barley grain and secretion of enzymes, hormones, toxins, and acids that may affect the plant physiological processes have been studied. As a result of the interaction, microorganisms can cause important losses and influence malt quality as measured by brewhouse performance and beer quality. Of particular concern is the occurrence of mycotoxins that may affect the safety of malt. The development of the microflora during malt production can to a certain extent be controlled by the selection of appropriate process conditions. Physical and chemical treatments to inactivate the microbial population on the barley grain are suggested. Recent developments, however, aim to control the microbial activity during malt production by promoting the growth of desirable microbial cultures, selected either as biocontrol agents inhibiting mycotoxin-producing molds or as starter cultures actively contributing to malt modification. Such techniques may offer natural opportunities to improve the quality and safety of malt.

  16. Seasonal Microbial Population Shifts in a Bioremediation System Treating Metal and Sulfate-Rich Seepage

    Susan A. Baldwin

    2016-04-01

    Full Text Available Biochemical reactors (BCRs using complex organics for bioremediation of mine-influenced water must operate successfully year round. In cold climates, where many mines in Canada are located, survival of the important microorganisms through the winter months is a concern. In this work, broad phylogenetic surveys, using metagenomics, of the microbial populations in pulp mill biosolids used to remediate metal leachate containing As, Zn, Cd and sulfate were performed to see if the types of microorganisms present changed over the seasons of one year (August 2008 to July 2009. Despite temperature variations between 0 and 17 °C the overall structure of the microbial population was fairly consistent. A cyclical pattern in relative abundance was detected in certain taxa. These included fermenter-related groups, which were out of phase with other taxa such as Desulfobulbus that represented potential consumers of fermentation byproducts. Sulfate-reducers in the BCR biosolids were closely related to psychrotolerant species. Temperature was not a factor that shaped the microbial population structure within the BCR biosolids. Kinetics of organic matter degradation by these microbes and the rate of supply of organic carbon to sulfate-reducers would likely affect the metal removal rates at different temperatures.

  17. Shifts in the Microbial Population in Relation to in situ Caries Progression

    Thomas, R. Z.; Zijnge, V.; Cicek, A.; de Soet, J. J.; Harmsen, H. J. M.; Huysmans, M. C. D. N. J. M.

    2012-01-01

    The shift in microbial diversity from young to mature plaque, related to caries activity on sound and restored surfaces, was studied using denaturing gradient gel electrophoresis. During a 20-week in situ study on caries progression 8 subjects wearing restored and unrestored dentin and enamel sectio

  18. ANTIMICROBIAL ACTIVITY OF DIFFERENT THIOSEMICARBAZONE COMPOUNDS AGAINST MICROBIAL PATHOGENS

    Negi Parul

    2012-05-01

    Full Text Available Thiosemicarbazone belongs to a large group of thiourea derivatives, whose biological activities are a function of parent aldehyde or ketone moiety. They have been evaluated over the last 50 year as antiviral, antibacterial, antifungal, antimalarial, anticancer, leprosy, rheumatism, trypanosomiasis and coccidiodis. Thiosemicarbazones were prepared by simple process in which N4-thiosemicarbazone moiety was replaced by aliphatic, arylic and cyclic amines. Present study reported the anti-microbial activity of different thiosemicarbazone compounds against certain bacterial and fungal pathogens viz. Bacillus cereus, Staphylococcus epidermis, Moraxella cattarhalis, Staph. Saprophyticus, Candida albicans and Aspergillus flavans.

  19. Sediment biogeochemistry and microbial activity at natural hydrocarbon seeps and at sites impacted by anthropogenic hydrocarbon discharges

    Joye, S. B.; Sibert, R.; Battles, J.; Fields, L.; Kleindienst, S.; Crespo-Medina, M.; Hunter, K.; Meile, C. D.; Montoya, J. P.

    2013-12-01

    Natural hydrocarbon seeps occur along the seafloor where geologic faults facilitate transfer of deeply sourced fluids enriched in gas, oil, and dissolved organic matter through shallow sediments and into the water column. At natural seeps, microbial populations specialize in hydrocarbon degradation and rates of microbial activity, including sulfate reduction and anaerobic oxidation of methane, can be extremely high. As a result, the biogeochemical signature of sediments near areas of active natural seepage is distinct: high concentrations of metabolic end products, such as dissolved inorganic carbon and hydrogen sulfide, abound, and often, high dissolved inorganic carbon concentrations result in the precipitation of authigenic carbonate minerals. We examined microbial processes and biogeochemical signatures at two natural seeps, Green Canyon 600 and Mississippi Canyon 118. Higher and more frequent seepage loci at the Green Canyon 600 site led to more widespread hotspots of elevated microbial activity and distinct geochemistry. However, rates of microbial activity were comparable at the two sites in areas of active hydrocarbon seepage. The microbial communities at the two sites were surprisingly different. The second group of sites was impacted by anthropogenic hydrocarbon discharges instead of natural seepage. One site, Oceanus 26, lies near the Deepwater Horizon/Macondo wellhead and was impacted by weathered oil sedimentation during the Macondo discharge. The second set of impacted sites, noted as Taylor Energy, lie near a sunken platform and compromised riser, which have together resulted in persistent hydrocarbon discharge to the adjacent oceanic system for more than 6 years. Rates of microbial activity in the upper sediments at Oceanus 26 were depressed relative to activity in the deeper layers, suggesting inhibition by the presence of weathered oil or an microbial community unable to weather the carbon available in the layer. At the Taylor energy site

  20. Soil microbial biomass and population in response to seasonal variation and age in Gmelina arborea plantations in south-western Nigeria

    Jonathan C.Onyekwelu

    2012-01-01

    Abstract: We investigated the Effects of plantation development,seasons,and soil depth on soil microbial indices in Gmelina arborea plantations in south-western Nigeria.Soil samples were obtained from the soil depths of 0-15 and 15-30 cm from plantations of six different ages during the rainy season,dry seasons,and their transitions.We used plate count and fumigation-extraction methods to determine microbe population and microbial biomass carbon (MB-C) and nitrogen (MB-N),respectively.Plantation age did not affect microbial indices,implying a non-significant effect of plantation development on microbial communities.It could also imply that soil microbial indices had already stabilized in the sampled plantations.Seasonal variation and soil depth had significant effects on microbial indices.At 0-15 cm soil depth,mean MB-C increased from 50.74 μg·g-1 during the peak of the dry season (i.e.March) to 99.58 μg·g-1 during the peak of the rainy season (i.e.September),while it increased from 36.22 μg·g-1 to 75.31 μg·g-1 at 15-30 cm soil depth between the same seasonal periods.Bacteria populations and MB-N showed similar increasing trends.Correlations.between MB-C,MB-N,microbe populations,and rainfall were positive and linear.Significantly higher microbial activities took place in the plantations during the rainy season,increased with soil wetness,and decreased at greater soil depth.

  1. Microbial diversity in European alpine permafrost and active layers.

    Frey, Beat; Rime, Thomas; Phillips, Marcia; Stierli, Beat; Hajdas, Irka; Widmer, Franco; Hartmann, Martin

    2016-03-01

    Permafrost represents a largely understudied genetic resource. Thawing of permafrost with global warming will not only promote microbial carbon turnover with direct feedback on greenhouse gases, but also unlock an unknown microbial diversity. Pioneering metagenomic efforts have shed light on the permafrost microbiome in polar regions, but temperate mountain permafrost is largely understudied. We applied a unique experimental design coupled to high-throughput sequencing of ribosomal markers to characterize the microbiota at the long-term alpine permafrost study site 'Muot-da-Barba-Peider' in eastern Switzerland with an approximate radiocarbon age of 12 000 years. Compared to the active layers, the permafrost community was more diverse and enriched with members of the superphylum Patescibacteria (OD1, TM7, GN02 and OP11). These understudied phyla with no cultured representatives proposedly feature small streamlined genomes with reduced metabolic capabilities, adaptations to anaerobic fermentative metabolisms and potential ectosymbiotic lifestyles. The permafrost microbiota was also enriched with yeasts and lichenized fungi known to harbour various structural and functional adaptation mechanisms to survive under extreme sub-zero conditions. These data yield an unprecedented view on microbial life in temperate mountain permafrost, which is increasingly important for understanding the biological dynamics of permafrost in order to anticipate potential ecological trajectories in a warming world.

  2. Diets of differentially processed wheat alter ruminal fermentation parameters and microbial populations in beef cattle.

    Jiang, S Z; Yang, Z B; Yang, W R; Li, Z; Zhang, C Y; Liu, X M; Wan, F C

    2015-11-01

    The influences of differently processed wheat products on rumen fermentation, microbial populations, and serum biochemistry profiles in beef cattle were studied. Four ruminally cannulated Limousin × Luxi beef cattle (400 ± 10 kg) were used in the experiment with a 4 × 4 Latin square design. The experimental diets contained (on a DM basis) 60% corn silage as a forage source and 40% concentrate with 4 differently processed wheat products (extruded, pulverized, crushed, and rolled wheat). Concentrations of ruminal NH-N and microbial protein (MCP) in cattle fed crushed and rolled wheat were greater ( cattle fed pulverized and extruded wheat. Ruminal concentrations of total VFA and acetate and the ratio of acetate to propionate decreased ( cattle fed extruded wheat had the lowest concentrations of total VFA and acetate among all treatments. The relative abundance of , , ciliated protozoa, and was lower in cattle fed the pulverized wheat diet than in the other 3 diets ( cattle fed extruded wheat compared with cattle fed crushed and rolled wheat ( 0.05). Our findings suggest that the method of wheat processing could have a significant effect on ruminal fermentation parameters and microbial populations in beef cattle and that crushed and rolled processing is better in terms of ruminal NH-N and MCP content, acetate-to-propionate ratio, and relative abundance of rumen microorganisms.

  3. Functional single-cell analyses: flow cytometry and cell sorting of microbial populations and communities.

    Müller, Susann; Nebe-von-Caron, Gerhard

    2010-07-01

    The still poorly explored world of microbial functioning is about to be uncovered by a combined application of old and new technologies. Bacteria, especially, are still in the dark with respect to their phylogenetic affiliations as well as their metabolic capabilities and functions. However, with the advent of sophisticated flow cytometric and cell sorting technologies in microbiological labs, there is now the possibility to gain this knowledge at the single-cell level without cumbersome cultivation approaches. Cytometry also facilitates the understanding of physiological diversity in seemingly likewise acting populations. Both individuality and diversity lead to the complex and concerted actions of microbial consortia. This review provides an overview of the state of the art in the field. It deals with the handling of microorganisms from the very beginning (i.e. sampling, and detachment and fixation procedures) and goes on to discuss the pitfalls and problems in analysing cells without any further treatment. If information cannot be gained by specific staining procedures, phylogenetic technologies, transcriptomic and proteomic approaches may be options for achieving advanced insights. All in all, flow cytometry will be a mediator technology to gain a deeper insight into the heterogeneity of populations and the functioning of microbial communities.

  4. The active microbial diversity drives ecosystem multifunctionality and is physiologically related to carbon availability in Mediterranean semi-arid soils.

    Bastida, Felipe; Torres, Irene F; Moreno, José L; Baldrian, Petr; Ondoño, Sara; Ruiz-Navarro, Antonio; Hernández, Teresa; Richnow, Hans H; Starke, Robert; García, Carlos; Jehmlich, Nico

    2016-09-01

    Biogeochemical processes and ecosystemic functions are mostly driven by soil microbial communities. However, most methods focus on evaluating the total microbial community and fail to discriminate its active fraction which is linked to soil functionality. Precisely, the activity of the microbial community is strongly limited by the availability of organic carbon (C) in soils under arid and semi-arid climate. Here, we provide a complementary genomic and metaproteomic approach to investigate the relationships between the diversity of the total community, the active diversity and ecosystem functionality across a dissolved organic carbon (DOC) gradient in southeast Spain. DOC correlated with the ecosystem multifunctionality index composed by soil respiration, enzyme activities (urease, alkaline phosphatase and β-glucosidase) and microbial biomass (phospholipid fatty acids, PLFA). This study highlights that the active diversity (determined by metaprotoemics) but not the diversity of the whole microbial community (evaluated by amplicon gene sequencing) is related to the availability of organic C and it is also connected to the ecosystem multifunctionality index. We reveal that DOC shapes the activities of bacterial and fungal populations in Mediterranean semi-arid soils and determines the compartmentalization of functional niches. For instance, Rhizobales thrived at high-DOC sites probably fuelled by metabolism of one-C compounds. Moreover, the analysis of proteins involved in the transport and metabolism of carbohydrates revealed that Ascomycota and Basidiomycota occupied different nutritional niches. The functional mechanisms for niche specialization were not constant across the DOC gradient.

  5. Biofuel intercropping effects on soil carbon and microbial activity.

    Strickland, Michael S; Leggett, Zakiya H; Sucre, Eric B; Bradford, Mark A

    2015-01-01

    Biofuels will help meet rising demands for energy and, ideally, limit climate change associated with carbon losses from the biosphere to atmosphere. Biofuel management must therefore maximize energy production and maintain ecosystem carbon stocks. Increasingly, there is interest in intercropping biofuels with other crops, partly because biofuel production on arable land might reduce availability and increase the price of food. One intercropping approach involves growing biofuel grasses in forest plantations. Grasses differ from trees in both their organic inputs to soils and microbial associations. These differences are associated with losses of soil carbon when grasses become abundant in forests. We investigated how intercropping switchgrass (Panicum virgalum), a major candidate for cellulosic biomass production, in loblolly pine (Pinus taeda) plantations affects soil carbon, nitrogen, and microbial dynamics. Our design involved four treatments: two pine management regimes where harvest residues (i.e., biomass) were left in place or removed, and two switchgrass regimes where the grass was grown with pine under the same two biomass scenarios (left or removed). Soil variables were measured in four 1-ha replicate plots in the first and second year following switchgrass planting. Under switchgrass intercropping, pools of mineralizable and particulate organic matter carbon were 42% and 33% lower, respectively. These declines translated into a 21% decrease in total soil carbon in the upper 15 cm of the soil profile, during early stand development. The switchgrass effect, however, was isolated to the interbed region where switchgrass is planted. In these regions, switchgrass-induced reductions in soil carbon pools with 29%, 43%, and 24% declines in mineralizable, particulate, and total soil carbon, respectively. Our results support the idea that grass inputs to forests can prime the activity of soil organic carbon degrading microbes, leading to net reductions in stocks

  6. Heterotrophic and autotrophic microbial populations in cold perennial springs of the high arctic.

    Perreault, Nancy N; Greer, Charles W; Andersen, Dale T; Tille, Stefanie; Lacrampe-Couloume, Georges; Lollar, Barbara Sherwood; Whyte, Lyle G

    2008-11-01

    The saline springs of Gypsum Hill in the Canadian high Arctic are a rare example of cold springs originating from deep groundwater and rising to the surface through thick permafrost. The heterotrophic bacteria and autotrophic sulfur-oxidizing bacteria (up to 40% of the total microbial community) isolated from the spring waters and sediments were classified into four phyla (Actinobacteria, Bacteroidetes, Firmicutes, and Proteobacteria) based on 16S rRNA gene analysis; heterotrophic isolates were primarily psychrotolerant, salt-tolerant, facultative anaerobes. Some of the isolates contained genes for thiosulfate oxidation (soxB) and anoxygenic photosynthesis (pufM), possibly enabling the strains to better compete in these sulfur-rich environments subject to long periods of illumination in the Arctic summer. Although leucine uptake by the spring water microbial community was low, CO(2) uptake was relatively high under dark incubation, reinforcing the idea that primary production by chemoautotrophs is an important process in the springs. The small amounts of hydrocarbons in gases exsolving from the springs (0.38 to 0.51% CH(4)) were compositionally and isotopically consistent with microbial methanogenesis and possible methanotrophy. Anaerobic heterotrophic sulfur oxidation and aerobic autotrophic sulfur oxidation activities were demonstrated in sediment slurries. Overall, our results describe an active microbial community capable of sustainability in an extreme environment that experiences prolonged periods of continuous light or darkness, low temperatures, and moderate salinity, where life seems to rely on chemolithoautotrophy.

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

    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.

  8. Evaluation of Potential Impacts of Microbial Activity on Drift Chemistry

    Y. Wang

    2004-11-18

    ''Evaluation of Potential Impacts of Microbial Activity on Drift Chemistry'' focuses on the potential for microbial communities that could be active in repository emplacement drifts to influence the in-drift bulk chemical environment. This report feeds analyses to support the inclusion or exclusion of features, events, and processes (FEPs) in the total system performance assessment (TSPA) for the license application (LA), but this work is not expected to generate direct feeds to the TSPA-LA. The purpose was specified by, and the evaluation was performed and is documented in accordance with, ''Technical Work Plan For: Near-Field Environment and Transport In-Drift Geochemistry Analyses'' (BSC 2004 [DIRS 172402], Section 2.1). This report addresses all of the FEPs assigned by the technical work plan (TWP), including the development of exclusion arguments for FEPs that are not carried forward to the TSPA-LA. Except for an editorial correction noted in Section 6.2, there were no other deviations from the TWP. This report documents the completion of all assigned tasks, as follows (BSC 2004 DIRS 172402, Section 1.2.1): (1) Perform analyses to evaluate the potential for microbial activity in the waste emplacement drift under the constraints of anticipated physical and chemical conditions. (2) Evaluate uncertainties associated with these analyses. (3) Determine whether the potential for microbes warrants a feed to TSPA-LA to account for predicted effects on repository performance. (4) Provide information to address the ''Yucca Mountain Review Plan, Final Report'' (NUREG-1804) (NRC 2003 [DIRS 163274]) and Key Technical Issues and agreements, as appropriate. (5) Develop information for inclusion or exclusion of FEPs.

  9. Geobacter, Anaeromyxobacter and Anaerolineae populations are enriched on anodes of root exudate-driven microbial fuel cells in rice field soil.

    Cabezas, Angela; Pommerenke, Bianca; Boon, Nico; Friedrich, Michael W

    2015-06-01

    Plant-based sediment microbial fuel cells (PMFCs) couple the oxidation of root exudates in living rice plants to current production. We analysed the composition of the microbial community on anodes from PMFC with natural rice field soil as substratum for rice by analysing 16S rRNA as an indicator of microbial activity and diversity. Terminal restriction fragment length polymorphism (TRFLP) analysis indicated that the active bacterial community on anodes from PMFCs differed strongly compared with controls. Moreover, clones related to Deltaproteobacteria and Chloroflexi were highly abundant (49% and 21%, respectively) on PMFCs anodes. Geobacter (19%), Anaeromyxobacter (15%) and Anaerolineae (17%) populations were predominant on anodes with natural rice field soil and differed strongly from those previously detected with potting soil. In open circuit (OC) control PMFCs, not allowing electron transfer, Deltaproteobacteria (33%), Betaproteobacteria (20%), Chloroflexi (12%), Alphaproteobacteria (10%) and Firmicutes (10%) were detected. The presence of an electron accepting anode also had a strong influence on methanogenic archaea. Hydrogenotrophic methanogens were more active on PMFC (21%) than on OC controls (10%), whereas acetoclastic Methanosaetaceae were more active on OC controls (31%) compared with PMFCs (9%). In conclusion, electron accepting anodes and rice root exudates selected for distinct potential anode-reducing microbial populations in rice soil inoculated PMFC.

  10. Effects of corn silage and grass silage in ruminant rations on diurnal changes of microbial populations in the rumen of dairy cows.

    Lengowski, Melanie B; Witzig, Maren; Möhring, Jens; Seyfang, Gero M; Rodehutscord, Markus

    2016-12-01

    Here, we examined diurnal changes in the ruminal microbial community and fermentation characteristics of dairy cows fed total mixed rations containing either corn silage (CS) or grass silage (GS) as forage. The rations, which consisted of 52% concentrate and 48% GS or CS, were offered for ad libitum intake over 20 days to three ruminal-fistulated lactating Jersey cows during three consecutive feeding periods. Feed intake, ruminal pH, concentrations of short chain fatty acids and ammonia in rumen liquid, as well as abundance change in the microbial populations in liquid and solid fractions, were monitored in 4-h intervals on days 18 and 20. The abundance of total bacteria and Fibrobacter succinogenes increased in solids in cows fed CS instead of GS, and that of protozoa increased in both solid and liquid fractions. Feeding GS favored numbers of F. succinogenes and Selenomonas ruminantium in the liquid fraction as well as the numbers of Ruminobacter amylophilus, Prevotella bryantii and ruminococci in both fractions. Minor effects of silage were detected on populations of methanogens. Despite quantitative changes in the composition of the microbial community, fermentation characteristics were less affected by forage source. These results suggest a functional adaptability of the ruminal microbiota to total mixed rations containing either GS or CS as the source of forage. Diurnal changes in microbial populations were primarily affected by feed intake and differed between species and fractions, with fewer temporal fluctuations evident in the solid than in the liquid fraction. Interactions between forage source and sampling time were of minor importance to most of the microbial species examined. Thus, diurnal changes of microbial populations and fermentative activity were less affected by the two silages.

  11. Quantitative Modeling of Microbial Population Responses to Chronic Irradiation Combined with Other Stressors.

    Igor Shuryak

    Full Text Available Microbial population responses to combined effects of chronic irradiation and other stressors (chemical contaminants, other sub-optimal conditions are important for ecosystem functioning and bioremediation in radionuclide-contaminated areas. Quantitative mathematical modeling can improve our understanding of these phenomena. To identify general patterns of microbial responses to multiple stressors in radioactive environments, we analyzed three data sets on: (1 bacteria isolated from soil contaminated by nuclear waste at the Hanford site (USA; (2 fungi isolated from the Chernobyl nuclear-power plant (Ukraine buildings after the accident; (3 yeast subjected to continuous γ-irradiation in the laboratory, where radiation dose rate and cell removal rate were independently varied. We applied generalized linear mixed-effects models to describe the first two data sets, whereas the third data set was amenable to mechanistic modeling using differential equations. Machine learning and information-theoretic approaches were used to select the best-supported formalism(s among biologically-plausible alternatives. Our analysis suggests the following: (1 Both radionuclides and co-occurring chemical contaminants (e.g. NO2 are important for explaining microbial responses to radioactive contamination. (2 Radionuclides may produce non-monotonic dose responses: stimulation of microbial growth at low concentrations vs. inhibition at higher ones. (3 The extinction-defining critical radiation dose rate is dramatically lowered by additional stressors. (4 Reproduction suppression by radiation can be more important for determining the critical dose rate, than radiation-induced cell mortality. In conclusion, the modeling approaches used here on three diverse data sets provide insight into explaining and predicting multi-stressor effects on microbial communities: (1 the most severe effects (e.g. extinction on microbial populations may occur when unfavorable environmental

  12. Chromium Isotope Behaviour During Aerobic Microbial Reduction Activities

    Zhang, Q.; Amor, K.; Porcelli, D.; Thompson, I.

    2014-12-01

    Microbial activity is a very important, and possibly even the dominant, reduction mechanism for many metals in natural water systems. Isotope fractionations during microbial metal reduction can reflect one major mechanism in metal cycling in the environment, and isotopic signatures can be used to identify and quantify reduction processes during biogeochemical cycling in the present environment as well as in the past. There are many Cr (VI)-reducing bacteria that have been discovered and isolated from the environment, and Cr isotopes were found to be fractionated during microbial reduction processes. In this study, Cr reduction experiments have been undertaken to determine the conditions under which Cr is reduced and the corresponding isotope signals that are generated. The experiments have been done with a facultative bacteria Pseudomonas fluorescens LB 300, and several parameters that have potential impact on reduction mechanisms have been investigated. Electron donors are important for bacteria growth and metabolism. One factor that can control the rate of Cr reduction is the nature of the electron donor. The results show that using citrate as an electron donor can stimulate bacteria reduction activity to a large extent; the reduction rate is much higher (15.10 mgˑL-1hour-1) compared with experiments using glucose (6.65 mgˑL-1ˑhour-1), acetate (4.88 mgˑL-1hour-1) or propionate (4.85 mgˑL-1hour-1) as electron donors. Groups with higher electron donor concentrations have higher reduction rates. Chromium is toxic, and when increasing Cr concentrations in the medium, the bacteria reduction rate is also higher, which reflects bacteria adapting to the toxic environment. In the natural environment, under different pH conditions, bacteria may metabolise in different ways. In our experiments with pH, bacteria performed better in reducing Cr (VI) when pH = 8, and there are no significant differences between groups with pH = 4 or pH = 6. To investigate this further, Cr

  13. Microbial solar cells: applying photosynthetic and electrochemically active organisms.

    Strik, David P B T B; Timmers, Ruud A; Helder, Marjolein; Steinbusch, Kirsten J J; Hamelers, Hubertus V M; Buisman, Cees J N

    2011-01-01

    Microbial solar cells (MSCs) are recently developed technologies that utilize solar energy to produce electricity or chemicals. MSCs use photoautotrophic microorganisms or higher plants to harvest solar energy, and use electrochemically active microorganisms in the bioelectrochemical system to generate electrical current. Here, we review the principles and performance of various MSCs in an effort to identify the most promising systems, as well as the bottlenecks and potential solutions, for "real-life" MSC applications. We present an outlook on future applications based on the intrinsic advantages of MSCs, specifically highlighting how these living energy systems can facilitate the development of an electricity-producing green roof.

  14. Changes in the Size of the Active Microbial Pool Explain Short-Term Soil Respiratory Responses to Temperature and Moisture.

    Salazar-Villegas, Alejandro; Blagodatskaya, Evgenia; Dukes, Jeffrey S

    2016-01-01

    Heterotrophic respiration contributes a substantial fraction of the carbon flux from soil to atmosphere, and responds strongly to environmental conditions. However, the mechanisms through which short-term changes in environmental conditions affect microbial respiration still remain unclear. Microorganisms cope with adverse environmental conditions by transitioning into and out of dormancy, a state in which they minimize rates of metabolism and respiration. These transitions are poorly characterized in soil and are generally omitted from decomposition models. Most current approaches to model microbial control over soil CO2 production relate responses to total microbial biomass (TMB) and do not differentiate between microorganisms in active and dormant physiological states. Indeed, few data for active microbial biomass (AMB) exist with which to compare model output. Here, we tested the hypothesis that differences in soil microbial respiration rates across various environmental conditions are more closely related to differences in AMB (e.g., due to activation of dormant microorganisms) than in TMB. We measured basal respiration (SBR) of soil incubated for a week at two temperatures (24 and 33°C) and two moisture levels (10 and 20% soil dry weight [SDW]), and then determined TMB, AMB, microbial specific growth rate, and the lag time before microbial growth (t lag ) using the Substrate-Induced Growth Response (SIGR) method. As expected, SBR was more strongly correlated with AMB than with TMB. This relationship indicated that each g active biomass C contributed ~0.04 g CO2-C h(-1) of SBR. TMB responded very little to short-term changes in temperature and soil moisture and did not explain differences in SBR among the treatments. Maximum specific growth rate did not respond to environmental conditions, suggesting that the dominant microbial populations remained similar. However, warmer temperatures and increased soil moisture both reduced t lag , indicating that favorable

  15. Uranium Biomineralization by Natural Microbial Phosphatase Activities in the Subsurface

    Sobecky, Patricia A. [Univ. of Alabama, Tuscaloosa, AL (United States)

    2015-04-06

    In this project, inter-disciplinary research activities were conducted in collaboration among investigators at The University of Alabama (UA), Georgia Institute of Technology (GT), Lawrence Berkeley National Laboratory (LBNL), Brookhaven National Laboratory (BNL), the DOE Joint Genome Institute (JGI), and the Stanford Synchrotron Radiation Light source (SSRL) to: (i) confirm that phosphatase activities of subsurface bacteria in Area 2 and 3 from the Oak Ridge Field Research Center result in solid U-phosphate precipitation in aerobic and anaerobic conditions; (ii) investigate the eventual competition between uranium biomineralization via U-phosphate precipitation and uranium bioreduction; (iii) determine subsurface microbial community structure changes of Area 2 soils following organophosphate amendments; (iv) obtain the complete genome sequences of the Rahnella sp. Y9-602 and the type-strain Rahnella aquatilis ATCC 33071 isolated from these soils; (v) determine if polyphosphate accumulation and phytate hydrolysis can be used to promote U(VI) biomineralization in subsurface sediments; (vi) characterize the effect of uranium on phytate hydrolysis by a new microorganism isolated from uranium-contaminated sediments; (vii) utilize positron-emission tomography to label and track metabolically-active bacteria in soil columns, and (viii) study the stability of the uranium phosphate mineral product. Microarray analyses and mineral precipitation characterizations were conducted in collaboration with DOE SBR-funded investigators at LBNL. Thus, microbial phosphorus metabolism has been shown to have a contributing role to uranium immobilization in the subsurface.

  16. Microfabricated microbial fuel cell arrays reveal electrochemically active microbes.

    Huijie Hou

    Full Text Available Microbial fuel cells (MFCs are remarkable "green energy" devices that exploit microbes to generate electricity from organic compounds. MFC devices currently being used and studied do not generate sufficient power to support widespread and cost-effective applications. Hence, research has focused on strategies to enhance the power output of the MFC devices, including exploring more electrochemically active microbes to expand the few already known electricigen families. However, most of the MFC devices are not compatible with high throughput screening for finding microbes with higher electricity generation capabilities. Here, we describe the development of a microfabricated MFC array, a compact and user-friendly platform for the identification and characterization of electrochemically active microbes. The MFC array consists of 24 integrated anode and cathode chambers, which function as 24 independent miniature MFCs and support direct and parallel comparisons of microbial electrochemical activities. The electricity generation profiles of spatially distinct MFC chambers on the array loaded with Shewanella oneidensis MR-1 differed by less than 8%. A screen of environmental microbes using the array identified an isolate that was related to Shewanella putrefaciens IR-1 and Shewanella sp. MR-7, and displayed 2.3-fold higher power output than the S. oneidensis MR-1 reference strain. Therefore, the utility of the MFC array was demonstrated.

  17. Metaproteomic analysis reveals microbial metabolic activities in the deep ocean

    Wang, Da-Zhi; Xie, Zhang-Xian; Zhang, Shu-Feng; Wang, Ming-Hua; Zhang, Hao; Kong, Ling-Fen; Lin, Lin

    2016-04-01

    The deep sea is the largest habitat on earth and holds many and varied microbial life forms. However, little is known about their metabolic activities in the deep ocean. Here, we characterized protein profiles of particulate (>0.22 μm) and dissolved (between 10 kDa and 0.22 μm) fractions collected from the deep South China Sea using a shotgun proteomic approach. SAR324, Alteromonadales and SAR11 were the most abundant groups, while Prasinophyte contributed most to eukaryotes and cyanophage to viruses. The dominant heterotrophic activity was evidenced by the abundant transporters (33%). Proteins participating in nitrification, methanogenesis, methyltrophy and CO2 fixation were detected. Notably, the predominance of unique cellular proteins in dissolved fraction suggested the presence of membrane structures. Moreover, the detection of translation proteins related to phytoplankton indicated that other process rather than sinking particles might be the downward export of living cells. Our study implied that novel extracellular activities and the interaction of deep water with its overlying water could be crucial to the microbial world of deep sea.

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

    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.

  19. Effects of butachlor on microbial enzyme activities in paddy soil.

    Min, Hang; Ye, Yang-Fang; Chen, Zhong-Yun; Wu, Wei-Xiang; Du, Yu-Feng

    2002-07-01

    This paper reports the influences of the herbicide butachlor (n-butoxymethl-chloro-2', 6'-diethylacetnilide) on microbial respiration, nitrogen fixation and nitrification, and on the activities of dehydrogenase and hydrogen peroxidase in paddy soil. The results showed that after application of butachlor with concentrations of 5.5 micrograms/g dried soil, 11.0 micrograms/g dried soil and 22.0 micrograms/g dried soil, the application of butachlor enhanced the activity of dehydrogenase at increasing concentrations. The soil dehydrogenase showed the highest activity on the 16th day after application of 22.0 micrograms/g dried soil of butachlor. The hydrogen peroxidase could be stimulated by butachlor. The soil respiration was depressed within a period from several days to more than 20 days, depending on concentrations of butachlor applied. Both the nitrogen fixation and nitrification were stimulated in the beginning but reduced greatly afterwards in paddy soil.

  20. Beneficiary Activation in the Medicare Population

    U.S. Department of Health & Human Services — According to findings reported in Beneficiary Activation in the Medicare Population, published in Volume 4, Issue 4 of the Medicare and Medicaid Research Review,...

  1. Molecular Analysis of Dominant Microbial Populations in Heavily and Slightly Polluted Aquifers by a Seaside Landfill

    TIAN Yangjie; YANG Hong; LI Daotang; WU Xiujuan

    2005-01-01

    The microbial populations were investigated in two groundwater samples, GW-H and GW-S, which represented heavily and slightly polluted aquifers by a seaside landfill. The concentrations of dissolved redox-relevant species suggested that iron-reduction/sulfate-reduction and denitrification were major redox processes for GW-H and GW-S. The dominant microbial populations were determined using restriction fragment length polymorphism analyses of 16S rRNA gene clone libraries. These microbes were then further studied by sequencing and phylogenetic analyses. The results indicate an obvious variation of the dominant populations between the two samples. The coexistence of sequences related to denitrifiers, sulfur-reducers, and methanotrophic bacteria was found in the GW-S sample, and a sequence associated with a sulfate-reducer was also found in the GW-H sample using molecular analyses. These results suggest that the molecular approach may be an important supplement to other approaches in characterizing the redox processes in polluted aquifers.

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

    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.

  3. Uncharted Microbial World: Microbes and Their Activities in the Environment

    Harwood, Caroline; Buckley, Merry

    2007-12-31

    Microbes are the foundation for all of life. From the air we breathe to the soil we rely on for farming to the water we drink, everything humans need to survive is intimately coupled with the activities of microbes. Major advances have been made in the understanding of disease and the use of microorganisms in the industrial production of drugs, food products and wastewater treatment. However, our understanding of many complicated microbial environments (the gut and teeth), soil fertility, and biogeochemical cycles of the elements is lagging behind due to their enormous complexity. Inadequate technology and limited resources have stymied many lines of investigation. Today, most environmental microorganisms have yet to be isolated and identified, let alone rigorously studied. The American Academy of Microbiology convened a colloquium in Seattle, Washington, in February 2007, to deliberate the way forward in the study of microorganisms and microbial activities in the environment. Researchers in microbiology, marine science, pathobiology, evolutionary biology, medicine, engineering, and other fields discussed ways to build on and extend recent successes in microbiology. The participants made specific recommendations for targeting future research, improving methodologies and techniques, and enhancing training and collaboration in the field. Microbiology has made a great deal of progress in the past 100 years, and the useful applications for these new discoveries are numerous. Microorganisms and microbial products are now used in industrial capacities ranging from bioremediation of toxic chemicals to probiotic therapies for humans and livestock. On the medical front, studies of microbial communities have revealed, among other things, new ways for controlling human pathogens. The immediate future for research in this field is extremely promising. In order to optimize the effectiveness of community research efforts in the future, scientists should include manageable

  4. [The influence of Acinetobacter calcoaceticus K-4 surface-active substances on the efficiency of microbial destruction of oil pollutants].

    Pyroh, T P; Antoniuk, S I; Sorokina, A I

    2009-01-01

    The possibility of the use of Acinetobacter calcoaceticus K-4 surface-active substances (SAS) for water purification from oil was shown. The efficiency of oil degradation (2.6 g/l) in the presence of SAS preparations (5-15 %) in the form of postfermentation of cultural liquid or its supernatant was established to be 81-95 %. Intensification of oil destruction was determined by SAS affecting the activity of oil-oxidizing microbial population.

  5. Assessment of microbial populations in methyl ethyl ketone degrading biofilters by denaturing gradient gel electrophoresis.

    Li, C; Moe, W M

    2004-05-01

    Denaturing gradient gel electrophoresis (DGGE) analysis of polymerase chain reaction-amplified genes coding for 16S rRNA was used to assess differences in bacterial community structure as a function of spatial location along the height of two biofilters used to treat a model waste gas stream containing methyl ethyl ketone (MEK). One of the laboratory-scale biofilters was operated as a conventional continuous-flow biofilter (CFB) and the other was operated as a sequencing batch biofilter (SBB). Both biofilters, inoculated with an identical starting culture and operated over a period lasting more than 300 days, received the same influent MEK concentration and same mass of MEK on a daily basis. The systems differed, however, in terms of the fraction of time during which contaminated air was supplied and the overall operating strategy employed. DGGE analysis indicated that microbial community structures differed as a function of height in each of the biofilters. The DGGE banding patterns also differed between the two biofilters, suggesting that operating strategies imposed on the biofilters imparted a sufficiently large selective pressure to influence microbial community structures. This may explain, in part, the superior performance of the SBB over the CFB during model transient loading conditions, and it may open new possibilities for purposely manipulating the microbial populations in biofilters treating gas-phase contaminants in a manner that leads to more favorable treatment performance.

  6. Effect of Pesticides on soil microbial and enzyme activity

    WANG Lan; LI Xiao-hui

    2008-01-01

    Objective Pesticides has gain an increasing awareness because of it is becoming a serious environmental problem and come to threaten the health of humanbeing. The effect of five pesticides (zineb, copforce, the mixture of earbendazim and mancozeb, hymexazol) on soil bacteria, fungi, actinomyces, and Five specific enzymes were chosen for investigation (urease, dehydrogenase, invertase, acid phosphates and protease). Methods The enumeration of the soil micro flora was done by the dilution plate method; The enzyme activity was determined by traditional methods. Shannon-Wiener index as well as 16S rRNA-PCR amplification and DGGE fingerprinting was used for detection of shift in microbial community diversity in pesticides contaminated agricultural soil. Results The outcome showed that the microbial diversity was significantly changed after the application of pesticides, the effect of pesticides on microbe had a order from top to bottom:bacteria-actinomyces-fungi. Conclusions Our results indicate that the use of the pesticides hymexazol resulted in an altered soil community structure, in particular for the actinomyces. Invertase was markedly inhibited by hymexazol, zineb, carbendazim and mancozeb and the inhibiting rates were varied between 30.30 % and 21.21%;Urease activity was also inhibited significantly by hymexazol, the inhibiting rate was 37.67%;Protease activity was markedly inhibited by zineb and hymexazol, the inhibiting rates were 27.27 % and 18.18 % respectively; Phosphates activity was inhibited significantly by hymexazol, zineb, earbendazim and mancozeb, the inhibiting rates were range from 22.12 %-3.54 %; Dehydrogenase activity was not significantly affected by pesticides. Meanwhile, the correlation of all indexes were analyzed, the data suggested that all indexes existed certain correlation.

  7. Microbial population dynamics in an anaerobic CSTR treating a chemical synthesis-based pharmaceutical wastewater.

    Oz, Nilgun Ayman; Ince, Orhan; Ince, Bahar Kasapgil; Akarsubasi, Alper Tunga; Eyice, Ozge

    2003-01-01

    Effects of a chemical synthesis based pharmaceutical wastewater on performance of an anaerobic completely stirred tank reactor (CSTR), activity of acetoclastic methanogens and microbial composition were evaluated under various influent compositions. Initially, the CSTR was fed with glucose up to an organic loading rate (OLR) of 6 kg COD/m3 x d corresponding to an F/M ratio of 0.43 with a hydraulic retention time (HRT) of 2.5 days. A COD removal efficiency of 92% and a methane yield of 0.32 m3 CH4/kg COD(removed) were achieved whilst specific methanogenic activity (SMA) was found to be 336mL CH4/gTVS x d. After the CSTR was fed with pre-aerated wastewater diluted by glucose in different dilution ratios of 10% (w/v), 30% (w/v), 70% (w/v), and 100% (w/v) pre-aerated wastewater, gradual decreases in COD removal efficiency to 71%, methane yield to 0.28 m3CH4/kg COD(removed) and SMA to 166 mL CH4/gTVS d occurred whilst volatile fatty acid concentration reached to 1474 mg/L. After the raw wastewater diluted with the pre-aerated wastewater was fed into the CSTR in increasing ratios of 10% (w/v), 30% (w/v), and 60% (w/v), there was a proportional deterioration in performance in terms of COD removal efficiency, methane yield and acetoclastic methanogenic activity. Epifluorescence microscopy of the seed sludge revealed that Methanococcus-like species, short, and medium rods were found to be equally dominant. The short and medium rod species remained equally dominant groups in the CSTR throughout the feeding regime whilst Methanococcus-like species and long rods were found to be in insignificant numbers at the end of the study. Changes in archael diversity were determined using molecular analyses such as polymerase chain reaction (PCR), and denaturent gradient gel electrophoresis (DGGE). Results showed that overall archeal diversity did not change much whereas changes in composition of eubacterial population occurred.

  8. [Effects of different straw recycling and tillage methods on soil respiration and microbial activity].

    Li, Xiao-sha; Wu, Ning; Liu, Ling; Feng, Yu-peng; Xu, Xu; Han, Hui-fang; Ning, Tang-yuan; Li, Zeng-jia

    2015-06-01

    To explore the effects of different tillage methods and straw recycling on soil respiration and microbial activity in summer maize field during the winter wheat and summer maize double cropping system, substrate induced respiration method and CO2 release method were used to determine soil microbial biomass carbon, microbial activity, soil respiration, and microbial respiratory quotient. The experiment included 3 tillage methods during the winter wheat growing season, i.e., no-tillage, subsoiling and conventional tillage. Each tillage method was companied with 2 straw management patterns, i.e., straw recycling and no straw. The results indicated that the conservation tillage methods and straw recycling mainly affected 0-10 cm soil layer. Straw recycling could significantly improve the microbial biomass carbon and microbial activity, while decrease microbial respiratory quotient. Straw recycling could improve the soil respiration at both seedling stage and anthesis, however, it could reduce the soil respiration at filling stage, wax ripeness, and harvest stage. Under the same straw application, compared with conventional tillage, the soil respiration and microbial respiratory quotient in both subsoiling and no-tillage were reduced, while the microbial biomass carbon and microbial activity were increased. During the summer maize growing season, soil microbial biomass carbon and microbial activity were increased in straw returning with conservation tillage, while the respiratory quotient was reduced. In 0-10 cm soil layer, compared with conventional tillage, straw recycling with subsoiling and no-tillage significantly increased soil microbial biomass carbon by 95.8% and 74.3%, and increased soil microbial activity by 97.1% and 74.2%, respectively.

  9. Geophysical Monitoring of Microbial Activity within a Wetland Soil

    O'Brien, M.; Zhang, C.; Ntarlagiannis, D.; Slater, L.; Yee, N.

    2007-05-01

    We performed Induced Polarization (IP) and Self Potential (SP) measurements to record the geoelectrical signatures of microbial activity within a wetland soil. The experiment was conducted in laboratory, utilizing an open flow column set up. Soil samples from Kearny Marsh (KM), a shallow water wetland, were collected and stored at 4o Celsius prior to the start of the experiment. Two columns were dry packed with a mix of KM soil and sterile Ottawa sand (50% by weight). One column was sterilized and used as a control while the other column retained the biologically active soil sample. Both columns were saturated with a minimal salts medium capable of supporting microbial life; after saturation, a steady flow rate of one pore volume per day was maintained throughout the experiment. Ambient temperature and pressure changes (at the inflow and outflow of each column) were continuously monitored throughout the experiment. Common geochemical parameters, such as Eh, pH, and fluid conductivity were measured at the inflow and outflow of each column at regular intervals. IP and SP responses were continuously recorded on both columns utilizing a series of electrodes along the column length; additionally for the SP measurements we used a reference electrode at the inflow tube. Strong SP anomalies were observed for all the locations along the active column. Black visible mineral precipitant also formed in the active column. The observed precipitation coincided with the times that SP anomalies developed at each electrode position. These responses are associated with microbial induced sulfide mineralization. We interpret the SP signal as the result of redox processes associated with this mineralization driven by gradients in ionic concentration and mobility within the column, similar to a galvanic cell mechanism. IP measurements show no correlation with these visual and SP responses. Destructive analysis of the samples followed the termination of the experiment. Scanning electron

  10. Mapping the Centimeter-Scale Spatial Variability of PAHs and Microbial Populations in the Rhizosphere of Two Plants.

    Amélia Bourceret

    Full Text Available Rhizoremediation uses root development and exudation to favor microbial activity. Thus it can enhance polycyclic aromatic hydrocarbon (PAH biodegradation in contaminated soils. Spatial heterogeneity of rhizosphere processes, mainly linked to the root development stage and to the plant species, could explain the contrasted rhizoremediation efficiency levels reported in the literature. Aim of the present study was to test if spatial variability in the whole plant rhizosphere, explored at the centimetre-scale, would influence the abundance of microorganisms (bacteria and fungi, and the abundance and activity of PAH-degrading bacteria, leading to spatial variability in PAH concentrations. Two contrasted rhizospheres were compared after 37 days of alfalfa or ryegrass growth in independent rhizotron devices. Almost all spiked PAHs were degraded, and the density of the PAH-degrading bacterial populations increased in both rhizospheres during the incubation period. Mapping of multiparametric data through geostatistical estimation (kriging revealed that although root biomass was spatially structured, PAH distribution was not. However a greater variability of the PAH content was observed in the rhizosphere of alfalfa. Yet, in the ryegrass-planted rhizotron, the Gram-positive PAH-degraders followed a reverse depth gradient to root biomass, but were positively correlated to the soil pH and carbohydrate concentrations. The two rhizospheres structured the microbial community differently: a fungus-to-bacterium depth gradient similar to the root biomass gradient only formed in the alfalfa rhizotron.

  11. Extracellular enzyme activity assay as indicator of soil microbial functional diversity and activity

    Hendriksen, Niels Bohse; Winding, Anne

    2012-01-01

    Extracellular enzyme activity assay as indicator of soil microbial functional diversity and activity Niels Bohse Hendriksen, Anne Winding. Department of Environmental Science, Aarhus University, 4000 Roskilde, Denmark Soils provide numerous essential ecosystem services such as carbon cycling...... the functional diversity and activity of the microorganisms involved in decomposition processes. Their activity has been measured by the use of fluorogenic model substrates e.g. methylumbelliferyl (MUF) substrates for a number of enzymes involved in the degradation of polysacharides as cellulose, hemicellulose...

  12. Archaeal populations in hypersaline sediments underlying orange microbial mats in the Napoli mud volcano.

    Lazar, Cassandre Sara; L'haridon, Stéphane; Pignet, Patricia; Toffin, Laurent

    2011-05-01

    Microbial mats in marine cold seeps are known to be associated with ascending sulfide- and methane-rich fluids. Hence, they could be visible indicators of anaerobic oxidation of methane (AOM) and methane cycling processes in underlying sediments. The Napoli mud volcano is situated in the Olimpi Area that lies on saline deposits; from there, brine fluids migrate upward to the seafloor. Sediments associated with a brine pool and microbial orange mats of the Napoli mud volcano were recovered during the Medeco cruise. Based on analysis of RNA-derived sequences, the "active" archaeal community was composed of many uncultured lineages, such as rice cluster V or marine benthic group D. Function methyl coenzyme M reductase (mcrA) genes were affiliated with the anaerobic methanotrophic Archaea (ANME) of the ANME-1, ANME-2a, and ANME-2c groups, suggesting that AOM occurred in these sediment layers. Enrichment cultures showed the presence of viable marine methylotrophic Methanococcoides in shallow sediment layers. Thus, the archaeal community diversity seems to show that active methane cycling took place in the hypersaline microbial mat-associated sediments of the Napoli mud volcano.

  13. Promoting Uranium Immobilization by the Activities of Microbial Phosphatases

    Martinez, Robert J.; Beazley, Melanie J.; Wilson, Jarad J.; Taillefert, Martial; Sobecky, Patricia A.

    2005-04-05

    amplified phosphatases are being analyzed to determine whether or not there is evidence for the horizontal transfer of such genes amongst subsurface microbial populations. Microbially precipitated U(VI) phosphate minerals will be further analyzed via capillary electrophoresis and extended x-ray absorption fine structure spectroscopy to determine uranium speciation.

  14. Investigating microbial activities of electrode-associated microorganisms in real-time

    Sanja eAracic

    2014-11-01

    Full Text Available Electrode-associated microbial biofilms are essential to the function of bioelectrochemical systems. These systems exist in a number of different configurations but all rely on electroactive microorganisms utilizing an electrode as either an electron acceptor or an electron donor to catalyze biological processes. Investigations of the structure and function of electrode-associated biofilms are critical to further the understanding of how microbial communities are able to reduce and oxidize electrodes. The community structure of electrode-reducing biofilms is diverse and often dominated by Geobacter spp. whereas electrode-oxidizing biofilms are often dominated by other microorganisms. The application of a wide range of tools, such as high-throughput sequencing and metagenomic data analyses, provide insight into the structure and possible function of microbial communities on electrode surfaces. However, the development and application of techniques that monitor gene expression profiles in real-time are required for a more definite spatial and temporal understanding of the diversity and biological activities of these dynamic communities. This mini-review summarizes the key gene expression techniques used in bioelectrochemical systems research, which have led to a better understanding of population dynamics, cell-cell communication and molecule-surface interactions in mixed and pure BES communities

  15. Methane production and microbial community structure for alkaline pretreated waste activated sludge.

    Sun, Rui; Xing, Defeng; Jia, Jianna; Zhou, Aijuan; Zhang, Lu; Ren, Nanqi

    2014-10-01

    Alkaline pretreatment was studied to analyze the influence on waste activated sludge (WAS) reduction, methane production and microbial community structure during anaerobic digestion. Methane production from alkaline pretreated sludge (A-WAS) (pH = 12) increased from 251.2 mL/Ld to 362.2 mL/Ld with the methane content of 68.7% compared to raw sludge (R-WAS). Sludge reduction had been improved, and volatile suspended solids (VSS) removal rate and protein reduction had increased by ∼ 10% and ∼ 35%, respectively. The bacterial and methanogenic communities were analyzed using 454 pyrosequencing and clone libraries of 16S rRNA gene. Remarkable shifts were observed in microbial community structures after alkaline pretreatment, especially for Archaea. The dominant methanogenic population changed from Methanosaeta for R-WAS to Methanosarcina for A-WAS. In addition to the enhancement of solubilization and hydrolysis of anaerobic digestion of WAS, alkaline pretreatment showed significant impacts on the enrichment and syntrophic interactions between microbial communities.

  16. Effects of methane on the microbial populations and oxidation rates in different landfill cover soil columns.

    He, Ruo; Ruan, Aidong; Shen, Dong-Sheng

    2007-05-01

    A considerable fraction of methane produced in landfills is oxidized by landfill cover soils. In this work, microbial populations and oxidation rates developed in response to the presence of methane were studied in three soil columns simulated landfill cover soil environments. The population of aerobic heterotrophic bacteria was highest in the waste soil, middle in the clay soil, and lowest in the red soil. After exposure to methane-rich environments, the populations of methanotrophic bacteria showed increases in the waste and clay soils. The population of methanotrophic bacteria increased from 30.77x10(4) to 141.77x10(4) cfu g d.w.-1 in the middle layer of the waste soil column as a function of exposure to methane for 120 days. The populations of methanotrophic bacteria were correlated with the potential methane oxidation rates in the waste and clay soils, respectively. The topsoil was observed to be dried in the three soil columns. Most of methane oxidation occurred at the depth of between 10 and 20 cm in the waste soil column, while it took place mainly at the depth of between 20 and 30 cm in the clay soil column.

  17. Microbial Population Differentials between Mucosal and Submucosal Intestinal Tissues in Advanced Crohn's Disease of the Ileum.

    Rodrick J Chiodini

    Full Text Available Since Crohn's disease is a transmural disease, we hypothesized that examination of deep submucosal tissues directly involved in the inflammatory disease process may provide unique insights into bacterial populations transgressing intestinal barriers and bacterial populations more representative of the causes and agents of the disease. We performed deep 16s microbiota sequencing on isolated ilea mucosal and submucosal tissues on 20 patients with Crohn's disease and 15 non-inflammatory bowel disease controls with a depth of coverage averaging 81,500 sequences in each of the 70 DNA samples yielding an overall resolution down to 0.0001% of the bacterial population. Of the 4,802,328 total sequences generated, 98.9% or 4,749,183 sequences aligned with the Kingdom Bacteria that clustered into 8545 unique sequences with <3% divergence or operational taxonomic units enabling the identification of 401 genera and 698 tentative bacterial species. There were significant differences in all taxonomic levels between the submucosal microbiota in Crohn's disease compared to controls, including organisms of the Order Desulfovibrionales that were present within the submucosal tissues of most Crohn's disease patients but absent in the control group. A variety of organisms of the Phylum Firmicutes were increased in the subjacent submucosa as compared to the parallel mucosal tissue including Ruminococcus spp., Oscillospira spp., Pseudobutyrivibrio spp., and Tumebacillus spp. In addition, Propionibacterium spp. and Cloacibacterium spp. were increased as well as large increases in Proteobacteria including Parasutterella spp. and Methylobacterium spp. This is the first study to examine the microbial populations within submucosal tissues of patients with Crohn's disease and to compare microbial communities found deep within the submucosal tissues with those present on mucosal surfaces. Our data demonstrate the existence of a distinct submucosal microbiome and ecosystem

  18. Citrate and malonate increase microbial activity and alter microbial community composition in uncontaminated and diesel-contaminated soil microcosms

    Martin, Belinda C.; George, Suman J.; Price, Charles A.; Shahsavari, Esmaeil; Ball, Andrew S.; Tibbett, Mark; Ryan, Megan H.

    2016-09-01

    Petroleum hydrocarbons (PHCs) are among the most prevalent sources of environmental contamination. It has been hypothesized that plant root exudation of low molecular weight organic acid anions (carboxylates) may aid degradation of PHCs by stimulating heterotrophic microbial activity. To test their potential implication for bioremediation, we applied two commonly exuded carboxylates (citrate and malonate) to uncontaminated and diesel-contaminated microcosms (10 000 mg kg-1; aged 40 days) and determined their impact on the microbial community and PHC degradation. Every 48 h for 18 days, soil received 5 µmol g-1 of (i) citrate, (ii) malonate, (iii) citrate + malonate or (iv) water. Microbial activity was measured daily as the flux of CO2. After 18 days, changes in the microbial community were assessed by a community-level physiological profile (CLPP) and 16S rRNA bacterial community profiles determined by denaturing gradient gel electrophoresis (DGGE). Saturated PHCs remaining in the soil were assessed by gas chromatography-mass spectrometry (GC-MS). Cumulative soil respiration increased 4- to 6-fold with the addition of carboxylates, while diesel contamination resulted in a small, but similar, increase across all carboxylate treatments. The addition of carboxylates resulted in distinct changes to the microbial community in both contaminated and uncontaminated soils but only a small increase in the biodegradation of saturated PHCs as measured by the n-C17 : pristane biomarker. We conclude that while the addition of citrate and malonate had little direct effect on the biodegradation of saturated hydrocarbons present in diesel, their effect on the microbial community leads us to suggest further studies using a variety of soils and organic acids, and linked to in situ studies of plants, to investigate the role of carboxylates in microbial community dynamics.

  19. Promoting uranium immobilization by the activities of microbial phophatases

    Sobecky, Patricia A.

    2005-06-01

    The first objective of this project is to determine the relationship of phosphatase activity to metal resistance in subsurface strains and the role of lateral gene transfer (LGT) in dissemination of nonspecific acid phosphatase genes. Nonspecific acid phosphohydrolases are a broad group of secreted microbial phosphatases that function in acidic-to-neutral pH ranges and utilize a wide range of organophosphate substrates. We have previously shown that PO43- accumulation during growth on a model organophosphorus compound was attributable to the overproduction of alkaline phosphatase by genetically modified subsurface pseudomonads [Powers et al. (2002) FEMS Microbiol. Ecol. 41:115-123]. During this report period, we have extended these results to include indigenous metal resistant subsurface microorganisms cultivated from the Field Research Center (FRC), in Oak Ridge Tennessee.

  20. Influence of pulsed magnetic field on soybean (Glycine max L.) seed germination, seedling growth and soil microbial population.

    Radhakrishnan, Ramalingam; Kumari, Bollipo Dyana Ranjitha

    2013-08-01

    The effects of pulsed magnetic field (PMF) treatment of soybean (Glycine max L. cv CO3) seeds were investigated on rate of seed germination, seedling growth, physico-chemical properties of seed leachates and soil microbial population under laboratory conditions. Seeds were exposed to PMF of 1500 nT at 0.1, 1.0 10.0 and 100.0 Hz for 5 h per day for 20 days, induced by enclosure coil systems. Non-treated seeds were considered as controls. All PMF treatments significantly increased the rate of seed germination, while 10 and 100 Hz PMFs showed the most effective response. The 1.0 and 10 Hz PMFs remarkably improved the fresh weight of shoots and roots, leaf area and plant height from seedlings from magnetically-exposed seeds compared to the control, while 10 Hz PMF increased the total soluble sugar, total protein and phenol contents. The leaf chlorophyll a, b and total chlorophyll were higher in PMF (10 and 100 Hz) pretreated plants, as compared to other treatments. In addition, activities of alpha-amylase, acid phosphatase, alkaline phosphatase, nitrate reductase, peroxidase and polyphenoloxidase were increased, while beta-amylase and protease activities were declined in PMF (10 Hz)-exposed soybean plants. Similarly, the capacity of absorbance of water by seeds and electrical conductivity of seed leachates were significantly enhanced by 10 Hz PMF exposure, whereas PMF (10 Hz) pretreated plants did not affect the microbial population in rhizosphere soil. The results suggested the potential of 10 Hz PMF treatment to enhance the germination and seedling growth of soybean.

  1. Spatial distribution of microbial populations and carbon cycle in the subsurface environment of the Horonobe area, Hokkaido, Japan

    Amano, Y.; Ise, K.; Terashima, M.; Sasaki, Y.; Amamiya, H.; Yoshikawa, H.

    2014-12-01

    Microorganisms are widely distributed in the subsurface environments. However, the distribution, role and rate of metabolisms, and the source of their activity are not well known. In this study, we investigated deep groundwater samples from sedimentary rocks, containing saturated methane and CO2, using boreholes at the Horonobe Underground Research Laboratory (URL), northern Hokkaido, Japan. The hydrochemical conditions of groundwaters, such as in-situ water pressure, temperature, electric conductivity, pH, redox potential, were monitored without degassing at multiple intervals along the borehole. Groundwater samples were taken periodically and chemical composition was analyzed using ICP-MS, etc. Cell counts were in the range of 103 to 105 cells ml-1. Molecular analyses revealed the spatial distribution and heterogeneity of the microbial population. Abundant methanogens were detected in the groundwater, and 80% of them were related to either Methanoregula boonei or Methanobacterium flexile that can utilize H2/CO2 by methanogenesis. Phylotypes clustered within the phylum Firmicutes, beta-Proteobacteria, delta-Proteobacteria and candidate division TM7 were dominant in the groundwater samples. Laboratory experiments using a culture technique showed that humic substances purified from the groundwater at Horonobe area appear to be degraded by microorganisms. Our results suggest that microbial spatial distributions in the subsurface environment were correlated closely with geochemical conditions, such as redox condition and carbon sources. In addition, it is inferred that humic substances are one of the important carbon sources for the subsurface microbial redox processes in the environment. This study was partly funded by the Ministry of Economy, Trade and Industry of Japan.

  2. ILO and its population information activities.

    1982-04-01

    The International Labor Organisation (ILO) has authorized population activities since 1968. During the 1970s a population "focal point" was set up for promoting, programming, coordinating and monitoring population activities, and a large scale research program on population and employment was initiated as part of the World Employment Program. Both aspects were incorporated in a Population and Labor Policies Branch in 1975. Population documentation in the ILO is the concern of the Documentation Unit in that Branch, and the Central Library and Documentation Branch of the General Analysis of Labor Problems Department. The Documentation Unit collects materials on population in relation to employment, income and mobility; development planning models, role of women; and population and family welfare education, including printed, visual and audiovisual materials. Available reference tools include subject indexes using terms from the ILO Thesaurus. Monthly accessions lists and periodic bibliographies of relevant ILO publications are produced. The Central Library collects materials on a wide range of related subjects and has been automated since 1965. Its machine readable library file, LABORDOC, is available through Systems Development Corporation. It also produces an abstract journal (International Labor Documentation), a bibliographic list of international organization documents of interest to ILO officials (IGODOC), and a machine readable file describing the 9000 periodicals received or published by the ILO. Publications of the ILO's Bureau of Statistics include Bulletin and Year Book of Labor Statistics and regional volumes of Labor Force Estimates and Projections. The ILO recognizes that much relevant material produced by ILO field offices and other external offices may not reach and be collected at headquarters; the Population Information Network might provide a means of filling this gap.

  3. Electrodic voltages in the presence of dissolved sulfide: Implications for monitoring natural microbial activity

    Slater, L.; Ntarlagiannis, D.; Yee, N.; O' Brien, M.; Zhang, C.; Williams, K. H.

    2008-10-01

    There is growing interest in the development of new monitoring strategies for obtaining spatially extensive data diagnostic of microbial processes occurring in the earth. Open-circuit potentials arising from variable redox conditions in the fluid local-to-electrode surfaces (electrodic potentials) were recorded for a pair of silver-silver chloride electrodes in a column experiment, whereby a natural wetland soil containing a known community of sulfate reducers was continuously fed with a sulfate-rich nutrient medium. Measurements were made between five electrodes equally spaced along the column and a reference electrode placed on the column inflow. The presence of a sulfate reducing microbial population, coupled with observations of decreasing sulfate levels, formation of black precipitate (likely iron sulfide),elevated solid phase sulfide, and a characteristic sulfurous smell, suggest microbial-driven sulfate reduction (sulfide generation) in our column. Based on the known sensitivity of a silver electrode to dissolved sulfide concentration, we interpret the electrodic potentials approaching 700 mV recorded in this experiment as an indicator of the bisulfide (HS-) concentration gradients in the column. The measurement of the spatial and temporal variation in these electrodic potentials provides a simple and rapid method for monitoring patterns of relative HS- concentration that are indicative of the activity of sulfate-reducing bacteria. Our measurements have implications both for the autonomous monitoring of anaerobic microbial processes in the subsurface and the performance of self-potential electrodes, where it is critical to isolate, and perhaps quantify, electrochemical interfaces contributing to observed potentials.

  4. Impact of nanoscale zero valent iron on geochemistry and microbial populations in trichloroethylene contaminated aquifer materials.

    Kirschling, Teresa L; Gregory, Kelvin B; Minkley, Edwin G; Lowry, Gregory V; Tilton, Robert D

    2010-05-01

    Nanoscale zerovalent iron (NZVI) particles are a promising technology for reducing trichloroethylene (TCE) contamination in the subsurface. Prior to injecting large quantities of nanoparticles into the groundwater it is important to understand what impact the particles will have on the geochemistry and indigenous microbial communities. Microbial populations are important not only for nutrient cycling, but also for contaminant remediation and heavy metal immobilization. Microcosms were used to determine the effects of NZVI addition on three different aquifer materials from TCE contaminated sites in Alameda Point, CA, Mancelona, MI, and Parris Island, SC. The oxidation and reduction potential of the microcosms consistently decreased by more than 400 mV when NZVI was added at 1.5 g/L concentrations. Sulfate concentrations decreased in the two coastal aquifer materials, and methane was observed in the presence of NZVI in Alameda Point microcosms, but not in the other two materials. Denaturing gradient gel electrophoresis (DGGE) showed significant shifts in Eubacterial diversity just after the Fe(0) was exhausted, and quantitative polymerase chain reaction (qPCR) analyses showed increases of the dissimilatory sulfite reductase gene (dsrA) and Archaeal 16s rRNA genes, indicating that reducing conditions and hydrogen created by NZVI stimulate both sulfate reducer and methanogen populations. Adding NZVI had no deleterious effect on total bacterial abundance in the microcosms. NZVI with a biodegradable polyaspartate coating increased bacterial populations by an order of magnitude relative to controls. The lack of broad bactericidal effect, combined with the stimulatory effect of polyaspartate coatings, has positive implications for NZVI field applications.

  5. Effects of feed intake on composition of sheep rumen contents and their microbial population size.

    Rodríguez, C A; González, J; Alvir, M R; Redondo, R; Cajarville, C

    2003-01-01

    The present study was conducted to determine the effect of feed intake on the composition of the rumen contents of sheep and on their bacterial densities. Whole rumen contents were sampled after a period of continuous inter-rumen infusion of 15NH3 from four rumen-cannulated wethers successively fed on a hay-concentrate diet (2:1, w/w on a DM basis) at two rates of feed intake: 40 and 80 g DM/kg body weight0.75. Total weight and chemical composition of rumen contents, as well as the distribution by size and chemical composition of particles, were determined. The populations of bacteria associated with the liquid (liquid-associated bacteria, LAB) and solid (solid-associated bacteria, SAB) fractions of rumen digesta and the distribution of SAB according to feed particle size were also examined. The greater feed intake caused an increase in the mass of the rumen contents, while its chemical composition did not change, except for a higher content of organic matter (P=0.023). The distribution of feed particles by size was similar at both levels of intake. The concentrations of neutral- and acid-detergent fibre in feed particles decreased and those of total, dietary, and microbial N increased, both with a quadratic response (P=0.001), as particle size decreased. The proportion of LAB in the microbial biomass of rumen digesta reached only 8.0 %. This proportion and the density of LAB were unaffected by the level of feed intake, whereas an apparent reduction (10.4 %) occurred with the SAB biomass in whole rumen contents. A systematic, but not significant, reduction (mean value 11.9 %) in the level of microbial colonisation in the different particle fractions with the increase of feed intake was also observed.

  6. Distribution of Microbial Populations and Their Relationship with Environmental Variables in the North Yellow Sea, China

    BAI Xiaoge; WANG Min; LIANG Yantao; ZHANG Zhifeng; WANG Fang; JIANG Xuejiao

    2012-01-01

    In order to understand the large-scale spatial distribution characteristics of picoplankton,nanophytoplankton and vireoplankton and their relationship with environmental variables in coastal and offshore waters,flow cytometry (FCM) was used to analyze microbial abundance of samples collected in summer from four depths at 36 stations in the North Yellow Sea (NYS).The data revealed spatial heterogeneity in microbial populations in the offshore and near-shore waters of the NYS during the summer.For the surface layer,picoeukaryotes were abundant in the near-shore waters,Synechococcus was abundant in the offshore areas,and bacterial and viral abundances were high in the near-shore waters around the Liaodong peninsula.In the near-shore waters,no significant vertical variation of picophytoplankton (0.2-2μm) abundance was found.However,the nanophytoplankton abundance was higher in the upper layers (from the surface to 10m depth) than in the bottom layer.For the offshore waters,both pico- and nanophytoplankton (2-20μm) abundance decreased sharply with depth in the North Yellow Sea Cold Water Mass (NYSCWM).But,for the vertical distribution of virus and bacteria abundance,no significant variation was observed in both near-shore and offshore waters.Autotrophic microbes were more sensitive to environmental change than heterotrophic microbes and viruses.Viruses showed a positive correlation with bacterial abundance,suggesting that the bacteriophage might be prominent for virioplankton (about 0.45μm) in summer in the NYS and that viral abundance might play an important role in microbial loop functions.

  7. An Evaluation of Subsurface Microbial Activity Conditional to Subsurface Temperature, Porosity, and Permeability at North American Carbon Sequestration Sites

    Wilson, B. [Oak Ridge Inst. for Science and Education (ORISE), Oak Ridge, TN (United States); National Energy Technology Lab. (NETL), Albany, OR (United States); Mordensky, S. [Oak Ridge Inst. for Science and Education (ORISE), Oak Ridge, TN (United States); National Energy Technology Lab. (NETL), Albany, OR (United States); Verba, Circe [National Energy Technology Lab. (NETL), Albany, OR (United States); Rabjohns, K. [Oak Ridge Inst. for Science and Education (ORISE), Oak Ridge, TN (United States); National Energy Technology Lab. (NETL), Albany, OR (United States); Colwell, F. [National Energy Technology Lab. (NETL), Albany, OR (United States); Oregon State Univ., Corvallis, OR (United States). College of Earth, Ocean, and Atmospheric Sciences

    2016-06-21

    Several nations, including the United States, recognize global climate change as a force transforming the global ecosphere. Carbon dioxide (CO2) is a greenhouse gas that contributes to the evolving climate. Reduction of atmospheric CO2 levels is a goal for many nations and carbon sequestration which traps CO2 in the Earth’s subsurface is one method to reduce atmospheric CO2 levels. Among the variables that must be considered in developing this technology to a national scale is microbial activity. Microbial activity or biomass can change rock permeability, alter artificial seals around boreholes, and play a key role in biogeochemistry and accordingly may determine how CO2 is sequestered underground. Certain physical parameters of a reservoir found in literature (e.g., temperature, porosity, and permeability) may indicate whether a reservoir can host microbial communities. In order to estimate which subsurface formations may host microbes, this report examines the subsurface temperature, porosity, and permeability of underground rock formations that have high potential to be targeted for CO2 sequestration. Of the 268 North American wellbore locations from the National Carbon Sequestration Database (NATCARB; National Energy and Technology Laboratory, 2015) and 35 sites from Nelson and Kibler (2003), 96 sequestration sites contain temperature data. Of these 96 sites, 36 sites have temperatures that would be favorable for microbial survival, 48 sites have mixed conditions for supporting microbial populations, and 11 sites would appear to be unfavorable to support microbial populations. Future studies of microbe viability would benefit from a larger database with more formation parameters (e.g. mineralogy, structure, and groundwater chemistry), which would help to increase understanding of where CO2 sequestration could be most efficiently implemented.

  8. Long-term effects of timber harvesting on hemicellulolytic microbial populations in coniferous forest soils.

    Leung, Hilary T C; Maas, Kendra R; Wilhelm, Roland C; Mohn, William W

    2016-02-01

    Forest ecosystems need to be sustainably managed, as they are major reservoirs of biodiversity, provide important economic resources and modulate global climate. We have a poor knowledge of populations responsible for key biomass degradation processes in forest soils and the effects of forest harvesting on these populations. Here, we investigated the effects of three timber-harvesting methods, varying in the degree of organic matter removal, on putatively hemicellulolytic bacterial and fungal populations 10 or more years after harvesting and replanting. We used stable-isotope probing to identify populations that incorporated (13)C from labeled hemicellulose, analyzing (13)C-enriched phospholipid fatty acids, bacterial 16 S rRNA genes and fungal ITS regions. In soil microcosms, we identified 104 bacterial and 52 fungal hemicellulolytic operational taxonomic units (OTUs). Several of these OTUs are affiliated with taxa not previously reported to degrade hemicellulose, including the bacterial genera Methylibium, Pelomonas and Rhodoferax, and the fungal genera Cladosporium, Pseudeurotiaceae, Capronia, Xenopolyscytalum and Venturia. The effect of harvesting on hemicellulolytic populations was evaluated based on in situ bacterial and fungal OTUs. Harvesting treatments had significant but modest long-term effects on relative abundances of hemicellulolytic populations, which differed in strength between two ecozones and between soil layers. For soils incubated in microcosms, prior harvesting treatments did not affect the rate of incorporation of hemicellulose carbon into microbial biomass. In six ecozones across North America, distributions of the bacterial hemicellulolytic OTUs were similar, whereas distributions of fungal ones differed. Our work demonstrates that diverse taxa in soil are hemicellulolytic, many of which are differentially affected by the impact of harvesting on environmental conditions. However, the hemicellulolytic capacity of soil communities appears

  9. Effects of butachlor on microbial enzyme activities in paddy soil

    2002-01-01

    This paper reports the influences of the herbicide butachlor ( n-butoxymethl-chloro-2 ',6 '-diethylacetnilide ) on microbial respiration,nitrogen fixation and nitrification,and on the activities of dehydrogenase and hydrogen peroxidase in paddy soil.The results showed that after application of butachlor with concentrations of 5.5 μg/g dried soil,11.0,μg/g dried soil and 22.0 μg/g dried soil,the application of butachlor enhanced the activity of dehydrogenase at increasing concentrations.The soil dehydrogenase showed the highest activity on the 16th day after application of 22.0 μg/g dried soil of butachlor.The hydrogen peroxidase could be stimulated by butachlor.The soil respiration was depressed within a period from several days to more than 20 days,depending on concentrations of butachlor applied.Both the nitrogen fixation and nitrification were stimulated in the beginning but reduced greatly afterwards in paddy soil.

  10. Ecological differentiation in planktonic and sediment-associated chemotrophic microbial populations in Yellowstone hot springs.

    Colman, Daniel R; Feyhl-Buska, Jayme; Robinson, Kirtland J; Fecteau, Kristopher M; Xu, Huifang; Shock, Everett L; Boyd, Eric S

    2016-09-01

    Chemosynthetic sediment and planktonic community composition and sizes, aqueous geochemistry and sediment mineralogy were determined in 15 non-photosynthetic hot springs in Yellowstone National Park (YNP). These data were used to evaluate the hypothesis that differences in the availability of dissolved or mineral substrates in the bulk fluids or sediments within springs coincides with ecologically differentiated microbial communities and their populations. Planktonic and sediment-associated communities exhibited differing ecological characteristics including community sizes, evenness and richness. pH and temperature influenced microbial community composition among springs, but within-spring partitioning of taxa into sediment or planktonic communities was widespread, statistically supported (P < 0.05) and could be best explained by the inferred metabolic strategies of the partitioned taxa. Microaerophilic genera of the Aquificales predominated in many of the planktonic communities. In contrast, taxa capable of mineral-based metabolism such as S(o) oxidation/reduction or Fe-oxide reduction predominated in sediment communities. These results indicate that ecological differentiation within thermal spring habitats is common across a range of spring geochemistry and is influenced by the availability of dissolved nutrients and minerals that can be used in metabolism.

  11. 2009 MICROBIAL POPULATION BIOLOGY GORDON RESEARCH CONFERENCES JULY 19-24,2009

    ANTHONY DEAN

    2009-07-24

    The 2009 Gordon Conference on Microbial Population Biology will cover a diverse range of cutting edge issues in the microbial sciences and beyond. Firmly founded in evolutionary biology and with a strongly integrative approach, past Conferences have covered a range of topics from the dynamics and genetics of adaptation to the evolution of mutation rate, community ecology, evolutionary genomics, altruism, and epidemiology. The 2009 Conference is no exception, and will include sessions on the evolution of infectious diseases, social evolution, the evolution of symbioses, experimental evolution, adaptive landscapes, community dynamics, and the evolution of protein structure and function. While genomic approaches continue to make inroads, broadening our knowledge and encompassing new questions, the conference will also emphasize the use of experimental approaches to test hypotheses decisively. As in the past, this Conference provides young scientists and graduate students opportunities to present their work in poster format and exchange ideas with leading investigators from a broad spectrum of disciplines. This meeting is never dull: some of the most significant and contentious issues in biology have been thrashed out here. The 2009 meeting will be no exception.

  12. Evaluation of cocomposted coal fly ash on dynamics of microbial populations and heavy metal uptake

    Vallini, G.; Vaccari, F.; Pera, A.; Agnolucci, M.; Scatena, S.; Varallo, G. [University of Verona, Verona (Italy). Science and Technology Dept.

    1999-06-01

    Vicia faba, in a pot experiment with sandy and clayey soils under greenhouse conditions, was checked for growth response to different amendments with coal alkaline fly ash or cocomposted fly ash mixed with lignocellulosic residues. Soil microbial populations, pH and electrical conductivity as well as heavy metal uptake by plants were monitored. At rates of five and ten percent (on a dry matter basis) in both soils, neither fly ash alone nor cocomposted fly ash exerted any negative effect. Plant biomass production was not influenced in either clayey or sandy soil. Alkaline fly ash did not promote microbial growth when applied alone to the soils. However, cocomposted fly ash generally increased bacterial and actinomycetes counts in both soils. Fungi were not affected by ash. Due to the increase of soil pH by alkaline fly ash or cocomposted fly ash, plant uptake of heavy metals was depressed in the sandy soil. Heavy metal mobility did not cause change in the clayey soil where a high buffering capacity mitigated the effects of fly ash amendments.

  13. Influence of aeolian activities on the distribution of microbial abundance in glacier ice

    Y. Chen

    2014-10-01

    Full Text Available Microorganisms are continuously blown onto the glacier snow, and thus the glacial depth profiles provide excellent archives of microbial communities and climatic and environmental changes. However, it is uncertain about how aeolian processes that cause climatic changes control the distribution of microorganisms in the glacier ice. In the present study, microbial density, stable isotopic ratios, 18O / 16O in the precipitation, and mineral particle concentrations along the glacial depth profiles were collected from ice cores from the Muztag Ata glacier and the Dunde ice cap. The ice core data showed that microbial abundance was often, but not always associated with high concentrations of particles. Results also revealed clear seasonal patterning with high microbial abundance occurring in both the cooling autumn and warming spring-summer seasons. Microbial comparisons among the neighbouring glaciers display a heterogeneous spatial pattern, with the highest microbial cell density in the glaciers lying adjacent to the central Asian deserts and lowest microbial density in the southwestern margin of the Tibetan Plateau. In conclusion, microbial data of the glaciers indicates the aeolian deposits of microorganisms in the glacier ice and that the spatial patterns of microorgansisms are related to differences in sources of microbial flux and intensity of aeolian activities in the current regions. The results strongly support our hypothesis of aeolian activities being the main agents controlling microbial load in the glacier ice.

  14. Agroforestry systems, nutrients in litter and microbial activity in soils cultivated with coffee at high altitude

    Krystal de Alcantara Notaro

    2014-04-01

    Full Text Available Agroforestry systems are an alternative option for sustainable production management. These systems contain trees that absorb nutrients from deeper layers of the soil and leaf litter that help improve the soil quality of the rough terrain in high altitude areas, which are areas extremely susceptible to environmental degradation. The aim of this study was to characterize the stock and nutrients in litter, soil activity and the population of microorganisms in coffee (Coffea arabica L. plantations under high altitude agroforestry systems in the semi-arid region of the state of Pernambuco, Brazil. Samples were collected from the surface litter together with soil samples taken at two depths (0-10 and 10-20 cm from areas each subject to one of the following four treatments: agroforestry system (AS, native forest (NF, biodynamic system (BS and coffee control (CT.The coffee plantation had been abandoned for nearly 15 years and, although there had been no management or harvesting, still contained productive coffee plants. The accumulation of litter and mean nutrient content of the litter, the soil nutrient content, microbial biomass carbon, total carbon, total nitrogen, C/N ratio, basal respiration, microbial quotient, metabolic quotient and microbial populations (total bacteria, fluorescent bacteria group, total fungi and Trichoderma spp. were all analyzed. The systems thatwere exposed to human intervention (A and BS differed in their chemical attributes and contained higher levels of nutrients when compared to NF and CT. BS for coffee production at high altitude can be used as a sustainable alternative in the high altitude zones of the semi-arid region in Brazil, which is an area that is highly susceptible to environmental degradation.

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

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

    2012-01-01

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

  16. Linking TFT-LCD wastewater treatment performance to microbial population abundance of Hyphomicrobium and Thiobacillus spp.

    Fukushima, Toshikazu; Whang, Liang-Ming; Chen, Po-Chun; Putri, Dyah Wulandari; Chang, Ming-Yu; Wu, Yi-Ju; Lee, Ya-Ching

    2013-08-01

    This study investigated the linkage between performance of two full-scale membrane bioreactor (MBR) systems treating thin-film transistor liquid crystal display (TFT-LCD) wastewater and the population dynamics of dimethylsulfoxide (DMSO)/dimethylsulfide (DMS) degrading bacteria. High DMSO degradation efficiencies were achieved in both MBRs, while the levels of nitrification inhibition due to DMS production from DMSO degradation were different in the two MBRs. The results of real-time PCR targeting on DMSO/DMS degrading populations, including Hyphomicrobium and Thiobacillus spp., indicated that a higher DMSO oxidation efficiency occurred at a higher Hyphomicrobium spp. abundance in the systems, suggesting that Hyphomicrobium spp. may be more important for complete DMSO oxidation to sulfate compared with Thiobacillus spp. Furthermore, Thiobacillus spp. was more abundant during poor nitrification, while Hyphomicrobium spp. was more abundant during good nitrification. It is suggested that microbial population of DMSO/DMS degrading bacteria is closely linking to both DMSO/DMS degradation efficiency and nitrification performance.

  17. Effect of wastewater COD/N ratio on aerobic nitrifying sludge granulation and microbial population shift

    Lei Wu; Chengyao Peng; Yongzhen Peng; Lingyun Li; Shuying Wang; Yong Ma

    2012-01-01

    The effect of COD/N ratio on the granulation process and microbial population succession was investigated.Four identical sequencing batch reactors,R1,R2,R3 and R4,were operated with various initial COD/N ratios ranging from 0/200 to 800/200 (m/n).Ethanol was fed as the source of COD.Aerobic granules were successfully cultivated in R2 and R3,operating with the COD/N ratio of 200/200 and 400/200,respectively.Scanning electron microscope observations indicated that short rod-shaped and spherical bacteria were dominant in R2,while granules produced in R3 were surrounded with a large amount of filamentous bacteria.The average specific nitritation rate in R2 and R3 were 0.019 and 0.008 mg N/(mg MLVSS.hr),respectively.Fluorescence in situ hybridization results demonstrated that nitrifying bacteria population was enriched remarkably in R2.It indicated that nitrification ability and nitrifying bacteria population were enriched remarkably at low COD/N ratio.However,no granules were formed in R1and R4 which might attribute to either limited or excessive extracellular polymeric substances production.This study contributed to a better understanding of the role of COD/N ratio in nitrifying sludge granulation.

  18. Stability of soil microbial structure and activity depends on microbial diversity.

    Tardy, Vincent; Mathieu, Olivier; Lévêque, Jean; Terrat, Sébastien; Chabbi, Abad; Lemanceau, Philippe; Ranjard, Lionel; Maron, Pierre-Alain

    2014-04-01

    Despite the central role of microbes in soil processes, empirical evidence concerning the effect of their diversity on soil stability remains controversial. Here, we addressed the ecological insurance hypothesis by examining the stability of microbial communities along a gradient of soil microbial diversity in response to mercury pollution and heat stress. Diversity was manipulated by dilution extinction approach. Structural and functional stabilities of microbial communities were assessed from patterns of genetic structure and soil respiration after the stress. Dilution led to the establishment of a consistent diversity gradient, as revealed by 454 sequencing of ribosomal genes. Diversity stability was enhanced in species-rich communities whatever the stress whereas functional stability was improved with increasing diversity after heat stress, but not after mercury pollution. This discrepancy implies that the relevance of ecological insurance for soil microbial communities might depend on the type of stress. Our results also suggest that the significance of microbial diversity for soil functional stability might increase with available soil resources. This could have strong repercussions in the current 'global changes' context because it suggests that the combined increased frequencies of extreme climatic events, nutrient loading and biotic exploitation may amplify the functional consequences of diversity decrease.

  19. Thermodynamic concepts in the study of microbial populations: age structure in Plasmodium falciparum infected red blood cells.

    Jordi Ferrer

    Full Text Available Variability is a hallmark of microbial systems. On the one hand, microbes are subject to environmental heterogeneity and undergo changeable conditions in their immediate surroundings. On the other hand, microbial populations exhibit high cellular diversity. The relation between microbial diversity and variability of population dynamics is difficult to assess. This connection can be quantitatively studied from a perspective that combines in silico models and thermodynamic methods and interpretations. The infection process of Plasmodium falciparum parasitizing human red blood cells under laboratory cultivation conditions is used to illustrate the potential of Individual-based models in the context of predictive microbiology and parasitology. Experimental data from several in vitro cultures are compared to the outcome of an individual-based model and analysed from a thermodynamic perspective. This approach allows distinguishing between intrinsic and external constraints that give rise to the diversity in the infection forms, and it provides a criterion to quantitatively define transient and stationary regimes in the culture. Increasing the ability of models to discriminate between different states of microbial populations enhances their predictive capability which finally leads to a better the control over culture systems. The strategy here presented is of general application and it can substantially improve modelling of other types of microbial communities.

  20. Thermodynamic concepts in the study of microbial populations: age structure in Plasmodium falciparum infected red blood cells.

    Ferrer, Jordi; Prats, Clara; López, Daniel; Vidal-Mas, Jaume; Gargallo-Viola, Domingo; Guglietta, Antonio; Giró, Antoni

    2011-01-01

    Variability is a hallmark of microbial systems. On the one hand, microbes are subject to environmental heterogeneity and undergo changeable conditions in their immediate surroundings. On the other hand, microbial populations exhibit high cellular diversity. The relation between microbial diversity and variability of population dynamics is difficult to assess. This connection can be quantitatively studied from a perspective that combines in silico models and thermodynamic methods and interpretations. The infection process of Plasmodium falciparum parasitizing human red blood cells under laboratory cultivation conditions is used to illustrate the potential of Individual-based models in the context of predictive microbiology and parasitology. Experimental data from several in vitro cultures are compared to the outcome of an individual-based model and analysed from a thermodynamic perspective. This approach allows distinguishing between intrinsic and external constraints that give rise to the diversity in the infection forms, and it provides a criterion to quantitatively define transient and stationary regimes in the culture. Increasing the ability of models to discriminate between different states of microbial populations enhances their predictive capability which finally leads to a better the control over culture systems. The strategy here presented is of general application and it can substantially improve modelling of other types of microbial communities.

  1. Microbial fuel cells with highly active aerobic biocathodes

    Milner, Edward M.; Popescu, Dorin; Curtis, Tom; Head, Ian M.; Scott, Keith; Yu, Eileen H.

    2016-08-01

    Microbial fuel cells (MFCs), which convert organic waste to electricity, could be used to make the wastewater infrastructure more energy efficient and sustainable. However, platinum and other non-platinum chemical catalysts used for the oxygen reduction reaction (ORR) at the cathode of MFCs are unsustainable due to their high cost and long-term degradation. Aerobic biocathodes, which use microorganisms as the biocatalysts for cathode ORR, are a good alternative to chemical catalysts. In the current work, high-performing aerobic biocathodes with an onset potential for the ORR of +0.4 V vs. Ag/AgCl were enriched from activated sludge in electrochemical half-cells poised at -0.1 and + 0.2 V vs. Ag/AgCl. Gammaproteobacteria, distantly related to any known cultivated gammaproteobacterial lineage, were identified as dominant in these working electrode biofilms (23.3-44.3% of reads in 16S rRNA gene Ion Torrent libraries), and were in very low abundance in non-polarised control working electrode biofilms (0.5-0.7%). These Gammaproteobacteria were therefore most likely responsible for the high activity of biologically catalysed ORR. In MFC tests, a high-performing aerobic biocathode increased peak power 9-fold from 7 to 62 μW cm-2 in comparison to an unmodified carbon cathode, which was similar to peak power with a platinum-doped cathode at 70 μW cm-2.

  2. Limited recovery of soil microbial activity after transient exposure to gasoline vapors.

    Modrzyński, Jakub J; Christensen, Jan H; Mayer, Philipp; Brandt, Kristian K

    2016-09-01

    During gasoline spills complex mixtures of toxic volatile organic compounds (VOCs) are released to terrestrial environments. Gasoline VOCs exert baseline toxicity (narcosis) and may thus broadly affect soil biota. We assessed the functional resilience (i.e. resistance and recovery of microbial functions) in soil microbial communities transiently exposed to gasoline vapors by passive dosing via headspace for 40 days followed by a recovery phase of 84 days. Chemical exposure was characterized with GC-MS, whereas microbial activity was monitored as soil respiration (CO2 release) and soil bacterial growth ([(3)H]leucine incorporation). Microbial activity was strongly stimulated and inhibited at low and high exposure levels, respectively. Microbial growth efficiency decreased with increasing exposure, but rebounded during the recovery phase for low-dose treatments. Although benzene, toluene, ethylbenzene and xylene (BTEX) concentrations decreased by 83-97% during the recovery phase, microbial activity in high-dose treatments did not recover and numbers of viable bacteria were 3-4 orders of magnitude lower than in control soil. Re-inoculation with active soil microorganisms failed to restore microbial activity indicating residual soil toxicity, which could not be attributed to BTEX, but rather to mixture toxicity of more persistent gasoline constituents or degradation products. Our results indicate a limited potential for functional recovery of soil microbial communities after transient exposure to high, but environmentally relevant, levels of gasoline VOCs which therefore may compromise ecosystem services provided by microorganisms even after extensive soil VOC dissipation.

  3. Molecular characterization of microbial populations in full-scale biofilters treating iron, manganese and ammonia containing groundwater in Harbin, China.

    Li, Xiang-kun; Chu, Zhao-rui; Liu, Ya-jun; Zhu, Meng-ting; Yang, Liu; Zhang, Jie

    2013-11-01

    In iron and manganese-containing groundwater treatment for drinking water production, biological filter is an effective process to remove such pollutants. Until now the exact microbial mechanism of iron and manganese removal, especially coupled with other pollutants, such as ammonia, has not been clearly understood. To assess this issue, the performance of a full-scale biofilter located in Harbin, China was monitored over four months. Microbial populations in the biofilter were investigated using T-RFLP and clone library technique. Results suggested that Gallionella, Leptothrix, Nitrospira, Hyphomicrobium and Pseudomonas are dominant in the biofilter and play major roles in the removal of iron, manganese and ammonia. The spatial distribution of microbial populations along the depth of the biofilter demonstrated the stratification of the removal of iron, manganese and ammonia. Additionally, the absence of ammonia-oxidizing bacteria in the biofilter implicated that ammonia-oxidizing archaea might be responsible for the oxidation of ammonia to nitrite.

  4. The Effects of Applying Organic Matter in Wind Blown Soil on Microbial Biomass and Enzyme Activity

    2003-01-01

    Field experiment was conducted to study the effect of applying organic matter in wind blown soil on microbial biomass and enzyme activity.The results showed that microbial biomass and enzyme activity keep dynamic changes during wheat growing season in wind blown soil,and reached the peak level in wheat booting stage.Compared with chemical fertilizer,all the other treatments could increase the microbial biomass in different degree,the same as catalsae and alkaline phosphatase activity,But urease activity was slightly difference from them.

  5. Supplementation of direct-fed microbials as an alternative to antibiotic on growth performance, immune response, cecal microbial population, and ileal morphology of broiler chickens.

    Salim, H M; Kang, H K; Akter, N; Kim, D W; Kim, J H; Kim, M J; Na, J C; Jong, H B; Choi, H C; Suh, O S; Kim, W K

    2013-08-01

    An experiment was conducted to investigate the supplementation of direct-fed microbials (DFM) as an alternative to antibiotics on growth performance, immune response, cecal microbial population, and ileal morphology of broiler chickens. A total of 800 one-day-old male broiler chicks (Ross × Ross) were randomly allotted to 4 dietary treatments with 4 replicate pens per treatment (50 birds/replicate pen). The 4 dietary treatments fed for 35 d were a corn-soybean meal basal diet (control); control plus 0.1% virginiamycin, as an antibiotic growth promoter (AGP); control plus 0.1% direct-fed microbials that contained Lactobacillus reuteri (DFM 1); and control plus 0.1% direct-fed microbials that contained a mixture of L. reuteri, Bacillus subtilis, and Saccharomyces cerevisiae (DFM 2). Results showed that dietary AGP and DFM supplementation significantly increased (P chickens fed DFM and AGP. The ileal villus height, and width and total thickness of muscularis externa were significantly increased when birds were fed DFM compared with AGP and control. These results indicate that the dietary supplementation of DFM increases the growth performance of birds at an early age, stimulates the immune response, decreases the number of E. coli, and improves the ileal morphology of broiler chickens. Thus, DFM that contained a mixture of several beneficial microorganisms could be a viable alternative to antibiotics in the broiler diets.

  6. Investigations on abundance and activity of microbial sponge symbionts using quantitative real - time PCR

    Kumala, Lars; Hentschel, Ute; Bayer, Kristina

    the host. Of particular interest is determining the community structure and function of microbial symbionts in order to gain deeper insight into host-symbiont interactions. We investigated the abundance and activity of microbial symbionts in two Mediterranean sponge species using quantitative real-time PCR....... An absolute quantification of functional genes and transcripts in archaeal and bacterial symbionts was conducted to determine their involvement in nitrification and denitrification, comparing the low microbial abundance (LMA) sponge Dysidea avara with the high microbial abundance (HMA) representative Aplysina...

  7. Microbial diversity and activity in seafloor brine lake sediments (Alaminos Canyon block 601, Gulf of Mexico).

    Crespo-Medina, M; Bowles, M W; Samarkin, V A; Hunter, K S; Joye, S B

    2016-09-01

    The microbial communities thriving in deep-sea brines are sustained largely by energy rich substrates supplied through active seepage. Geochemical, microbial activity, and microbial community composition data from different habitats at a Gulf of Mexico brine lake in Alaminos Canyon revealed habitat-linked variability in geochemistry that in turn drove patterns in microbial community composition and activity. The bottom of the brine lake was the most geochemically extreme (highest salinity and nutrient concentrations) habitat and its microbial community exhibited the highest diversity and richness indices. The habitat at the upper halocline of the lake hosted the highest rates of sulfate reduction and methane oxidation, and the largest inventories of dissolved inorganic carbon, particulate organic carbon, and hydrogen sulfide. Statistical analyses indicated a significant positive correlation between the bacterial and archaeal diversity in the bottom brine sample and NH4+ inventories. Other environmental factors with positive correlation with microbial diversity indices were DOC, H2 S, and DIC concentrations. The geochemical regime of different sites within this deep seafloor extreme environment exerts a clear selective force on microbial communities and on patterns of microbial activity.

  8. The impact of synthetic pyrethroid and organophosphate sheep dip formulations on microbial activity in soil

    Boucard, Tatiana K.; McNeill, Charles [Department of Environmental Science, Faculty of Science and Technology, Lancaster University, Lancaster LA1 4YQ (United Kingdom); Bardgett, Richard D. [Department of Biological Sciences, Faculty of Science and Technology, Lancaster University, Lancaster LA1 4YQ (United Kingdom); Paynter, Christopher D. [Department of Environmental Science, Faculty of Science and Technology, Lancaster University, Lancaster LA1 4YQ (United Kingdom); Semple, Kirk T. [Department of Environmental Science, Faculty of Science and Technology, Lancaster University, Lancaster LA1 4YQ (United Kingdom)], E-mail: k.semple@lancaster.ac.uk

    2008-05-15

    Sheep dip formulations containing organophosphates (OPs) or synthetic pyrethroids (SPs) have been widely used in UK, and their spreading onto land has been identified as the most practical disposal method. In this study, the impact of two sheep dip formulations on the microbial activity of a soil was investigated over a 35-d incubation. Microbial utilisation of [1-{sup 14}C] glucose, uptake of {sup 14}C-activity into the microbial biomass and microbial numbers (CFUs g{sup -1} soil) were investigated. In control soils and soils amended with 0.01% sheep dip, after 7 d a larger proportion of added glucose was allocated to microbial biomass rather than respired to CO{sub 2}. No clear temporal trends were found in soils amended with 0.1% and 1% sheep dips. Both sheep dip formulations at 0.1% and 1% concentrations resulted in a significant increase in CFUs g{sup -1} soil and [1-{sup 14}C] glucose mineralisation rates, as well as a decline in microbial uptake of [1-{sup 14}C] glucose, compared to control and 0.01% SP- or OP-amended soils. This study suggests that the growth, activity, physiological status and/or structure of soil microbial community may be affected by sheep dips. - The application of sheep dip formulations can have a profound impact upon microbial activity and substrate utilisation in soil.

  9. Microbial activity and community structure in two drained fen soils in the Ljubljana Marsh

    Kraigher, Barbara; Stres, Blaz; Hacin, Janez; Ausec, Luka; Mahne, Ivan; van Elsas, Jan D.; Mandic-Mulec, Ines

    2006-01-01

    Fen peatlands are specific wetland ecosystems containing high soil organic carbon (SOC). There is a general lack of knowledge about the microbial communities that abound in these systems. We examined the microbial activity and community structure in two fen soils differing in SOC content sampled fro

  10. Biogeochemical drivers of microbial community convergence across actively retreating glaciers

    Castle, Sarah C.; Nemergut, Diana R.; Grandy, A. Stuart; Leff, Jonathan W.; Graham, Emily B.; Hood, Eran; Schmidt, Steven K.; Wickings, Kyle; Cleveland, Cory C.

    2016-10-01

    The ecological processes that influence biogeographical patterns of microorganisms are actively debated. To investigate how such patterns emerge during ecosystem succession, we examined the biogeochemical drivers of bacterial community assembly in soils over two environmentally distinct, recently deglaciated chronosequences separated by a distance of more than 1,300 kilometers. Our results show that despite different geographic, climatic, and soil chemical and physical characteristics at the two sites, soil bacterial community structure and decomposer function converged during plant succession. In a comparative analysis, we found that microbial communities in early succession soils were compositionally distinct from a group of diverse, mature forest soils, but that the differences between successional soils and mature soils decreased from early to late stages of succession. Differences in bacterial community composition across glacial sites were largely explained by pH. However, successional patterns and community convergence across sites were more consistently related to soil organic carbon and organic matter chemistry, which appeared to be tightly coupled with bacterial community structure across both young and mature soils.

  11. Optimal resting-growth strategies of microbial populations in fluctuating environments.

    Geisel, Nico; Vilar, Jose M G; Rubi, J Miguel

    2011-04-15

    Bacteria spend most of their lifetime in non-growing states which allow them to survive extended periods of stress and starvation. When environments improve, they must quickly resume growth to maximize their share of limited nutrients. Cells with higher stress resistance often survive longer stress durations at the cost of needing more time to resume growth, a strong disadvantage in competitive environments. Here we analyze the basis of optimal strategies that microorganisms can use to cope with this tradeoff. We explicitly show that the prototypical inverse relation between stress resistance and growth rate can explain much of the different types of behavior observed in stressed microbial populations. Using analytical mathematical methods, we determine the environmental parameters that decide whether cells should remain vegetative upon stress exposure, downregulate their metabolism to an intermediate optimum level, or become dormant. We find that cell-cell variability, or intercellular noise, is consistently beneficial in the presence of extreme environmental fluctuations, and that it provides an efficient population-level mechanism for adaption in a deteriorating environment. Our results reveal key novel aspects of responsive phenotype switching and its role as an adaptive strategy in changing environments.

  12. Optimal resting-growth strategies of microbial populations in fluctuating environments.

    Nico Geisel

    Full Text Available Bacteria spend most of their lifetime in non-growing states which allow them to survive extended periods of stress and starvation. When environments improve, they must quickly resume growth to maximize their share of limited nutrients. Cells with higher stress resistance often survive longer stress durations at the cost of needing more time to resume growth, a strong disadvantage in competitive environments. Here we analyze the basis of optimal strategies that microorganisms can use to cope with this tradeoff. We explicitly show that the prototypical inverse relation between stress resistance and growth rate can explain much of the different types of behavior observed in stressed microbial populations. Using analytical mathematical methods, we determine the environmental parameters that decide whether cells should remain vegetative upon stress exposure, downregulate their metabolism to an intermediate optimum level, or become dormant. We find that cell-cell variability, or intercellular noise, is consistently beneficial in the presence of extreme environmental fluctuations, and that it provides an efficient population-level mechanism for adaption in a deteriorating environment. Our results reveal key novel aspects of responsive phenotype switching and its role as an adaptive strategy in changing environments.

  13. Microbial populations of an upflow anaerobic sludge blanket reactor treating wastewater from a gelatin industry.

    Vieira, A M; Bergamasco, R; Gimenes, M L; Nakamura, C V; Dias Filho, B P

    2001-12-01

    The microbial populations of an upflow anaerobic sludge blanket reactor, used for treating wastewater from the gelatin industry, were studied by microbiological methods and phase-contrast and electron microscopy. Microscopy examination of the sludge showed a complex mixture of various rod-shaped and coccoid bacterial pluslong filaments and verymobile curved rods. In addition free-living anaerobic ciliates and flagellates were also observed. The trophic group population observed in decreasing order of dominance were hydrolytic and acetogenic at 10(6) and sulfate reducing and methanogenic at 10(5). The rate of methane production in anaerobic granular sludge cultivated in growth medium supplement with formate pressurized with H2:CO2 showed a significant increase in methane yield compared with theseed culture containingthe same substrate and atmosphere of N2:CO2. Similar rates of methane production were observed when the growth medium was supplemented with acetate pressurized either with H2:CO2 or N2:CO2. The number of total anaerobic bacteria at 10(7), fecal coliforms and total coliforms at 10(6), and fecal streptococci at 10(3) is based on colony counts on solid media. The four prevalent species of facultative anaerobic gram-negative bacteria that belong to the family of Enterobacteriaceae were identified as Escherichia coli, Esherichia fergusonii, Klebsiella oxytoca, and Citrobacter freundii. The species Aeromonas hydrophila, Aeromonas veronii, Acinetobacter iwoffi and Stenotrophomonas maltophila were the most frequently isolated glucose fermenting and nonfermenting gram-negative bacilli.

  14. Effect of Portulaca oleracea extracts on growth performance and microbial populations in ceca of broilers.

    Zhao, X H; He, X; Yang, X F; Zhong, X H

    2013-05-01

    The aim of this study was to investigate the effects of Portulaca oleracea extracts on growth performance and microbial populations in the ceca of broilers. A total of 120 one-day-old broilers were randomly divided into 3 groups. Portulaca oleracea extracts were added to diets at 0.2 and 0.4% (wt/wt; POL-0.2, POL-0.4), respectively. The control (CON) group was administered with no P. oleracea extract supplementation. Body weight gain and feed conversion ratio were recorded every 2 wk. On d 28 and 42, the cecal contents were collected and assayed for Escherichia coli, Lactobacillus, and Bifidobacterium populations. Additionally, the pH of the ileum and cecum was measured. The results showed that both on d 28 and 42 BW gain of P. oleracea extract supplementation groups was significantly higher, whereas the feed conversion ratio was lower (P < 0.05) compared with CON. On d 28 and 42, significantly (P < 0.05) fewer E. coli were recovered from ceca of broilers provided with the POL-0.2 diet than from broilers provided with the control diet. The quantities of Lactobacillus and Bifidobacterium of POL-0.2 were significantly (P < 0.05) higher than CON. Results showed P. oleracea extracts have no distinct influence on intestinal pH. These data suggest that P. oleracea extract supplementation significantly altered the cecal bacterial community without affecting the intestinal pH.

  15. Effects of rumen fluid collection site on microbial population structure during in vitro fermentation of the different substrates quantified by 16S rRNA hybridisation.

    Muetzel, S; Krishnamoorthy, U; Becker, K

    2001-01-01

    Rumen fluid samples from a cow were withdrawn manually from the feed mat (solid phase) or the liquid phase below this mat and incubated in vitro with wheat straw, sorghum hay and a concentrate mixture. From the inoculum and several samples collected during in vitro incubation RNA was extracted to assess microbial population size and structure. RNA content recovered from the solid phase rumen fluid was significantly higher than from the liquid phase. The composition of the microbial population in the solid phase material was characterised by a high proportion of Ruminococci. Neither the proportion of other cell wall degrading organisms (Fibrobacter and Chytridiomycetes) nor the Eukarya and Archaea populations differed between the two sampling sites. Gas production was higher when substrates were incubated with solid phase than with liquid phase rumen fluid regardless of sampling time. However, the higher level of gas production was not accompanied by a corresponding increase in true digestibility. The RNA probes showed that during in vitro incubation with liquid phase rumen fluid, the eukaryotic population was inactive no matter which substrate was used and the activity of methanogens (Archaea) was lower than with solid phase rumen fluid. The population pattern of the cell wall degrading organisms was influenced mainly by the substrate fermented, and to a smaller extent by the inoculum used for in vitro fermentation.

  16. Combined Effect of Nutrient and Pest Managements on Substrate Utilization Pattern of Soil Microbial Population in Hybrid Rice Cropping System

    2002-01-01

    A field experiment was conducted to study the combined effect of nutrient and pest managements on soil biomass phospholipid contents, functional biodiversity and substrate utilization patterns of soil microbial populations in hybrid rice cropping system. The mineral N, P and K fertilizers (as urea, calcium superphosphate and KCl respectively) were incorporated at 100, 25, and 100 kg ha-1, respectively, and the various pesticides were applied at the recommended rates. The results of the experiment demonstrated a decline in the microbial abundance and soil microbial biomass phospholipid contents with the advancement of crop growth, and significant changes in substrate utilization pattern of soil microbial population studied were observed with different management practices and at different growth stages. The principal component analysis (PGA) using all 95-carbon sources (BIOLOG plates) gave good differentiation among the treatments, indicating that they have different patterns of carbon utilization under different habitats. The data showed that diversity in microbial community continuously changed with the progression in crop stage, particularly at physiological maturity (PM) stage that was evident from the utilization of different carbon sources at various crop stages.

  17. Assessing microbial activities in metal contaminated agricultural volcanic soils--An integrative approach.

    Parelho, C; Rodrigues, A S; Barreto, M C; Ferreira, N G C; Garcia, P

    2016-07-01

    Volcanic soils are unique naturally fertile resources, extensively used for agricultural purposes and with particular physicochemical properties that may result in accumulation of toxic substances, such as trace metals. Trace metal contaminated soils have significant effects on soil microbial activities and hence on soil quality. The aim of this study is to determine the soil microbial responses to metal contamination in volcanic soils under different agricultural land use practices (conventional, traditional and organic), based on a three-tier approach: Tier 1 - assess soil microbial activities, Tier 2 - link the microbial activity to soil trace metal contamination and, Tier 3 - integrate the microbial activity in an effect-based soil index (Integrative Biological Response) to score soil health status in metal contaminated agricultural soils. Our results showed that microbial biomass C levels and soil enzymes activities were decreased in all agricultural soils. Dehydrogenase and β-glucosidase activities, soil basal respiration and microbial biomass C were the most sensitive responses to trace metal soil contamination. The Integrative Biological Response value indicated that soil health was ranked as: organic>traditional>conventional, highlighting the importance of integrative biomarker-based strategies for the development of the trace metal "footprint" in Andosols.

  18. Microbial population dynamics and changes in main nutrients during the acidification process of pig manures

    Dongdong Zhang; Xufeng Yuan; Peng Guo; Yali Suo; Xiaofen Wang; Weidong Wang; Zongjun Cui

    2011-01-01

    This study evaluated the impact of pig manure acidification on anaerobic treatment and composition of the fecal microbial community.According to the different chemical oxygen demand (COD) in the anaerobic treatment processes, pig manure was diluted 4 times (×4), 16 times (×l6), or 64 times (×64) and subjected to acidification.During the acidification process, pH, soluble chemical oxygen demand (SCOD), volatile fatty acids (VFAs), nitrogen (N), phosphorus (P) and potassium (K) were determined along with microbial population dynamics.The pH of the three dilutions first declined, and then slowly increased.The total VFAs of ×4 and ×l6 dilutions peaked on day 15 and 20, respectively.The content of acetic acid, propanoic acid, butanoic acid and valeric acid of the × 4 dilution were 23.6, 11.4, 8.8 and 0.6 g/L respectively, and that of the ×l6 dilution was 5.6, 2.3, 0.9 and 0.2 g/L respectively.Only acetic acid was detected in the ×64 dilution, and its level peaked on day 10.The results showed that the liquid pig manure was more suitable to enter the anaerobic methanogenic bioreactors after two weeks of acidification.During the acidification process, total P concentration increased during the first ten days, then dropped sharply, and rose again to a relatively high final concentration, while total N concentration rose initially and then declined.Based on the analysis of denaturing gradient gel electrophoresis (DGGE) and 16S rRNA gene clone library, we concluded that the acidification process reduced the number of pathogenic bacteria species in pig manure.

  19. Synthesis, anti-microbial activity and molecular docking studies on triazolylcoumarin derivatives

    Chinnadurai Satheeshkumar; Mahalingam Ravivarma; Pandian Arjun; Vaithiyanathan Silambarasan; Nanjian Raaman; Devadasan Velmurugan; Changsik Song; Perumal Rajakumar

    2015-03-01

    A series of triazolylcoumarins was synthesized by the cycloaddition of acetylenic derivatives to azide in the presence of Cu(I) catalyst at room temperature. All the synthesized compounds were evaluated for their anti-microbial activity against Gram-positive (B. subtilis and S. aureus), Gram-negative bacteria (K. pneumonia and P. vulgaris) and human pathogenic fungi (C. tropicalis and C. krusei), with tetracycline and fluconazole as standards for anti-microbial and anti-fungal activity. Triazolylcoumarins exhibit anti-microbial activity against all the tested pathogens, which is further supported by molecular docking studies.

  20. Effect of altitude and season on microbial activity, abundance and community structure in Alpine forest soils.

    Siles, José A; Cajthaml, Tomas; Minerbi, Stefano; Margesin, Rosa

    2016-03-01

    In the current context of climate change, the study of microbial communities along altitudinal gradients is especially useful. Only few studies considered altitude and season at the same time. We characterized four forest sites located in the Italian Alps, along an altitude gradient (545-2000 m a.s.l.), to evaluate the effect of altitude in spring and autumn on soil microbial properties. Each site in each season was characterized with regard to soil temperature, physicochemical properties, microbial activities (respiration, enzymes), community level physiological profiles (CLPP), microbial abundance and community structure (PLFA). Increased levels of soil organic matter (SOM) and nutrients were found at higher altitudes and in autumn, resulting in a significant increase of (soil dry-mass related) microbial activities and abundance at higher altitudes. Significant site- and season-specific effects were found for enzyme production. The significant interaction of the factors site and incubation temperature for soil microbial activities indicated differences in microbial communities and their responses to temperature among sites. CLPP revealed site-specific effects. Microbial community structure was influenced by altitudinal, seasonal and/or site-specific effects. Correlations demonstrated that altitude, and not season, was the main factor determining the changes in abiotic and biotic characteristics at the sites investigated.

  1. Limited recovery of soil microbial activity after transient exposure to gasoline vapors

    Modrzyński, Jakub J.; Christensen, Jan H.; Mayer, Philipp

    2016-01-01

    growth ([(3)H]leucine incorporation). Microbial activity was strongly stimulated and inhibited at low and high exposure levels, respectively. Microbial growth efficiency decreased with increasing exposure, but rebounded during the recovery phase for low-dose treatments. Although benzene, toluene......During gasoline spills complex mixtures of toxic volatile organic compounds (VOCs) are released to terrestrial environments. Gasoline VOCs exert baseline toxicity (narcosis) and may thus broadly affect soil biota. We assessed the functional resilience (i.e. resistance and recovery of microbial...... functions) in soil microbial communities transiently exposed to gasoline vapors by passive dosing via headspace for 40 days followed by a recovery phase of 84 days. Chemical exposure was characterized with GC-MS, whereas microbial activity was monitored as soil respiration (CO2 release) and soil bacterial...

  2. Effects of Biochar Amendment on Tomato Bacterial Wilt Resistance and Soil Microbial Amount and Activity

    Yang Lu

    2016-01-01

    Full Text Available Bacterial wilt is a serious soilborne disease of Solanaceae crops which is caused by Ralstonia solanacearum. The important role of biochar in enhancing disease resistance in plants has been verified; however, the underlying mechanism remains not fully understood. In this study, two different biochars, made from peanut shell (BC1 and wheat straw (BC2, were added to Ralstonia solanacearum-infected soil to explore the interrelation among biochar, tomato bacterial wilt, and soil microbial properties. The results showed that both BC1 and BC2 treatments significantly reduced the disease index of bacterial wilt by 28.6% and 65.7%, respectively. The populations of R. solanacearum in soil were also significantly decreased by biochar application. Ralstonia solanacearum infection significantly reduced the densities of soil bacteria and actinomycetes and increased the ratio of soil fungi/bacteria in the soil. By contrast, BC1 and BC2 addition to pathogen-infected soil significantly increased the densities of soil bacteria and actinomycetes but decreased the density of fungi and the ratios of soil fungi/bacteria and fungi/actinomycetes. Biochar treatments also increased soil neutral phosphatase and urease activity. Furthermore, higher metabolic capabilities of microorganisms by biochar application were found at 96 and 144 h in Biolog EcoPlates. These results suggest that both peanut and wheat biochar amendments were effective in inhibiting tomato bacterial wilt caused by R. solanacearum. The results suggest a relationship between the disease resistance of the plants and the changes in soil microbial population densities and activity.

  3. Functional activity of soil microbial communities in post-fire pine stands of Tolyatti, Samara oblast

    Maksimova, E. Yu.; Kudinova, A. G.; Abakumov, E. V.

    2017-02-01

    The state of microbial communities in gray-humus soils (Eutric Fluvic Arenosols (Ochric)) of pine stands in the city of Tolyatti after forest fires of 2010 is analyzed. It is shown that fires exert negative effects on the structure and metabolic activity of microbial communities in the postpyrogenic soils. The content of the carbon of microbial biomass and the intensity of microbial respiration in the upper organic horizons of the post-fire plots decrease by 6.5 and 3.4 times, respectively, in comparison with those in the soils of background plots. However, the fire has not affected the studied microbiological parameters of the soils at the depths of more than 10 cm. The maximum content of the carbon of microbial biomass carbon and the maximum intensity of microbial respiration have been found in the subsurface AY2 and AC horizons two-three years the fire. An increase in the microbial metabolic quotient (the ratio of soil respiration to microbial biomass) attests to the disturbance of the ecophysiological state of soil microbial communities after the pyrogenic impact.

  4. Effect of cassava mill effluent on biological activity of soil microbial community.

    Igbinosa, Etinosa O

    2015-07-01

    This study assessed the effect of cassava effluent on soil microbiological characteristics and enzymatic activities were investigated in soil samples. Soil properties and heavy metal concentrations were evaluated using standard soil analytical and spectroscopic methods, respectively. The microbiological parameters measured include microbial biomass carbon, basal soil respiration, catalase, urease, dehydrogenase activities and number of culturable aerobic bacteria, fungi and actinomycetes. The pH and temperature regime vary significantly (p Soil organic carbon content gave significant positive correlations with microbial biomass carbon, basal soil respiration, catalase activity and dehydrogenase activity (r = 0.450, 0.461, 0.574 and 0.591 at p soil microbial density demonstrates a marked decrease in total culturable numbers of the different microbial groups of the polluted soil samples. Soil contamination decreased catalase, urease and dehydrogenase activities. The findings revealed that soil enzymes can be used as indices of soil contamination and bio-indicator of soil quality.

  5. Influence of oxytetracycline on the structure and activity of microbial community in wheat rhizosphere soil

    YANG Qingxiang; ZHANG Jing; ZHU Kongfang; ZHANG Hao

    2009-01-01

    The microbial community composition in wheat rhizosphere was analyzed by detecting colony forming units (CFUs) in agar plates. The total CFUs in rhizosphere were 1.04×109/g soil with 9.0×108/g bacteria, 1.37×108/g actinomyces and 3.6×106/g fungi. The 10 dominant bacteria were isolated from wheat rhizosphere and were grouped into genus Bacillus according to their full length 16S rRNA gene sequences. Although belonging to the same genus, the isolated strains exhibited different sensitivities to oxytetracycline. When a series of the rhizosphere soil was exposed under various concentrations of oxytetracycline, the microbial community structure was highly affected with significant decline of CFUs of bacteria and actinomyces (22.2% and 31.7% at 10 mg/kg antibiotic, respectively). This inhibition was clearly enhanced with the increase exposure dosage of antibiotic and could not be eliminated during 30 d incubation. There was no obvious influence of this treatment on fungi population. Among the four soil enzymes (alkaline phosphatase, acidic phosphatase, dehydrogenase and urease), only alkaline phosphatase was sensitive to oxytetracycline exposure with 41.3% decline of the enzyme activity at 10 mg/kg antibiotic and further decrease of 64.3%-80.8% when the dosage over 30 mg/kg.

  6. Core microbial functional activities in ocean environments revealed by global metagenomic profiling analyses.

    Ari J S Ferreira

    Full Text Available Metagenomics-based functional profiling analysis is an effective means of gaining deeper insight into the composition of marine microbial populations and developing a better understanding of the interplay between the functional genome content of microbial communities and abiotic factors. Here we present a comprehensive analysis of 24 datasets covering surface and depth-related environments at 11 sites around the world's oceans. The complete datasets comprises approximately 12 million sequences, totaling 5,358 Mb. Based on profiling patterns of Clusters of Orthologous Groups (COGs of proteins, a core set of reference photic and aphotic depth-related COGs, and a collection of COGs that are associated with extreme oxygen limitation were defined. Their inferred functions were utilized as indicators to characterize the distribution of light- and oxygen-related biological activities in marine environments. The results reveal that, while light level in the water column is a major determinant of phenotypic adaptation in marine microorganisms, oxygen concentration in the aphotic zone has a significant impact only in extremely hypoxic waters. Phylogenetic profiling of the reference photic/aphotic gene sets revealed a greater variety of source organisms in the aphotic zone, although the majority of individual photic and aphotic depth-related COGs are assigned to the same taxa across the different sites. This increase in phylogenetic and functional diversity of the core aphotic related COGs most probably reflects selection for the utilization of a broad range of alternate energy sources in the absence of light.

  7. Core microbial functional activities in ocean environments revealed by global metagenomic profiling analyses.

    Ferreira, Ari J S

    2014-06-12

    Metagenomics-based functional profiling analysis is an effective means of gaining deeper insight into the composition of marine microbial populations and developing a better understanding of the interplay between the functional genome content of microbial communities and abiotic factors. Here we present a comprehensive analysis of 24 datasets covering surface and depth-related environments at 11 sites around the world\\'s oceans. The complete datasets comprises approximately 12 million sequences, totaling 5,358 Mb. Based on profiling patterns of Clusters of Orthologous Groups (COGs) of proteins, a core set of reference photic and aphotic depth-related COGs, and a collection of COGs that are associated with extreme oxygen limitation were defined. Their inferred functions were utilized as indicators to characterize the distribution of light- and oxygen-related biological activities in marine environments. The results reveal that, while light level in the water column is a major determinant of phenotypic adaptation in marine microorganisms, oxygen concentration in the aphotic zone has a significant impact only in extremely hypoxic waters. Phylogenetic profiling of the reference photic/aphotic gene sets revealed a greater variety of source organisms in the aphotic zone, although the majority of individual photic and aphotic depth-related COGs are assigned to the same taxa across the different sites. This increase in phylogenetic and functional diversity of the core aphotic related COGs most probably reflects selection for the utilization of a broad range of alternate energy sources in the absence of light.

  8. Influence of earthworm activity on microbial communities related with the degradation of persistent pollutants.

    Natal-da-Luz, Tiago; Lee, Iwa; Verweij, Rudo A; Morais, Paula V; Van Velzen, Martin J M; Sousa, José Paulo; Van Gestel, Cornelis A M

    2012-04-01

    Earthworms may promote the biodegradation of polycyclic aromatic hydrocarbons (PAHs) in soil, but the mechanism through which they exert such influence is still unknown. To determine if the stimulation of PAH degradation by earthworms is related to changes in microbial communities, a microcosm experiment was conducted consisting of columns with natural uncontaminated soil covered with PAH-contaminated dredge sediment. Columns without and with low and high Eisenia andrei densities were prepared. Organic matter and PAH content, microbial biomass, and dehydrogenase activity (DHA) were measured in soil and sediment over time. Biolog Ecoplate™ and polymerase chain reaction using denaturing gradient gel electrophoresis were used to evaluate changes in metabolic and structural diversity of the microbial community, respectively. Earthworm activity promoted PAH degradation in soil, which was significant for biphenyl, benzo[a]pyrene, and benzo[e]pyrene. Microbial biomass and DHA activity generally did not change over the experiment. Earthworm activity did change microbial community structure, but this did not affect its functioning in terms of carbon substrate consumption. Results suggest no relationship between changes in the microbial community by earthworm activity and increased PAH disappearance. The role of shifts in soil microbial community structure induced by earthworms in PAH removal needs further investigation.

  9. Differences in Soil Microbial Biomass and Activity for Six Agroecosystems with a Management Disturbance Gradient

    ZHANG Wei-Jian; FENG Jin-Xia; J. WU; K. PARKER

    2004-01-01

    Different management practices in six agroecosystems located near Goldsboro, NC, USA were conducted including a successional field (SU), a plantation woodlot (WO), an integrated cropping system with animals (IN), an organic farming system (OR), and two cash-grain cropping systems employing either tillage (CT) or no-tillage (NT) to examine if and how microbial biomass and activity differ in response to alterations in disturbance intensity from six land management strategies. Results showed that soil microbial biomass and activity differed, with microbial activity in intermediately disturbed ecosystems (NT, OR, IN) being significantly higher (P < 0.01) than systems with either high or low disturbance intensities. There was also a significant and a highly significant ecosystem effect from the treatments on microbial biomass C (MBC) (P < 0.05) and on microbial activity (respiration) (P < 0.01), respectively. Multiple comparisons of mean respiration rates distinctly separated the six ecosystem types into three groups: CT < NT, SU and WO < OR and IN.Thus, for detecting microbial response to disturbance changes these results indicated that the active component of the soil microbial community was a better indicator than total biomass.

  10. Genome-Centric Analysis of Microbial Populations Enriched by Hydraulic Fracture Fluid Additives in a Coal Bed Methane Production Well.

    Robbins, Steven J; Evans, Paul N; Parks, Donovan H; Golding, Suzanne D; Tyson, Gene W

    2016-01-01

    Coal bed methane (CBM) is generated primarily through the microbial degradation of coal. Despite a limited understanding of the microorganisms responsible for this process, there is significant interest in developing methods to stimulate additional methane production from CBM wells. Physical techniques including hydraulic fracture stimulation are commonly applied to CBM wells, however the effects of specific additives contained in hydraulic fracture fluids on native CBM microbial communities are poorly understood. Here, metagenomic sequencing was applied to the formation waters of a hydraulically fractured and several non-fractured CBM production wells to determine the effect of this stimulation technique on the in-situ microbial community. The hydraulically fractured well was dominated by two microbial populations belonging to the class Phycisphaerae (within phylum Planctomycetes) and candidate phylum Aminicenantes. Populations from these phyla were absent or present at extremely low abundance in non-fractured CBM wells. Detailed metabolic reconstruction of near-complete genomes from these populations showed that their high relative abundance in the hydraulically fractured CBM well could be explained by the introduction of additional carbon sources, electron acceptors, and biocides contained in the hydraulic fracture fluid.

  11. Cuban economically active population: a new battle?

    Olga Lourdes Vila Pérez

    2009-03-01

    Full Text Available One of the challenges that Cuban society faces today is not only its population´s aging as an objective and natural phenomenon; but the impact of this demographic problem on the economically active population. This category includes persons with appropriate working capacity between 17 years and the retirement age, which is stated in the act No. 24 of Cuban Social Security. Since we support the idea of increasing production and productivity of goods worldwide, and we hold up any initiative to enhance human satisfaction or happiness, it is unprofitable for us not to be able to have millions of persons on condition that they spend their physical and mental capacity in the creation of our wealth. Thus, it is important to be aware of the new approaches regarding social policy, in which health workers have a central role to guarantee an increase in life expectancy, among other benefits.

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

    2012-01-01

    Microbial mats are often found in intertidal areas experiencing a large range of salinities. This study investigated the effect of changing salinities on nitrogenase activity and on the composition of the active diazotrophic community (nifH transcript libraries) of three types of microbial mats situated along a littoral gradient. All three mat types exhibited highest nitrogenase activity at salinities close to ambient seawater or lower. The response to lower or higher salinity was strongest i...

  13. Microbial dechlorination activity during and after chemical oxidant treatment

    Doğan-Subaşı, Eylem [Flemish Institute for Technological Research (VITO), Separation and Conversion Technology, Boeretang 200, 2400 Mol (Belgium); Laboratory of Microbial Ecology and Technology (LabMET), Ghent University, Coupure Links 653, 9000 Gent (Belgium); Bastiaens, Leen, E-mail: leen.bastiaens@vito.be [Flemish Institute for Technological Research (VITO), Separation and Conversion Technology, Boeretang 200, 2400 Mol (Belgium); Boon, Nico [Laboratory of Microbial Ecology and Technology (LabMET), Ghent University, Coupure Links 653, 9000 Gent (Belgium); Dejonghe, Winnie [Flemish Institute for Technological Research (VITO), Separation and Conversion Technology, Boeretang 200, 2400 Mol (Belgium)

    2013-11-15

    Highlights: • Combined treatment was possible below 0.5 g/L of KMnO{sub 4} and 1 g/L of Na{sub 2}S{sub 2}O{sub 8}. • By-products SO{sub 4}{sup 2−} and MnO{sub 2(s)} had inhibitory effects on dehalogenating bacteria. • Oxidation reduction potential (ORP) was identified as a crucial parameter for recovery of oxidant exposed cells. • Bioaugmentation is a necessity at 0.5 g/L of KMnO{sub 4} and 1 g/L of Na{sub 2}S{sub 2}O{sub 8} and above. -- Abstract: Potassium permanganate (PM) and sodium persulfate (PS) are used in soil remediation, however, their compatibility with a coinciding or subsequent biotreatment is poorly understood. In this study, different concentrations of PM (0.005–2 g/L) and PS (0.01–4.52 g/L) were applied and their effects on the abundance, activity, and reactivation potential of a dechlorinating enrichment culture were investigated. Expression of the tceA, vcrA and 16S rRNA genes of Dehalococcoides spp. were detected at 0.005–0.01 g/L PM and 0.01–0.02 g/L PS. However, with 0.5–2 g/L PM and 1.13–4.52 g/L PS no gene expression was recorded, neither were indicator molecules for total cell activity (Adenosine triphosphate, ATP) detected. Dilution did not promote the reactivation of the microbial cells when the redox potential was above −100 mV. Similarly, inoculated cells did not dechlorinate trichloroethene (TCE) above −100 mV. When the redox potential was decreased to −300 mV and the reactors were bioaugmented for a second time, dechlorination activity recovered, but only in the reactors with 1.13 and 2.26 g/L PS. In conclusion, our results show that chemical oxidants can be combined with a biotreatment at concentrations below 0.5 g/L PM and 1 g/L PS.

  14. Impact of Land Degradation on Soil Microbial Biomass and Activity in Northeast Brazil

    J. S. NUNES; A. S. F. ARAUJO; L. A. P. L. NUNES; L. M. LIMA; R. F. V. CARNEIRO; A. A. C. SALVIANO; S. M. TSAI

    2012-01-01

    Land degradation causes great changes in the soil biological properties.The process of degradation may decrease soil microbial biomass and consequently decrease soil microbial activity.The study was conducted out during 2009 and 2010 at the four sites of land under native vegetation (NV),moderately degraded land (LDL),highly degraded land (HDL) and land under restoration for four years (RL) to evaluate changes in soil microbial biomass and activity in lands with different degradation levels in comparison with both land under native vegetation and land under restoration in Northeast Brazil.Soil samples were collected at 0-10 cm depth.Soil organic carbon (SOC),soil microbial biomass C (MBC) and N (MBN),soil respiration (SR),and hydrolysis of fluorescein diacetate (FDA) and dehydrogenase (DHA) activities were analyzed.After two years of evaluation,soil MBC,MBN,FDA and DHA had higher values in the NV,followed by the RL.The decreases of soil microbial biomass and enzyme activities in the degraded lands were approximately 8-10 times as large as those found in the NV.However,after land restoration,the MBC and MBN increased approximately 5-fold and 2-fold,respectively,compared with the HDL.The results showed that land degradation produced a strong decrease in soil microbial biomass.However,land restoration may promote short- and long-term increases in soil microbial biomass.

  15. Fire Effects on Microbial Enzyme Activities in Larch Forests of the Siberian Arctic

    Ludwig, S.; Alexander, H. D.; Bulygina, E. B.; Mann, P. J.; Natali, S.

    2012-12-01

    severity 1 d post-fire, but by 8 d post-fire activity was the same in all treatments, indicating complete recovery of the microbial population. Phenol oxidase activity was low in all treatments 1 d post-fire, but by 8 d post-fire, severe plots had substantially increased phenol oxidase activity, likely due to microbial efforts to mitigate phenolic compound toxicity following severe fires. Both DOC and the slope ratio of CDOM absorbance increased with burn severity 1 d post-fire, indicating higher extractability of lighter molecular weight C from severe burns. These results imply that black C created from fires remains as a stable C pool while more labile C is mobilized with increasing burn severity. Our results suggest that the immediate effects of fire severity on microbial communities have the potential to change both nutrient use and the form and concentration of C being processed and mobilized from larch forest ecosystems. These findings highlight the importance of changing fire regimes on soil dynamics with implications for forest re-growth, soil-atmospheric feedbacks, and terrestrial inputs to aquatic ecosystems.

  16. Dual active ionic liquids and organic salts for inhibition of microbially influenced corrosion.

    Seter, Marianne; Thomson, Melanie J; Stoimenovski, Jelena; MacFarlane, Douglas R; Forsyth, Maria

    2012-06-18

    We describe a series of novel compounds designed to combat the bacterial growth that leads to microbially induced corrosion on steel in the marine environment. A synergistic effect of the ionic components in these dual active organic salts is demonstrated.

  17. Antiviral Activities and Putative Identification of Compounds in Microbial Extracts from the Hawaiian Coastal Waters

    Yuanan Lu

    2012-02-01

    Full Text Available Marine environments are a rich source of significant bioactive compounds. The Hawaiian archipelago, located in the middle of the Pacific Ocean, hosts diverse microorganisms, including many endemic species. Thirty-eight microbial extracts from Hawaiian coastal waters were evaluated for their antiviral activity against four mammalian viruses including herpes simplex virus type one (HSV-1, vesicular stomatitis virus (VSV, vaccinia virus and poliovirus type one (poliovirus-1 using in vitro cell culture assay. Nine of the 38 microbial crude extracts showed antiviral potencies and three of these nine microbial extracts exhibited significant activity against the enveloped viruses. A secosteroid, 5α(H,17α(H,(20R-beta-acetoxyergost-8(14-ene was putatively identified and confirmed to be the active compound in these marine microbial extracts. These results warrant future in-depth tests on the isolation of these active elements in order to explore and validate their antiviral potential as important therapeutic remedies.

  18. Effect of salinity tolerant PDH45 transgenic rice on physicochemical properties, enzymatic activities and microbial communities of rhizosphere soils.

    Sahoo, Ranjan Kumar; Tuteja, Narendra

    2013-08-01

    The effect of genetically modified (GM) plants on environment is now major concern worldwide. The plant roots of rhizosphere soil interact with variety of bacteria which could be influenced by the transgene in GM plants. The antibiotic resistance genes in GM plants may be transferred to soil microbes. In this study we have examined the effect of overexpression of salinity tolerant pea DNA helicase 45 (PDH45) gene on microbes and enzymatic activities in the rhizosphere soil of transgenic rice IR64 in presence and absence of salt stress in two different rhizospheric soils (New Delhi and Odisha, India). The diversity of the microbial community and soil enzymes viz., dehydrogenase, alkaline phosphatase, urease and nitrate reductase was assessed. The results revealed that there was no significant effect of transgene expression on rhizosphere soil of the rice plants. The isolated bacteria were phenotyped both in absence and presence of salt and no significant changes were found in their phenotypic characters as well as in their population. Overall, the overexpression of PDH45 in rice did not cause detectable changes in the microbial population, soil enzymatic activities and functional diversity of the rhizosphere soil microbial community.

  19. 16S rRNA gene sequencing as a tool to study microbial populations in foods and process environments

    Buschhardt, Tasja; Hansen, Tina Beck; Bahl, Martin Iain

    2015-01-01

    Introduction: Methodological constraints during culturing and biochemical testing have left the true microbiological diversity of foods and process environments unexplored. Culture-independent molecular methods, such as 16S rRNA gene sequencing, may provide deeper insight into microbial communities...... and their role in food safety. During method optimization, we have identified several factors which distort the characterization of microbial populations, including DNA extraction methods, DNA polymerases, and most importantly the analyzed fragment of the 16S rRNA gene. Methods: This study investigated microbial...... communities in meat and the meat process environment with special focus on the Enterobacteriaceae family as a subpopulation comprising enteropathogens including Salmonella. Samples were analyzed by a nested PCR approach combined with MiSeq® Illumina®16S DNA sequencing and standardized culture methods as cross...

  20. 头孢噻肟污染条件下土壤呼吸、部分酶活性的短期响应及土壤细菌PCR-DGGE分析%Short-term response of soil microbial respiration, enzyme activities, bacteria population and PCR-DGGE profiles of bacterial communities to cefotaxime pollution

    姚振飞; 魏松林; 梅丽娟; 胡健

    2013-01-01

    采用常规土壤酶活力测定方法、平板菌落计数法以及PCR-DGGE技术,分析头孢噻肟污染对土壤呼吸作用、部分酶活性、细菌数量以及细菌多样性的短期影响.结果表明:①头孢噻肟明显刺激处理后1~14 d土壤呼吸强度,处理21d后刺激作用消失;头孢噻肟明显提高处理后1、18 d土壤脲酶活性,处理后3、7d抑制作用明显;不同浓度头孢噻肟处理初期,土壤过氧化氢酶活力均受到抑制,随着培养时间的延长抑制率下降,并且低、中浓度头孢噻肟处理分别在处理后3、7d开始表现出对过氧化氢酶一定程度的刺激作用.②培养1~3 d,各处理对土壤细菌数量具有一定的刺激作用,7d后中、高浓度处理对土壤细菌有一定抑制作用,而18 d后各浓度处理土壤细菌数量基本恢复到对照水平.③采用Quantity One 4.6(Bio-Rad)软件,对PCR-DGGE图谱中各处理1、18 d条带进行分析,发现头孢噻肟处理对样品可检测条带数没有影响,但对处理初期细菌优势种群丰度产生影响,此后逐渐恢复到对照水平.总之,头孢噻肟污染对供试土壤微生物活性、细菌数量以及优势种群的丰度具有不同程度的短期影响,但随着时间的延长,影响逐渐消失.%The short-term effect of cefotaxime at three dosage levels:low (LC,10 mg · kg-1),medium (MC,50 mg · kg-1) and high (HC,200 mg· kg-1) on the soil microbial respiration,enzyme activities,bacteria population and PCR-DGGE profiles of bacterial communities were studied by general measuring methods of soil respiraition and enzyme activity,plate culture count methods and PCR-DGGE techniques.Results showed that:① The soil microbial respiration was significantly stimulated by cefotaxime treated after 1 to 14 days but turned to the normal level 21 days after treatment.The soil urease activity was significantly stimulated by cefotaxine treated after 1 day and 18 days but significantly inhibited after 3 days and 7

  1. Response of aerobic granular sludge to the long-term presence to nanosilver in sequencing batch reactors: reactor performance, sludge property, microbial activity and community.

    Quan, Xiangchun; Cen, Yan; Lu, Fang; Gu, Lingyun; Ma, Jingyun

    2015-02-15

    The increasing use of silver nanoparticles (Ag NPs) raises concerns about their potential toxic effects on the environment. Granular shape sludge is a special type of microbial aggregate. The response of aerobic granular sludge (AGS) to the long-term presence of Ag NPs has not been well studied. In this study, AGS was exposed to 5 and 50mg/L Ag NPs in sequence batch reactors (SBRs) for 69 days, and its response was evaluated based on the sludge properties, microbial activity and community, and reactor performance. The results showed that Ag NPs caused inhibition to microbial activities of AGS from Day 35. At the end of 69 days of Ag NPs exposure, the microbial activity of AGS was significantly inhibited in terms of inhibitions of the ammonia oxidizing rate (33.0%), respiration rate (17.7% and 45.6%) and denitrification rate (6.8%), as well as decreases in the ammonia mono-oxygenase and nitrate reductase activities. During the long-term exposure, the AGS maintained its granular shape and large granule size (approximately 900 μm); the microbial community of AGS slightly changed, but the dominant microbial population remained. Overall, the AGS tolerated the toxicity of Ag NPs well, but a long-term exposure may produce chronic toxicity to the AGS, which is concerning.

  2. Microbial network for waste activated sludge cascade utilization in an integrated system of microbial electrolysis and anaerobic fermentation

    Liu, Wenzong; He, Zhangwei; Yang, Chunxue

    2016-01-01

    of interaction, which have not been sufficiently studied so far. It is therefore important to understand how choosing operational parameters can influence reactor performances. The current study highlights the interaction offermentative bacteria and exoelectrogens in the integrated system....... in an integrated system of microbial electrolysis cell (MEC) and anaerobic digestion (AD) for waste activated sludge (WAS). Microbial communities in integrated system would build a thorough energetic and metabolic interaction network regarding fermentation communities and electrode respiring communities...... investigated the interaction of fermentation communities and electrode respiring communities in an integrated system of WAS fermentation and MEC for hydrogen recovery. A high energy recovery was achieved in the MECs feeding WAS fermentation liquid through alkaline pretreatment. Some anaerobes belonging...

  3. Fermentation and microbial population dynamics during the ensiling of native grass and subsequent exposure to air.

    Zhang, Qing; Wu, Baiyila; Nishino, Naoki; Wang, Xianguo; Yu, Zhu

    2016-03-01

    To study the microbial population and fermentation dynamics of large needlegrass (LN) and Chinese leymus (CL) during ensiling and subsequent exposure to air, silages were sampled and analyzed using culture-based techniques and denaturing gradient gel electrophoresis (DGGE). A total of 112 lactic acid bacteria (LAB) strains were isolated and identified using the 16S rRNA sequencing method. Lactic acid was not detected in the first 20 days in LN silage and the pH decreased to 6.13 after 45 days of ensiling. The temperature of the LN silage increased after approximately 30 h of air exposure and the CL silage showed a slight temperature variation. Enterococcus spp. were mainly present in LN silage. The proportion of Lactobacillus brevis in CL silage increased after exposure to air. LN silage with a higher proportion of Enterococcus spp. and propionic acid concentration did not show higher fermentation quality or aerobic stability than CL silage, which had a higher concentration of acetic acid, butyric acid and increased proportion of L. brevis after exposure to air.

  4. Promoting Uranium Immobilization by the Activities of Microbial Phosphatases

    Robert J. Martinez; Melanie J. Beazley; Samuel M. Webb; Martial Taillefert (co-PI); and Patricia A. Sobecky

    2007-04-19

    The overall objective of this project is to examine the activity of nonspecific phosphohydrolases present in naturally occurring subsurface microorganisms for the purpose of promoting the immobilization of radionuclides through the production of uranium [U(VI)] phosphate precipitates. Specifically, we hypothesize that the precipitation of U(VI) phosphate minerals may be promoted through the microbial release and/or accumulation of PO4 3- as a means to detoxify radionuclides and heavy metals. An experimental approach was designed to determine the extent of phosphatase activity in bacteria previously isolated from contaminated subsurface soils collected at the ERSP Field Research Center (FRC) in Oak Ridge, TN. Screening of 135 metal resistant isolates for phosphatase activity indicated the majority (75 of 135) exhibited a phosphatase-positive phenotype. During this phase of the project, a PCR based approach has also been designed to assay FRC isolates for the presence of one or more classes of the characterized non-specific acid phophastase (NSAP) genes likely to be involved in promoting U(VI) precipitation. Testing of a subset of Pb resistant (Pbr) Arthrobacter, Bacillus and Rahnella strains indicated 4 of the 9 Pbr isolates exhibited phosphatase phenotypes suggestive of the ability to bioprecipitate U(VI). Two FRC strains, a Rahnella sp. strain Y9602 and a Bacillus sp. strain Y9-2, were further characterized. The Rahnella sp. exhibited enhanced phosphatase activity relative to the Bacillus sp. Whole-cell enzyme assays identified a pH optimum of 5.5, and inorganic phosphate accumulated in pH 5.5 synthetic groundwater (designed to mimic FRC conditions) incubations of both strains in the presence of a model organophosphorus substrate provided as the sole C and P source. Kinetic experiments showed that these two organisms can grow in the presence of 200 μM dissolved uranium and that Rahnella is much more efficient in precipitating U(VI) than Bacillus sp. The

  5. Spatial Variations of Soil Microbial Activities in Saline Groundwater-Irrigated Soil Ecosystem.

    Chen, Li-Juan; Feng, Qi; Li, Chang-Sheng; Song, You-Xi; Liu, Wei; Si, Jian-Hua; Zhang, Bao-Gui

    2016-05-01

    Spatial variations of soil microbial activities and its relationship with environmental factors are very important for estimating regional soil ecosystem function. Based on field samplings in a typical saline groundwater-irrigated region, spatial variations of soil microbial metabolic activities were investigated. Combined with groundwater quality analysis, the relationship between microbial activities and water salinity was also studied. The results demonstrated that moderate spatial heterogeneity of soil microbial activities presented under the total dissolved solids (TDS) of groundwater ranging from 0.23 to 12.24 g L(-1). Groundwater salinity and microbial activities had almost opposite distribution characteristics: slight saline water was mainly distributed in west Baqu and south Quanshan, while severe saline and briny water were dominant in east Baqu and west Huqu; however, total AWCD was higher in the east-center and southwest of Baqu and east Huqu, while it was lower in east Baqu and northwest Huqu. The results of correlation analyses demonstrated that high-salinity groundwater irrigation had significantly adverse effects on soil microbial activities. Major ions Ca(2+), Mg(2+), Cl(-), and SO4(2-) in groundwater decisively influenced the results. Three carbon sources, carbohydrates, amines, and phenols, which had minor utilization rates in all irrigation districts, were extremely significantly affected by high-salinity groundwater irrigation. The results presented here offer an approach for diagnosing regional soil ecosystem function changes under saline water irrigation.

  6. Microbial community changes along the active seepage site of one cold seep in the Red Sea.

    Cao, Huiluo

    2015-07-21

    The active seepage of the marine cold seeps could be a critical process for the exchange of energy between the submerged geosphere and the sea floor environment through organic-rich fluids, potentially even affecting surrounding microbial habitats. However, few studies have investigated the associated microbial community changes. In the present study, 16S rRNA genes were pyrosequenced to decipher changes in the microbial communities from the Thuwal seepage point in the Red Sea to nearby marine sediments in the brine pool, normal marine sediments and water, and benthic microbial mats. An unexpected number of reads from unclassified groups were detected in these habitats; however, the ecological functions of these groups remain unresolved. Furthermore, ammonia-oxidizing archaeal community structures were investigated using the ammonia monooxygenase subunit A (amoA) gene. Analysis of amoA showed that planktonic marine habitats, including seeps and marine water, hosted archaeal ammonia oxidizers that differed from those in microbial mats and marine sediments, suggesting modifications of the ammonia oxidizing archaeal (AOA) communities along the environmental gradient from active seepage sites to peripheral areas. Changes in the microbial community structure of AOA in different habitats (water vs. sediment) potentially correlated with changes in salinity and oxygen concentrations. Overall, the present results revealed for the first time unanticipated novel microbial groups and changes in the ammonia-oxidizing archaea in response to environmental gradients near the active seepages of a cold seep.

  7. Microbial community changes along the active seepage site of one cold seep in the Red Sea

    Huiluo eCao

    2015-07-01

    Full Text Available The active seepage of the marine cold seeps could be a critical process for the exchange of energy between the submerged geosphere and the sea floor environment through organic-rich fluids, potentially even affecting surrounding microbial habitats. However, few studies have investigated the associated microbial community changes. In the present study, 16S rRNA genes were pyrosequenced to decipher changes in the microbial communities from the Thuwal seepage point in the Red Sea to nearby marine sediments in the brine pool, normal marine sediments and water, and benthic microbial mats. An unexpected number of reads from unclassified groups were detected in these habitats; however, the ecological functions of these groups remain unresolved. Furthermore, ammonia-oxidizing archaeal community structures were investigated using the ammonia monooxygenase subunit A (amoA gene. Analysis of amoA showed that planktonic marine habitats, including seeps and marine water, hosted archaeal ammonia oxidizers that differed from those in microbial mats and marine sediments, suggesting modifications of the ammonia oxidizing archaeal communities along the environmental gradient from active seepage sites to peripheral areas. Changes in the microbial community structure of ammonia oxidizing archaea in different habitats (water versus sediment potentially correlated with changes in salinity and oxygen concentrations. Overall, the present results revealed for the first time unanticipated novel microbial groups and changes in the ammonia-oxidizing archaea in response to environmental gradients near the active seepages of a cold seep.

  8. Microbial community changes along the active seepage site of one cold seep in the Red Sea.

    Cao, Huiluo; Zhang, Weipeng; Wang, Yong; Qian, Pei-Yuan

    2015-01-01

    The active seepage of the marine cold seeps could be a critical process for the exchange of energy between the submerged geosphere and the sea floor environment through organic-rich fluids, potentially even affecting surrounding microbial habitats. However, few studies have investigated the associated microbial community changes. In the present study, 16S rRNA genes were pyrosequenced to decipher changes in the microbial communities from the Thuwal seepage point in the Red Sea to nearby marine sediments in the brine pool, normal marine sediments and water, and benthic microbial mats. An unexpected number of reads from unclassified groups were detected in these habitats; however, the ecological functions of these groups remain unresolved. Furthermore, ammonia-oxidizing archaeal community structures were investigated using the ammonia monooxygenase subunit A (amoA) gene. Analysis of amoA showed that planktonic marine habitats, including seeps and marine water, hosted archaeal ammonia oxidizers that differed from those in microbial mats and marine sediments, suggesting modifications of the ammonia oxidizing archaeal (AOA) communities along the environmental gradient from active seepage sites to peripheral areas. Changes in the microbial community structure of AOA in different habitats (water vs. sediment) potentially correlated with changes in salinity and oxygen concentrations. Overall, the present results revealed for the first time unanticipated novel microbial groups and changes in the ammonia-oxidizing archaea in response to environmental gradients near the active seepages of a cold seep.

  9. Association of microbial community composition and activity with lead, chromium, and hydrocarbon contamination.

    Shi, W; Becker, J; Bischoff, M; Turco, R F; Konopka, A E

    2002-08-01

    Microbial community composition and activity were characterized in soil contaminated with lead (Pb), chromium (Cr), and hydrocarbons. Contaminant levels were very heterogeneous and ranged from 50 to 16,700 mg of total petroleum hydrocarbons (TPH) kg of soil(-1), 3 to 3,300 mg of total Cr kg of soil(-1), and 1 to 17,100 mg of Pb kg of soil(-1). Microbial community compositions were estimated from the patterns of phospholipid fatty acids (PLFA); these were considerably different among the 14 soil samples. Statistical analyses suggested that the variation in PLFA was more correlated with soil hydrocarbons than with the levels of Cr and Pb. The metal sensitivity of the microbial community was determined by extracting bacteria from soil and measuring [(3)H]leucine incorporation as a function of metal concentration. Six soil samples collected in the spring of 1999 had IC(50) values (the heavy metal concentrations giving 50% reduction of microbial activity) of approximately 2.5 mM for CrO(4)2- and 0.01 mM for Pb2+. Much higher levels of Pb were required to inhibit [14C]glucose mineralization directly in soils. In microcosm experiments with these samples, microbial biomass and the ratio of microbial biomass to soil organic C were not correlated with the concentrations of hydrocarbons and heavy metals. However, microbial C respiration in samples with a higher level of hydrocarbons differed from the other soils no matter whether complex organic C (alfalfa) was added or not. The ratios of microbial C respiration to microbial biomass differed significantly among the soil samples (P < 0.05) and were relatively high in soils contaminated with hydrocarbons or heavy metals. Our results suggest that the soil microbial community was predominantly affected by hydrocarbons.

  10. Production of microbial glycolipid biosurfactants and their antimicrobial activity

    Microbial glycolipids produced by bacteria or yeast as secondary metabolites, such as sophorolipids (SLs), rhamnolipids (RLs) and mannosylerythritol lipids (MELs) are “green” biosurfactants desirable in a bioeconomy. High cost of production is a major hurdle toward widespread commercial use of bios...

  11. Microbial dynamics and enzyme activities in tropical Andosols depending on land use and nutrient inputs

    Mganga, Kevin; Razavi, Bahar; Kuzyakov, Yakov

    2015-04-01

    Microbial decomposition of soil organic matter is mediated by enzymes and is a key source of terrestrial CO2 emissions. Microbial and enzyme activities are necessary to understand soil biochemical functioning and identify changes in soil quality. However, little is known about land use and nutrients availability effects on enzyme activities and microbial processes, especially in tropical soils of Africa. This study was conducted to examine how microbial and enzyme activities differ between different land uses and nutrient availability. As Andosols of Mt. Kilimanjaro are limited by nutrient concentrations, we hypothesize that N and P additions will stimulate enzyme activity. N and P were added to soil samples (0-20 cm) representing common land use types in East Africa: (1) savannah, (2) maize fields, (3) lower montane forest, (4) coffee plantation, (5) grasslands and (6) traditional Chagga homegardens. Total CO2 efflux from soil, microbial biomass and activities of β-glucosidase, cellobiohydrolase, chitinase and phosphatase involved in C, N and P cycling, respectively was monitored for 60 days. Total CO2 production, microbial biomass and enzyme activities varied in the order forest soils > grassland soils > arable soils. Increased β-glucosidase and cellobiohydrolase activities after N addition of grassland soils suggest that microorganisms increased N uptake and utilization to produce C-acquiring enzymes. Low N concentration in all soils inhibited chitinase activity. Depending on land use, N and P addition had an inhibitory or neutral effect on phosphatase activity. We attribute this to the high P retention of Andosols and low impact of N and P on the labile P fractions. Enhanced CO2 production after P addition suggests that increased P availability could stimulate soil organic matter biodegradation in Andosols. In conclusion, land use and nutrients influenced soil enzyme activities and microbial dynamics and demonstrated the decline in soil quality after landuse

  12. EFFECT OF CARBON AVAILABILITY ON MICROBIAL ACTIVITIES IN Calamagrostis angustifolia SOIL

    XU Xiao-Feng; SONG Chang-Chun; SONG Xia; YANG Huai-Hui

    2004-01-01

    Carbon availability varies very much along soil profile and decreases from topsoil to subsoil. The effect of carbon availability index (CAI) on microbial activities in Calamagrostis angustifolia soil in the Sanjiang Plain in the Northeast China was measured. Based on the proposal about CAI and microbial respiration from Parkinson and Coleman (1999), the results showed that carbon availability limits the microbial activities in topsoil, root layer soil and subsoil initially, whereas it does not limit the microbial activity after 1.5 h incubation for recovery from the disturbance in physical, chemical and biology structure resulting from sampling, then after 5h incubation carbon availability limits mi-crobial activity again after the labile carbon was mineralized. At the same time the soil organic matter affects the carbon availability significantly when it is lower than 10%, but little when the soil organic matter is higher than 10%. The microbial biomass carbon is linearly related to carbon availability in the Calamagrostis angustifolia soil. When the CAI is lower than 0.85, the β-glucosidase activity increases along with CAI, but decreases when CAI is larger than 0.85.

  13. Long-term effects of nickel oxide nanoparticles on performance, microbial enzymatic activity, and microbial community of a sequencing batch reactor.

    Wang, Sen; Li, Zhiwei; Gao, Mengchun; She, Zonglian; Guo, Liang; Zheng, Dong; Zhao, Yangguo; Ma, Bingrui; Gao, Feng; Wang, Xuejiao

    2017-02-01

    The nitrogen and phosphorus removal, microbial enzymatic activity, and microbial community of a sequencing batch reactor (SBR) were evaluated under long-term exposure to nickel oxide nanoparticles (NiO NPs). High NiO NP concentration (over 5 mg L(-1)) affected the removal of chemical oxygen demand, nitrogen, and phosphorus. The presence of NiO NP inhibited the microbial enzymatic activities and reduced the nitrogen and phosphorus removal rates of activated sludge. The microbial enzymatic activities of the activated sludge showed a similar variation trend to the nitrogen and phosphorus removal rates with the increase in NiO NP concentration from 0 to 60 mg L(-1). The Ni content in the effluent and activated sludge showed an increasing trend with the increase in NiO NP concentration. Some NiO NPs were absorbed on the sludge surface or penetrate the cell membrane into the interior of microbial cells in the activated sludge. NiO NP facilitated the increase in reactive oxygen species by disturbing the balance between the oxidation and anti-oxidation processes, and the variation in lactate dehydrogenase demonstrated that NiO NP could destroy the cytomembrane and cause variations in the microbial morphology and physiological function. High-throughput sequencing demonstrated that the microbial community of SBR had some obvious changes at 0-60 mg L(-1) NiO NPs at the phyla, class and genus levels.

  14. Effects of Neutral Detergent Soluble Fiber and Sucrose Supplementation on Ruminal Fermentation, Microbial Synthesis, and Populations of Ruminal Cellulolytic Bacteria Using the Rumen Simulation Technique (RUSITEC)

    ZHAO Xiang-hui; LIU Chan-juan; LI Chao-yun; YAO Jun-hu

    2013-01-01

    We evaluated the effects of neutral detergent soluble fiber (NDSF) and sucrose supplementation on ruminal fermentation, microbial synthesis, and populations of ruminal cellulolytic bacteria using the rumen simulation technique (RUSITEC). The experiment had a 2×2 factorial design with two dosages of sucrose, low (ca. 0.26 g d-1, low-sucrose) and high (ca. 1.01 g d-1, high-sucrose), and two dosages of supplied NDSF, low (1.95 g d-1, low-NDSF) and high (2.70 g d-1, high-NDSF). Interactions between NDSF and sucrose were detected for xylanase activity from solid fraction and apparent disappearance of neutral detergent fiber (NDF) and hemicellulose, with the lowest values observed for high-NDSF and high-sucrose treatment. Supplemental NDSF appeared to increase the molar proportion of acetate and reduce that of butyrate;however, the effects of supplemental sucrose on VFA profiles depended upon NDSF amount. There was a NDSF×sucrose interaction for the production of methane. High-NDSF fermenters had lower ammonia-N production, greater daily N flow of solid-associated microbial pellets and total microorganisms, and greater microbial synthesis efficiency compared with low-NDSF fermenters. Supplementation with NDSF resulted in an increase in 16S rDNA copies of Ruminococcus flavefaciens and a reduction in copies of Ruminococcus albus. Supplementation with sucrose tended to increase the 16S rDNA copies of R. albus from liquid fraction, but did not affect daily total microbial N flow and cellulolytic bacterium populations from solid fraction. These data indicate that the effects of the interaction between NDSF and sugars on ruminal fermentation and fiber digestion should be taken into account in diet formulation. Ruminal fermentation and metabolism of sugars warrant further investigation.

  15. Microbiota contaminante em repolho minimamente processado Microbial population in minimally processed cabbage

    Elisabete Fantuzzi

    2004-06-01

    Full Text Available A microbiota contaminante de repolho minimamente processado foi avaliada durante as etapas de sanitização e estocagem sob atmosfera modificada passiva em embalagens com diferentes taxas de permeabilidade a O2 e CO2 e a 1ºC, 5ºC e 12ºC. A sanitização do repolho por 10min., à temperatura ambiente, em soluções sanitizantes de hipoclorito de sódio a 200mgL-1, de composto orgânico clorado a 200mgL-1 ou ácido acético a 1% reduziu em, no máximo, 1,8log10 UFCg-1 a população de microrganismos aeróbios mesófilos. A concentração de CO2 no interior das embalagens variou significativamente (PThe microbial populations associated with minimally processed cabbage after sanitation and storage at 1ºC, 5ºC and 12ºC under modified atmosphere was analyzed. Sanitation of cabbage for ten minutes at room temperature in 200mgL-1 sodium hypochlorite and chlorinated organic compound or 1% acetic acid resulted in the reduction of up to 1.8log10CFUg-1 in the aerobic mesophilic bacteria population (P0.05 differences in concentrations of CO2 were found in the interior of the packages during fifteen days of storage. No variation was found in the mesophilic aerobic or anaerobic counts, and psycrotrophic microorganisms during storage at 1ºC and 5ºC for the three packaging materials used. The minimally processed cabbage was in good sensorial conditions for up to 20 days of storage at 1ºC and 5ºC in the packaging materials of high O2 permeability. The samples packed in transparent plastic trays sealed with thermal-shrinking PVC presented undesirable sensorial characteristics on the twentieth day of storage at 5ºC. After five days of storage at 12ºC the fresh-cut cabbage presented evident signs of deterioration, as dark spots, slime and off odor. There was a 3log10 CFUg-1 increase in the aerobic and anaerobic mesophiles and psycrotrophic populations in these samples.

  16. Diversity and evolution of the microbial populations during manufacture and ripening of Casín, a traditional Spanish, starter-free cheese made from cow's milk

    Alegría, Ángel; Álvarez Martín, Pablo; Sacristán, Noelia; Fernández, Elena; Delgado, Susana; Mayo Pérez, Baltasar

    2009-01-01

    Classical culturing and denaturing gradient gel electrophoresis (DGGE) techniques have been used for studying the microbial diversity and dynamics of the traditional Spanish Casín cheese during manufacturing and ripening. As with other starter-free cheeses made from raw milk, the microbial diversity of Casín was shown to be high by both culturing and DGGE analyses. The culture technique showed that lactic acid bacteria (LAB) species constituted the majority of the microbial populations. Of th...

  17. Microbial Activity Indices: Sensitive Soil Quality Indicators for Trace Metal Stress

    LI Yong-Tao; T.BECQUER; C.QUANTIN; M.BENEDETTI; P.LAVELLE; DAI Jun

    2005-01-01

    Physicochemical properties, total and DTPA (diethylenetriaminepentaacetic acid)-extractable Cu, Zn, Pb and Cd contents, microbial biomass carbon (C) content and the organic C mineralization rate of the soils in a long-term trace metal-contaminated paddy region of Guangdong, China were determined to assess the sensitivity of microbial indices to moderately metal-contaminated paddy soils. The mean contents of total Cu, Zn, Pb and Cd were 251,250, 171, and 2.4mg kg-1 respectively. DTPA-extractable metals were correlated positively and significantly with total metals, CEC, and organic C (except for DTPA-extractable Cd), while they were negatively and highly significantly correlated with pH, total Fe and Mn. Metal stress resulted in relatively low ratios of microbial biomass C to organic C and in remarkable inhibition of the microbial metabolic quotient and C mineralization rate, which eventually led to increases in soil organic C and C/N. Moreover, microbial respiratory activity showed a stronger correlation to DTPA-extractable metals than to total metal content. Likewise, in the acid paddy soils some "linked" microbial activity indices, such as metabolic quotient and ratios of basal respiration to organic C, especially during initial incubation, were found to be more sensitive indicators of soil trace metal contamination than microbial biomass C or basal respiration alone.

  18. Extracellular Enzyme Activity assay as indicator of soil microbial functional diversity and activity

    Hendriksen, Niels Bohse; Winding, Anne

    2012-01-01

    Extracellular Enzyme Activity assay as indicator of soil microbial functional diversity and activity Niels Bohse Hendriksen, Anne Winding. Department of Environmental Science, Aarhus University, 4000 Roskilde, Denmark Soil enzymes originate from a variety of organisms, notably fungi and bacteria...... and especially hydrolytic extracellular enzymes are of pivotal importance for decomposition of organic substrates and biogeochemical cycling. Their activity reflects the functional diversity and activity of the microorganisms involved in decomposition processes which are essential processes for soil functioning......, experimental conditions of extraction of enzymes from soils, buffer and pH, substrate concentration, temperature and the necessary controls were optimized and standardized. This has resulted in an optimized standard operating procedure of EEA, which are being tested as an indicator of soil functional diversity...

  19. Comparison of fermentation of diets of variable composition and microbial populations in the rumen of sheep and Rusitec fermenters. I. Digestibility, fermentation parameters, and microbial growth.

    Martínez, M E; Ranilla, M J; Tejido, M L; Ramos, S; Carro, M D

    2010-08-01

    Four ruminally and duodenally cannulated sheep and 8 Rusitec fermenters were used to determine the effects of forage to concentrate (F:C) ratio and type of forage in the diet on ruminal fermentation and microbial protein synthesis. The purpose of the study was to assess how closely fermenters can mimic the dietary differences found in vivo. The 4 experimental diets contained F:C ratios of 70:30 or 30:70 with either alfalfa hay or grass hay as the forage. Microbial growth was determined in both systems using (15)N as a microbial marker. Rusitec fermenters detected differences between diets similar to those observed in sheep by changing F:C ratio on pH; neutral detergent fiber digestibility; total volatile fatty acid concentrations; molar proportions of acetate, propionate, butyrate, isovalerate, and caproate; and amylase activity. In contrast, Rusitec fermenters did not reproduce the dietary differences found in sheep for NH(3)-N and lactate concentrations, dry matter (DM) digestibility, proportions of isobutyrate and valerate, carboxymethylcellulase and xylanase activities, and microbial growth and its efficiency. Regarding the effect of the type of forage in the diet, Rusitec fermenters detected differences between diets similar to those found in sheep for most determined parameters, with the exception of pH, DM digestibility, butyrate proportion, and carboxymethylcellulase activity. Minimum pH and maximal volatile fatty acid concentrations were reached at 2h and at 6 to 8h postfeeding in sheep and fermenters, respectively, indicating that feed fermentation was slower in fermenters compared with that in sheep. There were differences between systems in the magnitude of most determined parameters. In general, fermenters showed lower lactate concentrations, neutral detergent fiber digestibility, acetate:propionate ratios, and enzymatic activities. On the contrary, fermenters showed greater NH(3)-N concentrations, DM digestibility, and proportions of propionate

  20. [Soil microbial activity variation after land use changes in savannah, Llanos Orientales, Venezuela].

    Gómez, Yrma; Paolini, Jorge

    2011-03-01

    In West plains of Venezuela, the traditional land use of the Trachypogon savannah, has been the extensive grazing. The pressure over these savannahs to obtain a major animal productivity has stimulated the introduction of exotic forage plants, such as Brachiaria brizantha and Andropogon gayanus. In spite that great savannah extensions have been subject to this land use change, information about the effect that pastures and grazing activity have on microbial activity in these soils is scarce. So the objective of this study was to determine the impact that the extensive grazing and cover substitution have on microbial activity. The soil sampling was carried out during the dry and rainy seasons. The employed parameters to determine changes in soil microbial activity were the substrate induced respiration (SIR), basal respiration (BR), the dehydrogenase activity (DHS), the fluorescein diacetate hydrolysis (FDA) and the arginene ammonification (AA). The similarity of the structural soil characteristics studied allows us to infer, that the differences in the microbiological parameters are determined by climatic conditions and soil management. The results show that there is a low microbial activity in these soils. The rainy season caused an increase in all the microbiological parameters determined. B. brizantha made a greater contribution to soil carbon and promoted a greater heterotrophic activity. The extensive grazing and the low stocking rate in the West plain savannas did not affect the microbial activity in these soils.

  1. Effect of dry mycelium of Penicillium chrysogenum fertilizer on soil microbial community composition, enzyme activities and snap bean growth.

    Wang, Bing; Liu, Huiling; Cai, Chen; Thabit, Mohamed; Wang, Pu; Li, Guomin; Duan, Ziheng

    2016-10-01

    The dry mycelium fertilizer (DMF) was produced from penicillin fermentation fungi mycelium (PFFM) following an acid-heating pretreatment to degrade the residual penicillin. In this study, it was applied into soil as fertilizer to investigate its effects on soil properties, phytotoxicity, microbial community composition, enzyme activities, and growth of snap bean in greenhouse. As the results show, pH, total nitrogen, total phosphorus, total potassium, and organic matter of soil with DMF treatments were generally higher than CON treatment. In addition, the applied DMF did not cause heavy metal and residual drug pollution of the modified soil. The lowest GI values (microbial population and enzyme activities illustrated that DMF was rapidly decomposed and the decomposition process significantly affected microbial growth and enzyme activities. The DMF-modified soil phytotoxicity decreased at the late fertilization time. DMF1 was considered as the optimum amount of DMF dose based on principal component analysis scores. Plant height and plant yield of snap bean were remarkably enhanced with the optimum DMF dose.

  2. Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations.

    Wu, Xiaofen; Holmfeldt, Karin; Hubalek, Valerie; Lundin, Daniel; Åström, Mats; Bertilsson, Stefan; Dopson, Mark

    2016-05-01

    Microorganisms in the terrestrial deep biosphere host up to 20% of the earth's biomass and are suggested to be sustained by the gases hydrogen and carbon dioxide. A metagenome analysis of three deep subsurface water types of contrasting age (from 86% coverage. The populations were dominated by Proteobacteria, Candidate divisions, unclassified archaea and unclassified bacteria. The estimated genome sizes of the biosphere. The data were finally used to create a combined metabolic model of the deep terrestrial biosphere microbial community.

  3. Microbial activity of soil cultivated with corn in association with weeds under different fertility management systems

    Christiane Melo

    2014-12-01

    Full Text Available Interactions between weeds and soil microorganisms can give them a competitive advantage over crops. This study assessed the biomass and microbial activity of soil cultivated with weeds and corn (Zea mays L. in monoculture and in competition under different fertility management systems. The experiment considered four soil fertility management systems (calcium and magnesium silicate + fertilization; limestone + fertilization; no correction source + fertilization; no correction source + no fertilization and 12 crops (five competition arrangements between corn and weeds Urochloa brizantha (Hochst. ex A. Rich. R.D. Webster, lpomoea grandifolia (Dammer O'Donell, Conyza canadensis (L. Cronquist, Hyptis suaveolens (L. Poit., and Bidens pilosa L. plus the six species in monoculture and bare soil. After 60 d coexisting in a greenhouse, soil samples were collected to determine microbial biomass, respiration rate, and metabolic quotient. Soils cultivated with B. pilosa and Z. mays+U. brizantha showed higher microbial biomass. Cultivation of B. pilosa and Z. mays+H. suaveolens provided greater energy efficiency to maintain microbial cells. Biomass and microbial activity were altered by plant species, coexistence, and soil fertility management. Calcium and magnesium silicate, as well as limestone similarly influenced biomass and respiration rate of soil cultivated with most species. For some crops, the Si source was better than limestone to promote lower specific activity of the edaphic microbiota. The change in the microbial activity of soil can be a strategy used by the species to minimize the effects of competition.

  4. Metaproteomics: extracting and mining proteome information to characterize metabolic activities in microbial communities.

    Abraham, Paul E; Giannone, Richard J; Xiong, Weili; Hettich, Robert L

    2014-06-17

    Contemporary microbial ecology studies usually employ one or more "omics" approaches to investigate the structure and function of microbial communities. Among these, metaproteomics aims to characterize the metabolic activities of the microbial membership, providing a direct link between the genetic potential and functional metabolism. The successful deployment of metaproteomics research depends on the integration of high-quality experimental and bioinformatic techniques for uncovering the metabolic activities of a microbial community in a way that is complementary to other "meta-omic" approaches. The essential, quality-defining informatics steps in metaproteomics investigations are: (1) construction of the metagenome, (2) functional annotation of predicted protein-coding genes, (3) protein database searching, (4) protein inference, and (5) extraction of metabolic information. In this article, we provide an overview of current bioinformatic approaches and software implementations in metaproteome studies in order to highlight the key considerations needed for successful implementation of this powerful community-biology tool.

  5. Metaproteomics: extracting and mining proteome information to characterize metabolic activities in microbial communities

    Abraham, Paul E [ORNL; Giannone, Richard J [ORNL; Xiong, Weili [ORNL; Hettich, Robert {Bob} L [ORNL

    2014-01-01

    Contemporary microbial ecology studies usually employ one or more omics approaches to investigate the structure and function of microbial communities. Among these, metaproteomics aims to characterize the metabolic activities of the microbial membership, providing a direct link between the genetic potential and functional metabolism. The successful deployment of metaproteomics research depends on the integration of high-quality experimental and bioinformatic techniques for uncovering the metabolic activities of a microbial community in a way that is complementary to other meta-omic approaches. The essential, quality-defining informatics steps in metaproteomics investigations are: (1) construction of the metagenome, (2) functional annotation of predicted protein-coding genes, (3) protein database searching, (4) protein inference, and (5) extraction of metabolic information. In this article, we provide an overview of current bioinformatic approaches and software implementations in metaproteome studies in order to highlight the key considerations needed for successful implementation of this powerful community-biology tool.

  6. Biomineral formation as a biosignature for microbial activities Precambrian cherts

    Rincón Tomás, Blanca; Mühlen, Dominik; Hoppert, Michael; Reitner, Joachim

    2015-04-01

    In recent anoxic sediments manganese(II)carbonate minerals (e.g., rhodochrosite, kutnohorite) derive mainly from the reduction of manganese(IV) compounds by microbial anaerobic respiration. Small particles of rhodochrosite in stromatolite-like features in the Dresser chert Fm (Pilbara supergroup, W-Australia), associated with small flakes of kerogen, account for biogenic formation of the mineral in this early Archaean setting. Contrastingly, the formation of huge manganese-rich (carbonate) deposits requires effective manganese redox cycling, also conducted by various microbial processes, mainly requiring conditions of the early and late Proterozoic (Kirschvink et al., 2000; Nealson and Saffrani 1994). However, putative anaerobic pathways like microbial nitrate-dependent manganese oxidation (Hulth et al., 1999), anoxygenic photosynthesis (Johnson et al., 2013) and oxidation in UV light may facilitate manganese cycling even in a reducing atmosphere. Thus manganese redox cycling might have been possible even before the onset of oxygenic photosynthesis. Hence, there are several ways how manganese carbonates could have been formed biogenically and deposited in Precambrian sediments. Thus, the minerals may be suitable biosignatures for microbial redox processes in many respects. The hyperthermophilic archaeon Pyrobaculum islandicum produces rhodochrosite during growth on hydrogen and organic compounds and may be a putative model organism for the reduction of Mn(IV). References Hulth S, Aller RC, Gilbert F. (1999) Geochim Cosmochim Acta, 63, 49-66. Johnson JE, Webb SM, Thomas K, Ono S, Kirschvink JL, Fischer WW. (2013) Proc Natl Acad Sci USA, 110, 11238-11243. Kirschvink JL, Gaidos EJ, Bertani LE, Beukes NJ, Gutzmer J, Maepa LN, Steinberger LE. (2000) Proc Natl Acad Sci USA, 97, 1400-1405. Nealson KH, Saffarini D. (1994). Annu Rev Microbiol, 48, 311-343.

  7. In vitro anticancer activity of microbial isolates from diverse habitats

    Angel Treasa Thomas

    2011-06-01

    Full Text Available Extracts from natural products, especially microorganisms, have served as a valuable source of diverse molecules in many drug discovery efforts and led to the discovery of several important drugs. Identification of microbial strains having promising biological activities and purifying the bio-molecules responsible for the activities, have led to the discovery of many bioactive molecules. Extracellular, as well as intracellular, extracts of the metabolites of thirty-six bacterial and twenty-four fungal isolates, grown under unusual conditions such as high temperature, high salt and low sugar concentrations, were in vitro tested for their cytotoxic potential on various cancer cell lines. The extracts were screened on HeLa and MCF-7 cell lines to study the cytotoxic potential. Nuclear staining and flow cytometric studies were carried out to assess the potential of the extracts in arresting the cell cycle. The crude ethylacetate extract of isolate F-21 showed promising results by MTT assay with IC50 as low as 20.37±0.36 µg/mL on HeLa, and 44.75±0.81 µg/mL on MCF-7 cells, comparable with Cisplatin. The isolate F-21 was identified as Aspergillus sp. Promising results were also obtained with B-2C and B-4E strains. Morphological studies, biochemical tests and preliminary chemical investigation of the extracts were also carried out.Extratos de produtos naturais, especialmente de microrganismos, constituíram-se em fonte valiosa de diversas moléculas em muitas descobertas de fármacos e levaram à descoberta de fármacos importantes. A identificação de espécies microbianas que apresentam atividade biológica e a purificação de biomoléculas responsáveis pelas atividades levou à descoberta de muitas moléculas bioativas. Extratos extracelulares tanto quanto intracelulares de metabólitos de 36 isolados de bactérias e 24 isolados de fungos, que cresceram sob condições não usuais, como alta temperatura, alta concentração de sal e baixa

  8. The chemical composition, fermentation profile, and microbial populations in tropical grass silages

    João Paulo Sampaio Rigueira

    2013-09-01

    Full Text Available The objective of this study was to evaluate the fermentation profile, chemical composition and microbial population and losses in the silages of signalgrass and Mombasa grass fertilized with the following levels of nitrogen (N: 0, 30, 60 and 90 kg/ha. The grasses were harvested at 70 days of regrowth, chopped and then ensiled in laboratory silos that had 20 kg of capacity and a snap-top cover and were fitted with Bunsen valves. Before ensiling, samples of the plants were used for the isolation and identification of lactic acid bacteria (LAB in epiphytic microbiota. The design adopted was a 4 × 2 factorial arrangement, with four doses of N and two forage species, in a completely randomized design, with four replicates. The predominant species of LAB was Lactobacillus fermentum. The interaction between the N dose and forage species affected the dry matter (DM, crude protein (CP, neutral detergent fiber (NDF, acid detergent fiber (ADF and water soluble carbohydrates (WSC of the silages. The pH values and gas losses were influenced only by the forage species, with higher values for the Mombasa grass. For the ammonia (NH3-N levels and effluent losses, there was an effect of the interaction between the forage species and N doses, and the highest values of NH3-N and effluent losses were found in the Mombasa grass silage fertilized with 60 kg N/ha. Nitrogen fertilization reduces the levels of DM and WSC in the silages and also increases the levels of CP, NH3-N and effluent losses.

  9. Microbial activity in forest soil reflects the changes in ecosystem properties between summer and winter.

    Žifčáková, Lucia; Větrovský, Tomáš; Howe, Adina; Baldrian, Petr

    2016-01-01

    Understanding the ecology of coniferous forests is very important because these environments represent globally largest carbon sinks. Metatranscriptomics, microbial community and enzyme analyses were combined to describe the detailed role of microbial taxa in the functioning of the Picea abies-dominated coniferous forest soil in two contrasting seasons. These seasons were the summer, representing the peak of plant photosynthetic activity, and late winter, after an extended period with no photosynthate input. The results show that microbial communities were characterized by a high activity of fungi especially in litter where their contribution to microbial transcription was over 50%. Differences in abundance between summer and winter were recorded for 26-33% of bacterial genera and soil than in litter. Most importantly, fungal contribution to total microbial transcription in soil decreased from 33% in summer to 16% in winter. In particular, the activity of the abundant ectomycorrhizal fungi was reduced in winter, which indicates that plant photosynthetic production was likely one of the major drivers of changes in the functioning of microbial communities in this coniferous forest.

  10. On the use of antibiotics to reduce rhizoplane microbial populations in root physiology and ecology investigations

    Smart, D. R.; Ferro, A.; Ritchie, K.; Bugbee, B. G.

    1995-01-01

    No straightforward method exists for separating the proportion of ion exchange and respiration due to rhizoplane microbial organisms from that of root ion exchange and respiration. We examined several antibiotics that might be used for the temporary elimination of rhizoplane bacteria from hydroponically grown wheat roots (Triticum aestivum cv. Veery 10). Each antibiotic was tested for herbicidal activity and plate counts were used to enumerate bacteria and evaluate antibiotic kinetics. Only lactam antibiotics (penicillins and cephalosporins) did not reduce wheat growth rates. Aminoglycosides, the pyrimidine trimethoprim, colistin and rifampicin reduced growth rates substantially. Antibiotics acted slowly, with maximum reductions in rhizoplane bacteria occurring after more than 48 h of exposure. Combinations of nonphytotoxic antibiotics reduced platable rhizoplane bacteria by as much as 98%; however, this was generally a reduction from about 10(9) to 10(6) colony forming units per gram of dry root mass, so that many viable bacteria remained on root surfaces. We present evidence which suggests that insufficient bacterial biomass exists on root surfaces of nonstressed plants grown under well-aerated conditions to quantitatively interfere with root nitrogen absorption measurements.

  11. Submersible microbial fuel cell sensor for monitoring microbial activity and BOD in groundwater: Focusing on impact of anodic biofilm on sensor applicability

    Zhang, Yifeng; Angelidaki, Irini

    2011-01-01

    A sensor, based on a submersible microbial fuel cell (SUMFC), was developed for in situ monitoring of microbial activity and biochemical oxygen demand (BOD) in groundwater. Presence or absence of a biofilm on the anode was a decisive factor for the applicability of the sensor. Fresh anode...... was required for application of the sensor for microbial activity measurement, while biofilm‐colonized anode was needed for utilizing the sensor for BOD content measurement. The current density of SUMFC sensor equipped with a biofilm‐colonized anode showed linear relationship with BOD content, to up to 250 mg...

  12. Monitoring the Perturbation of Soil and Groundwater Microbial Communities Due to Pig Production Activities

    Hong, Pei-Ying

    2013-02-08

    This study aimed to determine if biotic contaminants originating from pig production farms are disseminated into soil and groundwater microbial communities. A spatial and temporal sampling of soil and groundwater in proximity to pig production farms was conducted, and quantitative PCR (Q-PCR) was utilized to determine the abundances of tetracycline resistance genes (i.e., tetQ and tetZ) and integrase genes (i.e., intI1 and intI2). We observed that the abundances of tetZ, tetQ, intI1, and intI2 in the soils increased at least 6-fold after manure application, and their abundances remained elevated above the background for up to 16 months. Q-PCR further determined total abundances of up to 5.88 × 109 copies/ng DNA for tetZ, tetQ, intI1, and intI2 in some of the groundwater wells that were situated next to the manure lagoon and in the facility well used to supply water for one of the farms. We further utilized 16S rRNA-based pyrosequencing to assess the microbial communities, and our comparative analyses suggest that most of the soil samples collected before and after manure application did not change significantly, sharing a high Bray-Curtis similarity of 78.5%. In contrast, an increase in Bacteroidetes and sulfur-oxidizing bacterial populations was observed in the groundwaters collected from lagoon-associated groundwater wells. Genera associated with opportunistic human and animal pathogens, such as Acinetobacter, Arcobacter, Yersinia, and Coxiella, were detected in some of the manure-treated soils and affected groundwater wells. Feces-associated bacteria such as Streptococcus, Erysipelothrix, and Bacteroides were detected in the manure, soil, and groundwater ecosystems, suggesting a perturbation of the soil and groundwater environments by invader species from pig production activities.

  13. Comparative toxicity of chlorpyrifos and its oxon derivatives to soil microbial activity by combined methods.

    Wang, Fei; Yao, Jun; Chen, Huilun; Chen, Ke; Trebse, Polonca; Zaray, Gyula

    2010-01-01

    The inhibitory effects of the pesticide Chlorpyrifos (CPF) and its oxon derivative (CPO) on soil microbial activity were evaluated through the measurement of metabolic parameters and the microbial urease enzyme. The thermodynamic parameters related to microbial activity were measured and recorded as power-time curves. Microbial growth rate constant k, total heat evolution Q(T), metabolic enthalpy DeltaH(met), mass specific heat rate J(Q/S), microbial biomass C and inhibitory ratio I were calculated. They showed the linear relationship with doses of CPF and CPO. Thereinto, the linear correlations, k versus biomass C and DeltaH(met) versus biomass C, elucidated that k and DeltaH(met) were growth yield dependent. In this work, 20% inhibitory ratio IC(20) was obtained with 9.8 microg g(-1) for CPF and 0.37 microg g(-1) CPO, meaning that the acute toxicity of CPO was 26 times that of CPF, since the CPO had more potent toxicity to living organism due to its active functional group. Comparing the change tendency of DeltaH(met) and other parameter, the values almost kept constant when exposure to CPF (<5.0 microg g(-1)). It illustrates that individual reacted to stress resulted from environment change by shifting resources from other biological activities (such as reproduction or growth) toward survival to some extent. Urease activity responses in relation to the CPF and CPO exposure were observed and consistent with above thermodynamic parameters.

  14. Microbial activity in soil cultivated with different summer legumes in coffee crop

    Elcio Liborio Balota

    2011-02-01

    Full Text Available A field experiment was conducted for ten years in a sandy soil in the north part of the Paraná State, Brazil. The soil samples were collected at 0-10 cm depth, both under the coffee canopy and in the inter row space between the coffee plants, in the following treatments: Control, Leucaena leucocephala, Crotalaria spectabilis, Crotalaria breviflora, Mucuna pruriens, Mucuna deeringiana, Arachis hypogaea and Vigna unguiculata. The legume crops influenced the microbial activity, both under the coffee canopy and in the inter row space. The cultivation of Leucaena leucocephala increased the microbial biomass C, N and P. Although L. leucocephala and Arachis hypogaea provided higher microbial biomass, the qCO2 decreased by up to 50% under the coffee canopy and by about 25% in the inter row space. The soil microbial biomass was enriched in N and P due to green manure residue addition.

  15. Organic amendments to avocado crops induce suppressiveness and influence the composition and activity of soil microbial communities.

    Bonilla, Nuria; Vida, Carmen; Martínez-Alonso, Maira; Landa, Blanca B; Gaju, Nuria; Cazorla, Francisco M; de Vicente, Antonio

    2015-05-15

    One of the main avocado diseases in southern Spain is white root rot caused by the fungus Rosellinia necatrix Prill. The use of organic soil amendments to enhance the suppressiveness of natural soil is an inviting approach that has successfully controlled other soilborne pathogens. This study tested the suppressive capacity of different organic amendments against R. necatrix and analyzed their effects on soil microbial communities and enzymatic activities. Two-year-old avocado trees were grown in soil treated with composted organic amendments and then used for inoculation assays. All of the organic treatments reduced disease development in comparison to unamended control soil, especially yard waste (YW) and almond shells (AS). The YW had a strong effect on microbial communities in bulk soil and produced larger population levels and diversity, higher hydrolytic activity and strong changes in the bacterial community composition of bulk soil, suggesting a mechanism of general suppression. Amendment with AS induced more subtle changes in bacterial community composition and specific enzymatic activities, with the strongest effects observed in the rhizosphere. Even if the effect was not strong, the changes caused by AS in bulk soil microbiota were related to the direct inhibition of R. necatrix by this amendment, most likely being connected to specific populations able to recolonize conducive soil after pasteurization. All of the organic amendments assayed in this study were able to suppress white root rot, although their suppressiveness appears to be mediated differentially.

  16. Effects of Fructooligosaccharides,compared with Direct-Fed Microbial Bacteria,and Zinc Bacitracin on Cecal Microbial Populations and Performance of Broilers

    2002-01-01

    An experiment was conducted to determine the effects of dietary fructooligosaccharides(FOS),compared with direct-fed microbial bacteria (DFM),and zinc bacitracin ,on cecal microbial populations and performance of broiler Chickens. One hundred and ninety-two broilers (Avian) were randomly assigned to four groups,with four replicates of 12 birds each. The control group was fed with the basal diet,without any drug additive. FOS,DFM and zine bacitracin was respectively added to the basal diet at the level of 1.5% ,800 mg@kg-1 and 300 mg@ kg-1 to form the experimental diets. Body weight ,feed intake and feed efficiency were measured weekly. The feeding trial started at 1 d and ended at 21 d. At day 14 and day 21 ,four broilers per group were killed and cecum waa taken to determined microflors and pH. The results showed that dietary FOS increased bifidobactrial concentration by 1. 75-fold( P <0. 05) at 14 d of age and 1.45-fold( P <0. 05) at 21 d of age compared with control. FOS had no effect on concnetrations of E. coli and pH. There were no dietary effects of FOS,DFM,and zinc bacitracin on weight gain,feed intake,feed conversion( P >0. 05).

  17. Microbial diversity, dynamics and activity throughout manufacturing and ripening of Castelmagno PDO cheese.

    Dolci, P; Alessandria, V; Rantsiou, K; Bertolino, M; Cocolin, L

    2010-09-30

    The diversity, dynamics and activity of Castelmagno PDO cheese microbiota were studied in three batches produced in a floor valley farm, in the Grana Valley (northwest Italy), during the wintertime. Samples of milk, curd and cheese (core and subsurface) at different ripening time were submitted to both culture-dependent and -independent analysis. In particular, DNA and RNA directly extracted from the matrices were studied by PCR-Denaturing gradient gel electrophoresis (DGGE) and reverse transcription (RT)-PCR-DGGE. Culture-dependent methods highlighted the initial dominance of a thermophilic streptococcal population with the species Streptococcus thermophilus and S. agalactiae. Then, mesophilic lactococci occurred among isolates during manufacturing, with Lactococcus lactis which was also well represented in the first month of Castelmagno PDO ripening. At this point and throughout the ripening, lactobacilli prevailed in cheese samples, represented from Lactobacillus plantarum and Lb. casei. Culture-independent analysis underlined the undoubted role of L. lactis, actively involved in both Castelmagno PDO manufacturing and ripening. Despite Lb. helveticus was never isolated on selective media, a DGGE band referred to this microorganism was detected, at RNA level, in samples from ripened cheeses. On the other hand, Lb. plantarum was widely isolated from the plates, among lactobacilli, but never detected by direct analysis. Due to the importance of microbiota in the sensory richness and properties of traditional cheeses, new information have been added, in this work, on microbial diversity of Castelmagno PDO cheese.

  18. Distributions of microbial activities in deep subseafloor sediments RID D-2690-2009 RID C-7675-2009 RID B-8817-2009 RID C-2958-2008 RID B-1731-2010

    D'Hondt, S.; Jørgensen, BB; Miller, DJ

    2004-01-01

    Diverse microbial communities and numerous energy-yielding activities occur in deeply buried sediments of the eastern Pacific Ocean. Distributions of metabolic activities often deviate from the standard model. Rates of activities, cell concentrations, and populations of cultured bacteria vary con...

  19. Microbial Diversity Analysis of the Bacterial and Archaeal Population in Present Day Stromatolites

    Ortega, Maya C.

    2011-01-01

    Stromatolites are layered sedimentary structures resulting from microbial mat communities that remove carbon dioxide from their environment and biomineralize it as calcium carbonate. Although prevalent in the fossil record, stromatolites are rare in the modem world and are only found in a few locations including Highbome Cay in the Bahamas. The stromatolites found at this shallow marine site are analogs to ancient microbial mat ecosystems abundant in the Precambrian period on ancient Earth. To understand how stromatolites form and develop, it is important to identify what microorganisms are present in these mats, and how these microbes contribute to geological structure. These results will provide insight into the molecular and geochemical processes of microbial communities that prevailed on ancient Earth. Since stromatolites are formed by lithifying microbial mats that are able to mineralize calcium carbonate, understanding the biological mechanisms involved may lead to the development of carbon sequestration technologies that will be applicable in human spaceflight, as well as improve our understanding of global climate and its sustainability. The objective of my project was to analyze the archaeal and bacterial dIversity in stromatolites from Highborn Cay in the Bahamas. The first step in studying the molecular processes that the microorganisms carry out is to ascertain the microbial complexity within the mats, which includes identifying and estimating the numbers of different microbes that comprise these mats.

  20. Long-Term Effects of Legacy Copper Contamination on Microbial Activity and Soil Physical Properties

    Arthur, Emmanuel; Møldrup, Per; Holmstrup, Martin

    , Denmark. Soil samples obtained from the fallow field were used to determine total microbial activity using fluorescein diacetate and dehydrogenase assays. The physical properties measured included water-dispersible clay, bulk density, air permeability and air-filled porosity. Significant differences......-filled porosity and air permeability occurred for Cu concentrations >900 mg kg-1. There was significant negative correlation between microbial activity and the susceptibility of clay dispersion by water. These results suggest that a threshold level for Cu exists (~500 mg kg-1 for this soil type) beyond which...... in microbial activity (for both assays) were observed at Cu concentrations >500 mg kg-1. Although, unfavorable changes in all physical properties were obvious for Cu concentrations >500 mg kg-1, significant increases in bulk density and water dispersible-clay, together with decreases in total porosity, air...

  1. Rate of litter decomposition and microbial activity in an area of Caatinga

    Patrícia Carneiro Souto

    2013-12-01

    Full Text Available In order to evaluate the decomposition of litter and microbial activity in an area of preserved Caatinga, an experiment was conducted in the Natural Heritage Private Reserve Tamanduá Farm in Santa Terezinha county, State of Paraiba. The decomposition rate was determined by using litter bags containing 30 g of litter, which were arranged on the soil surface in September 2003 and 20 bags were taken each month until September 2005. The collected material was oven dried and weighed to assess weight loss compared to initial weight. Microbial activity was estimated monthly by the quantification of carbon dioxide (CO2 released into the edaphic breathing process from the soil surface, and captured by KOH solution. Weight loss of litter after one year was 41.19% and, after two years, was 48.37%, indicating a faster decomposition in the first year. Data analysis showed the influence of season on litter decomposition and temperature on microbial activity.

  2. Effect of various amendments on heavy mineral oil bioremediation and soil microbial activity.

    Lee, Sang-Hwan; Oh, Bang-Il; Kim, Jeong-gyu

    2008-05-01

    To examine the effects of amendments on the degradation of heavy mineral oil, we conducted a pilot-scale experiment in the field for 105 days. During the experiment, soil samples were collected and analyzed periodically to determine the amount of residual hydrocarbons and evaluate the effects of the amendments on microbial activity. After 105 days, the initial level of contamination (7490+/-480 mg hydrocarbon kg(-1) soil) was reduced by 18-40% in amended soils, whereas it was only reduced by 9% in nonamended soil. Heavy mineral oil degradation was much faster and more complete in compost-amended soil than in hay-, sawdust-, and mineral nutrient-amended soils. The enhanced degradation of heavy mineral oil in compost-amended soil may be a result of the significantly higher microbial activity in this soil. Among the studied microbial parameters, soil dehydrogenase, lipase, and urease activities were strongly and negatively correlated with heavy mineral oil biodegradation (Pamended soil.

  3. Antibacterial and enzymatic activity of microbial community during wastewater treatment by pilot scale vermifiltration system.

    Arora, Sudipti; Rajpal, Ankur; Bhargava, Renu; Pruthi, Vikas; Bhatia, Akansha; Kazmi, A A

    2014-08-01

    The present study investigated microbial community diversity and antibacterial and enzymatic properties of microorganisms in a pilot-scale vermifiltration system during domestic wastewater treatment. The study included isolation and identification of diverse microbial community by culture-dependent method from a vermifilter (VF) with earthworms and a conventional geofilter (GF) without earthworms. The results of the four months study revealed that presence of earthworms in VF could efficiently remove biochemical oxygen demand (BOD), chemical oxygen demand (COD), total and fecal coliforms, fecal streptococci and other pathogens. Furthermore, the burrowing activity of earthworms promoted the aeration conditions in VF which led to the predominance of the aerobic microorganisms, accounting for complex microbial community diversity. Antibacterial activity of the isolated microorganisms revealed the mechanism behind the removal of pathogens, which is reported for the first time. Specifically, cellulase, amylase and protease activity is responsible for biodegradation and stabilization of organic matter.

  4. Short- and long-term effects of nutrient enrichment on microbial exoenzyme activity in mangrove peat

    Keuskamp, Joost A.

    2015-02-01

    © 2014 Elsevier Ltd. Mangroves receive increasing quantities of nutrients as a result of coastal development, which could lead to significant changes in carbon sequestration and soil subsidence. We hypothesised that mangrove-produced tannins induce a nitrogen (N) limitation on microbial decomposition even when plant growth is limited by phosphorus (P). As a result, increased N influx would lead to a net loss of sequestered carbon negating the ability to compensate for sea level rise in P-limited mangroves. To examine this, we quantified the short- and long-term effects of N and P enrichment on microbial biomass and decomposition-related enzyme activities in a Rhizophora mangle-dominated mangrove, which had been subjected to fertilisation treatments for a period of fifteen years. We compared microbial biomass, elemental stoichiometry and potential enzyme activity in dwarf and fringe-type R. mangle-dominated sites, where primary production is limited by P or N depending on the proximity to open water. Even in P-limited mangroves, microbial activity was N-limited as indicated by stoichiometry and an increase in enzymic activity upon N amendment. Nevertheless, microbial biomass increased upon field additions of P, indicating that the carbon supply played even a larger role. Furthermore, we found that P amendment suppressed phenol oxidase activity, while N amendment did not. The possible differential nutrient limitations of microbial decomposers versus primary producers implies that the direction of the effect of eutrophication on carbon sequestration is nutrient-specific. In addition, this study shows that phenol oxidase activities in this system decrease through P, possibly strengthening the enzymic latch effect of mangrove tannins. Furthermore, it is argued that the often used division between N-harvesting, P-harvesting, and carbon-harvesting exoenzymes needs to be reconsidered.

  5. Microbial population responses in three stratified Antarctic meltwater ponds during the autumn freeze

    Safi, Karl; Hawes, Ian; Sorrell, Brian Keith

    2012-01-01

    The planktonic microbial communities of three meltwater ponds, located on the McMurdo Ice Shelf, were investigated from the end of January 2008 to early April, during which almost the entire pond volumes froze. The ponds were comprised of an upper mixed layer overlying a salt-stabilized density g...... for increasing heterotrophy within the remaining microbial communities, although all components of the food web eventually decline as the final freeze approaches....... role of autotrophic and heterotrophic microplankton within the ponds. The results showed that microbial groups responded to the onset of winter by declining in abundance, though an exception was the appearance of filamentous cyanobacteria in the water column in March. As freezing progressed, autotrophs...... declined more rapidly than heterotrophs and grazing rates and abundances of mixotrophic and heterotrophic organisms increased. Grazing pressure on bacteria and picophytoplankton also increased, in part explaining their decline over time. The results indicate that stressors imposed during freezing select...

  6. Effects of soil type and farm management on soil ecological functional genes and microbial activities

    Reeve, Jennifer [Washington State University; Schadt, Christopher Warren [ORNL; Carpenter-Boggs, Lynne [Washington State University; Kang, S. [University of Oklahoma; Zhou, Jizhong [University of Oklahoma, Norman; Reganold, John P. [Washington State University

    2010-01-01

    Relationships between soil microbial diversity and soil function are the subject of much debate. Process-level analyses have shown that microbial function varies with soil type and responds to soil management. However, such measurements cannot determine the role of community structure and diversity in soil function. The goal of this study was to investigate the role of gene frequency and diversity, measured by microarray analysis, on soil processes. The study was conducted in an agro-ecosystem characterized by contrasting management practices and soil types. Eight pairs of adjacent commercial organic and conventional strawberry fields were matched for soil type, strawberry variety, and all other environmental conditions. Soil physical, chemical and biological analyses were conducted including functional gene microarrays (FGA). Soil physical and chemical characteristics were primarily determined by soil textural type (coarse vs fine-textured), but biological and FGA measures were more influenced by management (organic vs conventional). Organically managed soils consistently showed greater functional activity as well as FGA signal intensity (SI) and diversity. Overall FGA SI and diversity were correlated to total soil microbial biomass. Functional gene group SI and/or diversity were correlated to related soil chemical and biological measures such as microbial biomass, cellulose, dehydrogenase, ammonium and sulfur. Management was the dominant determinant of soil biology as measured by microbial gene frequency and diversity, which paralleled measured microbial processes.

  7. Methods for determining the abundance, diversity and activity of soil microbial communities

    Pereg, Lily

    2014-05-01

    The diversity and abundance of soil microbial communities play important roles in determining soil structure, quality and productivity. The past decade has seen an increase in the number and efficiency of methods for determining microbial diversity, abundance and function. Recognising that only a very small proportion of the soil microbial community can be cultured, most current studies use molecular techniques based on the 16S and 18S rRNA encoding sequences (DGGE, TRFLP, OFRG, ARISA, SSCP) as well as techniques based on the cellular composition of the microbes (PLFA composition). Recent developments include high-throughput sequencing and microarrays, representing major advances in microbial community analysis. While the diversity of microbes can be determined using DNA-based techniques, microbial activity changes under various conditions. Therefore, the analysis of soil function at any given time requires the analysis of gene expression using RNA-based techniques. Molecular techniques have tremendously advanced our knowledge in the field of soil microbiology, however, the limitations should not be underestimated. This presentation will critically review both the advantages and the limitations of techniques used in soil microbial analysis.

  8. Experimental evidence that microbial activity lowers the albedo of glacier surfaces: the cryoconite casserole experiment.

    Musilova, M.; Tranter, M.; Takeuchi, N.; Anesio, A. M.

    2014-12-01

    Darkened glacier and ice sheet surfaces have lower albedos, absorb more solar radiation and consequently melt more rapidly. The increase in glacier surface darkening is an important positive feedback to warming global temperatures, leading to ever growing world-wide ice mass loss. Most studies focus primarily on glacial albedo darkening caused by the physical properties of snow and ice surfaces, and the deposition of dark impurities on glaciers. To date, however, the important effects of biological activity have not been included in most albedo reduction models. This study provides the first experimental evidence that microbial activity can significantly decrease the albedo of glacier surfaces. An original laboratory experiment, the cryoconite casserole, was designed to test the microbial darkening of glacier surface debris (cryoconite) under simulated Greenlandic summer conditions. It was found that minor fertilisation of the cryoconite (at nutrient concentrations typical of glacial ice melt) stimulated extensive microbial activity. Microbes intensified their organic carbon fixation and even mined phosphorous out of the glacier surface sediment. Furthermore, the microbial organic carbon production, accumulation and transformation caused the glacial debris to darken further by 17.3% reflectivity (albedo analogue). These experiments are consistent with the hypothesis that enhanced fertilisation by anthropogenic inputs results in substantial amounts of organic carbon fixation, debris darkening and ultimately to a considerable decrease in the ice albedo of glacier surfaces on global scales. The sizeable amounts of microbially produced glacier surface organic matter and nutrients can thus be a vital source of bioavailable nutrients for subglacial and downstream environments.

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

    Tingting eZhu

    2016-01-01

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

  10. Hydrogeology, chemical and microbial activity measurement through deep permafrost

    Stotler, R.L.; Frape, S.K.; Freifeld, B.M.; Holden, B.; Onstott, T.C.; Ruskeeniemi, T.; Chan, E.

    2010-04-01

    Little is known about hydrogeochemical conditions beneath thick permafrost, particularly in fractured crystalline rock, due to difficulty in accessing this environment. The purpose of this investigation was to develop methods to obtain physical, chemical, and microbial information about the subpermafrost environment from a surface-drilled borehole. Using a U-tube, gas and water samples were collected, along with temperature, pressure, and hydraulic conductivity measurements, 420 m below ground surface, within a 535 m long, angled borehole at High Lake, Nunavut, Canada, in an area with 460-m-thick permafrost. Piezometric head was well above the base of the permafrost, near land surface. Initial water samples were contaminated with drill fluid, with later samples <40% drill fluid. The salinity of the non-drill fluid component was <20,000 mg/L, had a Ca/Na ratio above 1, with {delta}{sup 18}O values {approx}5{per_thousand} lower than the local surface water. The fluid isotopic composition was affected by the permafrost-formation process. Nonbacteriogenic CH{sub 4} was present and the sample location was within methane hydrate stability field. Sampling lines froze before uncontaminated samples from the subpermafrost environment could be obtained, yet the available time to obtain water samples was extended compared to previous studies. Temperature measurements collected from a distributed temperature sensor indicated that this issue can be overcome easily in the future. The lack of methanogenic CH{sub 4} is consistent with the high sulfate concentrations observed in cores. The combined surface-drilled borehole/U-tube approach can provide a large amount of physical, chemical, and microbial data from the subpermafrost environment with few, controllable, sources of contamination.

  11. ANTI-MICROBIAL AND ANTI-AMOEBIC ACTIVITY SOME AZOMETHINES - POTENTIAL TEXTILE DYESTUFFS

    DJORDJEVIC Dragan

    2016-05-01

    Full Text Available In this paper, new synthesized three azomethine derivatives applied in dyeing textiles checking the anti-microbial properties of active components, at the same time [1-3]. The emphasis is thrown on the verification of anti-microbial properties that are important for obtaining textile with significantly improved performance. All compounds were characterized and evaluated for their anti-microbial activity against 7 pathogenic bacteria, 1 parasitic protozoan and 1 fungus. It estimated anti-bacterial activity in vitro against the following microorganisms Staphylococcus aureus, Bacillus anthracis, Streptococcus faecalis, Enterobacter sp., Escherichia coli, Pseudomonas aeruginosa, Proteus mirabilis, and Candida albicans. The anti-amoebic activity in vitro was evaluated against the HM1: IMSS strain of Entamoeba histolytica and the results were compared with the standard drug, metronidazole. The synthesized azomethines, showed very good substantivity for wool fibers, gave fine coloring, with good degree of exhaustion after dyeing. The combination of extended synthetic analogues of natural molecules leads to discovery of chemical entities which might be excellent anti-microbial and anti-amoebic compounds as depicted in our results. Being highly the effects this compound can be explored in future as an option for decreasing pathogenic potential of infecting from different sources. Azomethines containing hydrazone (dyestuff 1 and phenylhydrazone (dyestuff 2 as moiety show average yield and moderate inhibition activity while azomethines containing thiosemicarbazone (dyestuff 3 as moiety show higher yield and greater inhibition activity towards gram-negative and gram-positive bacteria as well as a fungus.

  12. In Silico Gene-Level Evolution Explains Microbial Population Diversity through Differential Gene Mobility

    van Dijk, Bram; Hogeweg, P.

    2016-01-01

    Microbial communities can show astonishing ecological and phylogenetic diversity. What is the role of pervasive horizontal gene transfer (HGT) in shaping this diversity in the presence of clonally expanding "killer strains"? Does HGT of antibiotic production and resistance genes erase phylogenetic s

  13. A study of microbial population dynamics associated with corrosion rates influenced by corrosion control materials

    Chang, Yu Jie; Hung, Chun Hsiung; Lee, Jyh Wei; Chang, Yi Tang; Lin, Fen Yu; Chuang, Chun Jie

    2015-01-01

    This research aims to analyze the variations of microbial community structure under anaerobic corrosive conditions, using molecular fingerprinting method. The effect of adding various materials to the environment on the corrosion mechanism has been discussed. In the initial experiment, sulfate-re

  14. Microbial diversity of a Brazilian coastal region influenced by an upwelling system and anthropogenic activity.

    Juliano C Cury

    Full Text Available BACKGROUND: Upwelling systems are characterised by an intense primary biomass production in the surface (warmest water after the outcrop of the bottom (coldest water, which is rich in nutrients. Although it is known that the microbial assemblage plays an important role in the food chain of marine systems and that the upwelling systems that occur in southwest Brazil drive the complex dynamics of the food chain, little is known about the microbial composition present in this region. METHODOLOGY/PRINCIPAL FINDINGS: We carried out a molecular survey based on SSU rRNA gene from the three domains of the phylogenetic tree of life present in a tropical upwelling region (Arraial do Cabo, Rio de Janeiro, Brazil. The aim was to analyse the horizontal and vertical variations of the microbial composition in two geographically close areas influenced by anthropogenic activity (sewage disposal/port activity and upwelling phenomena, respectively. A lower estimated diversity of microorganisms of the three domains of the phylogenetic tree of life was found in the water of the area influenced by anthropogenic activity compared to the area influenced by upwelling phenomena. We observed a heterogenic distribution of the relative abundance of taxonomic groups, especially in the Archaea and Eukarya domains. The bacterial community was dominated by Proteobacteria, Cyanobacteria and Bacteroidetes phyla, whereas the microeukaryotic community was dominated by Metazoa, Fungi, Alveolata and Stramenopile. The estimated archaeal diversity was the lowest of the three domains and was dominated by uncharacterised marine Crenarchaeota that were most closely related to Marine Group I. CONCLUSIONS/SIGNIFICANCE: The variety of conditions and the presence of different microbial assemblages indicated that the area of Arraial do Cabo can be used as a model for detailed studies that contemplate the correlation between pollution-indicating parameters and the depletion of microbial

  15. Recovery of microbial diversity and activity during bioremediation following chemical oxidation of diesel contaminated soils.

    Sutton, Nora B; Langenhoff, Alette A M; Lasso, Daniel Hidalgo; van der Zaan, Bas; van Gaans, Pauline; Maphosa, Farai; Smidt, Hauke; Grotenhuis, Tim; Rijnaarts, Huub H M

    2014-03-01

    To improve the coupling of in situ chemical oxidation and in situ bioremediation, a systematic analysis was performed of the effect of chemical oxidation with Fenton's reagent, modified Fenton's reagent, permanganate, or persulfate, on microbial diversity and activity during 8 weeks of incubation in two diesel-contaminated soils (peat and fill). Chemical oxidant and soil type affected the microbial community diversity and biodegradation activity; however, this was only observed following treatment with Fenton's reagent and modified Fenton's reagent, and in the biotic control without oxidation. Differences in the highest overall removal efficiencies of 69 % for peat (biotic control) and 59 % for fill (Fenton's reagent) were partially explained by changes in contaminant soil properties upon oxidation. Molecular analysis of 16S rRNA and alkane monooxygenase (alkB) gene abundances indicated that oxidation with Fenton's reagent and modified Fenton's reagent negatively affected microbial abundance. However, regeneration occurred, and final relative alkB abundances were 1-2 orders of magnitude higher in chemically treated microcosms than in the biotic control. 16S rRNA gene fragment fingerprinting with DGGE and prominent band sequencing illuminated microbial community composition and diversity differences between treatments and identified a variety of phylotypes within Alpha-, Beta-, and Gammaproteobacteria. Understanding microbial community dynamics during coupled chemical oxidation and bioremediation is integral to improved biphasic field application.

  16. Active Anti-Microbial Effects of Larch and Pine Wood on Four Bacterial Strains

    Christina M. Laireiter

    2013-11-01

    Full Text Available Active anti-microbial effects of larch (Larix decidua Mill. and pine (Pinus sylvestris L. wood materials on Staphylococcus aureus, Pseudomonas aeruginosa, Enterococcus faecium, and Bacillus subtilis were tested. The agar-diffusion test, a method used in routine diagnostics, was implemented to detect anti-microbial effects of wooden discs and filter paper discs containing methanol extracts of different wood parts. The results showed that the bark of larch had an inhibitory effect on Staphylococcus aureus, and the heart wood of pine showed a significant anti-microbial effect on the gram-positive bacteria tested (Staphylococcus aureus, Enterococcus faecium, and Bacillus subtilis. These results were confirmed by using methanol-extracts. An anti-microbial activity against Pseudomonas aeruginosa was not found. Anti-bacterial effects of other parts of larch wood and of pine sapwood were also not found. The results of this study showed for the first time that certain parts of wood contain compounds that directly reduce microbial growth. These data are a further demonstration of the positive effects of specific wood species and could promote the usage of wood in hygienically sensitive areas.

  17. Progression of natural attenuation processes at a crude oil spill site: II. Controls on spatial distribution of microbial populations.

    Bekins, B A; Cozzarelli, I M; Godsy, E M; Warren, E; Essaid, H I; Tuccillo, M E

    2001-12-15

    A multidisciplinary study of a crude-oil contaminated aquifer shows that the distribution of microbial physiologic types is strongly controlled by the aquifer properties and crude oil location. The microbial populations of four physiologic types were analyzed together with permeability, pore-water chemistry, nonaqueous oil content, and extractable sediment iron. Microbial data from three vertical profiles through the anaerobic portion of the contaminated aquifer clearly show areas that have progressed from iron-reduction to methanogenesis. These locations contain lower numbers of iron reducers, and increased numbers of fermenters with detectable methanogens. Methanogenic conditions exist both in the area contaminated by nonaqueous oil and also below the oil where high hydrocarbon concentrations correspond to local increases in aquifer permeability. The results indicate that high contaminant flux either from local dissolution or by advective transport plays a key role in determining which areas first become methanogenic. Other factors besides flux that are important include the sediment Fe(II) content and proximity to the water table. In locations near a seasonally oscillating water table, methanogenic conditions exist only below the lowest typical water table elevation. During 20 years since the oil spill occurred, a laterally continuous methanogenic zone has developed along a narrow horizon extending from the source area to 50-60 m downgradient. A companion paper [J. Contam. Hydrol. 53, 369-386] documents how the growth of the methanogenic zone results in expansion of the aquifer volume contaminated with the highest concentrations of benzene, toluene, ethylbenzene, and xylenes.

  18. Microbial populations identified by fluorescence in situ hybridization in a constructed wetland treating acid coal mine drainage

    Nicomrat, D.; Dick, W.A.; Tuovinen, O.H. [Ohio State University, Wooster, OH (United States). Environmental Science Graduate Programme

    2006-07-15

    Microorganisms are an integral part of the biogeochemical processes in wetlands, yet microbial communities in sediments within constructed wetlands receiving acid mine drainage (AMD) are only poorly understood. The purpose of this study was to characterize the microbial diversity and abundance in a wetland receiving AMD using fluorescence in situ hybridization (FISH) analysis. Seasonal samples of oxic surface sediments, comprised of Fe(III) precipitates, were collected from two treatment cells of the constructed wetland system. The pH of the bulk samples ranged between pH 2.1 and 3.9. Viable counts of acidophilic Fe and S oxidizers and heterotrophs were determined with a most probable number (MPN) method. The MPN counts were only a fraction of the corresponding FISH counts. The sediment samples contained microorganisms in the Bacteria (including the subgroups of acidophilic Fe- and S-oxidizing bacteria and Acidiphilium spp.) and Eukarya domains. Archaea were present in the sediment surface samples at < 0.01% of the total microbial community. The most numerous bacterial species in this wetland system was Acidithiobacillus ferrooxidans, comprising up to 37% of the bacterial population. Acidithiobacillus thiooxidans was also abundant.

  19. Effect of land use on microbial biomass and enzyme activities in tropical soil

    Maharjan, Menuka; Sanaullah, Muhammad; Kuzyakov, Yakov

    2016-04-01

    Land use change especially from forest to intensive agriculture for sustaining livelihood causing severe consequence on soil quality. Soil microbial biomass and enzyme activities are very sensitive to change in environment. The objective was to assess effects of three land uses i.e. forest, organic and conventional farming on microbial biomass C and N and enzymes involved in C-cycle (β-glucosidase), N-cycle (leucine-aminopeptidase), P-cycle (Phosphatase) and S-cycle (Sulphatase) at different depth (0-100 cm with 10 cm in interval) of soil in Chitwan, Nepal. The result showed that both carbon and nitrogen content (%) was significantly higher in organic farming than conventional farming and forest. However, the trend decreased in lower depth. Significantly high microbial biomass C and N (μg C and N g-1 soil) were found in organic farming than conventional farming and forest at 0-10 cm but the trend was inconsistent in lower depth. β-glucosidase, leucine-aminopeptidase and sulphatase (nmol g-1 soil) activities were higher in organic and conventional farming compared to forest at 0-20 cm. Phosphatase activity was higher in conventional farming than forest and organic farming at 0-20cm. The activities were inconsistent below 20 cm. Application of farmyard manure and organic matter from the vegetation contributes the higher microbial biomass and enzyme activities in organic farming.

  20. Microbial activities in a vertical-flow wetland system treating sewage sludge with high organic loads

    Wang, R. Y.; Perissol, C.; Baldy, V.; Bonin, G.; Korboulewsky, N.

    2009-07-01

    The rhizosphere is the most active zone in treatment wetlands where take place physicochemical and biological processes between the substrate, plants, microorganisms, and contaminants. Microorganisms play the key role in the mineralisation of organic matter. substrate respiration and phosphatase activities (acid and alkaline) were chosen as indicators of microbial activities, and studied in a vertical-flow wetland system receiving sewage sludge with high organic loads under the Mediterranean climate. (Author)

  1. Changes of soil organic matter and microbial activity in irrigated and non irrigated olive groves

    Kavvadias, Victor; Papadopoulou, Maria; Theocharopoulos, Sideris; Vavoulidou, Evagelia; Doula, Maria; Reppas, Spiros

    2014-05-01

    The implementation of olive cultivation techniques in Greece has not been systematically tested under the prevailing Mediterranean conditions. A LIFE+ project was initiated (oLIVE-CLIMA; LIFE 11/ENV/000942) aiming to introduce new management practices in olive tree crops that lead to increased carbon dioxide uptake by plants as well as carbon sequestration from the atmosphere and reverse the trend of soil organic matter decline, erosion and desertification. This paper presents data on soil organic matter and microbial activity from a soil campaign in a pilot region in Greece, and particularly in the area of Chora, prefecture of Messinia, South west Peloponnese. The soil campaign took place during the period December 2012-February 2013. Twelve soil parcels of olive groves were selected (6 irrigated and 6 rainfed) and in each soil parcel six composite soil samples were taken from 0-10 cm depth at equal intervals along a straight line of the trunk of the tree to the middle of the distance from the nearest tree of the next tree series. The first three samples were under olive tree canopy. An additional composite sample was taken at depth of 10-40 cm. Soil samples were analyzed for soil physicochemical and biological properties. In this study results for total organic carbon (TOC), soil basal microbial respiration (BR), microbial biomass C (MB-C) from the region of Messinia, are presented. Organic matter was determined by dichromate oxidation. The microbial activity was measured by the amount of CO2 evolution, while microbial biomass C was determined by substrate-induced respiration, after the addition of glucose. The results showed considerable differences in TOC, BR and MB-C associated with the sampling position and soil depth. The higher TOC, BR and MB-C values, in most cases, were determined in samples taken from points under the canopy, but not close to the tree trunk compared to the sampling points outside the canopy. This indicates the positive effect of

  2. Comparison of microbial communities of activated sludge and membrane biofilm in 10 full-scale membrane bioreactors.

    Jo, Sung Jun; Kwon, Hyeokpil; Jeong, So-Yeon; Lee, Chung-Hak; Kim, Tae Gwan

    2016-09-15

    Operation of membrane bioreactors (MBRs) for wastewater treatment is hampered by the membrane biofouling resulting from microbial activities. However, the knowledge of the microbial ecology of both biofilm and activated sludge in MBRs has not been sufficient. In this study, we scrutinized microbial communities of biofilm and activated sludge from 10 full-scale MBR plants. Overall, Flavobacterium, Dechloromonas and Nitrospira were abundant in order of abundance in biofilm, whereas Dechloromonas, Flavobacterium and Haliscomenobacter in activated sludge. Community structure was analyzed in either biofilm or activated sludge. Among MBRs, as expected, not only diversity of microbial community but also its composition was different from one another (p  0.05). Effects of ten environmental factors on community change were investigated using Spearman correlation. MLSS, HRT, F/M ratio and SADm explained the variation of microbial composition in the biofilm, whereas only MLSS did in the activated sludge. Microbial networks were constructed with the 10 environmental factors. The network results revealed that there were different topological characteristics between the biofilm and activated sludge networks, in which each of the 4 factors had different associations with microbial nodes. These results indicated that the different microbial associations were responsible for the variation of community composition between the biofilm and activated sludge.

  3. Microbial Functional Diversity, Biomass and Activity as Affected by Soil Surface Mulching in a Semiarid Farmland.

    Shen, Yufang; Chen, Yingying; Li, Shiqing

    2016-01-01

    Mulching is widely used to increase crop yield in semiarid regions in northwestern China, but little is known about the effect of different mulching systems on the microbial properties of the soil, which play an important role in agroecosystemic functioning and nutrient cycling. Based on a 4-year spring maize (Zea mays L.) field experiment at Changwu Agricultural and Ecological Experimental Station, Shaanxi, we evaluated the responses of soil microbial activity and crop to various management systems. The treatments were NMC (no mulching with inorganic N fertilizer), GMC (gravel mulching with inorganic N fertilizer), FMC (plastic-film mulching with inorganic N fertilizer) and FMO (plastic-film mulching with inorganic N fertilizer and organic manure addition). The results showed that the FMO soil had the highest contents of microbial biomass carbon and nitrogen, dehydrogenase activity, microbial activity and Shannon diversity index. The relative use of carbohydrates and amino acids by microbes was highest in the FMO soil, whereas the relative use of polymers, phenolic compounds and amines was highest in the soil in the NMC soil. Compared with the NMC, an increased but no significant trend of biomass production and nitrogen accumulation was observed under the GMC treatment. The FMC and FMO led a greater increase in biomass production than GMC and NMC. Compare with the NMC treatment, FMC increased grain yield, maize biomass and nitrogen accumulation by 62.2, 62.9 and 86.2%, but no significant difference was found between the FMO and FMC treatments. Some soil biological properties, i.e. microbial biomass carbon, microbial biomass nitrogen, being sensitive to the mulching and organic fertilizer, were significant correlated with yield and nitrogen availability. Film mulching over gravel mulching can serve as an effective measure for crop production and nutrient cycling, and plus organic fertilization additions may thus have improvements in the biological quality of the

  4. Microbial Functional Diversity, Biomass and Activity as Affected by Soil Surface Mulching in a Semiarid Farmland.

    Yufang Shen

    Full Text Available Mulching is widely used to increase crop yield in semiarid regions in northwestern China, but little is known about the effect of different mulching systems on the microbial properties of the soil, which play an important role in agroecosystemic functioning and nutrient cycling. Based on a 4-year spring maize (Zea mays L. field experiment at Changwu Agricultural and Ecological Experimental Station, Shaanxi, we evaluated the responses of soil microbial activity and crop to various management systems. The treatments were NMC (no mulching with inorganic N fertilizer, GMC (gravel mulching with inorganic N fertilizer, FMC (plastic-film mulching with inorganic N fertilizer and FMO (plastic-film mulching with inorganic N fertilizer and organic manure addition. The results showed that the FMO soil had the highest contents of microbial biomass carbon and nitrogen, dehydrogenase activity, microbial activity and Shannon diversity index. The relative use of carbohydrates and amino acids by microbes was highest in the FMO soil, whereas the relative use of polymers, phenolic compounds and amines was highest in the soil in the NMC soil. Compared with the NMC, an increased but no significant trend of biomass production and nitrogen accumulation was observed under the GMC treatment. The FMC and FMO led a greater increase in biomass production than GMC and NMC. Compare with the NMC treatment, FMC increased grain yield, maize biomass and nitrogen accumulation by 62.2, 62.9 and 86.2%, but no significant difference was found between the FMO and FMC treatments. Some soil biological properties, i.e. microbial biomass carbon, microbial biomass nitrogen, being sensitive to the mulching and organic fertilizer, were significant correlated with yield and nitrogen availability. Film mulching over gravel mulching can serve as an effective measure for crop production and nutrient cycling, and plus organic fertilization additions may thus have improvements in the biological

  5. Variation of Soil Microbial Biomass and Enzyme Activities at Different Growth Stages of Rice (Oryza sativa)

    ZENG Lu-sheng; LIAO Min; CHEN Cheng-li; HUANG Chang-yong

    2005-01-01

    A pot experiment was conducted under submerged conditions with hybrid rice Zhenong 7 to study the variation in the soil microbial biomass carbon (Cmic), soil microbial biomass nitrogen (Nmic), soil respiration rate, soil microbial metabolic quotient, soil enzyme activities, chlorophyll content, proline content and peroxidase activity (POD) in rice leaf at different growth stages. The soil Cmic, Nmic and soii respiration rate significantly increased at the early stage and then declined during rice growth, but ascended slightly at maturity. However, soil metabolic quotient declined at all the stages. Soil urease activity increased at first and then decreased, while acid phosphatase and dehydrogenase activities descended before ascended and then descended again. Soil urease activity and acid phosphatase activity showed a peak value at the tillering stage about 30 days after rice transplanting, but the peak value of dehydrogenase activity emerged at about 50 days after rice transplanting and the three soil enzymatic activities were significantly different at the different developmental stages. As rice growing, chlorophyll content in rice leaf descended at the early stage then ascended and a peak value appeared at about the 70th after rice transplanting, after that declined drastically, while POD activity increased gradually, but proline content declined gradually. There was a slight relation between rice physiological indices and soil biochemical indices, which indicated that soil biochemical characteristics were affected significantly by rice growth in the interactior system of the rice, soil and microorganisms.

  6. Relating soil microbial activity to water content and tillage-induced differences in soil structure

    Schjønning, Per; Thomsen, Ingrid Kaag; Petersen, Søren O

    2011-01-01

    Several studies have identified optima in soil water content for aerobic microbial activity, and this has been ascribed to a balance between gas and solute diffusivity as limiting processes. We investigated the role of soil structure, as created by different tillage practices (moldboard ploughing...

  7. Microbial respiration and extracellular enzyme activity in sediments from the Gulf of Mexico hypoxic zone

    This study explores the relationship between sediment chemistry (TC, TN, TP) and microbial respiration (DHA) and extracellular enzyme activity (EEA) across the Gulf of Mexico (GOM) hypoxic zone. TC, TN, and TP were all positively correlated with each other (r=0.19-0.68). DHA was ...

  8. Recovery of microbial diversity and activity during bioremediation following chemical oxidation of diesel contaminated soils

    Sutton, N.B.; Langenhoff, A.A.M.; Hidalgo Lasso, D.; Zaan, van der B.M.; Gaans, van P.; Maphosa, F.; Smidt, H.; Grotenhuis, J.T.C.; Rijnaarts, H.H.M.

    2014-01-01

    To improve the coupling of in situ chemical oxidation and in situ bioremediation, a systematic analysis was performed of the effect of chemical oxidation with Fenton's reagent, modified Fenton's reagent, permanganate, or persulfate, on microbial diversity and activity during 8 weeks of incubation in

  9. Chlorpromazine as permeabilizer and reagent for detection of microbial peroxidase and peroxidaselike activities.

    Galeazzi, L; Turchetti, G; Grilli, G; Groppa, G; Giunta, S

    1986-01-01

    Chlorpromazine was used to perform a test for the detection of microbial peroxidase activities. The compound acts as both a cell permeabilizer and a reagent in the procedure developed which allows the detection of peroxidase and peroxidase like reactions both semiquantitatively in whole cell determinations and quantitatively in cell-free supernatants. PMID:3539020

  10. Changes in enzymes activity, substrate utilization pattern and diversity of soil microbial communities under cadmium pollution

    Muhammad Akmal; WANG Hai-zhen; WU Jian-jun; XU Jian-ming; XU De-fu

    2005-01-01

    Heavy metal pollution has received increasing attention in recent years mainly because of the public awareness of environmental issues. In this study we have evaluated the effect of cadmium(Cd) on enzymes activity, substrate utilization pattern and diversity of microbial communities in soil spiked with 0, 20, 40, 60, 80, and 100 mg/kg Cd, during 60 d of incubation at 25℃. Enzyme activities determined at 0, 15, 30, 45, and 60 d after heavy metal application(DAA) showed marked declines for various Cd treatments, and up to 60 DAA, 100 mg/kg Cd resulted in 50.1%, 47.4%, and 39.8 % decreases in soil urease, acid phosphatase and dehydrogenase activities,respectively to control. At 60 DAA, substrate utilization pattern of soil microbial communities determined by inoculating Biolog ECO plates indicated that Cd addition had markedly inhibited the functional activity of soil microbial communities and multivariate analysis of sole carbon source utilization showed significantly different utilization patterns for 80 and 100 mg/kg Cd treatments. The structural diversity of soil microbial communities assessed by PCR-DGGE method at 60 DAA, illustrated that DGGE patterns in soil simplified with increasing Cd concentration, and clustering of DGGE profiles for various Cd treatments revealed that they had more than 50% difference with that of control.

  11. Soil microbial abundances and enzyme activities in different rhizospheres in an integrated vertical flow constructed wetland

    Ge, Ying; Jiang, Yueping; Jiang, Qinsu; Min, Hang; Fan, Haitian; Zeng, Qiang; Chang, Jie [College of Life Sciences, Zhejiang University, Hangzhou (China); Zhang, Chongbang [School of Life Sciences, Taizhou University, Linhai (China); Yue, Chunlei [Zhejiang Forestry Academy, Hangzhou (China)

    2011-03-15

    Rhizosphere microorganism is an important bio-component for wastewater treatment in constructed wetlands (CWs). Microbial abundance and enzyme activities in the rhizospheres of nine plant species were investigated in an integrated vertical-flow CW. The abundance of denitrifiers, as well as urease, acid, and alkaline phosphatase activities were positively correlated to plant root biomass. The abundance of bacteria, fungi, actinomycetes, ammonifiers, denitrifiers, and phosphorus decomposers, related to nutrient removal efficiencies in CWs, greatly varied among rhizospheres of different plant species (p < 0.05). Significant differences in rhizosphere enzyme activity among plant species were also observed (p < 0.05), with the exception of catalase activity. The principal component analysis using the data of microbial abundance and enzyme activity showed that Miscanthus floridulus, Acorus calamus, and Reineckia carnea were candidates to be used in CWs to effectively remove nitrogen and phosphorus from wastewater. (Copyright copyright 2011 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim)

  12. Association of Microbial Community Composition and Activity with Lead, Chromium, and Hydrocarbon Contamination

    Shi, W.; Becker, J; Bischoff, M.; Turco, R. F.; Konopka, A. E

    2002-01-01

    Microbial community composition and activity were characterized in soil contaminated with lead (Pb), chromium (Cr), and hydrocarbons. Contaminant levels were very heterogeneous and ranged from 50 to 16,700 mg of total petroleum hydrocarbons (TPH) kg of soil−1, 3 to 3,300 mg of total Cr kg of soil−1, and 1 to 17,100 mg of Pb kg of soil−1. Microbial community compositions were estimated from the patterns of phospholipid fatty acids (PLFA); these were considerably different among the 14 soil sam...

  13. Non-tuberculous mycobacteria and microbial populations in drinking water distribution systems

    Rossella Briancesco

    2010-01-01

    Full Text Available Data on the occurrence of non-tuberculous mycobacteria (NTM, in parallel with those obtained for bacterial indicators and amoebae, are presented with the aim to collect information on the spread of NTM in drinking water distribution systems in Italy. Samples were collected from taps of hospitals and households in Central and Southern Italy. The concentration values obtained for the more traditional microbial parameters complied with the mandatory requirements for drinking water. Conversely, moderate-to-high microbial loads (till 300 CFU/L were observed for the NTM. Positive samples were obtained from 62% of the investigated water samples. Analogous results were observed for amoebae showing a higher percentage of positive samples (76%. In terms of public health, the presence of mycobacteria in water distribution systems may represent a potential risk especially for vulnerable people such as children, the elderly or immunocompromised individuals.

  14. Involvement of microbial populations during the composting of olive mill wastewater sludge.

    Abid, N; Chamkha, M; Godon, J J; Sayadi, S

    2007-07-01

    Olive mill waste water sludge obtained by the electro-Fenton oxidation of olive mill waste water was composted in a bench scale reactor. The evolution of microbial species within the composter was investigated using a respirometric test and by means of both cultivation-dependent and independent approaches (Polymerase Chain Reaction-Single Strand Conformation Polymorphism, PCR SSCP). During the period of high respiration rate (7-24 days), cultivation method showed that thermophilic bacteria as well as actinomycetes dominated over eumycetes. During the composting process, the PCR-SSCP method showed a higher diversity of the bacterial community than the eukaryotic one. After 60 days of composting, the compost exhibited a microbial stability and a clear absence of phytotoxicity.

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

    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.

  16. Effects of slow-release urea fertilizers on urease activity, microbial biomass, and nematode communities in an aquic brown soil.

    Jiao, Xiaoguang; Liang, Wenju; Chen, Lijun; Zhang, Haijun; Li, Qi; Wang, Peng; Wen, Dazhong

    2005-05-01

    A field experiment was carried out at the Shenyang Experimental Station of Ecology (CAS) in order to study the effects of slow-release urea fertilizers high polymer-coated urea (SRU1), SRU1 mixed with dicyandiamide DCD (SRU2), and SRU1 mixed with calcium carbide CaC2 (SRU3) on urease activity, microbial biomass C and N, and nematode communities in an aquic brown soil during the maize growth period. The results demonstrated that the application of slow-release urea fertilizers inhibits soil urease activity and increases the soil NH4+-N content. Soil available N increment could promote its immobilization by microorganisms. Determination of soil microbial biomass N indicated that a combined application of coated urea and nitrification inhibitors increased the soil active N pool. The population of predators/omnivores indicated that treatment with SRU2 could provide enough soil NH4+-N to promote maize growth and increased the food resource for the soil fauna compared with the other treatments.

  17. Turnover of microbial lipids in the deep biosphere and growth of benthic archaeal populations.

    Xie, Sitan; Lipp, Julius S; Wegener, Gunter; Ferdelman, Timothy G; Hinrichs, Kai-Uwe

    2013-04-01

    Deep subseafloor sediments host a microbial biosphere with unknown impact on global biogeochemical cycles. This study tests previous evidence based on microbial intact polar lipids (IPLs) as proxies of live biomass, suggesting that Archaea dominate the marine sedimentary biosphere. We devised a sensitive radiotracer assay to measure the decay rate of ([(14)C]glucosyl)-diphytanylglyceroldiether (GlcDGD) as an analog of archaeal IPLs in continental margin sediments. The degradation kinetics were incorporated in model simulations that constrained the fossil fraction of subseafloor IPLs and rates of archaeal turnover. Simulating the top 1 km in a generic continental margin sediment column, we estimated degradation rate constants of GlcDGD being one to two orders of magnitude lower than those of bacterial IPLs, with half-lives of GlcDGD increasing with depth to 310 ky. Given estimated microbial community turnover times of 1.6-73 ky in sediments deeper than 1 m, 50-96% of archaeal IPLs represent fossil signals. Consequently, previous lipid-based estimates of global subseafloor biomass probably are too high, and the widely observed dominance of archaeal IPLs does not rule out a deep biosphere dominated by Bacteria. Reverse modeling of existing concentration profiles suggest that archaeal IPL synthesis rates decline from around 1,000 pg⋅mL(-1) sediment⋅y(-1) at the surface to 0.2 pg⋅mL(-1)⋅y(-1) at 1 km depth, equivalent to production of 7 × 10(5) to 140 archaeal cells⋅mL(-1) sediment⋅y(-1), respectively. These constraints on microbial growth are an important step toward understanding the relationship between the deep biosphere and the carbon cycle.

  18. Population dynamics and spatial distribution of microbial species in multispecies biofilms under the action of direct electric current

    CAO Hongbin; LI Xingang; WU Jinchuan; ZHONG Fangli; ZHANG Yi

    2003-01-01

    The metabolism, population dynamics and spatial distribution of nitrifying bacteria and heterotrophs in biofilms under the action of direct electric current were investigated by using the micro-slicing technique. The nitrification rate of nitrifying bacteria was severely inhibited by a current over 10 Am-2 at lower C/N ratios. Compared to heterotrophs, the nitrifying bacteria in the surface biofilms were severely inhibited, resulting in a significant decrease in bacterial density. An increase in current density narrowed the less current-sensitive inner biofilm region, and in addition the density of NO2-oxidizers decreased more significantly than that of NH4-oxidizers in the surface biofilms probably due to electrochemical reactions at the anode. However, the effect of current on both the population dynamics and the spatial distribution of the microbial species was less significant at larger C/N ratios.

  19. The Influence of Age and Gender on Skin-Associated Microbial Communities in Urban and Rural Human Populations.

    Shi Ying

    Full Text Available Differences in the bacterial community structure associated with 7 skin sites in 71 healthy people over five days showed significant correlations with age, gender, physical skin parameters, and whether participants lived in urban or rural locations in the same city. While body site explained the majority of the variance in bacterial community structure, the composition of the skin-associated bacterial communities were predominantly influenced by whether the participants were living in an urban or rural environment, with a significantly greater relative abundance of Trabulsiella in urban populations. Adults maintained greater overall microbial diversity than adolescents or the elderly, while the intragroup variation among the elderly and rural populations was significantly greater. Skin-associated bacterial community structure and composition could predict whether a sample came from an urban or a rural resident ~5x greater than random.

  20. Multistage A-O Activated Sludge Process for Paraformaldehyde Wastewater Treatment and Microbial Community Structure Analysis

    Danyang Zheng

    2016-01-01

    Full Text Available In recent years, the effect of formaldehyde on microorganisms and body had become a global public health issue. The multistage combination of anaerobic and aerobic process was adopted to treat paraformaldehyde wastewater. Microbial community structure in different reaction stages was analyzed through high-throughput sequencing. Results showed that multistage A-O activated sludge process positively influenced polyformaldehyde wastewater. The removal rates of formaldehyde were basically stable at more than 99% and those of COD were about 89%. Analysis of the microbial diversity index indicated that the microbial diversity of the reactor was high, and the treatment effect was good. Moreover, microbial community had certain similarity in the same system. Microbial communities in different units also showed typical representative characteristics affected by working conditions and influent concentrations. Proteobacteria, Firmicutes, and Bacteroidetes were the dominant fungal genera in the phylum level of community composition. As to family and genus levels, Peptostreptococcaceae was distributed at various stages and the dominant in this system. This bacterium also played an important role in organic matter removal, particularly decomposition of the acidified middle metabolites. In addition, Rhodobacteraceae and Rhodocyclaceae were the formaldehyde-degrading bacteria found in the reactor.

  1. Impacts of Activated Carbon Amendment on Hg Methylation, Demethylation and Microbial Activity in Marsh Soils

    Gilmour, C. C.; Ghosh, U.; Santillan, E. F. U.; Soren, A.; Bell, J. T.; Butera, D.; McBurney, A. W.; Brown, S.; Henry, E.; Vlassopoulos, D.

    2015-12-01

    In-situ sorbent amendments are a low-impact approach for remediation of contaminants in sediments, particular in habitats like wetlands that provide important ecosystem services. Laboratory microcosm trials (Gilmour et al. 2013) and early field trials show that activated carbon (AC) can effectively increase partitioning of both inorganic Hg and methylmercury to the solid phase. Sediment-water partitioning can serve as a proxy for Hg and MeHg bioavailability in soils. One consideration in using AC in remediation is its potential impact on organisms. For mercury, a critical consideration is the potential impact on net MeHg accumulation and bioavailability. In this study, we specifically evaluated the impact of AC on rates of methylmercury production and degradation, and on overall microbial activity, in 4 different Hg-contaminated salt marsh soils. The study was done over 28 days in anaerobic, sulfate-reducing slurries. A double label of enriched mercury isotopes (Me199Hg and inorganic 201Hg) was used to separately follow de novo Me201Hg production and Me199Hg degradation. AC amendments decreased both methylation and demethylation rate constants relative to un-amended controls, but the impact on demethylation was stronger. The addition of 5% (dry weight) regenerated AC to soil slurries drove demethylation rate constants to nearly zero; i.e. MeHg sorption to AC almost totally blocked its degradation. The net impact was increased solid phase MeHg concentrations in some of the soil slurries with the highest methylation rate constants. However, the net impact of AC amendments was to increase MeHg (and inorganic Hg) partitioning to the soil phase and decrease concentrations in the aqueous phase. AC significantly decreased aqueous phase inorganic Hg and MeHg concentrations after 28 days. Overall, the efficacy of AC in reducing aqueous MeHg was highest in the soils with the highest MeHg concentrations. The AC addition did not significantly impact microbial activity, as

  2. The assessment of land exploitation by enumerating microbial population: Case study in several locations at Dieng Plateau

    Sri Sumarsih

    2013-09-01

    Full Text Available Agricultural intensification program in Indonesia which is carried out by using high yield variety, high chemicals use and soil disturbances tends to trigger land exploitation. Land exploitation, performed without considering the land’s capability can generate degradations on the land itself. Various methods have been used to determine land exploitation level, including evaluation of soil microbe resources as on soil component. This research is aimed to assess land exploitation level, based on the amount of microbial population. The result of this research is expected to add the soil quality standard criteria. In the case study performed in Dieng plateau, representative soil sampling method was used. The amount of microbial population can be enumerated using plating and MPN method. Based on nutrient availability to indicate the soil biological characteristics, the soil under the trees, shrub, and Colocasia were classified as “below normal”, and the soil under the grass, tobacco, cabbage and potato were classified as “normal”. It shows that the land exploitation at the agricultural soils were still in the range of its land capability.

  3. Enhancement of the sweep efficiency of waterflooding operations by the in-situ microbial population of petroleum reservoirs

    Brown, L.R.; Vadie, A.A.; Stephens, J.O.; Azadpour, A.

    1995-12-31

    Live cores were obtained from five reservoirs using special precautions to prevent contamination by exogenous microorganisms and minimize exposure to oxygen. The depths from which the cores were obtained ranged from 2,705 ft to 6,568 ft. Core plugs were cut radially from live cores, encased in heat-shrink plastic tubes, placed in core holders, and fitted with inlets and outlets. Nutrient additions stimulated the in-situ microbial population to increase, dissolve stratal material, produce gases, and release oil. Reduction in flow through the core plugs was observed in some cases, while in other cases flow was increased, probably due to the dissolution of carbonates in the formation. A field demonstration of the ability of the in-situ microbial population to increase oil recovery by blocking the more permeable zones of the reservoir is currently underway. This demonstration is being conducted in the North Blowhorn Creek Unit situated in Lamar County, Alabama. Live cores were obtained from a newly drilled well in the field and tested as described above. The field project involves four test patterns each including one injector, four to five producers, and a comparable control injector with its four to five producers. Nutrient injection in the field began November 1994.

  4. Microbial population in the rumen of swamp buffalo (Bubalus bubalis) as influenced by coconut oil and mangosteen peel supplementation.

    Pilajun, R; Wanapat, M

    2013-06-01

    Four, rumen fistulated swamp buffalo bulls were used to study microbial populations in the rumen when supplemented with coconut oil and mangosteen peel. Animals were randomly assigned to a 4 × 4 Latin square design. Four treatments were un-supplemented (Control), supplementation with coconut oil at 50 g/kg (CO5), supplementation with mangosteen peel at 30 g/kg (MP3) and supplementation with CO5 and MP3 (COM), of total DM intake. Animals received concentrate at 10 g/kg of BW, and rice straw was given ad libitum. Abundance of total bacteria was increased by CO5 supplementation, whereas populations of protozoa and Fibrobacter succinogenes were reduced by CO5 and COM supplementation. Dietary supplementation did not affect methanogen, Ruminococcus flavefaciens or Ruminococcus albus abundances. Dietary treatments changed denaturing gradient gel electrophoresis (DGGE) band patterns of methanogens and protozoa when compared with the control group, especially when supplemented with MP3. Supplementation of COM resulted in the greatest difference in pattern of DGGE bands for total bacteria compared with the control. Coconut oil and mangosteen peel supplementation resulted in changing of rumen microbial abundances and communities; however, combination of them could be more benefit to improve rumen fermentation of swamp buffalo fed on rice straw.

  5. Microbial Community Structure of Activated Sludge for Biosolubilization of Two Different Rock Phosphates.

    Xiao, Chunqiao; Wu, Xiaoyan; Liu, Tingting; Xu, Guang; Chi, Ruan

    2016-12-16

    A microbial consortium was directly taken from activated sludge and was used to solubilize rock phosphates (RPs) in a lab-scale bioreactor in this study. Results showed that the microbial consortium could efficiently release soluble phosphorus (P) from the RPs, and during 30-day incubation, it grew well in the bioreactor and reduced the pH of the solutions. The biosolubilization process was also illustrated by the observation of scanning electron microscopy combined with an energy dispersive X-ray spectroscopy (SEM-EDX), which showed an obvious corrosion on the ore surfaces, and most elements were removed from the ore samples. The analysis of microbial community structure by Illumina 16S ribosomal RNA (rRNA) gene and 18S rRNA gene MiSeq sequencing reflected different microbial diversity and richness in the solutions added with different ore samples. A lower richness and diversity of bacteria but a higher richness and diversity of fungi occurred in the solution added with ore sample 1 compared to that of in the solution added with ore sample 2. Alphaproteobacteria and Saccharomycetes were the dominating bacterial and fungal group, respectively, both in the solutions added with ore samples 1 and 2 at the class level. However, their abundances in the solution added with ore sample 1 were obviously lower than that in the solution added with ore sample 2. This study provides new insights into our understanding of the microbial community structure in the biosolubilization of RPs by a microbial consortium directly taken from activated sludge.

  6. Metaproteogenomics reveals the soil microbial communities active in nutrient cycling processes under different tree species

    Keiblinger, Katharina Maria; Masse, Jacynthe; Zühlke, Daniela; Riedel, Katharina; Zechmeister-Boltenstern, Sophie; Prescott, Cindy E.; Grayston, Sue

    2016-04-01

    Tree species exert strong effects on microbial communities in litter and soil and may alter rates of soil processes fundamental to nutrient cycling and carbon fluxes (Prescott and Grayston 2013). However, the influence of tree species on decomposition processes are still contradictory and poorly understood. An understanding of the mechanisms underlying plant influences on soil processes is important for our ability to predict ecosystem response to altered global/environmental conditions. In order to link microbial community structure and function to forest-floor nutrient cycling processes, we sampled forest floors under western redcedar (Thuja plicata), Douglas-fir (Pseudotsuga menziesii) and Sitka spruce (Picea sitchensis) grown in nutrient-poor sites in common garden experiments on Vancouver island (Canada). We measured forest-floor total N, total C, initial NH4+ and NO3- concentrations, DOC, Cmic and Nmic. Gross rates of ammonification and NH4+ consumption were measured using the 15N pool-dilution method. Organic carbon quality was assessed through FTIR analyses. Microbial community structure was analysed by a metaproteogenomic approach using 16S and ITS amplification and sequencing with MiSeq platform. Proteins were extracted and peptides characterized via LC-MS/MS on a Velos Orbitrap to assess the active microbial community. Different microbial communities were active under the three tree species and variation in process rates were observed and will be discussed. This research provides new insights on microbial processes during organic matter decomposition. The metaproteogenomic approach enables us to investigate these changes with respect to possible effects on soil C-storage at even finer taxonomic resolution.

  7. Microcalorimetric study of the effects of long-term fertilization on soil microbial activity in a wheat field on the Loess Plateau.

    Zhang, Qi; Liu, Xiaomei; Ma, Xiaojun; Fang, Jian; Fan, Tinglu; Wu, Fasi; An, Lizhe; Feng, Huyuan

    2014-12-01

    The effects of the long-term inorganic (nitrogen, N; phosphate, P) and organic (manure, M; straw, S) fertilizers/managemenet individually and in combinations (N, NP, SNP, M, and MNP) on soil microbial activity were investigated in a wheat field on the Loess Plateau, China. Microcalorimetry was used to determine microbial activity under different treatments. Nearly 30 years of consecutive fertilization has altered the culturable population of soil bacteria and fungi, the highest ones were detected in the treatments of manure and MNP, followed by the NP and SNP treatments. The microbial growth rate constant (μ/h(-1)) was significantly greater in the MNP treatment than all the other treatments. The total heat exchange values (Q/J) were the highest in the MNP and NP treatments, which were significantly different from the N and M treatments. The peak height (P(t)/μW) were significantly higher in MNP and NP treatments than in the remaining treatments. The peak time values (t(p)/h) among the MNP, NP, SNP and M, N and CK treatments were significantly different. In general, comparing with control, soil microbial activity was much higher in MNP, NP and SNP treatments, all including the phosphate fertilizer. Our results showed that the application of inorganic fertilizer and organic manure have positive effects on multiple soil chemical parameters, soil microorganism abundance and activity, and hence crop yield.

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

    Novosadová, I.; Ruiz Sinoga, J. D.; Záhora, J.; Fišerová, H.

    2010-05-01

    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). These steppes show a higher degree of variability in composition and structure. Ecosystem functioning is strongly related to the spatial pattern of grass tussocks. Soils beneath S. tenacissima grass show higher fertility and improved microclimatic conditions, favouring the formation of "resource islands" (Maestre et al., 2007). On the other hand in "resource islands" and in surrounding bare soil exists the belowground zone of influence. The competition for water and resources between plants and microorganisms is strong and mediated trough an enormous variety of exudates and resource depletion intended to regulate soil microbial communities in the rhizosphere, control herbivory, encourage beneficial symbioses, and change chemical and physical properties in soil (Pugnaire et Armas, 2008). Secondary compounds and allelopathy restrict other species growth and contribute to patchy plant distribution. Active root segregation affects not only neighbourś growth but also soil microbial activities. The objective of this study was to assess the effect of Stipa tenacissima on the key soil microbial activities under controlled incubation conditions (basal and potential respiration; net nitrogen mineralization). The experimental plots were located in the province Almería in Sierra de los Filabres Mountains near the village Gérgal (southeast Spain) in the small catchment which is situated between 1090 - 1165 m a.s.l. The area with extent of 82 000 m2 is affected by soil degradation. The climate is semiarid Mediterranean. The mean annual rainfall is of about 240 mm mostly concentrated in autumn and spring. The mean annual temperature is 13.9° C. The studied soil has a loam to sandy clay texture and is classified as Lithosol (FAO-ISRIC and ISSS, 1998). The vegetation of these areas is an

  9. Effects of Cu on metabolisms and enzyme activities of microbial communities in the process of composting.

    Guo, Xingliang; Gu, Jie; Gao, Hua; Qin, Qingjun; Chen, Zhixue; Shao, Li; Chen, Lin; Li, Hailong; Zhang, Weijuan; Chen, Shengnan; Liu, Jiang

    2012-03-01

    With the compost matrix of pig manure, wheat straw, and spent mushroom substrate, and then inoculated with the Compound Microbe Preparation, the study investigated the effects of the heavy metal Cu on the process of composting. Biolog EcoPlate™ test revealed that at a low content, Cu could improve the capacities of microbial communities to transform and exploit carbon sources in the form of polymer, thus speeding up the decomposition of agricultural wastes, and at a high content, Cu presented inhibiting effect on microbial communities to exploit complex macromolecular carbon sources, thus extending the decomposition of agricultural wastes. Enzyme activity testing showed that at a low content, Cu presented enzyme activity-activating effect at the early period of composting and inhibiting effect in the late period of composting, and at a high content, Cu presented enzyme activity-inhibiting effects through the process of composting.

  10. Elevated atmospheric CO2 increases microbial growth rates and enzymes activity in soil

    Blagodatskaya, Evgenia; Blagodatsky, Sergey; Dorodnikov, Maxim; Kuzyakov, Yakov

    2010-05-01

    Increasing the belowground translocation of assimilated carbon by plants grown under elevated CO2 can cause a shift in the structure and activity of the microbial community responsible for the turnover of organic matter in soil. We investigated the long-term effect of elevated CO2 in the atmosphere on microbial biomass and specific growth rates in root-free and rhizosphere soil. The experiments were conducted under two free air carbon dioxide enrichment (FACE) systems: in Hohenheim and Braunschweig, as well as in the intensively managed forest mesocosm of the Biosphere 2 Laboratory (B2L) in Oracle, AZ. Specific microbial growth rates (μ) were determined using the substrate-induced respiration response after glucose and/or yeast extract addition to the soil. We evaluated the effect of elevated CO2 on b-glucosidase, chitinase, phosphatase, and sulfatase to estimate the potential enzyme activity after soil amendment with glucose and nutrients. For B2L and both FACE systems, up to 58% higher μ were observed under elevated vs. ambient CO2, depending on site, plant species and N fertilization. The μ-values increased linearly with atmospheric CO2 concentration at all three sites. The effect of elevated CO2 on rhizosphere microorganisms was plant dependent and increased for: Brassica napus=Triticum aestivumyeast extract then for those growing on glucose, i.e. the effect of elevated CO2 was smoothed on rich vs. simple substrate. So, the r/K strategies ratio can be better revealed by studying growth on simple (glucose) than on rich substrate mixtures (yeast extract). After adding glucose, enzyme activities under elevated CO2 were 1.2-1.9-fold higher than under ambient CO2. This indicates the increased activity of microorganisms, which leads to accelerated C turnover in soil under elevated CO2. Our results clearly showed that the functional characteristics of the soil microbial community (i.e. specific growth rates and enzymes activity) rather than total microbial biomass

  11. Influence of xenobiotic contaminants on landfill soil microbial activity and diversity.

    Pérez-Leblic, M I; Turmero, A; Hernández, M; Hernández, A J; Pastor, J; Ball, A S; Rodríguez, J; Arias, M E

    2012-03-01

    Landfills are often the final recipient of a range of environmentally important contaminants such as hydrocarbons, polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs). In this study the influence of these contaminants on microbial activity and diversity was assessed in a municipal solid waste (MSW) landfill placed in Torrejón de Ardoz (Madrid, Spain). Soil samples were collected from four selected areas (T2, T2B, T8 and T9) in which the amount of total hydrocarbons, PAHs and PCBs were measured. Soil biomass, substrate induced respiration (SIR) and physiological profiles of soil samples were also determined and used as indicators of total microbial activity. Highest concentration of total hydrocarbons was detected in T2 and T9 samples, with both PCBs and benzopyrene being detected in T9 sample. Results corresponding to microbial estimation (viable bacteria and fungi, and SIR) and microbiological enzyme activities showed that highest values corresponded to areas with the lowest concentration of hydrocarbons (T2B and T8). It is noticeable that in such areas was detected the lowest concentration of the pollutants PAHs and PCBs. A negative significant correlation between soil hydrocarbons concentration and SIR, total bacteria and fungi counts and most of the enzyme activities determined was established. DGGE analysis was also carried out to determine the microbial communities' structure in the soil samples, establishing different profiles of Bacteria and Archaea communities in each analysed area. Through the statistical analysis a significant negative correlation was only found for Bacteria domain when Shannon index and hydrocarbon concentration were correlated. In addition, a bacterial 16S rRNA gene based clone library was prepared from each soil. From the clones analysed in the samples, the majority corresponded to Proteobacteria, followed by Acidobacteria and Actinobacteria. It is important to remark that the most polluted sample (T9) showed

  12. Activation of Natural Killer cells during microbial infections

    Amir eHorowitz

    2012-01-01

    Full Text Available Natural killer (NK cells are large granular lymphocytes that express a diverse array of germline encoded inhibitory and activating receptors for MHC Class I and Class I-like molecules, classical co-stimulatory ligands and cytokines. The ability of NK cells to be very rapidly activated by inflammatory cytokines, to secrete effector cytokines and to kill infected or stressed host cells, suggests that they may be among the very early responders during infection. Recent studies have also identified a small number of pathogen-derived ligands that can bind to NK cell surface receptors and directly induce their activation. Here we review recent studies that have begun to elucidate the various pathways by which viral, bacterial and parasite pathogens activate NK cells. We also consider two emerging themes of NK cell-pathogen interactions, namely their contribution to adaptive immune responses and their potential to take on regulatory and immunomodulatory functions.

  13. (Asynchronous availabilities of N and P regulate the activity and structure of the microbial decomposer community

    Nicolas eFanin

    2016-01-01

    Full Text Available Nitrogen (N and phosphorus (P availability both control microbial decomposers and litter decomposition. However, these two key nutrients show distinct release patterns from decomposing litter and are unlikely available at the same time in most ecosystems. Little is known about how temporal differences in N and P availability affect decomposers and litter decomposition, which may be particularly critical for tropical rainforests growing on old and nutrient-impoverished soils. Here we used three chemically contrasted leaf litter substrates and cellulose paper as a widely accessible substrate containing no nutrients to test the effects of temporal differences in N and P availability in a microcosm experiment under fully controlled conditions. We measured substrate mass loss, microbial activity (by substrate induced respiration, SIR as well as microbial community structure (using phospholipid fatty acids, PLFAs in the litter and the underlying soil throughout the initial stages of decomposition. We generally found a stronger stimulation of substrate mass loss and microbial respiration, especially for cellulose, with simultaneous NP addition compared to a temporally separated N and P addition. However, litter types with a relatively high N to P availability responded more to initial P than N addition and vice versa. A third litter species showed no response to fertilization regardless of the sequence of addition, likely due to strong C limitation. Microbial community structure in the litter was strongly influenced by the fertilization sequence. In particular, the fungi to bacteria ratio increased following N addition alone, a shift that was reversed with complementary P addition. Opposite to the litter layer microorganisms, the soil microbial community structure was more strongly influenced by the identity of the decomposing substrate than by fertilization treatments, reinforcing the idea that C availability can strongly constrain decomposer

  14. Soil Rhizosphere Microbial Communities and Enzyme Activities under Organic Farming in Alabama

    Zachary Senwo

    2011-07-01

    Full Text Available Evaluation of the soil rhizosphere has been limited by the lack of robust assessments that can explore the vast complex structure and diversity of soil microbial communities. Our objective was to combine fatty acid methyl ester (FAME and pyrosequencing techniques to evaluate soil microbial community structure and diversity. In addition, we evaluated biogeochemical functionality of the microbial communities via enzymatic activities of nutrient cycling. Samples were taken from a silt loam at 0–10 and 10–20 cm in an organic farm under lettuce (Lactuca sativa, potato (Solanum tuberosum, onion (Allium cepa L, broccoli (Brassica oleracea var. botrytis and Tall fescue pasture grass (Festuca arundinacea. Several FAMEs (a15:0, i15:0, i15:1, i16:0, a17:0, i17:0, 10Me17:0, cy17:0, 16:1ω5c and 18:1ω9c varied among the crop rhizospheres. FAME profiles of the soil microbial community under pasture showed a higher fungal:bacterial ratio compared to the soil under lettuce, potato, onion, and broccoli. Soil under potato showed higher sum of fungal FAME indicators compared to broccoli, onion and lettuce. Microbial biomass C and enzyme activities associated with pasture and potato were higher than the other rhizospheres. The lowest soil microbial biomass C and enzyme activities were found under onion. Pyrosequencing revealed significant differences regarding the maximum operational taxonomic units (OTU at 3% dissimilarity level (roughly corresponding to the bacterial species level at 0–10 cm (581.7–770.0 compared to 10–20 cm (563.3–727.7 soil depths. The lowest OTUs detected at 0–10 cm were under broccoli (581.7; whereas the lowest OTUs found at 10–20 cm were under potato (563.3. The predominant phyla (85% in this soil at both depths were Bacteroidetes (i.e., Flavobacteria, Sphingobacteria, and Proteobacteria. Flavobacteriaceae and Xanthomonadaceae were predominant under broccoli. Rhizobiaceae, Hyphomicrobiaceae, and Acidobacteriaceae were more

  15. Formation of recent Pb-Ag-Au mineralization by potential sub-surface microbial activity.

    Tornos, Fernando; Velasco, Francisco; Menor-Salván, César; Delgado, Antonio; Slack, John F; Escobar, Juan Manuel

    2014-08-06

    Las Cruces is a base-metal deposit in the Iberian Pyrite Belt, one of the world's best-known ore provinces. Here we report the occurrence of major Pb-Ag-Au mineralization resulting from recent sub-surface replacement of supergene oxyhydroxides by carbonate and sulphide minerals. This is probably the largest documented occurrence of recent microbial activity producing an ore assemblage previously unknown in supergene mineralizing environments. The presence of microbial features in the sulphides suggests that these may be the first-described natural bacteriomorphs of galena. The low δ(13)C values of the carbonate minerals indicate formation by deep anaerobic microbial processes. Sulphur isotope values of sulphides are interpreted here as reflecting microbial reduction in a system impoverished in sulphate. We suggest that biogenic activity has produced around 3.1 × 10(9) moles of reduced sulphur and 10(10) moles of CO2, promoting the formation of ca. 1.19 Mt of carbonates, 114,000 t of galena, 638 t of silver sulphides and 6.5 t of gold.

  16. Discovery of New Compounds Active against Plasmodium falciparum by High Throughput Screening of Microbial Natural Products

    Pérez-Moreno, Guiomar; Cantizani, Juan; Sánchez-Carrasco, Paula; Ruiz-Pérez, Luis Miguel; Martín, Jesús; el Aouad, Noureddine; Pérez-Victoria, Ignacio; Tormo, José Rubén; González-Menendez, Víctor; González, Ignacio; de Pedro, Nuria; Reyes, Fernando; Genilloud, Olga; Vicente, Francisca; González-Pacanowska, Dolores

    2016-01-01

    Due to the low structural diversity within the set of antimalarial drugs currently available in the clinic and the increasing number of cases of resistance, there is an urgent need to find new compounds with novel modes of action to treat the disease. Microbial natural products are characterized by their large diversity provided in terms of the chemical complexity of the compounds and the novelty of structures. Microbial natural products extracts have been underexplored in the search for new antiparasitic drugs and even more so in the discovery of new antimalarials. Our objective was to find new druggable natural products with antimalarial properties from the MEDINA natural products collection, one of the largest natural product libraries harboring more than 130,000 microbial extracts. In this work, we describe the optimization process and the results of a phenotypic high throughput screen (HTS) based on measurements of Plasmodium lactate dehydrogenase. A subset of more than 20,000 extracts from the MEDINA microbial products collection has been explored, leading to the discovery of 3 new compounds with antimalarial activity. In addition, we report on the novel antiplasmodial activity of 4 previously described natural products. PMID:26735308

  17. Discovery of New Compounds Active against Plasmodium falciparum by High Throughput Screening of Microbial Natural Products.

    Pérez-Moreno, Guiomar; Cantizani, Juan; Sánchez-Carrasco, Paula; Ruiz-Pérez, Luis Miguel; Martín, Jesús; El Aouad, Noureddine; Pérez-Victoria, Ignacio; Tormo, José Rubén; González-Menendez, Víctor; González, Ignacio; de Pedro, Nuria; Reyes, Fernando; Genilloud, Olga; Vicente, Francisca; González-Pacanowska, Dolores

    2016-01-01

    Due to the low structural diversity within the set of antimalarial drugs currently available in the clinic and the increasing number of cases of resistance, there is an urgent need to find new compounds with novel modes of action to treat the disease. Microbial natural products are characterized by their large diversity provided in terms of the chemical complexity of the compounds and the novelty of structures. Microbial natural products extracts have been underexplored in the search for new antiparasitic drugs and even more so in the discovery of new antimalarials. Our objective was to find new druggable natural products with antimalarial properties from the MEDINA natural products collection, one of the largest natural product libraries harboring more than 130,000 microbial extracts. In this work, we describe the optimization process and the results of a phenotypic high throughput screen (HTS) based on measurements of Plasmodium lactate dehydrogenase. A subset of more than 20,000 extracts from the MEDINA microbial products collection has been explored, leading to the discovery of 3 new compounds with antimalarial activity. In addition, we report on the novel antiplasmodial activity of 4 previously described natural products.

  18. Benthic microbial abundance and activities in an intensively trawled ecosystem (Thermaikos Gulf, Aegean Sea)

    Polymenakou, Paraskevi N.; Pusceddu, Antonio; Tselepides, Anastasios; Polychronaki, Thalia; Giannakourou, Antonia; Fiordelmondo, Carla; Hatziyanni, Eleni; Danovaro, Roberto

    2005-12-01

    Abundance of benthic bacteria, heterotrophic nanoflagellates and ciliates, extracellular enzymatic activities, bacterial C production, C mineralisation and sediment community oxygen consumption rates were measured in the Thermaikos Gulf (Northeastern Mediterranean), before (September 2001), and during intense trawling activities (October 2001 and February 2002). The biochemical composition of sedimentary organic matter has revealed that bottom trawling had an effect on the trophic state of Thermaikos Gulf. Changes on the benthic microbial food web were also recorded, during the three sampling seasons. Even though trawling-induced sediment resuspension did not alter significantly the abundance of the microbial components, with the exception of the most impacted station, it determined changes regarding their relative importance. Thus, the ratios of bacterium to nanoflagellates and ciliate to nanoflagellates abundance increased in the trawled stations, causing a sudden increase in bacterial C production, in comparison to the non-trawled station. Four months later, the effects of trawling on the microbial food web were less evident, masked possibly by the drastic decrease in the water temperature. The results of the present work suggest that bottom trawling induces alteration of the sedimentological variables and can be considered as a factor affecting the function of the microbial food web in marine coastal ecosystems. These alterations cause faster mobilisation of organic C buried in the sediment and increase nutrient concentrations and availability in the system, thus inducing an effect that could lead to coastal eutrophication.

  19. Microbial metabolic activity in soil as measured by dehydrogenase determinations

    Casida, L. E., Jr.

    1977-01-01

    The dehydrogenase technique for measuring the metabolic activity of microorganisms in soil was modified to use a 6-h, 37 C incubation with either glucose or yeast extract as the electron-donating substrate. The rate of formazan production remained constant during this time interval, and cellular multiplication apparently did not occur. The technique was used to follow changes in the overall metabolic activities of microorganisms in soil undergoing incubation with a limiting concentration of added nutrient. The sequence of events was similar to that obtained by using the Warburg respirometer to measure O2 consumption. However, the major peaks of activity occurred earlier with the respirometer. This possibly is due to the lack of atmospheric CO2 during the O2 consumption measurements.

  20. Population-Sequencing as a Biomarker of Burkholderia mallei and Burkholderia pseudomallei Evolution through Microbial Forensic Analysis

    John P. Jakupciak

    2013-01-01

    Full Text Available Large-scale genomics projects are identifying biomarkers to detect human disease. B. pseudomallei and B. mallei are two closely related select agents that cause melioidosis and glanders. Accurate characterization of metagenomic samples is dependent on accurate measurements of genetic variation between isolates with resolution down to strain level. Often single biomarker sensitivity is augmented by use of multiple or panels of biomarkers. In parallel with single biomarker validation, advances in DNA sequencing enable analysis of entire genomes in a single run: population-sequencing. Potentially, direct sequencing could be used to analyze an entire genome to serve as the biomarker for genome identification. However, genome variation and population diversity complicate use of direct sequencing, as well as differences caused by sample preparation protocols including sequencing artifacts and mistakes. As part of a Department of Homeland Security program in bacterial forensics, we examined how to implement whole genome sequencing (WGS analysis as a judicially defensible forensic method for attributing microbial sample relatedness; and also to determine the strengths and limitations of whole genome sequence analysis in a forensics context. Herein, we demonstrate use of sequencing to provide genetic characterization of populations: direct sequencing of populations.

  1. Fall risk in an active elderly population

    Læssøe, Uffe; Hoeck, Hans C.; Simonsen, Ole;

    2007-01-01

    , with a sensitivity and specificity of 50% and 43% respectively. CONCLUSION: Individuals with poor balance were identified but falls were not predicted by this test battery. Physiological balance characteristics can apparently not be used in isolation as adequate indicators of fall risk in this population...... of community dwelling elderly. Falling is a complex phenomenon of multifactorial origin. The crucial factor in relation to fall risk is the redundancy of balance capacity against the balance demands of the individuals levels of fall-risky lifestyle and behavior. This calls for an approach to fall risk...

  2. Effects of selected surfactants on soil microbial activity

    Surfactants (surface-active agents) facilitate and accentuate the emulsifying, dispersing, spreading, and wetting properties of liquids. Surfactants are used in industry to reduce the surface tension of liquid and to solubilize compounds. For agricultural pest management, surfactants are an import...

  3. Soil Rhizosphere Microbial Communities and Enzyme Activities under Organic Farming

    This study investigated the activities of ß-glucosidase (C cycling, ß-glucosaminidase (C and N cycling), acid phosphatase (P cycling) and arylsulfatase (S cycling) under lettuce (Lactuca sativa), potato (Solanum Tuberosum), onion (Allium cepa L), broccoli (Brassica oleracea var. botrytis) and Tall f...

  4. Microbial Enzyme Activity and Carbon Cycling in Grassland Soil Fractions

    Allison, S. D.; Jastrow, J. D.

    2004-12-01

    Extracellular enzymes are necessary to degrade complex organic compounds present in soils. Using physical fractionation procedures, we tested whether old soil carbon is spatially isolated from degradative enzymes across a prairie restoration chronosequence in Illinois, USA. We found that carbon-degrading enzymes were abundant in all soil fractions, including macroaggregates, microaggregates, and the clay fraction, which contains carbon with a mean residence time of ~200 years. The activities of two cellulose-degrading enzymes and a chitin-degrading enzyme were 2-10 times greater in organic matter fractions than in bulk soil, consistent with the rapid turnover of these fractions. Polyphenol oxidase activity was 3 times greater in the clay fraction than in the bulk soil, despite very slow carbon turnover in this fraction. Changes in enzyme activity across the restoration chronosequence were small once adjusted for increases in soil carbon concentration, although polyphenol oxidase activity per unit carbon declined by 50% in native prairie versus cultivated soil. These results are consistent with a `two-pool' model of enzyme and carbon turnover in grassland soils. In light organic matter fractions, enzyme production and carbon turnover both occur rapidly. However, in mineral-dominated fractions, both enzymes and their carbon substrates are immobilized on mineral surfaces, leading to slow turnover. Soil carbon accumulation in the clay fraction and across the prairie restoration chronosequence probably reflects increasing physical isolation of enzymes and substrates on the molecular scale, rather than the micron to millimeter scale.

  5. Using populations of human and microbial genomes for organism detection in metagenomes

    Ames, Sasha K.; Gardner, Shea N.; Marti, Jose Manuel; Slezak, Tom R.; Gokhale, Maya B.; Allen, Jonathan E.

    2015-01-01

    Identifying causative disease agents in human patients from shotgun metagenomic sequencing (SMS) presents a powerful tool to apply when other targeted diagnostics fail. Numerous technical challenges remain, however, before SMS can move beyond the role of research tool. Accurately separating the known and unknown organism content remains difficult, particularly when SMS is applied as a last resort. The true amount of human DNA that remains in a sample after screening against the human reference genome and filtering nonbiological components left from library preparation has previously been underreported. In this study, we create the most comprehensive collection of microbial and reference-free human genetic variation available in a database optimized for efficient metagenomic search by extracting sequences from GenBank and the 1000 Genomes Project. The results reveal new human sequences found in individual Human Microbiome Project (HMP) samples. Individual samples contain up to 95% human sequence, and 4% of the individual HMP samples contain 10% or more human reads. Left unidentified, human reads can complicate and slow down further analysis and lead to inaccurately labeled microbial taxa and ultimately lead to privacy concerns as more human genome data is collected. PMID:25926546

  6. Functional Diversity and Microbial Activity of Forest Soils that Are Heavily Contaminated by Lead and Zinc.

    Pająk, Marek; Błońska, Ewa; Frąc, Magdalena; Oszust, Karolina

    The objective of this study was to assess the impact of metal contamination on microbial functional diversity and enzyme activity in forest soils. This study involved the evaluation of the influence of the texture, carbon content and distance to the source of contamination on the change in soil microbial activity, which did not investigate in previous studies. The study area is located in southern Poland near the city of Olkusz around the flotation sedimentation pond of lead and zinc at the Mining and Metallurgical Company "ZGH Bolesław, Inc.". The central point of the study area was selected as the middle part of the sedimentation pond. The experiment was conducted over a regular 500 × 500-m grid, where 33 sampling points were established. Contents of organic carbon and trace elements (Zn, Pb and Cd), pH and soil texture were investigated. The study included the determination of dehydrogenase and urease activities and microbial functional diversity evaluation based on the community-level physiological profiling approach by Biolog EcoPlate. The greatest reduction in the dehydrogenase and urease activities was observed in light sandy soils with Zn content >220 mg · kg(-1) and a Pb content > 100 mg · kg(-1). Soils with a higher concentration of fine fraction, despite having the greatest concentrations of metals, were characterized by high rates of Biolog®-derived parameters and a lower reduction of enzyme activity.

  7. Short-term parasite-infection alters already the biomass, activity and functional diversity of soil microbial communities.

    Li, Jun-Min; Jin, Ze-Xin; Hagedorn, Frank; Li, Mai-He

    2014-11-04

    Native parasitic plants may be used to infect and control invasive plants. We established microcosms with invasive Mikania micrantha and native Coix lacryma-jobi growing in mixture on native soils, with M. micrantha being infected by parasitic Cuscuta campestris at four intensity levels for seven weeks to estimate the top-down effects of plant parasitism on the biomass and functional diversity of soil microbial communities. Parasitism significantly decreased root biomass and altered soil microbial communities. Soil microbial biomass decreased, but soil respiration increased at the two higher infection levels, indicating a strong stimulation of soil microbial metabolic activity (+180%). Moreover, a Biolog assay showed that the infection resulted in a significant change in the functional diversity indices of soil microbial communities. Pearson correlation analysis indicated that microbial biomass declined significantly with decreasing root biomass, particularly of the invasive M. micrantha. Also, the functional diversity indices of soil microbial communities were positively correlated with soil microbial biomass. Therefore, the negative effects on the biomass, activity and functional diversity of soil microbial community by the seven week long plant parasitism was very likely caused by decreased root biomass and root exudation of the invasive M. micrantha.

  8. Dynamics of Microbial Populations during Fermentation of Wines from the Utiel-Requena Region of Spain

    Pardo, Isabel; García, María José; Zúñiga, Manuel; Uruburu, Federico

    1989-01-01

    The dynamics of fungi, yeasts, and lactic acid bacteria during fermentation of four musts were studied. Fungi disappeared quickly in the fermenting must. The lactic acid bacteria population diminished during alcoholic fermentation, then they increased and performed malolactic fermentation. Yeasts grew quickly, reaching maximum populations at different times depending on the vinification treatment.

  9. MILK KEFIR: COMPOSITION, MICROBIAL CULTURES, BIOLOGICAL ACTIVITIES AND RELATED PRODUCTS

    Maria Rosa Prado

    2015-10-01

    Full Text Available In recent years, there has been a strong focus on beneficial foods with probiotic microorganisms and functional organic substances. In this context, there is an increasing interest in the commercial use of kefir, since it can be marketed as a natural beverage that has health promoting bacteria. There are numerous commercially available kefir based-products. Kefir may act as a matrix in the effective delivery of probiotic microorganisms in different types of products. Also, the presence of kefir’s exopolysaccharides, known as kefiran, which has biological activity, certainly adds value to products. Kefiran can also be used separately in other food products and as a coating film for various food and pharmaceutical products. This article aims to update the information about kefir and its microbiological composition, biological activity of the kefir’s microflora and the importance of kefiran as a beneficial health substance.

  10. Characterization of methane production and microbial community shifts during waste activated sludge degradation in microbial electrolysis cells.

    Sun, Rui; Zhou, Aijuan; Jia, Jianna; Liang, Qing; Liu, Qian; Xing, Defeng; Ren, Nanqi

    2015-01-01

    Microbial electrolysis cell (MECs) were investigated as a promising technology to manage waste activated sludge (WAS) reduction and bio-methane generation. The effect of WAS concentration on the MECs performance was discussed. At the optimal concentration of 15gCOD/L, maximum methane yield of MECs fed with alkaline pretreated WAS (A-WAS) were achieved with the value of 77.13±2.52LCH4/kg-COD on Day 3, which had been improved by 1.5-fold compared with MECs fed with raw WAS (R-WAS), while that was negligible in open circuit controls. Efficient sludge reduction was also obtained in terms of TCOD, total protein, TSS and VSS removal. Pyrosequencing revealed the dominance of exoelectrogen Geobacter and hydrogen-producing bacteria Petrimonas in MECs fed with WAS. Methanocorpusculum with the capacity of methane generation using CO2 and H2 also showed overwhelming dominance (96.01%). The large proportions of Petrimonas and Methanocorpusculum indicated the occurrence of hydrogenotrophic methanogenesis in our methane-producing MECs.

  11. Detailed analysis of the microbial population in Malaysian spontaneous cocoa pulp fermentations reveals a core and variable microbiota.

    Esther Meersman

    Full Text Available The fermentation of cocoa pulp is one of the few remaining large-scale spontaneous microbial processes in today's food industry. The microbiota involved in cocoa pulp fermentations is complex and variable, which leads to inconsistent production efficiency and cocoa quality. Despite intensive research in the field, a detailed and comprehensive analysis of the microbiota is still lacking, especially for the expanding Asian production region. Here, we report a large-scale, comprehensive analysis of four spontaneous Malaysian cocoa pulp fermentations across two time points in the harvest season and two fermentation methods. Our results show that the cocoa microbiota consists of a "core" and a "variable" part. The bacterial populations show a remarkable consistency, with only two dominant species, Lactobacillus fermentum and Acetobacter pasteurianus. The fungal diversity is much larger, with four dominant species occurring in all fermentations ("core" yeasts, and a large number of yeasts that only occur in lower numbers and specific fermentations ("variable" yeasts. Despite this diversity, a clear pattern emerges, with early dominance of apiculate yeasts and late dominance of Saccharomyces cerevisiae. Our results provide new insights into the microbial diversity in Malaysian cocoa pulp fermentations and pave the way for the selection of starter cultures to increase efficiency and consistency.

  12. Brain microbial populations in HIV/AIDS: α-proteobacteria predominate independent of host immune status.

    Branton, William G; Ellestad, Kristofor K; Maingat, Ferdinand; Wheatley, B Matt; Rud, Erling; Warren, René L; Holt, Robert A; Surette, Michael G; Power, Christopher

    2013-01-01

    The brain is assumed to be a sterile organ in the absence of disease although the impact of immune disruption is uncertain in terms of brain microbial diversity or quantity. To investigate microbial diversity and quantity in the brain, the profile of infectious agents was examined in pathologically normal and abnormal brains from persons with HIV/AIDS [HIV] (n = 12), other disease controls [ODC] (n = 14) and in cerebral surgical resections for epilepsy [SURG] (n = 6). Deep sequencing of cerebral white matter-derived RNA from the HIV (n = 4) and ODC (n = 4) patients and SURG (n = 2) groups revealed bacterially-encoded 16 s RNA sequences in all brain specimens with α-proteobacteria representing over 70% of bacterial sequences while the other 30% of bacterial classes varied widely. Bacterial rRNA was detected in white matter glial cells by in situ hybridization and peptidoglycan immunoreactivity was also localized principally in glia in human brains. Analyses of amplified bacterial 16 s rRNA sequences disclosed that Proteobacteria was the principal bacterial phylum in all human brain samples with similar bacterial rRNA quantities in HIV and ODC groups despite increased host neuroimmune responses in the HIV group. Exogenous viruses including bacteriophage and human herpes viruses-4, -5 and -6 were detected variably in autopsied brains from both clinical groups. Brains from SIV- and SHIV-infected macaques displayed a profile of bacterial phyla also dominated by Proteobacteria but bacterial sequences were not detected in experimentally FIV-infected cat or RAG1⁻/⁻ mouse brains. Intracerebral implantation of human brain homogenates into RAG1⁻/⁻ mice revealed a preponderance of α-proteobacteria 16 s RNA sequences in the brains of recipient mice at 7 weeks post-implantation, which was abrogated by prior heat-treatment of the brain homogenate. Thus, α-proteobacteria represented the major bacterial component of the primate brain's microbiome

  13. Anti-microbial Activity of Urine after Ingestion of Cranberry: A Pilot Study

    Yee Lean Lee

    2010-01-01

    Full Text Available We explore the anti-microbial activity of urine specimens after the ingestion of a commercial cranberry preparation. Twenty subjects without urinary infection, off antibiotics and all supplements or vitamins were recruited. The study was conducted in two phases: in phase 1, subjects collected the first morning urine prior to ingesting 900 mg of cranberry and then at 2, 4 and 6 h. In phase 2, subjects collected urine on 2 consecutive days: on Day 1 no cranberry was ingested (control specimens, on Day 2, cranberry was ingested. The pH of all urine specimens were adjusted to the same pH as that of the first morning urine specimen. Aliquots of each specimen were independently inoculated with Escherichia coli, Klebsiella pneumoniae or Candida albicans. After incubation, colony forming units/ml (CFU ml−1 in the control specimen was compared with CFU ml−1 in specimens collected 2, 4 and 6 h later. Specimens showing ≥50% reduction in CFU ml−1 were considered as having ‘activity’ against the strains tested. In phase 1, 7/20 (35% subjects had anti-microbial activity against E. coli, 13/20 (65% against K. pneumoniae and 9/20 (45% against C. albicans in specimens collected 2–6 h after ingestion of cranberry. In phase 2, 6/9 (67% of the subjects had activity against K. pneumoniae. This pilot study demonstrates weak anti-microbial activity in urine specimens after ingestion of a single dose of commercial cranberry. Anti-microbial activity was noted only against K. pneumoniae 2–6 h after ingestion of the cranberry preparation.

  14. Active Microbial Communities Inhabit Sulphate-Methane Interphase in Deep Bedrock Fracture Fluids in Olkiluoto, Finland

    Malin Bomberg

    2015-01-01

    Full Text Available Active microbial communities of deep crystalline bedrock fracture water were investigated from seven different boreholes in Olkiluoto (Western Finland using bacterial and archaeal 16S rRNA, dsrB, and mcrA gene transcript targeted 454 pyrosequencing. Over a depth range of 296–798 m below ground surface the microbial communities changed according to depth, salinity gradient, and sulphate and methane concentrations. The highest bacterial diversity was observed in the sulphate-methane mixing zone (SMMZ at 250–350 m depth, whereas archaeal diversity was highest in the lowest boundaries of the SMMZ. Sulphide-oxidizing ε-proteobacteria (Sulfurimonas sp. dominated in the SMMZ and γ-proteobacteria (Pseudomonas spp. below the SMMZ. The active archaeal communities consisted mostly of ANME-2D and Thermoplasmatales groups, although Methermicoccaceae, Methanobacteriaceae, and Thermoplasmatales (SAGMEG, TMG were more common at 415–559 m depth. Typical indicator microorganisms for sulphate-methane transition zones in marine sediments, such as ANME-1 archaea, α-, β- and δ-proteobacteria, JS1, Actinomycetes, Planctomycetes, Chloroflexi, and MBGB Crenarchaeota were detected at specific depths. DsrB genes were most numerous and most actively transcribed in the SMMZ while the mcrA gene concentration was highest in the deep methane rich groundwater. Our results demonstrate that active and highly diverse but sparse and stratified microbial communities inhabit the Fennoscandian deep bedrock ecosystems.

  15. Active Microbial Communities Inhabit Sulphate-Methane Interphase in Deep Bedrock Fracture Fluids in Olkiluoto, Finland

    Bomberg, Malin; Nyyssönen, Mari; Pitkänen, Petteri; Lehtinen, Anne; Itävaara, Merja

    2015-01-01

    Active microbial communities of deep crystalline bedrock fracture water were investigated from seven different boreholes in Olkiluoto (Western Finland) using bacterial and archaeal 16S rRNA, dsrB, and mcrA gene transcript targeted 454 pyrosequencing. Over a depth range of 296–798 m below ground surface the microbial communities changed according to depth, salinity gradient, and sulphate and methane concentrations. The highest bacterial diversity was observed in the sulphate-methane mixing zone (SMMZ) at 250–350 m depth, whereas archaeal diversity was highest in the lowest boundaries of the SMMZ. Sulphide-oxidizing ε-proteobacteria (Sulfurimonas sp.) dominated in the SMMZ and γ-proteobacteria (Pseudomonas spp.) below the SMMZ. The active archaeal communities consisted mostly of ANME-2D and Thermoplasmatales groups, although Methermicoccaceae, Methanobacteriaceae, and Thermoplasmatales (SAGMEG, TMG) were more common at 415–559 m depth. Typical indicator microorganisms for sulphate-methane transition zones in marine sediments, such as ANME-1 archaea, α-, β- and δ-proteobacteria, JS1, Actinomycetes, Planctomycetes, Chloroflexi, and MBGB Crenarchaeota were detected at specific depths. DsrB genes were most numerous and most actively transcribed in the SMMZ while the mcrA gene concentration was highest in the deep methane rich groundwater. Our results demonstrate that active and highly diverse but sparse and stratified microbial communities inhabit the Fennoscandian deep bedrock ecosystems. PMID:26425566

  16. Winter climate change affects growing-season soil microbial biomass and activity in northern hardwood forests.

    Durán, Jorge; Morse, Jennifer L; Groffman, Peter M; Campbell, John L; Christenson, Lynn M; Driscoll, Charles T; Fahey, Timothy J; Fisk, Melany C; Mitchell, Myron J; Templer, Pamela H

    2014-11-01

    Understanding the responses of terrestrial ecosystems to global change remains a major challenge of ecological research. We exploited a natural elevation gradient in a northern hardwood forest to determine how reductions in snow accumulation, expected with climate change, directly affect dynamics of soil winter frost, and indirectly soil microbial biomass and activity during the growing season. Soils from lower elevation plots, which accumulated less snow and experienced more soil temperature variability during the winter (and likely more freeze/thaw events), had less extractable inorganic nitrogen (N), lower rates of microbial N production via potential net N mineralization and nitrification, and higher potential microbial respiration during the growing season. Potential nitrate production rates during the growing season were particularly sensitive to changes in winter snow pack accumulation and winter soil temperature variability, especially in spring. Effects of elevation and winter conditions on N transformation rates differed from those on potential microbial respiration, suggesting that N-related processes might respond differently to winter climate change in northern hardwood forests than C-related processes.

  17. No tillage combined with crop rotation improves soil microbial community composition and metabolic activity.

    Sun, Bingjie; Jia, Shuxia; Zhang, Shixiu; McLaughlin, Neil B; Liang, Aizhen; Chen, Xuewen; Liu, Siyi; Zhang, Xiaoping

    2016-04-01

    Soil microbial community can vary with different agricultural managements, which in turn can affect soil quality. The objective of this work was to evaluate the effects of long-term tillage practice (no tillage (NT) and conventional tillage (CT)) and crop rotation (maize-soybean (MS) rotation and monoculture maize (MM)) on soil microbial community composition and metabolic capacity in different soil layers. Long-term NT increased the soil organic carbon (SOC) and total nitrogen (TN) mainly at the 0-5 cm depth which was accompanied with a greater microbial abundance. The greater fungi-to-bacteria (F/B) ratio was found in NTMS at the 0-5 cm depth. Both tillage and crop rotation had a significant effect on the metabolic activity, with the greatest average well color development (AWCD) value in NTMS soil at all three soil depths. Redundancy analysis (RDA) showed that the shift in microbial community composition was accompanied with the changes in capacity of utilizing different carbon substrates. Therefore, no tillage combined with crop rotation could improve soil biological quality and make agricultural systems more sustainable.

  18. Microbial Contamination of Ice Machines Is Mediated by Activated Charcoal Filtration Systems in a City Hospital.

    Yorioka, Katsuhiro; Oie, Shigeharu; Hayashi, Koji; Kimoto, Hiroo; Furukawa, Hiroyuki

    2016-06-01

    Although microbial contamination of ice machines has been reported, no previous study has addressed microbial contamination of ice produced by machines equipped with activated charcoal (AC) filters in hospitals. The aim of this study was to provide clinical data for evaluating AC filters to prevent microbial contamination of ice. We compared microbial contamination in ice samples produced by machines with (n = 20) and without an AC filter (n = 40) in Shunan City Shinnanyo Municipal Hospital. All samples from the ice machine equipped with an AC filter contained 10-116 CFUs/g of glucose nonfermenting gram-negative bacteria such as Pseudomonas aeruginosa and Chryseobacterium meningosepticum. No microorganisms were detected in samples from ice machines without AC filters. After the AC filter was removed from the ice machine that tested positive for Gram-negative bacteria, the ice was resampled (n = 20). Analysis found no contaminants. Ice machines equipped with AC filters pose a serious risk factor for ice contamination. New filter-use guidelines and regulations on bacterial detection limits to prevent contamination of ice in healthcare facilities are necessary.

  19. Microbial activity and bacterial community structure during degradation of microcystins

    Christoffersen, K.; Lyck, Susanne; Winding, A.

    2002-01-01

    Degradation of realistic microcystin concentrations in lake water with indigenous bacteria was studied in laboratory and field experiments following inoculation with lysed toxic algal material containing microcystin primarily from Microcystis sp. or purified commercial microcystin-LR to microcosms...... initial degradation rates occurred in 2 out of 7 cases, Microcystin was almost eliminated from the water after around 8 d. Results from concomitant measurements of bacterial abundance and net production showed an elevated bacterial activity within 1 to 2 d after the inoculation with algal lysates...... experiments were analysed by polymerase chain reaction-density gradient gel electrophoresis (PCR-DGGE) of 16S rDNA, which showed that the indigenous bacterial community responded quickly to the addition of lysates. Our study confirms that bacteria can efficiently degrade microcystins in natural waters...

  20. Ant-mediated effects on spruce litter decomposition, solution chemistry, and microbial activity

    Stadler, B.; Schramm, Andreas; Kalbitz, K.

    2006-01-01

    Forest management practices often generate clear-cut patches, which may be colonized by ants not present in the same densities in mature forests. In addition to the associated changes in abiotic conditions ants can initiate processes, which do not occur in old-growth stands. Here, we analyse...... the effects of ants and aphid honeydew on litter solution of Norway spruce, microbial enzyme activities, and needle decomposition in a field and greenhouse experiment during summer 2003. In the field, low ant densities had relatively little effects on litter solution 30 cm away from a tree trunk....... The presence of ants resulted in a changed composition of dissolved organic matter (DOM) with more aromatic and complex compounds, and microbial enzyme activity was significantly higher in litter extracts from the ant treatment compared to the honeydew and control treatment. However, mass loss, litter %C...

  1. Mucin dynamics and microbial populations in chicken small intestine are changed by dietary probiotic and antibiotic growth promoter supplementation.

    Smirnov, A; Perez, R; Amit-Romach, E; Sklan, D; Uni, Z

    2005-02-01

    The mucous layer that covers the intestinal absorptive surface acts as a barrier against bacterial translocation. The chicken gut contains a diverse bacterial population which interacts with the mucous layer. In this report, we studied the effect of changing the intestinal microbial populations on mucin dynamics by feeding 1-d-old chicks a control diet or that diet containing either antibiotic growth promoter (AGP) or a probiotic product for 14 d. Dietary AGP increased the proportions of Bifidobacterium species in the duodenum compared with the other groups. In AGP-fed chicks, the villous surface area was increased in the jejunum, goblet cell density was greater in the jejunum and ileum, and mucin glycoprotein levels in the duodenum were lower than in the other groups (P small intestine compared with the other groups. Expression of mucin mRNA and the levels of mucin glycoprotein were greater in the jejunum of the probiotic-fed chicks compared with controls (P thickness of the mucous adherent layer. These results indicate that both probiotic and AGP altered processes of mucin biosynthesis and/or degradation mediated via changes in the intestinal bacterial populations. These modifications in mucin dynamics influence gut function and health and may change nutrient uptake.

  2. Abundance, viability and diversity of the indigenous microbial populations at different depths of the NEEM Greenland ice core

    Vanya Miteva

    2015-02-01

    Full Text Available The 2537-m-deep North Greenland Eemian Ice Drilling (NEEM core provided a first-time opportunity to perform extensive microbiological analyses on selected, recently drilled ice core samples representing different depths, ages, ice structures, deposition climates and ionic compositions. Here, we applied cultivation, small subunit (SSU rRNA gene clone library construction and Illumina next-generation sequencing (NGS targeting the V4–V5 region, to examine the microbial abundance, viability and diversity in five decontaminated NEEM samples from selected depths (101.2, 633.05, 643.5, 1729.75 and 2051.5 m deposited 300–80 000 years ago. These comparisons of the indigenous glacial microbial populations in the ice samples detected significant spatial and temporal variations. Major findings include: (a different phylogenetic diversity of isolates, dominated by Actinobacteria and fungi, compared to the culture-independent diversity, in which Proteobacteria and Firmicutes were more frequent; (b cultivation of a novel alphaproteobacterium; (c dominance of Cyanobacteria among the SSU rRNA gene clones from the 1729.75-m ice; (d identification of Archaea by NGS that are rarely detected in glacial ice; (e detection of one or two dominant but different genera among the NGS sequences from each sample; (f finding dominance of Planococcaceae over Bacillaceae among Firmicutes in the brittle and the 2051.5-m ice. The overall beta diversity between the studied ice core samples examined at the phylum/class level for each approach showed that the population structure of the brittle ice was significantly different from the two deep clathrated ice samples and the shallow ice core.

  3. Long-term effects of ZnO nanoparticles on nitrogen and phosphorus removal, microbial activity and microbial community of a sequencing batch reactor.

    Wang, Sen; Gao, Mengchun; She, Zonglian; Zheng, Dong; Jin, Chunji; Guo, Liang; Zhao, Yangguo; Li, Zhiwei; Wang, Xuejiao

    2016-09-01

    The performance, microbial activity, and microbial community of a sequencing batch reactor (SBR) were investigated under the long-term exposure of ZnO nanoparticles (ZnO NPs). Low ZnO NPs concentration (less than 5mg/L) had no obvious effect on the SBR performance, whereas the removals of COD, NH4(+)-N, and phosphorus were affected at 10-60mg/L ZnO NPs. The variation trend of nitrogen and phosphorus removal rate was similar to that of microbial enzymatic activity with the increase of ZnO NPs concentrations. The richness and diversity of microbial community showed obvious variations at different ZnO NPs concentrations. ZnO NPs appeared on the surface and cell interior of activated sludge, and the Zn contents in the effluent and activated sludge increased with the increase of ZnO NPS concentration. The present results provide use information to understand the effect of ZnO NPS on the performance of wastewater biological treatment systems.

  4. Submersible microbial fuel cell sensor for monitoring microbial activity and BOD in groundwater: focusing on impact of anodic biofilm on sensor applicability.

    Zhang, Yifeng; Angelidaki, Irini

    2011-10-01

    A sensor, based on a submersible microbial fuel cell (SUMFC), was developed for in situ monitoring of microbial activity and biochemical oxygen demand (BOD) in groundwater. Presence or absence of a biofilm on the anode was a decisive factor for the applicability of the sensor. Fresh anode was required for application of the sensor for microbial activity measurement, while biofilm-colonized anode was needed for utilizing the sensor for BOD content measurement. The current density of SUMFC sensor equipped with a biofilm-colonized anode showed linear relationship with BOD content, to up to 250 mg/L (∼233 ± 1 mA/m(2)), with a response time of BOD was observed. It was found that temperature, pH, conductivity, and inorganic solid content were significantly affecting the sensitivity of the sensor. Lastly, the sensor was tested with real contaminated groundwater, where the microbial activity and BOD content could be detected in BOD concentration measured by SUMFC sensor fitted well with the one measured by the standard methods, with deviations ranging from 15% to 22% and 6% to 16%, respectively. The SUMFC sensor provides a new way for in situ and quantitative monitoring contaminants content and biological activity during bioremediation process in variety of anoxic aquifers.

  5. Dynamic relationships between microbial biomass, respiration, inorganic nutrients and enzyme activities: informing enzyme based decomposition models

    Daryl L Moorhead

    2013-08-01

    Full Text Available We re-examined data from a recent litter decay study to determine if additional insights could be gained to inform decomposition modeling. Rinkes et al. (2013 conducted 14-day laboratory incubations of sugar maple (Acer saccharum or white oak (Quercus alba leaves, mixed with sand (0.4% organic C content or loam (4.1% organic C. They measured microbial biomass C, carbon dioxide efflux, soil ammonium, nitrate, and phosphate concentrations, and β-glucosidase (BG, β-N-acetyl-glucosaminidase (NAG, and acid phosphatase (AP activities on days 1, 3, and 14. Analyses of relationships among variables yielded different insights than original analyses of individual variables. For example, although respiration rates per g soil were higher for loam than sand, rates per g soil C were actually higher for sand than loam, and rates per g microbial C showed little difference between treatments. Microbial biomass C peaked on day 3 when biomass-specific activities of enzymes were lowest, suggesting uptake of litter C without extracellular hydrolysis. This result refuted a common model assumption that all enzyme production is constitutive and thus proportional to biomass, and/or indicated that part of litter decay is independent of enzyme activity. The length and angle of vectors defined by ratios of enzyme activities (BG/NAG versus BG/AP represent relative microbial investments in C (length, and N and P (angle acquiring enzymes. Shorter lengths on day 3 suggested low C limitation, whereas greater lengths on day 14 suggested an increase in C limitation with decay. The soils and litter in this study generally had stronger P limitation (angles > 45˚. Reductions in vector angles to < 45˚ for sand by day 14 suggested a shift to N limitation. These relational variables inform enzyme-based models, and are usually much less ambiguous when obtained from a single study in which measurements were made on the same samples than when extrapolated from separate studies.

  6. Tree species diversity effects on soil microbial biomass, diversity and activity across European forest types

    Carnol, Monique; Baeten, Lander; Bosman, Bernard; De Wandeler, Hans; Muys, Bart

    2014-01-01

    Increasing tree species diversity in forests might contribute to ecosystem-service maintenance, as well as to the reconciliation of regulating, provisioning and supporting services within the frame of multifunctional and sustainable forestry. Individual tree species influence biogeochemical cycling through element deposition (throughfall, litterfall), and through microbial activities in the soil. Yet, the influence of mixing tree species on these ecosystem processes is unclear, in particular ...

  7. The Impact of Human Activities on Microbial Quality of Rivers in the Vhembe District, South Africa

    Afsatou N. Traoré

    2016-08-01

    Full Text Available Background: Water quality testing is dictated by microbial agents found at the time of sampling in reference to their acceptable risk levels. Human activities might contaminate valuable water resources and add to the microbial load present in water bodies. Therefore, the effects of human activities on the microbial quality of rivers collected from twelve catchments in the Vhembe District in South Africa were investigated, with samples analyzed for total coliform (TC and Eschericha coli (E. coli contents. Methods: Physical parameters and various human activities were recorded for each sampling site. The Quanti-Tray® method was adopted for the assessment of TC and E. coli contents in the rivers over a two-year period. A multiplex polymerase chain (PCR method was used to characterize the strains of E. coli found. Results: The microbial quality of the rivers was poor with both TC and E. coli contents found to be over acceptable limits set by the South African Department of Water and Sanitation (DWS. No significant difference (p > 0.05 was detected between TC and E. coli risks in dry and wet seasons. All six pathogenic E. coli strains were identified and Enteroaggregative E. coli (EAEC, atypical Enteropathogenic E. coli (a-EPEC and Enterotoxigenic E. coli (ETEC were the most prevalent E. coli strains detected (respectively, 87%, 86% and 83%. Conclusions: The study indicated that contamination in the majority of sampling sites, due to human activities such as car wash, animal grazing and farming, poses health risks to communities using the rivers for various domestic chores. It is therefore recommended that more education by the respective departments is done to avert pollution of rivers and prevent health risks to the communities in the Vhembe District.

  8. Thermally activated charge transport in microbial protein nanowires.

    Lampa-Pastirk, Sanela; Veazey, Joshua P; Walsh, Kathleen A; Feliciano, Gustavo T; Steidl, Rebecca J; Tessmer, Stuart H; Reguera, Gemma

    2016-03-24

    The bacterium Geobacter sulfurreducens requires the expression of conductive protein filaments or pili to respire extracellular electron acceptors such as iron oxides and uranium and to wire electroactive biofilms, but the contribution of the protein fiber to charge transport has remained elusive. Here we demonstrate efficient long-range charge transport along individual pili purified free of metal and redox organic cofactors at rates high enough to satisfy the respiratory rates of the cell. Carrier characteristics were within the orders reported for organic semiconductors (mobility) and inorganic nanowires (concentration), and resistivity was within the lower ranges reported for moderately doped silicon nanowires. However, the pilus conductance and the carrier mobility decreased when one of the tyrosines of the predicted axial multistep hopping path was replaced with an alanine. Furthermore, low temperature scanning tunneling microscopy demonstrated the thermal dependence of the differential conductance at the low voltages that operate in biological systems. The results thus provide evidence for thermally activated multistep hopping as the mechanism that allows Geobacter pili to function as protein nanowires between the cell and extracellular electron acceptors.

  9. Effect of sporting activity on absenteeism in a working population

    Heuvel, van den S.G.; Boshuizen, H.C.; Hildebrandt, V.H.; Blatter, B.M.; Ari�ns, G.A.; Bongers, P.M.

    2005-01-01

    OBJECTIVES: To determine the effects of sporting activity on absenteeism in a working population. METHODS: Data were used from a prospective cohort study in a working population with a follow up period of 3 years and were collected with yearly questionnaires or collected from company records. Comple

  10. Effects of supercritical fluid extraction pressure on chemical composition, microbial population, polar lipid profile, and microstructure of goat cheese.

    Sánchez-Macías, D; Laubscher, A; Castro, N; Argüello, A; Jiménez-Flores, R

    2013-03-01

    The consumer trend for healthier food choices and preferences for low-fat products has increased the interest in low-fat cheese and nutraceutical dairy products. However, consumer preference is still for delicious food. Low- and reduced-fat cheeses are not completely accepted because of their unappealing properties compared with full-fat cheeses. The method reported here provides another option to the conventional cheese-making process to obtain lower fat cheese. Using CO(2) as a supercritical fluid offers an alternative to reduce fat in cheese after ripening, while maintaining the initial characteristics and flavor. The aim of this experiment was to evaluate the effect of pressure (10, 20, 30, and 40 × 10(6) Pa) of supercritical CO(2) on the amount of fat extracted, microbial population, polar lipid profile, and microstructure of 2 varieties of goat cheese: Majorero, a protected denomination of origin cheese from Spain, and goat Gouda-type cheese. The amount of fat was reduced 50 to 57% and 48 to 55% for Majorero and goat Gouda-type cheeses, respectively. Higher contents (on a fat basis) of sphingomyelin and phosphatidylcholine were found in Majorero cheese compared with control and goat Gouda-type cheeses. The microbial population was reduced after supercritical fluid extraction in both cheeses, and the lethality was higher as pressure increased in Majorero cheese, most noticeably on lactococcus and lactobacillus bacteria. The Gouda-type cheese did not contain any lactobacilli. Micrographs obtained from confocal laser scanning microscopy showed a more open matrix and whey pockets in the Majorero control cheese. This could explain the ease of extracting fat and reducing the microbial counts in this cheese after treatment with supercritical CO(2). Supercritical fluid extraction with CO(2) has great potential in the dairy industry and in commercial applications. The Majorero cheese obtained after the supercritical fluid extraction treatment was an excellent

  11. Study of the Influence of Different Diphenol Compounds on Soil Microbial Activity by Microcalorimetry

    CHEN, Huilun; YAO, Jun; WANG, Fei; GYULA, Zaray

    2009-01-01

    Microcalorimetry was applied to follow the toxic effects caused by different diphenol compounds on microbial activity of Chinese fir soil. The activity of the microorganisms in soil was stimulated by adding 0.3 mL of a nutrient solution containing 2.5 mg of glucose and 2.5 mg of ammonium sulfate and the measurements were performed under a 35% controlled humidity at 28 ℃. Power-time curves recorded on a microcalorimeter were followed by increasing the amount of diphenol compounds, which affected directly the total thermal effects evolved by the microorganisms. The curves showed a synergism on total thermal effect obtained by the addition of 2000 mg·kg~(-1) of resorcinol, causing a consumption of resorcinol by the microorganisms as a new source of nutrients. Above this dose,the total thermal effect decreased exponentially. However, the addition of catechol and hydroquinone caused the total thermal effects to decrease directly. It was concluded that the increase in the diphenol concentration strongly affected the microbial life in this ecosystem. Microcalorimetry appears as a suitable technique to carry out both qualitative and quantitative comparative studies of microbial activity in soil.

  12. Antioxidant, anti-microbial and antimutagenicity activities of pistachio (Pistachia vera) green hull extract.

    Rajaei, Ahmad; Barzegar, Mohsen; Mobarez, Ashraf Mohabati; Sahari, Mohammad Ali; Esfahani, Zohre Hamidi

    2010-01-01

    Antioxidant, anti-microbial and antimutagenicity activities of pistachio (Ahmadaghaei variety) green hull extracts (crude and purified extracts) were studied. At first, different solvents were compared for determining of the best solvent for extraction of phenolic compounds from pistachio green hull. Water and acetonitrile with 49.32 and 6.22 (mg of gallic acid equivalents/g sample) were the best and the worst solvent in the extraction of phenolic compounds, respectively. The antioxidant capacity of crude and purified extracts were assessed through ABTS assay, DPPH assay and beta-carotene bleaching (BCB) method. A concentration-dependent antioxidative capacity was verified in ABTS, DPPH assays and BCB method. The anti-microbial capacity was screened against Gram positive and Gram negative bacteria, and fungi. Aqueous and purified extracts inhibited the growth of Gram positive bacteria; Bacillus cereus was the most susceptible one with MIC of 1mg/mL and 0.5mg/mL for the crude and purified extracts, respectively. The results of antimutagenicity test showed that phenolic compounds of pistachio green hull have antimutagenicity activity against direct mutagen of 2-nitrofluorene. The results obtained indicate that pistachio green hull may become important as a cheap and noticeable source of compounds with health protective potential and anti-microbial activity.

  13. Evaluation of a Microbial Sensor as a Tool for Antimicrobial Activity Test of Cosmetic Preservatives.

    Gomyo, Hideyuki; Ookawa, Masaki; Oshibuchi, Kota; Sugamura, Yuriko; Hosokawa, Masahito; Shionoiri, Nozomi; Maeda, Yoshiaki; Matsunaga, Tadashi; Tanaka, Tsuyoshi

    2015-01-01

    For high-throughput screening of novel cosmetic preservatives, a rapid and simple assay to evaluate the antimicrobial activities should be developed because the conventional agar dilution method is time-consuming and labor-intensive. To address this issue, we evaluated a microbial sensor as a tool for rapid antimicrobial activity testing. The sensor consists of an oxygen electrode and a filter membrane that holds the test microorganisms, Staphylococcus aureus and Candida albicans. The antimicrobial activity of the tested cosmetic preservative was evaluated by measuring the current increases corresponding to the decreases in oxygen consumption in the microbial respiration. The current increases detected by the sensor showed positive correlation to the concentrations of two commercially used preservatives, chlorphenesin and 2-phenoxyethanol. The same tendency was also observed when a model cosmetic product was used as a preservative solvent, indicating the feasibility in practical use. Furthermore, the microbial sensor and microfluidic flow-cell was assembled to achieve sequential measurements. The sensor system presented in this study could be useful in large-scale screening experiments.

  14. Effect of advanced oxidation on N-nitrosodimethylamine (NDMA) formation and microbial ecology during pilot-scale biological activated carbon filtration.

    Li, Dong; Stanford, Ben; Dickenson, Eric; Khunjar, Wendell O; Homme, Carissa L; Rosenfeldt, Erik J; Sharp, Jonathan O

    2017-04-15

    Water treatment combining advanced oxidative processes with subsequent exposure to biological activated carbon (BAC) holds promise for the attenuation of recalcitrant pollutants. Here we contrast oxidation and subsequent biofiltration of treated wastewater effluent employing either ozone or UV/H2O2 followed by BAC during pilot-scale implementation. Both treatment trains largely met target water quality goals by facilitating the removal of a suite of trace organics and bulk water parameters. N-nitrosodimethylamine (NDMA) formation was observed in ozone fed BAC columns during biofiltration and to a lesser extent in UV/H2O2 fed columns and was most pronounced at 20 min of empty bed contact time (EBCT) when compared to shorter EBCTs evaluated. While microbial populations were highly similar in the upper reaches, deeper samples revealed a divergence within and between BAC filtration systems where EBCT was identified to be a significant environmental predictor for shifts in microbial populations. The abundance of Nitrospira in the top samples of both columns provides an explanation for the oxidation of nitrite and corresponding increases in nitrate concentrations during BAC transit and support interplay between nitrogen cycling with nitrosamine formation. The results of this study demonstrate that pretreatments using ozone versus UV/H2O2 impart modest differences to the overall BAC microbial population structural and functional attributes, and further highlight the need to evaluate NDMA formation prior to full-scale implementation of BAC in potable reuse applications.

  15. Physicochemical properties influencing denitrification rate and microbial activity in denitrification bioreactors

    Schmidt, C. A.

    2012-12-01

    The use of N-based fertilizer will need to increase to meet future demands, yet existing applications have been implicated as the main source of coastal eutrophication and hypoxic zones. Producing sufficient crops to feed a growing planet will require efficient production in combination with sustainable treatment solutions. The long-term success of denitrification bioreactors to effectively remove nitrate (NO¬3), indicates this technology is a feasible treatment option. Assessing and quantifying the media properties that affect NO¬3 removal rate and microbial activity can improve predictions on bioreactor performance. It was hypothesized that denitrification rates and microbial biomass would be correlated with total C, NO¬3 concentration, metrics of organic matter quality, media surface area and laboratory measures of potential denitrification rate. NO¬3 removal rates and microbial biomass were evaluated in mesocosms filled with different wood treatments and the unique influence of these predictor variables was determined using a multiple linear regression analysis. NO3 reduction rates were independent of NO¬3 concentration indicating zero order reaction kinetics. Temperature was strongly correlated with denitrification rate (r2=0.87; Q10=4.7), indicating the variability of bioreactor performance in differing climates. Fiber quality, and media surface area were strong (R>0.50), unique predictors of rates and microbial biomass, although C:N ratio and potential denitrification rate did not predict actual denitrification rate or microbial biomass. Utilizing a stepwise multiple linear regression, indicates that the denitrification rate can be effectively (r2=0.56;pbioreactors to achieve significant N load reductions in large watersheds. The nitrate reduction rate as a function of groundwater temperature for all treatments. Correlations between nitrate reduction rate and properties of carbon media;

  16. Monitoring microbial growth and activity using spectral induced polarization and low-field nuclear magnetic resonance

    Zhang, Chi; Keating, Kristina; Revil, Andre

    2015-04-01

    Microbes and microbial activities in the Earth's subsurface play a significant role in shaping subsurface environments and are involved in environmental applications such as remediation of contaminants in groundwater and oil fields biodegradation. Stimulated microbial growth in such applications could cause wide variety of changes of physical/chemical properties in the subsurface. It is critical to monitor and determine the fate and transportation of microorganisms in the subsurface during such applications. Recent geophysical studies demonstrate the potential of two innovative techniques, spectral induced polarization (SIP) and low-field nuclear magnetic resonance (NMR), for monitoring microbial growth and activities in porous media. The SIP measures complex dielectric properties of porous media at low frequencies of exciting electric field, and NMR studies the porous structure of geologic media and characterizes fluids subsurface. In this laboratory study, we examined both SIP and NMR responses from bacterial growth suspension as well as suspension mixed with silica sands. We focus on the direct contribution of microbes to the SIP and NMR signals in the absence of biofilm formation or biomineralization. We used Zymomonas mobilis and Shewanella oneidensis (MR-1) for SIP and NMR measurements, respectively. The SIP measurements were collected over the frequency range of 0.1 - 1 kHz on Z. mobilis growth suspension and suspension saturated sands at different cell densities. SIP data show two distinct peaks in imaginary conductivity spectra, and both imaginary and real conductivities increased as microbial density increased. NMR data were collected using both CPMG pulse sequence and D-T2 mapping to determine the T2-distribution and diffusion properties on S. oneidensis suspension, pellets (live and dead), and suspension mixed with silica sands. NMR data show a decrease in the T2-distribution in S. oneidensis suspension saturated sands as microbial density increase. A

  17. Community Characterization of Microbial Populations Found at a Cold Water Sulfidic Spring in the Canadian High Arctic

    Trivedi, C.; Lau, G. E.; Templeton, A. S.; Grasby, S. E.; Spear, J. R.

    2015-12-01

    The unique environment on Europa makes it an ideal target for astrobiological investigation. One such earth-based analogue to aid in this investigation is the sulfur-dominated glacial spring system found at Borup Fiord Pass (BFP), Ellesmere Island, Nunavut, Canada. In this system, subsurface microbial sulfate reduction produces hydrogen sulfide, which is transported through the glacier along spring channels [1]. As the surface oxidation of H2S occurs, resultant deposition of elemental sulfur (S0) and other minerals becomes visible (attached image). The energy released from these reactions can support potential microbial metabolisms and may be a valuable representation of microbial processes occurring on Europa. The resulting sulfur minerals provide sensitive records of dynamic atmospheric, geological, hydrological, chemical, and biological processes on planetary surfaces. Moreover, we expect that the S0-rich deposits of this glacial spring system will serve as a mineralogical record for biological activity and will provide a valuable tool for recognizing potential sulfur-based life on Europa. During a recent collaborative expedition (2014) to BFP, samples were taken from the toe of the glacier in an area called the 'Blister Crust' (attached image). At this location, glacial channels reach the surface, representing an active interface between subsurface and surface processes. Initial geochemical characterization at the site revealed high amounts of aqueous sulfide (1.8 mM) and hydrogen (29 nM), which likely serve as the electron donation potential in the system. Furthermore, preliminary 16S rRNA gene sequencing has shown a high abundance of the genus Sulfurimonas, which is a known sulfur metabolizer. Our research seeks to further characterize microbial communities found at this interface in order to elucidate information regarding in situ sulfur cycling and the potential to tie this into subsurface/surface processes on Europa. Continued work will provide guidance

  18. Long-term effects of cupric oxide nanoparticles (CuO NPs) on the performance, microbial community and enzymatic activity of activated sludge in a sequencing batch reactor.

    Wang, Sen; Li, Zhiwei; Gao, Mengchun; She, Zonglian; Ma, Bingrui; Guo, Liang; Zheng, Dong; Zhao, Yangguo; Jin, Chunji; Wang, Xuejiao; Gao, Feng

    2017-02-01

    The long-term effects of cupric oxide nanoparticles (CuO NPs) on the performance, microbial activity and microbial community of activated sludge were investigated in a sequencing batch reactor (SBR). The SBR performance had no evident change at 0-10 mg/L CuO NPs, whereas the CuO NPs concentration at 30-60 mg/L affected the COD, NH4(+)-N and soluble orthophosphate (SOP) removal, nitrogen and phosphorus removal rate and microbial enzymatic activity of activated sludge. Some CuO NPs might be absorbed on the surface of activated sludge or penetrate the microbial cytomembrane into the microbial cell interior of activated sludge. Compared to 0 mg/L CuO NPs, the reactive oxygen species (ROS) production and lactate dehydrogenase (LDH) release increased by 43.6% and 56.4% at 60 mg/L CuO NPs, respectively. The variations of ROS production and LDH release demonstrated that CuO NPs could induce the toxicity towards the microorganisms and destroy the integrity of microbial cytomembrane in the activated sludge. High throughput sequencing of 16S rDNA indicated that CuO NPs could evidently impact on the microbial richness, diversity and composition of activated sludge in the SBR.

  19. Anaerobic treatment performance and microbial population of thermophilic upflow anaerobic filter reactor treating awamori distillery wastewater.

    Tang, Yue-Qin; Fujimura, Yutaka; Shigematsu, Toru; Morimura, Shigeru; Kida, Kenji

    2007-10-01

    Distillery wastewater from awamori making was anaerobically treated for one year using thermophilic upflow anaerobic filter (UAF) reactors packed with pyridinium group-containing nonwoven fabric material. The microbial structure and spatial distribution of microorganisms on the support material were characterized using molecular biological methods. The reactor steadily achieved a high TOC loading rate of 18 g/l/d with approximately 80% TOC removal efficiency when non-diluted wastewater was fed. The maximum TOC loading rate increased to 36 g/l/d when treating thrice-diluted wastewater. However, the TOC removal efficiency and gas evolution rate decreased compared with that when non-diluted wastewater was used. Methanogens closely related to Methanosarcina thermophila and Methanoculleus bourgensis and bacteria in the phyla Firmicutes and Bacteroidetes were predominant methanogens and bacteria in the thermophilic UFA reactor, as indicated by 16S rRNA gene clone analysis. Fluorescence in situ hybridization (FISH) results showed that a large quantity of bacterial cells adhered throughout the whole support, and Methanosarcina-like methanogens existed mainly in the relative outside region while Methanoculleus cells were located in the relative inner part of the support. The support material used proved to be an excellent carrier for microorganisms, and a UAF reactor using this kind of support can be used for high-rate treatment of awamori/shochu distillery wastewater.

  20. Identification of the microbial population found in water sources in and around San Salvador Island, Bahamas

    Pelletier, Michel

    2014-10-01

    Full Text Available San Salvador Island in The Bahamas is home to approximately 1,200 people, and a popular vacation destination. In order to expand our knowledge of the bacterial population found on and around the island, and to assess possible health risks, we analyzed and identified the cultivable bacterial population found in several lakes and ponds throughout the island. The sites tested were located on the northern, north-eastern, eastern, and western districts, as well as one lake located inland. Ten sites with varying salinity, levels of oxygen, visibility, and distance from the ocean were analyzed. The nature of the bacteria present in these sites was identified by microscopy, as well as a series of biochemical tests based on bacterial metabolism. Seven bacterial species, predominantly from the genera Staphylococcus and Klebsiella were identified. Most bacteria identified are part of the normal microbiota of the skin and the gastro-intestinal tract of human and mammals, and should not be considered a danger for the health of the majority of the population and tourists of the island. We also isolated bacteria capable of fixing atmospheric nitrogen, a hallmark of marine bacterial populations. Overall, this study enabled us to add to the repertoire of bacterial species isolated and identified in the diverse marine environments found on San Salvador Island.

  1. Effect of fermented feed on the microbial population of the gastrointestinal tracts of pigs

    Winsen, van R.L.; Urlings, B.A.P.; Lipman, L.J.A.; Snijders, J.M.A.; Keuzenkamp, D.; Verheijden, J.H.M.; Knapen, van F.

    2001-01-01

    An in vivo experiment was performed with pigs to study the inhibitory effect of fermented feed on the bacterial population of the gastrointestinal tract. Results demonstrated a significant positive correlation between pH and lactobacilli in the stomach contents of pigs in dry feed as well as in the

  2. Effects of nutritional input and diesel contamination on soil enzyme activities and microbial communities in Antarctic soils.

    Han, Jiwon; Jung, Jaejoon; Hyun, Seunghun; Park, Hyun; Park, Woojun

    2012-12-01

    Pollution of Antarctic soils may be attributable to increased nutritional input and diesel contamination via anthropogenic activities. To investigate the effect of these environmental changes on the Antarctic terrestrial ecosystem, soil enzyme activities and microbial communities in 3 types of Antarctic soils were evaluated. The activities of alkaline phosphomonoesterase and dehydrogenase were dramatically increased, whereas the activities of β-glucosidase, urease, arylsulfatase, and fluorescein diacetate hydrolysis were negligible. Alkaline phosphomonoesterase and dehydrogenase activities in the 3 types of soils increased 3- to 10-fold in response to nutritional input, but did not increase in the presence of diesel contamination. Consistent with the enzymatic activity data, increased copy numbers of the phoA gene, encoding an alkaline phosphomonoesterase, and the 16S rRNA gene were verified using quantitative real-time polymerase chain reaction. Interestingly, dehydrogenase activity and 16S rRNA gene copy number increased slightly after 30 days, even under diesel contamination, probably because of adaptation of the bacterial population. Intact Antarctic soils showed a predominance of Actinobacteria phylum (mostly Pseudonorcarida species) and other phyla such as Proteobacteria, Chloroflexi, Planctomycetes, Firmicutes, and Verrucomicrobia were present in successively lower proportions. Nutrient addition might act as a selective pressure on the bacterial community, resulting in the prevalence of Actinobacteria phylum (mostly Arthrobacter species). Soils contaminated by diesel showed a predominance of Proteobacteria phylum (mostly Phyllobacterium species), and other phyla such as Actinobacteria, Bacteroidetes, Planctomycetes, and Gemmatimonadetes were present in successively lower proportions. Our data reveal that nutritional input has a dramatic impact on bacterial communities in Antarctic soils and that diesel contamination is likely toxic to enzymes in this

  3. Effects of chestnut tannins and coconut oil on growth performance, methane emission, ruminal fermentation, and microbial populations in sheep.

    Liu, H; Vaddella, V; Zhou, D

    2011-12-01

    This study was conducted to evaluate the effects of chestnut tannins (CT) and coconut oil (CO) on growth performance, methane (CH₄) emission, ruminal fermentation, and microbial populations in sheep. A total of 48 Rideau Arcott sheep (average body weight 31.5±1.97 kg, 16 wk old) were randomly assigned into 6 treatment groups in a 3 × 2 factorial design, with CT and CO as the main effects (8 sheep per group). The treatments were control diet (CTR), 10 or 30 g of CT/kg of diet (CT10 and CT30), 25 g of CO/kg of concentrate (CO25), and 10 or 30 g of CT/kg of diet+25 g of CO/kg of concentrate (CT10CO25 and CT30CO25). After the feeding trial (60 d), all sheep were moved to respiratory chambers to measure CH₄ emission. After CH₄ emission measurements, all sheep were slaughtered to obtain rumen fluid samples. Results showed that the addition of CT, CO, and CT+CO had no significant effects on growth performance of sheep but reduced CH₄ emission. Addition of CT reduced the NH₃-N concentration in rumen fluid in CT30. Addition of CO decreased the concentration of total volatile fatty acids in rumen fluid. No significant differences were observed in pH and molar proportion of volatile fatty acids among treatments. Addition of CT, CO, and CT+CO significantly decreased methanogen and protozoa populations. Moreover, CO decreased counts of Fibrobacter succinogenes. No significant differences were observed in populations of fungi, Ruminococcus flavefaciens, or Ruminococcus albus among treatments. In conclusion, supplementation of CT and CO seemed to be a feasible means of decreasing emissions of CH₄ from sheep by reduction of methanogen and protozoa populations with no negative effect on growth performance.

  4. Microbial processes and factors controlling their activities in alkaline lakes of the Mongolian plateau

    Namsaraev, Zorigto B.; Zaitseva, Svetlana V.; Gorlenko, Vladimir M.; Kozyreva, Ludmila P.; Namsaraev, Bair B.

    2015-11-01

    A striking feature of the Mongolian plateau is the wide range of air temperatures during a year, -30 to 30°C. High summer temperatures, atmospheric weathering and the arid climate lead to formation of numerous alkaline soda lakes that are covered by ice during 6-7 months per year. During the study period, the lakes had pH values between 8.1 to 10.4 and salinity between 1.8 and 360 g/L. According to chemical composition, the lakes belong to sodium carbonate, sodium chloride-carbonate and sodium sulfate-carbonate types. This paper presents the data on the water chemical composition, results of the determination of the rates of microbial processes in microbial mats and sediments in the lakes studied, and the results of a Principal Component Analysis of environmental variables and microbial activity data. Temperature was the most important factor that influenced both chemical composition and microbial activity. pH and salinity are also important factors for the microbial processes. Dark CO2 fixation is impacted mostly by salinity and the chemical composition of the lake water. Total photosynthesis and sulfate-reduction are impacted mostly by pH. Photosynthesis is the dominant process of primary production, but the highest rate (386 mg C/(L•d)) determined in the lakes studied were 2-3 times lower than in microbial mats of lakes located in tropical zones. This can be explained by the relatively short warm period that lasts only 3-4 months per year. The highest measured rate of dark CO2 assimilation (59.8 mg C/(L•d)) was much lower than photosynthesis. The highest rate of sulfate reduction was 60 mg S/(L•d), while that of methanogenesis was 75.6 μL CN4/(L•d) in the alkaline lakes of Mongolian plateau. The rate of organic matter consumption during sulfate reduction was 3-4 orders of magnitude higher than that associated with methanogenesis.

  5. Microbial Community Structure and Enzyme Activities in a Sequence of Copper-Polluted Soils

    GE Chao-Rong; ZHANG Qi-Chun

    2011-01-01

    The microbial community structure and enzyme activities of seven paddy soils with different Cu concentrations were investigated in the vicinity of a Cu smelter in Fuyang County, Zhejiang Province in Southeast China. The microbial community structure was analyzed using the phospholipid fatty acid (PLFA) and multiplex-terminal restriction fragment length polymorphism (M-TRFLP)techniques. There was no clear dose-response relationship between Cu pollution and soil enzyme activity except for urease. Both PLFA and M-TRFLP methods showed that Cu contamination had a large effect on the soil microbial community structure. PLFA indicators of Gram-positive bacteria (16:0i, 15:0i) and fungi (18:2w6,9) relatively decreased with increasing Cu concentration, whereas indicators of Gram-negative bacteria (19:0cy, 16:1w7) increased. The M-TRFLP results suggested that there was a dose-dependent response between Cu pollution and bacterial community or fungal community. The fungal community was more sensitive to Cu pollution than the bacterial community. Therewere no significant differences in archaeal community structure between the different Cu pollution plots and archaea might be more tolerant to Cu pollution than both bacteria and fungi.

  6. [Characteristics of microbial community structure during isolation of electrical active bacteria].

    Wang, Min; Zhao, Yang- Guo; Lu, Shan-Shan

    2014-10-01

    To investigate the effect of selective culturing on microorganisms and functional role of electrical active bacteria in biofilm, some exoelectrogens were isolated from microbial fuel cell (MFC) anodic biofilm using Hungate roll-tube technique with iron oxide as indicator. At the same time, the dynamics of the microbial community structure was monitored during the pure culture isolation. The results show that maximum voltages of MFCs feeding with lactic acid, acetic acid and steroid wastewater are 0.57, 0.60 and 0.40 V respectively. The dominant bacteria isolated from seed sludge and anodic films feeding with acetate and lactate belong to phylum Proteobacteria; while steroid wastewater contains relative high diversity of bacteria, i. e. Proteobacteria, Firmicutes and Bacteroidetes. After enriching and culturing, two bacteria were consequently obtained, which shared the highest similarity with Enterobacter ludwigii and Citrobacter freundii respectively. When inoculated in MFC with lactic acid as the substrate, they produced maximum voltage of 0.10 and 0.17 V individually. This study shows that electrical active bacteria can be isolated from the MFC anodic biofilm using anaerobic gradient dilution culture techniques with iron oxide as indicator. Microbial community structure presents markedly shifting during the bacteria isolation owing to its selectivity.

  7. Short-time effect of heavy metals upon microbial community activity

    Wang Fei [Key Laboratory of Biogeology and Environmental Geology of Chinese Ministry of Education and Sino-Hungarian Joint Laboratory of Environmental Science and Health and School of Environmental Sciences, China University of Geosciences, 430074 Wuhan (China); Yao Jun, E-mail: yaojun@cug.edu.cn [Key Laboratory of Biogeology and Environmental Geology of Chinese Ministry of Education and Sino-Hungarian Joint Laboratory of Environmental Science and Health and School of Environmental Sciences, China University of Geosciences, 430074 Wuhan (China); Si Yang; Chen Huilun; Russel, Mohammad; Chen Ke; Qian Yiguang [Key Laboratory of Biogeology and Environmental Geology of Chinese Ministry of Education and Sino-Hungarian Joint Laboratory of Environmental Science and Health and School of Environmental Sciences, China University of Geosciences, 430074 Wuhan (China); Zaray, Gyula [Department of Chemical Technology and Environmental Chemistry, Eoetvoes University, H-1518 Budapest, P.O. Box 32 (Hungary); Bramanti, Emilia [Laboratory of Instrumental Analytical Chemistry, Institute for Chemical and Physical Processes, Area di Ricerca, Via G. Moruzzi 1, 56124 Pisa (Italy)

    2010-01-15

    Microcalorimetry was applied to assess and compare the toxic effect of heavy metals, such as As, Cu, Cd, Cr, Co, Pb and Zn, on the soil microbial activities and community. About 1.0 g soil spiked 5.0 mg glucose and 5.0 mg ammonium sulfate, the microbial activities were recorded as power-time curves, and their indices, microbial growth rate constant k, total heat evolution Q{sub T}, metabolic enthalpy {Delta}H{sub met} and mass specific heat rate J{sub Q/S}, were calculated. Comparing these thermodynamic parameters associated with growth yield, a general order of toxicity to the soil was found to be Cr > Pb > As > Co > Zn > Cd > Cu. When soil was exposed to heavy metals, the amount of bacteria and fungi decreased with the incubation time, and the bacterial number diminished sharply. It illustrates that fungi are more tolerant, and bacteria-fungi ratio would be altered under metal stress. To determine the status of the glucose consumed, a glucose biosensor with eggshell membrane was used to measure the remaining glucose in soil sample. Results showed that the time at which glucose was consumed completely was agreed with the microcalorimetric time to a large extent, and depended on the toxicity of heavy metals as well.

  8. Illumina MiSeq Sequencing Reveals Diverse Microbial Communities of Activated Sludge Systems Stimulated by Different Aromatics for Indigo Biosynthesis from Indole.

    Zhang, Xuwang; Qu, Yuanyuan; Ma, Qiao; Zhang, Zhaojing; Li, Duanxing; Wang, Jingwei; Shen, Wenli; Shen, E; Zhou, Jiti

    2015-01-01

    Indole, as a typical N-heteroaromatic compound existed in coking wastewater, can be used for bio-indigo production. The microbial production of indigo from indole has been widely reported during the last decades using culture-dependent methods, but few studies have been carried out by microbial communities. Herein, three activated sludge systems stimulated by different aromatics, i.e. naphthalene plus indole (G1), phenol plus indole (G2) and indole only (G3), were constructed for indigo production from indole. During the operation, G1 produced the highest indigo yield in the early stage, but it switched to G3 in the late stage. Based on LC-MS analysis, indigo was the major product in G1 and G3, while the purple product 2-(7-oxo-1H-indol-6(7H)-ylidene) indolin-3-one was dominant in G2. Illumina MiSeq sequencing of 16S rRNA gene amplicons was applied to analyze the microbial community structure and composition. Detrended correspondence analysis (DCA) and dissimilarity tests showed that the overall community structures of three groups changed significantly during the operation (P<0.05). Nevertheless, the bacteria assigned to phylum Proteobacteria, family Comamonadaceae, and genera Diaphorobacter, Comamonas and Aquamicrobium were commonly shared dominant populations. Pearson correlations were calculated to discern the relationship between microbial communities and indigo yields. The typical indigo-producing populations Comamonas and Pseudomonas showed no positive correlations with indigo yields, while there emerged many other genera that exhibited positive relationships, such as Aquamicrobium, Truepera and Pusillimonas, which had not been reported for indigo production previously. The present study should provide new insights into indigo bio-production by microbial communities from indole.

  9. 施氮肥对荒漠草原土壤微生物种群及微生物量的影响%Effects of Nitrogen Fertilization on Desert Grassland Soil Microbial Population and Microbial Biomass

    郭永盛; 李俊华; 李鲁华; 危常州; 褚贵新; 王飞; 董鹏

    2011-01-01

    [Objective] The aim of the article was set to analyze the effects of nitrogen fertilization on soil microbial population and microbial biomass in desert grassland to know their response to nitrogen fertilizer and to clarify the indication effects of microorganism on environmental qualtiy change . [ Method ] The dilution plate count chloroform and fumigation - K2SO4 extraction of nitrogen were used to study the effect of nitrogen fertilization on three different environments: the microbial population and desert grassland microbial biomass carbon, microbial biomass N ( Bc, BN) . [ Result]Soil bacteria is the main specie in the soil, followed by actinomycetes and fungi is the least ; N fertilizer can significantly increase all three populations of soil rmcrobial, the ratio was increased by 13 . 5% - 427 . 6% , 7. 8% - 88. 2% and 16. 7% - 180. 6 % , respectively; N fertilizer can significantly increas microbial biomass carbon, nitrogen, the ratio was 29 .8% - 110.8% and 51.2% - 161.7% , respectively , effect of N fercilization on soil microbial populations and microbial biomass of the extent of precipitation and fertilization in the environment is related to the precipitation,the greater precipitation, the more obvious influence, the effect of fertilization is less obvious with the deepening of the soil. [ Conclusion] Nitrogen changes in soil microbial populations and SMBc, SMBN, different fertilization environment can also lead to the difference of soil microbial populations and SMBc, SMBN .%[目的]通过分析施氮肥对土壤微生物种群及微生物量,认识荒漠草原土壤微生物种群及微生物量对氮肥的响应,明确微生物对环境质量变化的指示作用.[方法]应用稀释平板计数法和氯仿熏蒸-K2SO4提取法分别研究施氮肥对三种不同环境的荒漠草原土壤微生物种群及微生物量碳、微生物量氮(Bc,BN)之间的影响.[结果]在土壤中细菌为土壤微生物的主要种群,其次

  10. Influence of Organic Manures (Biofertilizers on Soil Microbial Population in the Rhizosphere of Mulberry (Morus Indica L.

    L. Christilda Louis Mary

    2015-03-01

    Full Text Available The effect of different kinds of organic manures on soil microbial population and mulberry production was assessed. A field experiment wascarried out at Periyar EVR College, Tamil Nadu, India in basic soil to study the influence of organic manures on soil bacterial population andmulberry production. The 4 groups of mulberry plants of MR2 variety were biofertilized with FYM, Azospirillum, Phosphobacteria andVermicompost respectively. The biofertilizers lodged bacteria on the rhizosphere of mulberry plants. When the root microorganism areanalyzed Farm yard manure biofertilized mulberry plant root tips had Gluconacobacter diazotrophicus, Bacillus pumilus, Pseudomonas putida,Bacillus coagulans, Bacillus sonorensis, Azotobacter chrococcum; Azospirillum biofertilized mulberry plants root tips had Bacillus coaculans,Azotobactor chrococcum, Azotobactor vinelandii, Bacillus subtilis and Azospirillum brasilense. Phosphobacteria biofertilized mulberry plantroot tips had Pseudomonas putida, Bacillus stearothermophilus, Brevibacillus borslelansis and Streptomycies thermonitrificans andvermicompost biofertilized mulberry plant root tips had lodged bacterias like Bacillus megaterium, Bacillus subtilis, Gluconacobacterdiazotrophicus, Pseudomonas putida, Azotobacter chrococcum, Azotobacter vinelandi, Bacillus stearothermophilus, Brevibacillus borslelansisand Bacillus sonorensis. Microbiology work reveals luxuriant growth of bacteria in all the biofertizer treated rhizosphere in the order FYM

  11. Microbial community structure and activity in arsenic-, chromium- and copper-contaminated soils.

    Turpeinen, Riina; Kairesalo, Timo; Häggblom, Max M

    2004-01-01

    Microbial community structure, potential microbial activity and As resistance were affected by arsenic (As), chromium (Cr) and copper (Cu) contamination in soils of abandoned wood impregnating plants. Contaminated soils differed in the concentrations of soil acid-soluble and total water-soluble As, Cr and Cu, and in the concentration of bioavailable As analyzed with a bacterial sensor. Phospholipid fatty acid (PLFA) and 16S rRNA gene terminal restriction fragment length polymorphism (t-RFLP) profiles indicated that exposure to high metal contamination or subsequent effects of this exposure permanently changed microbial community structure. The total number of colony forming units (CFU) was not affected by metal contamination and the As(V)-resistant bacterial ratio to total heterotrophic plate counts was high (0.5-1.1) and relatively independent of the concentration of As. In contrast, the proportion of As(III)-resistant bacteria was dependent on the concentration of As in the soils and a significant positive relationship was found between the bioavailability of As and the proportion of As(III)-resistant bacteria. Dominant As-resistant isolates from contaminated soils were identified by their fatty acid methyl ester (FAME) profiles as Acinetobacter, Edwardsiella, Enterobacter, Pseudomonas, Salmonella and Serratia species. No differences were noted in glucose mineralization among contaminated and control soil samples within sites. Based on [(14)C]glucose mineralization the community was able to compensate for the reduced diversity. According to t-RFLP results, this was not due to a reversion towards the unexposed community, but mainly due to the appearance of new dominating species. This study, combining complementary culture-dependent and -independent methods, suggests that microbes are able to respond to soil metal contamination and maintain metabolic activity apparently through changes in microbial community structure and selection for resistance.

  12. Mini Review of Phytochemicals and Plant Taxa with Activity as Microbial Biofilm and Quorum Sensing Inhibitors

    Chieu Anh Kim Ta

    2015-12-01

    Full Text Available Microbial biofilms readily form on many surfaces in nature including plant surfaces. In order to coordinate the formation of these biofilms, microorganisms use a cell-to-cell communication system called quorum sensing (QS. As formation of biofilms on vascular plants may not be advantageous to the hosts, plants have developed inhibitors to interfere with these processes. In this mini review, research papers published on plant-derived molecules that have microbial biofilm or quorum sensing inhibition are reviewed with the objectives of determining the biosynthetic classes of active compounds, their biological activity in assays, and their families of occurrence and range. The main findings are the identification of plant phenolics, including benzoates, phenyl propanoids, stilbenes, flavonoids, gallotannins, proanthocyanidins and coumarins as important inhibitors with both activities. Some terpenes including monoterpenes, sesquiterpenes, diterpenes and triterpenes also have anti-QS and anti-biofilm activities. Relatively few alkaloids were reported. Quinones and organosulfur compounds, especially from garlic, were also active. A common feature is the polar nature of these compounds. Phytochemicals with these activities are widespread in Angiosperms in temperate and tropical regions, but gymnosperms, bryophytes and pteridophytes were not represented.

  13. Combined effects of cadmium and butachlor on soil enzyme activities and microbial community structure

    Wang, Jinhua; Lu, Yitong; Shen, Guoqing

    2007-02-01

    The combined effects of cadmium (Cd, 10 mg/kg of soil) and butachlor (5, 10 and 50 mg/kg of soil) on enzyme activities and microbial community structure were assessed in phaeozem soil. The result showed that phosphatase activities were decreased in soils with Cd (10 mg/kg of soil) alone whereas urease acitivities were unaffected by Cd. Urease and phosphatase activities were significantly reduced by high butachlor concentration (50 mg/kg of soil). When Cd and butachlor concentrations in soils were added at milligram ratio of 2:1 or 1:2, urease and phosphatase activities were decreased, while enzyme activities were greatly improved at the ratio of 1:5. This study indicates that the combined effects of Cd and butachlor on soil urease and phosphatase activities depend largely on the addition concentration ratios to soils. The random amplified polymorphic DNA (RAPD) analysis showed that the changes occurring in RAPD profiles of different treated samples included variation in loss of normal bands and appearance of new bands compared with the control soil. The RAPD fingerprints showed substantial differences between the control and treated soil samples, with apparent changes in the number and size of amplified DNA fragments. The results showed that the addition of high concentration butachlor and the combined applied Cd and butachlor significantly affected the diversity of microbial community. The present results suggest that RAPD analysis in conjunction with other biomarkers such as soil enzyme parameter etc. would prove a powerful ecotoxicological tool.

  14. Reduction of Microbial Population in Cheese Whey by UV in a Single and Series Conventional Reactors

    Abdel E. Ghaly

    2006-01-01

    Full Text Available In this study, the effectiveness of two conventional UV reactors in series for the online sterilization of cheese whey was compared to that of a single conventional reactor. The single reactor and the two reactor series were tested at eleven flow rates (5, 10, 15, 20, 25, 30, 35, 40, 50, 60 and 70 mL min-1 and five flow rates, (35, 40, 50, 60, 70 mL min-1, respectively. 100% destruction efficiency could not be achieved in the single reactor. When two reactors were connected in series, the destruction efficiency reached 100% at the flow rate of 35 mL min-1 and lasted for 25 min. The temperature of the effluent decreased with the increase in flow rate in both systems. The rate of microbial destruction in the single reactor and the two reactor series was described by an exponential equation. The maximum effluent temperatures in the single reactor and the two reactor series were 45.8 and 36.0°C, respectively. The flow in both reactors was laminar (Re=1.39 at 5mL min-1 and Re= 20.10 at 70 mL min-1. Visual observation revealed less fouling on the UV lamps of two reactor series than the single reactor. A different design in which there is no contact between the liquid and the UV lamp should be investigated. The quartz sleeve could also be replaced with fluropolymer coiled tube around the UV lamp. The smooth surface of the fluropolymer would reduce scaling and extend the effective operating time.

  15. Microbial activity in the subterranean environment of Dârninii Cave, Bihor Mountains

    Rahela Carpa

    2009-11-01

    Full Text Available Six cave material samples from Dârninii Cave, Bihor Mountains, were microbiologically andenzymologically analyzed. The microbiological analyses consisted in determining the presence ofoligotrophs, aerobic heterotrophs, ammonifiers, nitrate and nitrite bacteria, denitrifiers and determining thepresence of micromycetes. In order to form a complete image on the microbial processes from this habitat,the bacteriological analyses were completed with quantitative and qualitative enzymological analyses. At allthe six samples of cave material the next quantitative enzymatic activities were performed: actual andpotential dehydrogenase, catalase and phosphatase. Only regarding the intensity of the processesdifferences were noticed. The qualitative enzymatic activities: amylase, dextranase, saccharase, maltaseand levanase, were not present at studied samples.

  16. DMPP-added nitrogen fertilizer affects soil N2O emission and microbial activity in Southern Italy

    Vitale, Luca; De Marco, Anna; Maglione, Giuseppe; Polimeno, Franca; Di Tommasi, Paul; Magliulo, Vincenzo

    2014-05-01

    plots, whereas an opposite trend for basal respiration was observed, thus evidencing a stressful condition for nitrifying microbial population. After 57 and 71 DAS, when fertilizer was applied as 30 kg N ha-1, the microbial biomass was similar between C and DMPP plots, whereas basal respiration resulted statistically lower in DMPP plots than C plots. During these periods, average DMPP N2O fluxes were also comparable or lower. In conclusion, our data evidence a stressful condition for soil microbes and in particular for nitrifiers when a higher DMPP quantity is supplied. On the contrary, when lower quantities of DMPP-added fertilizers are supplied (e.s. 30 kg N ha-1) effectiveness of DMPP in reducing soil N2O emission is guaranteed by reducing the nitrifiers activity without negatively affecting their growth.

  17. Counting on People: Elementary Population and Environmental Activities.

    Wasserman, Pamela; Scullard, Anne

    This activity book serves as a primer on population dynamics and environmental impacts. It is designed to show young students their connections to other people, all living things, and the environment that surrounds them. While the kit is designed for use with students in grades 1-6, many of the activities are more appropriate for upper elementary…

  18. Bioremediation of oil refinery sludge by landfarming in semiarid conditions: influence on soil microbial activity.

    Marin, J A; Hernandez, T; Garcia, C

    2005-06-01

    Bioremediation of a refinery sludge containing hydrocarbons in a semi-arid climate using landfarming techniques is described. The objective of this study was to assess the ability of this technique to reduce the total hydrocarbon content added to the soil with the refinery sludge in semiarid climate (low rain and high temperature). In addition, we have evaluated the effect of this technique on the microbial activity of the soil involved. For this, biological parameters (carbon fractions, microbial biomass carbon, basal respiration and ATP) and biochemical parameters(different enzymatic activities) were determined. The results showed that 80% of the hydrocarbons were eliminated in eleven months, half of this reduction taking place during the first three months. The labile carbon fractions, MBC, basal respiration and ATP of the soils submitted to landfarming showed higher values than the control soil during the first months of the process, although these values fell down by the end of the experimental period as the hydrocarbons were degraded by mineralisation. All the enzymatic activities studied: oxidoreductases such as dehydrogenase activity, and hydrolases of C(beta-glucosidase activity) and N Cycle (urease and protease) showed higher values in the soils amended with the refinery sludge than in the control. As in the case of the previous parameters, these value fell down as the bioremediation of the hydrocarbons progressed, many of them reaching levels similar to those of the control soil after eleven months.

  19. Impact of Fungicides Chlorothalonil and Propiconazole on Microbial Activities in Groundnut (Arachis hypogaea L.) Soils.

    Ramudu, A C; Mohiddin, G Jaffer; Srinivasulu, M; Madakka, M; Rangaswamy, V

    2011-01-01

    Introduction of agrochemicals (fungicides) into soil may have lasting effects on soil microbial activities and thus affect soil health. In order to determine the changes in microbial activity in a black clay and red sandy loam soils of groundnut (Arachis hypogaea L.) cultivated fields, a case study was conducted with propiconazole and chlorothalonil to evaluate its effects on soil enzymes (cellulase and invertase) throughout 40 days of incubation under laboratory conditions with different concentrations (1.0, 2.5, 5.0, 7.5, and 10.0 kg ha(-1)). Individual application of the two fungicides at 1.0, 2.5, and 5.0 kg ha(-1) to the soil distinctly enhanced the activities of cellulase and invertase but at higher concentrations of 7.5 and 10 kg ha(-1) was toxic or innocuous to both cellulase and invertase activities. In soil samples receiving 2.5-5.0 kg ha(-1) of the fungicides, the accumulation of reducing sugar was pronounced more at 20 days, and the activity of the cellulase and invertase was drastically decreased with increasing period of incubation up to 30 and 40 days.

  20. Microbial surfactant activities from a petrochemical landfarm in a humid tropical region of Brazil

    Maciel, B.M.; Dias, J.C.T.; Santos, A.C.F.; Argolo-Filho, R.C.; Fontana, R.; Loguercio, L.L.; Rezende, R.P. [Univ. Estadual de Santa Cruz, Santa Cruz (Brazil). Dept. de Ciencias Biologicas

    2007-08-15

    Studies have suggested that biosurfactants can enhance the biodegradation of almost insoluble organics by increasing cell uptake availability. In this study, micro-organisms were isolated from a soil sample from a Brazilian petrochemical waste landfarm and grown in petroleum as a carbon source in order to assess their surfactant potential. Isolated colonies were inoculated into tubes, and a drop-collapse method was used to select micro-organisms with surfactant activity. Surfactant activity of the isolates was assessed when the activity was detected for the first time in each culture. The supernatant of each micro-organism was then diluted. The surfactant activity of each dilution was then observed via micelles formation. DNA was then extracted from the samples. A total of 60 microbial strains were selected. Results showed that a variety of petroleum-grown micro-organisms obtained from the landfarm soil showed surfactant activity. Results showed that the micro-organisms were able to use petroleum as a sole carbon source. The production of surfactant compounds occurred during the declining stages of microbial culture curves, which suggested that the nutritional stress achieved on the fourth day of the culture induced the synthesis and secretion of biosurfactants by the isolates. It was concluded that micro-organisms derived from soils polluted with hydrocarbons can be used in bioremediation processes. 21 refs., 1 tab., 3 figs.

  1. Effect of Elevated Salt Concentrations on the Aerobic Granular Sludge Process: Linking Microbial Activity with Microbial Community Structure

    Bassin, J.P.; Pronk, M.; Muyzer, G.; Kleerebezem, R.; Dezotti, M.; Van Loosdrecht, M.C.M.

    2011-01-01

    The long- and short-term effects of salt on biological nitrogen and phosphorus removal processes were studied in an aerobic granular sludge reactor. The microbial community structure was investigated by PCR-denaturing gradient gel electrophoresis (DGGE) on 16S rRNA and amoA genes. PCR products obtai

  2. Imidacloprid induces changes in the structure, genetic diversity and catabolic activity of soil microbial communities.

    Cycoń, Mariusz; Markowicz, Anna; Borymski, Sławomir; Wójcik, Marcin; Piotrowska-Seget, Zofia

    2013-12-15

    This is the first report describing the effect of imidacloprid applied at field rate (FR, 1 mg/kg of soil) and 10 times the FR (10*FR, 10 mg/kg of soil) on the structural, genetic and physiological diversity of soil bacterial community as determined by the phospholipid fatty acid (PLFA), the denaturing gradient gel electrophoresis (DGGE), and the community level physiological profile (CLPP) approaches. PLFA profiles showed that imidacloprid significantly shifted the microbial community structure and decreased the biomass of the total, bacterial and fungal PLFAs, however, this effect was transient at the FR dosage. The alterations in DGGE patterns caused by imidacloprid application, confirmed considerable changes in the overall richness and diversity of dominant bacteria. Although, as a result of imidacloprid application, the metabolic activity of microbial communities was generally lower, the richness and functional biodiversity of the soil microbial community were not negatively affected. In general, the analysis of the variance indicated that the measured parameters were significantly affected by treatment and the incubation time, however, the incubation time effect explained most of the observed variance. Imidacloprid degradation and the appearance of some new bands in DGGE profiles suggest the evolution of bacteria capable of degrading imidacloprid among indigenous microflora.

  3. Increased microbial activity in a warmer and wetter climate enhances the risk of coastal hypoxia.

    Nydahl, Anna; Panigrahi, Satya; Wikner, Johan

    2013-08-01

    The coastal zone is the most productive area of the marine environment and the area that is most exposed to environmental drivers associated with human pressures in a watershed. In dark bottle incubation experiments, we investigated the short-term interactive effects of changes in salinity, temperature and riverine dissolved organic matter (rDOM) on microbial respiration, growth and abundance in an estuarine community. An interaction effect was found for bacterial growth, where the assimilation of rDOM increased at higher salinities. A 3 °C rise in the temperature had a positive effect on microbial respiration. A higher concentration of DOM consistently enhanced respiration and bacterial abundance, while an increase in temperature reduced bacterial abundance. The latter result was most likely caused by a positive interaction effect of temperature, salinity and rDOM on the abundance of bacterivorous flagellates. Elevated temperature and precipitation, causing increased discharges of rDOM and an associated lowered salinity, will therefore primarily promote bacterial respiration, growth and bacterivore abundance. Our results suggest a positive net outcome for microbial activity under the projected climate change, driven by different, partially interacting environmental factors. Thus, hypoxia in coastal zones may increase due to enhanced respiration caused by higher temperatures and rDOM discharge acting synergistically.

  4. In situ hydrogen consumption kinetics as an indicator of subsurface microbial activity

    Harris, S.H.; Smith, R.L.; Suflita, J.M.

    2007-01-01

    There are few methods available for broadly assessing microbial community metabolism directly within a groundwater environment. In this study, hydrogen consumption rates were estimated from in situ injection/withdrawal tests conducted in two geochemically varying, contaminated aquifers as an approach towards developing such a method. The hydrogen consumption first-order rates varied from 0.002 nM h-1 for an uncontaminated, aerobic site to 2.5 nM h-1 for a contaminated site where sulfate reduction was a predominant process. The method could accommodate the over three orders of magnitude range in rates that existed between subsurface sites. In a denitrifying zone, the hydrogen consumption rate (0.02 nM h-1) was immediately abolished in the presence of air or an antibiotic mixture, suggesting that such measurements may also be sensitive to the effects of environmental perturbations on field microbial activities. Comparable laboratory determinations with sediment slurries exhibited hydrogen consumption kinetics that differed substantially from the field estimates. Because anaerobic degradation of organic matter relies on the rapid consumption of hydrogen and subsequent maintenance at low levels, such in situ measures of hydrogen turnover can serve as a key indicator of the functioning of microbial food webs and may be more reliable than laboratory determinations. ?? 2007 Federation of European Microbiological Societies.

  5. Toxicity of essential oil of Satureja khuzistanica: in vitro cytotoxicity and anti-microbial activity.

    Yousefzadi, Morteza; Riahi-Madvar, Ali; Hadian, Javad; Rezaee, Fatemeh; Rafiee, Roya; Biniaz, Mehdi

    2014-01-01

    In nature, essential oils play an important role in the protection of the plants by exerting anti-bacterial, -viral, -fungal, -oxidative, -genotoxic, and free radical scavenging properties, as well as in some cases acting as insecticides. Several Satureja species are used in traditional medicine due to recognized therapeutic properties, namely anti-microbial and cytotoxic activities. The purpose of the present work was to determine the biologic activity of the essential oil of S. khuzistanica Jamzad (Lamiaceae) against four human cancer cell lines, as well as its inhibitory effects against a wide array (i.e. n = 11) of pathogenic bacteria and fungi. The essential oil was isolated by hydro-distillation and analyzed by GC-FID and GC-MS. Carvacrol (92.87%) and limonene (1.2%) were found to be the main components of the isolated oil. Anti-microbial activity of the essential oil was assessed using a disc diffusion method; an MTT cytotoxicity assay was employed to test effects of the oil on each cancer cell line. The oil exhibited considerable anti-microbial activity against the majority of the tested bacteria and fungi. The test oil also significantly reduced cell viability of Vero, SW480, MCF7, and JET 3 cells in a dose-dependent manner, with the IC50 values calculated for each cell type being, respectively, 31.2, 62.5, 125, and 125 μg/ml. Based on the findings, it is concluded that the essential oil of S. khuzistanica and its major constituents have a potential for further use in anti-bacterial and anti-cancer applications, pending far more extensive testing of toxicities in normal (i.e. primary) cells.

  6. Microbial Consortium with High Cellulolytic Activity (MCHCA for enhanced biogas production.

    Krzysztof ePoszytek

    2016-03-01

    Full Text Available The use of lignocellulosic biomass as a substrate in agricultural biogas plants is very popular and yields good results. However, the efficiency of anaerobic digestion, and thus biogas production, is not always satisfactory due to the slow or incomplete degradation (hydrolysis of plant matter. To enhance the solubilization of the lignocellulosic biomass various physical, chemical and biological pretreatment methods are used.The aim of this study was to select and characterize cellulose-degrading bacteria, and to construct a microbial consortium, dedicated for degradation of maize silage and enhancing biogas production from this substrate.Over one hundred strains of cellulose-degrading bacteria were isolated from: sewage sludge, hydrolyzer from an agricultural biogas plant, cattle slurry and manure. After physiological characterization of the isolates, sixteen strains (representatives of Bacillus, Providencia and Ochrobactrum genera were chosen for the construction of a Microbial Consortium with High Cellulolytic Activity, called MCHCA. The selected strains had a high endoglucanase activity (exceeding 0.21 IU/mL CMCase activity and a wide range of tolerance to various physical and chemical conditions. Lab-scale simulation of biogas production using the selected strains for degradation of maize silage was carried out in a two-bioreactor system, similar to those used in agricultural biogas plants.The obtained results showed that the constructed MCHCA consortium is capable of efficient hydrolysis of maize silage, and increases biogas production by even 38%, depending on the inoculum used for methane fermentation. The results in this work indicate that the mesophilic Microbial Consortium with High Cellulolytic Activity has a great potential for application on industrial scale in agricultural biogas plants.

  7. Effects of Carbon in Flooded Paddy Soils: Implications for Microbial Activity and Arsenic Mobilization

    Avancha, S.; Boye, K.

    2014-12-01

    In the Mekong delta in Cambodia, naturally occurring arsenic (originating from erosion in the Himalaya Mountains) in paddy soils is mobilized during the seasonal flooding. As a consequence, rice grown on the flooded soils may take up arsenic and expose people eating the rice to this carcinogenic substance. Microbial activity will enhance or decrease the mobilization of arsenic depending on their metabolic pathways. Among the microbes naturally residing in the soil are denitrifying bacteria, sulfate reducers, metal reducers (Fe, Mn), arsenic reducers, methanogens, and fermenters, whose activity varies based on the presence of oxygen. The purpose of the experiment was to assess how different amendments affect the microbial activity and the arsenic mobilization during the transition from aerobic to anaerobic metabolism after flooding of naturally contaminated Cambodian soil. In a batch experiment, we investigated how the relative metabolic rate of naturally occurring microbes could vary with different types of organic carbon. The experiment was designed to measure the effects of various sources of carbon (dried rice straw, charred rice straw, manure, and glucose) on the microbial activity and arsenic release in an arsenic-contaminated paddy soil from Cambodia under flooded conditions. All amendments were added based on the carbon content in order to add 0.036 g of carbon per vial. The soil was flooded with a 10mM TRIS buffer solution at pH 7.04 in airtight 25mL serum vials and kept at 25 °C. We prepared 14 replicates per treatment to sample both gas and solution. On each sampling point, the solution replicates were sampled destructively. The gas replicates continued on and were sampled for both gas and solution on the final day of the experiment. We measured pH, total arsenic, methane, carbon dioxide, and nitrous oxide at 8 hours, 1.5 days, 3.33 days, and 6.33 days from the start of the experiment.

  8. Degradation of chlorpyrifos alone and in combination with chlorothalonil and their effects on soil microbial populations

    CHU Xiaoqiang; FANG Hua; PAN Xuedong; WANG Xiao; SHAN Min; FENG Bo; YU Yunlong

    2008-01-01

    In practice, pesticides are usually applied simultaneously or one after another for crop protection, and this type of pesticide application often leads to a combined contamination of pesticide residues in the soil environment. A laboratory study was conducted to investigate the influence of chlorothalonil on chlorpyrifos degradation and its effects on soil bacterial, fungal, and actinomycete populations. Under the experimental conditions here, the half-lives of chlorpyrifos alone, and in combination with chlorothalonil, at the recommended and double dosages, were measured to be 3.24, 2.77, and 2.63 d, respectively. Chlorpyrifos degradation was not significantly altered by its combination with chlorothalonil. However, the inhibitory effect of chlorpyrifos on soil microorganisms was increased by its combination with chlorothalonil, and the increase was related to the levels of chlorothalonil added. Compared to those in the controls, the populations of bacteria, fungi, and actinomycetes were significantly reduced by 44.1%, 61.1%, and 72.8%, respectively, on the first day after treatment (DAT) by chlorpyrifos alone. With the addition of chlorothalonil, the inhibition was increased to 55.2%, 79.3%, and 85.8% at the recommended dosage, and 86.0%, 94.1%, and 90.8% at the double dosage, at one DAT, respectively. The results suggested that combined effects should be taken into account to assess the actual impacts of pesticide applications.

  9. Multitaxon activity profiling reveals differential microbial response to reduced seawater pH and oil pollution.

    Coelho, Francisco J R C; Cleary, Daniel F R; Costa, Rodrigo; Ferreira, Marina; Polónia, Ana R M; Silva, Artur M S; Simões, Mário M Q; Oliveira, Vanessa; Gomes, Newton C M

    2016-09-01

    There is growing concern that predicted changes to global ocean chemistry will interact with anthropogenic pollution to significantly alter marine microbial composition and function. However, knowledge of the compounding effects of climate change stressors and anthropogenic pollution is limited. Here, we used 16S and 18S rRNA (cDNA)-based activity profiling to investigate the differential responses of selected microbial taxa to ocean acidification and oil hydrocarbon contamination under controlled laboratory conditions. Our results revealed that a lower relative abundance of sulphate-reducing bacteria (Desulfosarcina/Desulfococcus clade) due to an adverse effect of seawater acidification and oil hydrocarbon contamination (reduced pH-oil treatment) may be coupled to changes in sediment archaeal communities. In particular, we observed a pronounced compositional shift and marked reduction in the prevalence of otherwise abundant operational taxonomic units (OTUs) belonging to the archaeal Marine Benthic Group B and Marine Hydrothermal Vent Group (MHVG) in the reduced pH-oil treatment. Conversely, the abundance of several putative hydrocarbonoclastic fungal OTUs was higher in the reduced pH-oil treatment. Sediment hydrocarbon profiling, furthermore, revealed higher concentrations of several alkanes in the reduced pH-oil treatment, corroborating the functional implications of the structural changes to microbial community composition. Collectively, our results advance the understanding of the response of a complex microbial community to the interaction between reduced pH and anthropogenic pollution. In future acidified marine environments, oil hydrocarbon contamination may alter the typical mixotrophic and k-/r-strategist composition of surface sediment microbiomes towards a more heterotrophic state with lower doubling rates, thereby impairing the ability of the ecosystem to recover from acute oil contamination events.

  10. Improvement in shelf life of minimally processed cilantro leaves through integration of kinetin pretreatment and packaging interventions: Studies on microbial population dynamics, biochemical characteristics and flavour retention.

    Ranjitha, K; Shivashankara, K S; Sudhakar Rao, D V; Oberoi, Harinder Singh; Roy, T K; Bharathamma, H

    2017-04-15

    Effect of integrating optimized combination of pretreatment with packaging on shelf life of minimally processed cilantro leaves (MPCL) was appraised through analysis of their sensory attributes, biochemical characteristics, microbial population and flavour profile during storage. Minimally pretreated cilantro leaves pretreated with 50ppm kinetin and packed in 25μ polypropylene bags showed a shelf life of 21days. Optimized combination helped in efficiently maintaining sensory parameters, flavour profile, and retention of antioxidants in MPCL until 21days. Studies conducted on the effect of optimized combination on microbial population and flavour profile revealed that among different microorganisms, pectinolysers had a significant effect on spoilage of MPCL and their population of ⩽3.59logcfu/g was found to be acceptable. Principal component analysis of headspace volatiles revealed that (E)-2-undecenal, (E)-2-hexadecenal, (E)-2-tetradecenal & (E)-2-tetradecen-1-ol in stored samples clustered with fresh samples and therefore, could be considered as freshness indicators for MPCL.

  11. Dehydrogenase activity in association with poised potential during biohydrogen production in single chamber microbial electrolysis cell.

    Venkata Mohan, S; Lenin Babu, M

    2011-09-01

    Variation in the dehydrogenase (DH) activity and its simultaneous influence on hydrogen (H2) production, substrate degradation rate (SDR) and volatile fatty acid (VFA) generation was investigated with respect to varying poised potential in single chambered membrane-less microbial electrolysis cell (MEC) using anaerobic consortia as biocatalyst. Poised potential showed significant influence on H2 production and DH activity. Maximum H2 production was observed at 1.0V whereas the control system showed least H2 production among the experimental variations studied. DH activity was observed maximum at 0.6V followed by 0.8, 0.9 and 1.0V, suggests the influence of poised potential on the microbial metabolism. Almost complete degradation of substrate was observed in all the experimental conditions studied irrespective of the applied potential. Experimental data was also analysed employing multiple regression analysis and 3D-surface plots to find out the best theoretical poised potential for maximum H2 production and DH activity.

  12. Soil enzymatic activities and microbial community structure with different application rates of Cd and Pb

    KHAN Sardar; CAO Qing; HESHAM Abd El-Latif; XIA Yue; HE Ji-zheng

    2007-01-01

    This study focused on the changes of soil microbial diversity and potential inhibitory effects of heavy metals on soil enzymatic activities at different application rates of Cd and Pb. The soil used for experiments was collected from Beijing and classified as endoaquepts. Pots containing 500 g of the soil with different Cd or/and Pb application rates were incubated for a period of 0, 2, 9, 12 weeks in a glasshouse and the soil samples were analyzed for individual enzymes, including catalase, alkaline phosphatase and dehydrogenase, and the changes of microbial community structure. Results showed that heavy metals slightly inhibited the enzymatic activities in all the samples spiked with heavy metals. The extent of inhibition increased significantly with increasing level of heavy metals, and varied with the incubation periods. The soil bacterial community structure, as determined by polymerase chain reaction-denaturing gradient gel electrophoresis techniques, was different in the contaminated samples as compared to the control. The highest community change was observed in the samples amended with high level of Cd. Positive correlations were observed among the three enzymatic activities, but negative correlations were found between the amounts of the heavy metals and the enzymatic activities.

  13. Effect of elevated CO2 on chlorpyriphos degradation and soil microbial activities in tropical rice soil.

    Adak, Totan; Munda, Sushmita; Kumar, Upendra; Berliner, J; Pokhare, Somnath S; Jambhulkar, N N; Jena, M

    2016-02-01

    Impact of elevated CO2 on chlorpyriphos degradation, microbial biomass carbon, and enzymatic activities in rice soil was investigated. Rice (variety Naveen, Indica type) was grown under four conditions, namely, chambered control, elevated CO2 (550 ppm), elevated CO2 (700 ppm) in open-top chambers and open field. Chlorpyriphos was sprayed at 500 g a.i. ha(-1) at maximum tillering stage. Chlorpyriphos degraded rapidly from rice soils, and 88.4% of initially applied chlorpyriphos was lost from the rice soil maintained under elevated CO2 (700 ppm) by day 5 of spray, whereas the loss was 80.7% from open field rice soil. Half-life values of chlorpyriphos under different conditions ranged from 2.4 to 1.7 days with minimum half-life recorded with two elevated CO2 treatments. Increased CO2 concentration led to increase in temperature (1.2 to 1.8 °C) that played a critical role in chlorpyriphos persistence. Microbial biomass carbon and soil enzymatic activities specifically, dehydrogenase, fluorescien diacetate hydrolase, urease, acid phosphatase, and alkaline phosphatase responded positively to elevated CO2 concentrations. Generally, the enzyme activities were highly correlated with each other. Irrespective of the level of CO2, short-term negative influence of chlorpyriphos was observed on soil enzymes till day 7 of spray. Knowledge obtained from this study highlights that the elevated CO2 may negatively influence persistence of pesticide but will have positive effects on soil enzyme activities.

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

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

    2016-04-01

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

  15. Microbial activity and dissolved organic carbon production in drained and rewetted blanket peat

    Wallage, Z. E.; Holden, J.; Jones, T.; McDonald, A. T.

    2009-04-01

    Heightened levels of degradation in response to environmental change have resulted in an increased loss of dissolved organic carbon (DOC) in the drainage waters of many peatland catchments across Europe and North America. One significant threat to peatland sustainability has been the installation of artificial drainage ditches, and although recent restoration schemes have pursued drain blocking as a possible strategy for reducing degradation and fluvial carbon losses, little is known about how such processes influence the intimate biological systems operating within these soils. This paper investigates how disturbance, in the form of drainage and drain blocking, influences the rate of microbial activity within a peat soil, and the subsequent impact this has on DOC production potential. Peat samples were extracted from three treatment sites (intact peat, drained peat and drain-blocked peat) in an upland blanket peat catchment in the UK. Microbial activity was measured via laboratory experimentation that incorporated the use of an INT-Formazan dehydrogenase enzyme assay to assess the level of electron transport system (ETS) activity occurring within each treatment. Drainage significantly lowered the height of the water table relative to the intact peat, whilst drain blocking successfully rewetted the peat, having raised the height of the water table relative to the drained site. Mean microbial activity rates at the drained site were found to be 33 % greater than the undisturbed intact peat and almost double that of the restored, drain-blocked site. These results correspond well with previously published data observing significantly greater DOC concentrations in the pore waters of the drained site and significantly lower concentrations at the blocked site, relative to the intact peat. Data from the drain-blocked treatment also provides evidence contrary to the commonly quoted hypothesis that an enzyme-latch reaction may be sustained in drained peat, even once it has

  16. [Comparisons of Microbial Numbers, Biomasses and Soil Enzyme Activities Between Paddy Field and Drvland Origins in Karst Cave Wetland].

    Jin, Zhen-jiang; Zeng, Hong-hu; Li, Qiang; Cheng, Ya-ping; Tang, Hua-feng; Li, Min; Huang, Bing-fu

    2016-01-15

    The purpose of this study is to compare microbial number, microbial biomass as well as soil enzyme activity between paddy field and dryland originated karst wetland ecosystems. The soil samples (0-20 cm) of uncultivated wetland, paddy field and dryland were collected in Huixian karst cave wetland, Guilin, China. Microbial numbers and biomass were detected using dilute plate incubation counting and chloroform fumigation-extraction, respectively. Microbial DNA was extracted according to the manufacturer's instructions of the kit. Microbial activity was examined using soil enzyme assays as well. The result showed that the bacteria number in paddy filed was (4.36 +/- 2.25) x 10(7) CFU x g(-1), which was significantly higher than those in wetland and dryland. Fungi numbers were (6.41 +/- 2.16) x 10(4) CFU x g(-1) in rice paddy and (6.52 +/- 1.55) x 10(4) CFU x g(-1) in wetland, which were higher than that in dryland. Actinomycetes number was (2.65 +/- 0.72) x 10(6) CFU x g(-1) in dryland, which was higher than that in wetland. Microbial DNA concentration in rice paddy was (11.92 +/- 3.69) microg x g(-1), which was higher than that in dryland. Invertase activity was (66.87 +/- 18.61) mg x (g x 24 h)(-1) in rice paddy and alkaline phosphatase activity was (2.07 +/- 0.99) mg x (g x 2 h)(-1) in wetland, both of which were higher than those in dryland. Statistical analysis showed there was a significant positive correlation of microbial DNA content, alkaline phosphatase activity and microbial carbon with soil pH, soil organic carbon (SOC), total nitrogen, alkali-hydrolyzable nitrogen, soil moisture, exchangeable Ca2+ and exchangeable Mg2+, as well as a significant positive correlation of intervase activity with the former three microbial factors. The above results indicated that microbial biomass and function responded much more sensitively to land-use change than microbial number in karst cave wetland system. Soil moisture, SOC and some factors induced by land-use change

  17. Modification of soil microbial activity and several hydrolases in a forest soil artificially contaminated with copper

    Bellas, Rosa; Leirós, Mā Carmen; Gil-Sotres, Fernando; Trasar-Cepeda, Carmen

    2010-05-01

    Soils have long been exposed to the adverse effects of human activities, which negatively affect soil biological activity. As a result of their functions and ubiquitous presence microorganisms can serve as environmental indicators of soil pollution. Some features of soil microorganisms, such as the microbial biomass size, respiration rate, and enzyme activity are often used as bioindicators of the ecotoxicity of heavy metals. Although copper is essential for microorganisms, excessive concentrations have a negative influence on processes mediated by microorganisms. In this study we measured the response of some microbial indicators to Cu pollution in a forest soil, with the aim of evaluating their potential for predicting Cu contamination. Samples of an Ah horizon from a forest soil under oakwood vegetation (Quercus robur L.) were contaminated in the laboratory with copper added at different doses (0, 120, 360, 1080 and 3240 mg kg-1) as CuCl2×2H2O. The soil samples were kept for 7 days at 25 °C and at a moisture content corresponding to the water holding capacity, and thereafter were analysed for carbon and nitrogen mineralization capacity, microbial biomass C, seed germination and root elongation tests, and for urease, phosphomonoesterase, catalase and ß-glucosidase activities. In addition, carbon mineralization kinetics were studied, by plotting the log of residual C against incubation time, and the metabolic coefficient, qCO2, was estimated. Both organic carbon and nitrogen mineralization were lower in polluted samples, with the greatest decrease observed in the sample contaminated with 1080 mg kg-1. In all samples carbon mineralization followed first order kinetics; the C mineralization constant was lower in contaminated than in uncontaminated samples and, in general, decreased with increasing doses of copper. Moreover, it appears that copper contamination not only reduced the N mineralization capacity, but also modified the N mineralization process, since in

  18. Internal models for interpreting neural population activity during sensorimotor control.

    Golub, Matthew D; Yu, Byron M; Chase, Steven M

    2015-01-01

    To successfully guide limb movements, the brain takes in sensory information about the limb, internally tracks the state of the limb, and produces appropriate motor commands. It is widely believed that this process uses an internal model, which describes our prior beliefs about how the limb responds to motor commands. Here, we leveraged a brain-machine interface (BMI) paradigm in rhesus monkeys and novel statistical analyses of neural population activity to gain insight into moment-by-moment internal model computations. We discovered that a mismatch between subjects' internal models and the actual BMI explains roughly 65% of movement errors, as well as long-standing deficiencies in BMI speed control. We then used the internal models to characterize how the neural population activity changes during BMI learning. More broadly, this work provides an approach for interpreting neural population activity in the context of how prior beliefs guide the transformation of sensory input to motor output.

  19. Effect of oxygen on the microbial activities of thermophilic anaerobic biomass.

    Pedizzi, C; Regueiro, L; Rodriguez-Verde, I; Lema, J M; Carballa, M

    2016-07-01

    Low oxygen levels (μgO2L(-1)) in anaerobic reactors are quite common and no relevant consequences are expected. On the contrary, higher concentrations could affect the process. This work aimed to study the influence of oxygen (4.3 and 8.8mgO2L(-1), respectively) on the different microbial activities (hydrolytic, acidogenic and methanogenic) of thermophilic anaerobic biomass and on the methanogenic community structure. Batch tests in presence of oxygen were conducted using specific substrates for each biological activity and a blank (with minimum oxygen) was included. No effect of oxygen was observed on the hydrolytic and acidogenic activities. In contrast, the methane production rate decreased by 40% in all oxygenated batches and the development of active archaeal community was slower in presence of 8.8mgO2L(-1). However, despite this sensitivity of methanogens to oxygen at saturation levels, the inhibition was reversible.

  20. Effects of gamma irradiation on physicochemical properties, antioxidant and microbial activities of sour cherry juice

    Arjeh, Edris; Barzegar, Mohsen; Ali Sahari, Mohammad

    2015-09-01

    Recently, due to the beneficial effects of bioactive compounds, demand for minimally processed fruits and fruit juices has increased rapidly in the world. In this study, sour cherry juice (SCJ) was exposed to gamma irradiation at 0.0, 0.5, 1.5, 3.0, 4.5, and 6.0 kGy and then stored at 4 °C for 60 days. Total soluble solids (TSS), total acidity (TA), color, total phenolic content (TPC), total monomeric anthocyanin content (TMC), antioxidant activity, organic acid profile, and microbial analysis were evaluated at regular intervals during the storage. Results indicated that irradiation did not have any significant effect on TSS, while level of TA increased significantly at the dose of 6 kGy (p<0.05). Furthermore, irradiation treatment and storage time led to a significant increase in L* and b* values and a decrease in a* values. Total monomeric anthocyanin content of the irradiated SCJ was lower than that of the non-irradiated one (24% at 3.0 kGy) and also changed toward a more negative direction during the storage (63% at 3.0 kGy for 60 days). There was a significant decrease in the antioxidant activity (DPPH radical scavenging and FRAP assay) in both irradiated and stored SCJs. After irradiation (0-6 kGy), the results showed that the concentration of malic and oxalic acid significantly increased; but, the concentration of ascorbic, citric, fumaric, and succinic acids significantly decreased. Gamma irradiation with doses of ≥3 kGy resulted in overall reduction in microbial loads. Based on the results obtained from the changes of physicochemical properties, antioxidant activity, and microbial analysis, irradiation of SCJ at doses of higher than 3.0 kGy is not recommended.

  1. Life at the wedge: the activity and diversity of arctic ice wedge microbial communities.

    Wilhelm, Roland C; Radtke, Kristin J; Mykytczuk, Nadia C S; Greer, Charles W; Whyte, Lyle G

    2012-04-01

    The discovery of polygonal terrain on Mars underlain by ice heightens interest in the possibility that this water-bearing habitat may be, or may have been, a suitable habitat for extant life. The possibility is supported by the recurring detection of terrestrial microorganisms in subsurface ice environments, such as ice wedges found beneath tundra polygon features. A characterization of the microbial community of ice wedges from the high Arctic was performed to determine whether this ice environment can sustain actively respiring microorganisms and to assess the ecology of this extreme niche. We found that ice wedge samples contained a relatively abundant number of culturable cells compared to other ice habitats (∼10(5) CFU·mL(-1)). Respiration assays in which radio-labeled acetate and in situ measurement of CO(2) flux were used suggested low levels of microbial activity, though more sensitive techniques are required to confirm these findings. Based on 16S rRNA gene pyrosequencing, bacterial and archaeal ice wedge communities appeared to reflect surrounding soil communities. Two Pseudomonas sp. were the most abundant taxa in the ice wedge bacterial library (∼50%), while taxa related to ammonia-oxidizing Thaumarchaeota occupied 90% of the archaeal library. The tolerance of a variety of isolates to salinity and temperature revealed characteristics of a psychrotolerant, halotolerant community. Our findings support the hypothesis that ice wedges are capable of sustaining a diverse, plausibly active microbial community. As such, ice wedges, compared to other forms of less habitable ground ice, could serve as a reservoir for life on permanently cold, water-scarce, ice-rich extraterrestrial bodies and are therefore of interest to astrobiologists and ecologists alike. .

  2. Microbial community characterization, activity analysis and purifying efficiency in a biofilter process

    Hong Xiang; Xiwu Lu; Lihong Yin; Fei Yang; Guangcan Zhu; Wuping Liu

    2013-01-01

    The growth and metabolism of microbial communities on biologically activated carbon (BAC) play a crucial role in the purification of drinking water.To gain insight into the growth and metabolic characteristics of microbial communities and the efficiency of drinking water treatment in a BAC filter,we analyzed the heterotrophic plate count (HPC),phospholipid,dehydrogenase,metabolic function and water quality parameters during start-up and steady-state periods.In the start-up process of the filter with natural biofilm colonization,the variation in heterotrophic plate count levels was S-curved.The total phospholipid level was very low during the first 5 days and reached a maximum value after 40 days in the filter.The activity of dehydrogenase gradually increased during the first 30 days and then reached a plateau.The functional diversity of the microbial community in the filter increased,and then reached a relatively stable level by day 40.After an initial decrease,which was followed by an increase,the removal rate of NH4+-N and CODMn became stable and was 80% and 28%,respectively,by day 40.The consumption rate of dissolved oxygen reached a steady level after 29 days,and remained at 18%.At the steady operation state,the levels of HPC,phospholipid,dehydrogenase activity and carbon source utilization had no significant differences after 6 months compared to levels measured on day 40.The filter was shown to be effective in removing NH4+-N,NO2--N,CODMn,UV254,biodegradable dissolved organic carbon and trace organic pollutants from the influent.Our results suggest that understanding changes in the growth and metabolism of microorganisms in BAC filter could help to improve the efficiency of biological treatment of drinking water.

  3. Soil microbial activity in Aleppo pine stands naturally regenerated after fire: silvicultural management and induced drought

    D. Moya

    2013-01-01

    Full Text Available In post-fire restoration, early monitoring is mandatory to check impacts and ecosystem responses to apply proper management according to social standards and ecological conditions. In areas where the natural regeneration was successful, excessive tree density can be found which induces to high intraspecific competence and assisted restoration management could be adequate. In addition, climatic changes will have large impacts on vegetation productivity and resilience since the regional models for south-eastern Spain predicts a rainfall decrease of about 20% and temperature increase of 4.5 ºC. The microbial biomass could be used as indicator of ecosystem recovery, since it is negatively affected by wildfires and depends on fire characteristics, vegetation and soil properties. Our aim is to determine how forest management may affect the ecosystem recovery in different climatic scenarios, included drought scenarios with and without forest management (thinning.We compared soil physicochemical properties and microbial activity in four scenarios: unmanaged and thinned stands in two rainfall scenarios (under induced drought. The study areas were set close to Yeste (Albacete where Aleppo pine forest were burned in summer 1994 (nearly 14000 ha. We set sixteen rectangular plots (150 m2; 15 m ×10 m implementing experimental silvicultural treatments: thinning eight plots in 2004, reducing the naturally recovered tree density from about 12000 to 1600 pine trees ha-1. In addition, in half the plots, we induced drought conditions from about 500 to 400 mm (20% from March 2009. In every plot, we monitored temperature at ground level (Ts, 10 cm depth (T10d and soil relative humidity (RH. Taking into account season of the year and canopy coverage, we collected soil samples in mid-winter (ending January 2011 and mid-spring (ending May 2011 under pine trees and in bare soil. The soil samples were used to evaluate soil physicochemical properties and soil microbial

  4. Seasonal and spatial variations in microbial activity at various phylogenetic resolutions at a groundwater – surface water interface

    Yu, Ran; Smets, Barth F.; Gan, Ping;

    2014-01-01

    analysis. Consistently higher microbial activities with less variation in depth were measured in the AIMC traps than in the ambient sediments. Flood disturbance appeared to control AIMC activity distributions at the gradually elevated GSI. The highest AIMC activities were generally obtained from locations...

  5. Potential and optimization of two-phase anaerobic digestion of oil refinery waste activated sludge and microbial community study

    Wang, Qinghong; Liang, Ying; Zhao, Peng; Li, Qing X.; Guo, Shaohui; Chen, Chunmao

    2016-12-01

    Oil refinery waste activated sludge produced from oil wastewater biological treatment is a major industrial sludge. Two-phase anaerobic digestion of oil refinery waste activated sludge was studied for the first time. Thermal pretreatment under 170 °C is effective on sludge solubilization. At the optimum hydrolytic-acidogenic condition which was pH of 6.5, temperature of 55 °C and HRT of 2 days, 2754 mg/L volatile fatty acids (VFAs) were produced and acetic acid and butyric acid were the key components. Comparative studies of single-phase and two-phase anaerobic digestion in terms of organic removal, biogas production and methane concentration were conducted. The cumulative methane production and soluble COD (SCOD) removal efficiency in the two-phase system were 228 mL/g COD added and 77.8%, respectively, which were 1.6 and 2.1 times higher than those in single-phase anaerobic digestion. Such improved performance is attributed to intensification of dominant microbial population in separated reactors. Caloramator, Ureibacillus, Dechloromonas, Petrobacter, and T78 played important roles in hydrolytic-acidification and oil-organics degradation. Syntrophic bacteria in the family Porphyromonadaceae and the genus Anaerobranca provide acetate for methanogen. The results demonstrated the potential and operating condition of two-phase anaerobic digestion in treatment of oil refinery waste activated sludge.

  6. Potential and optimization of two-phase anaerobic digestion of oil refinery waste activated sludge and microbial community study.

    Wang, Qinghong; Liang, Ying; Zhao, Peng; Li, Qing X; Guo, Shaohui; Chen, Chunmao

    2016-12-01

    Oil refinery waste activated sludge produced from oil wastewater biological treatment is a major industrial sludge. Two-phase anaerobic digestion of oil refinery waste activated sludge was studied for the first time. Thermal pretreatment under 170 °C is effective on sludge solubilization. At the optimum hydrolytic-acidogenic condition which was pH of 6.5, temperature of 55 °C and HRT of 2 days, 2754 mg/L volatile fatty acids (VFAs) were produced and acetic acid and butyric acid were the key components. Comparative studies of single-phase and two-phase anaerobic digestion in terms of organic removal, biogas production and methane concentration were conducted. The cumulative methane production and soluble COD (SCOD) removal efficiency in the two-phase system were 228 mL/g COD added and 77.8%, respectively, which were 1.6 and 2.1 times higher than those in single-phase anaerobic digestion. Such improved performance is attributed to intensification of dominant microbial population in separated reactors. Caloramator, Ureibacillus, Dechloromonas, Petrobacter, and T78 played important roles in hydrolytic-acidification and oil-organics degradation. Syntrophic bacteria in the family Porphyromonadaceae and the genus Anaerobranca provide acetate for methanogen. The results demonstrated the potential and operating condition of two-phase anaerobic digestion in treatment of oil refinery waste activated sludge.

  7. Potential and optimization of two-phase anaerobic digestion of oil refinery waste activated sludge and microbial community study

    Wang, Qinghong; Liang, Ying; Zhao, Peng; Li, Qing X.; Guo, Shaohui; Chen, Chunmao

    2016-01-01

    Oil refinery waste activated sludge produced from oil wastewater biological treatment is a major industrial sludge. Two-phase anaerobic digestion of oil refinery waste activated sludge was studied for the first time. Thermal pretreatment under 170 °C is effective on sludge solubilization. At the optimum hydrolytic-acidogenic condition which was pH of 6.5, temperature of 55 °C and HRT of 2 days, 2754 mg/L volatile fatty acids (VFAs) were produced and acetic acid and butyric acid were the key components. Comparative studies of single-phase and two-phase anaerobic digestion in terms of organic removal, biogas production and methane concentration were conducted. The cumulative methane production and soluble COD (SCOD) removal efficiency in the two-phase system were 228 mL/g COD added and 77.8%, respectively, which were 1.6 and 2.1 times higher than those in single-phase anaerobic digestion. Such improved performance is attributed to intensification of dominant microbial population in separated reactors. Caloramator, Ureibacillus, Dechloromonas, Petrobacter, and T78 played important roles in hydrolytic-acidification and oil-organics degradation. Syntrophic bacteria in the family Porphyromonadaceae and the genus Anaerobranca provide acetate for methanogen. The results demonstrated the potential and operating condition of two-phase anaerobic digestion in treatment of oil refinery waste activated sludge. PMID:27905538

  8. Biodiversity and fermentative activity of caecal microbial communities in wild and farm rabbits from Spain.

    Abecia, L; Rodríguez-Romero, N; Yañez-Ruiz, D R; Fondevila, M

    2012-06-01

    In order to study the microbial caecal ecosystem of wild and domestic rabbits through the fermentation characteristics and concentration and diversity of bacterial and archaeal communities, caecal samples from sixteen wild rabbits (WR) were contrasted with two groups (n = 4) of farm rabbits receiving low (LSF) or high (HSF) soluble fibre diets from 28 (weaning) to 51 days of age. DNA was extracted for quantifying bacteria and Archaea by qPCR and for biodiversity analysis of microbial communities by DGGE. Samples from WR had lower caecal pH and ammonia and higher volatile fatty acids concentration than farm animals. Lower acetate and higher butyrate proportions were detected in WR. Bacterial and archaeal DGGE profiles were clearly different between wild and farm rabbits, and diet-affected population of farm rabbits. Similarity index of bacteria was lower than 0.40 among WR, and 0.52 among farm rabbits. In conclusion, caecal fermentation characteristics differ between wild and farm rabbits, which harbour clearly different bacterial and archaeal communities. In farm rabbits, diversity is influenced by the dietary level of soluble fibre.

  9. How to Show the Real Microbial Biodiversity? A Comparison of Seven DNA Extraction Methods for Bacterial Population Analyses in Matrices Containing Highly Charged Natural Nanoparticles.

    Kaden, Rene; Krolla-Sidenstein, Peter

    2015-10-20

    A DNA extraction that comprises the DNA of all available taxa in an ecosystem is an essential step in population analysis, especially for next generation sequencing applications. Many nanoparticles as well as naturally occurring clay minerals contain charged surfaces or edges that capture negatively charged DNA molecules after cell lysis within DNA extraction. Depending on the methodology of DNA extraction, this phenomenon causes a shift in detection of microbial taxa in ecosystems and a possible misinterpretation of microbial interactions. With the aim to describe microbial interactions and the bio-geo-chemical reactions during a clay alteration experiment, several methods for the detection of a high number of microbial taxa were examined in this study. Altogether, 13 different methods of commercially available DNA extraction kits provided by seven companies as well as the classical phenol-chloroform DNA extraction were compared. The amount and the quality of nucleic acid extracts were determined and compared to the amplifiable amount of DNA. The 16S rRNA gene fragments of several taxa were separated using denaturing gradient gel electrophoresis (DGGE) to determine the number of different species and sequenced to get the information about what kind of species the microbial population consists of. A total number of 13 species was detected in the system. Up to nine taxa could be detected with commercially available DNA extraction kits while phenol-chloroform extraction lead to three detected species. In this paper, we describe how to combine several DNA extraction methods for the investigation of microbial community structures in clay.

  10. Microbial infections in a declining wild turkey population in Texas (USA)

    Rocke, T.E.; Yuill, Thomas M.

    1987-01-01

    A survey was conducted at 5 locations in Texas for avian pathogens that might adversely affect wild turkey (Meleagris gallopavo) productivity and survival. At 1 site, the Rob and Bessie Welder Wildlife Refuge (WWR), turkeys have declined precipitously in recent years. During the winters of 1983-85, 442 wild turkeys were caught with cannon and drop nets, 161 of these on WWR. Blood samples were drawn for serologic evaluation, and cloacal and tracheal swabs were collected for isolation attempts. Salmonella spp. bacteria, Newcastle disease virus (NDV), and avian influenza virus (AIV) were not detected in any samples tested. Serologic tests for antibodies to NDV and AIV also were negative. Many mycoplasma isolates were recovered from turkeys from every location. Characterization of these isolates indicated that several species were present. None were species typically associated with mycoplasmosis in domestic turkeys, such as Mycoplasma gallisepticum (MG), M. meleagridis (MM), or M. synoviae (MS), although antibodies to these pathogens were detected in turkeys at every location sampled. There was no evidence to link any of these disease causing agents to the decline observed in the population of wild turkeys on the WWR.

  11. The combined effects of atrazine and lead (Pb): relative microbial activities and herbicide dissipation.

    Chen, Qinglin; Wang, Hui; Yang, Baoshan; He, Fei

    2014-04-01

    The experiment was conducted to investigate the effects of single and combined pollution from different concentrations of atrazine (field rate, FR, 2.0 mg kg(-1) and 5 times FR, 10 mg kg(-1)) and lead (Pb) (300 mg kg(-1) and 600 mg kg(-1)) on enzyme activity, basal soil respiration (BSR), and net nitrogen (N) mineralization (NNM) in soil after exposure for 0, 7, 14, 21, and 28 days. In addition, residual atrazine was measured in the samples of combined contamination. Results showed that the notable effects of either or both contaminants on the microbial activity and biological processes. Enzyme activity data demonstrated that the order of sensitivity to contamination was urease>invertase>catalase. BSR was strongly stimulated by atrazine/Pb at the early exposure (0-7 days for single contaminant and 7-14 days for combined contaminants). The stimulation effects on BSR were higher at low concentrations of the contamination (FR and Pb300). The combined treatments of 5FR+Pb600 inhibit BSR and NNM. Overall, the parameters associated with N cycling (urease and NNM) were more sensitive than others. Both Pb concentrations (300 and 600 mg/kg) had little influence on the dissipation of high concentrations of atrazine (5FR) during the 28-day-incubation. This study has provided useful information on potential ecotoxicology effects of combined contamination of atrazine and Pb on relative microbial biological process.

  12. Resource Limitations on Soil Microbial Activity in an Antarctic Dry Valley

    Sparrow, Asley; Gregorich, Ed; Hopkins, David

    2011-01-01

    Although Antarctic dry valley soils function under some of the harshest environmental conditions on the planet, there is significant biological activity concentrated in small areas in the landscape. These productive areas serve as a source of C and N in organic matter redistributed to the surroun......Although Antarctic dry valley soils function under some of the harshest environmental conditions on the planet, there is significant biological activity concentrated in small areas in the landscape. These productive areas serve as a source of C and N in organic matter redistributed...... to the surrounding biologically impoverished soils. We conducted a 3-yr replicated field experiment involving soil amendment with C and N in simple (glucose and NH4Cl) and complex (glycine and lacustrine detritus) forms to evaluate the resource limitations on soil microbial activity in an Antarctic dry valley....... The respiratory response for all substrates was slow, with a significant but weak response to NH4Cl, followed by a more widespread response to all substrates after 2 yr and in laboratory incubations conducted 3 yr after substrate addition. This response suggests that the soil microbial community is N limited and...

  13. Influence of moisture content on microbial activity and silage quality during ensilage of food processing residues.

    Zheng, Yi; Yates, Matthew; Aung, Hnin; Cheng, Yu-Shen; Yu, Chaowei; Guo, Hongyun; Zhang, Ruihong; Vandergheynst, Jean; Jenkins, Bryan M

    2011-10-01

    Seasonally produced biomass such as sugar beet pulp (SBP) and tomato pomace (TP) needs to be stored properly to meet the demand of sustainable biofuel production industries. Ensilage was used to preserve the feedstock. The effect of moisture content (MC) on the performance of ensilage and the relationship between microorganism activities and MC were investigated. For SBP, MC levels investigated were 80, 55, 30, and 10% on a wet basis. For TP, MC levels investigated were 60, 45, 30, and 10%. Organic acids, ethanol, ammonia, pH and water soluble carbohydrates (WSC) were measured to evaluate the silage quality. Ensilage improved as the MC decreased from 80 to 55% for SBP and from 60 to 45% for TP. When the MC decreased to 30%, a little microbial activity was detected for both feedstocks. Storage at 10% MC prevented all the microbial activity. The naturally occurring microorganisms in TP were found to preserve TP during silage and were isolated and determined by polymerase chain reaction (PCR). The results suggest that partial drying followed by ensilage may be a good approach for stabilization of food processing residues for biofuels production.

  14. Metabolic activity and genetic diversity of microbial communities inhabiting the rhizosphere of halophyton plants.

    Bárány, Agnes; Szili-Kovács, Tibor; Krett, Gergely; Füzy, Anna; Márialigeti, Károly; Borsodi, Andrea K

    2014-09-01

    A preliminary study was conducted to compare the community level physiological profile (CLPP) and genetic diversity of rhizosphere microbial communities of four plant species growing nearby Kiskunság soda ponds, namely Böddi-szék, Kelemen-szék and Zab-szék. CLPP was assessed by MicroResp method using 15 different substrates while Denaturing Gradient Gel Electrophoresis (DGGE) was used to analyse genetic diversity of bacterial communities. The soil physical and chemical properties were quite different at the three sampling sites. Multivariate statistics (PCA and UPGMA) revealed that Zab-szék samples could be separated according to their genetic profile from the two others which might be attributed to the geographical location and perhaps the differences in soil physical properties. Böddi-szék samples could be separated from the two others considering the metabolic activity which could be explained by their high salt and low humus contents. The number of bands in DGGE gels was related to the metabolic activity, and positively correlated with soil humus content, but negatively with soil salt content. The main finding was that geographical location, soil physical and chemical properties and the type of vegetation were all important factors influencing the metabolic activity and genetic diversity of rhizosphere microbial communities.

  15. Effect of microbial activity on the mobility of chromium in soils.

    Desjardin, V; Bayard, R; Huck, N; Manceau, A; Gourdon, R

    2002-01-01

    The effect of microbial activity on the chemical state of chromium, in a contaminated soil located in the Rhĵne-Alpes region (France), has been investigated. This soil contained 4,700 mg kg(-1) Cr, with about 40% present in the soluble hexavalent form. Indigenous microbial activity was found to significantly reduce Cr(VI) to the less mobile form (III) when the soil was incubated at 30 degrees C in an aqueous medium containing glucose and nutrients. A Cr(VI)-reducing strain of Streptomyces thermocarboxydus was isolated from the contaminated soil. The strain was found to metabolize Cr(VI) in a similar manner as an exogenous inoculum of Pseudomonas fluorescens LB300, and to precipitate chromium as a Cr oxyhydroxide with a gammaCrOOH-like local structure. The Cr(VI)-reducing activity of S. thermocarboxydus was induced, or significantly accelerated, by the aggregation of bacterial cells or their adhesion to suspended solid particles, and was stimulated in pure culture by glycerol and chromate.

  16. Microbial biomass and enzyme activity of a Cerrado Oxisol under agroecological production system

    Enderson Petrônio de Brito Ferreira

    2011-01-01

    Full Text Available Aiming to evaluate the effects of soil management and cover crops on microbial indicators of soil quality, an experiment was carried out under field conditions in which common bean and corn were cropped under no-tillage (NT and conventional tillage (CT after sunnhemp, velvet bean, pigeon pea, jack bean, sorghum and fallow (weeds. The basal soil respiration (BSR, C and N of the microbial biomass (Cmic and Nmic, metabolic quotient (qCO2, total enzymatic activity (TEA, β-glycosidase (β-GA activity and acid phosphatase activity (APA were evaluated in samples collected in 0-0.10 m depth. Cmic, qCO2, TEA, β-GA and APA were more sensitive in determining the effects caused by tillage and cover crops. Although the cover crops had not provided a remarkably influence on the studied indicators, in general, the highest values of Cmic, Nmic, BSR, TEA, β-GA and APA and the lowest values of qCO2 were observed under NT compared to CT. Cmic and TEA values were 35% and 13% higher under NT when compared to CT, respectively. In addition, NT showed values closer to those found under "Cerrado" area for the studied parameters, indicating a greater sustainability under this soil management system compared to CT management.

  17. Natural microbial populations in a water-based biowaste management system for space life support

    Bornemann, Gerhild; Waßer, Kai; Tonat, Tim; Moeller, Ralf; Bohmeier, Maria; Hauslage, Jens

    2015-11-01

    The reutilization of wastewater is a key issue with regard to long-term space missions and planetary habitation. This study reports the design, test runs and microbiological analyses of a fixed bed biofiltration system which applies pumice grain (16-25 mm grain size, 90 m2 /m3 active surface) as matrix and calcium carbonate as buffer. For activation, the pumice was inoculated with garden soil known to contain a diverse community of microorganisms, thus enabling the filtration system to potentially degrade all kinds of organic matter. Current experiments over 194 days with diluted synthetic urine (7% and 20%) showed that the 7% filter units produced nitrate slowly but steadily (max. 2191 mg NO3-N/day). In the 20% units nitrate production was slower and less stable (max. 1411 mg NO3-N/day). 84% and 76% of the contained nitrogen was converted into nitrate. The low conversion rate is assumed to be due to the high flow rate, which keeps the biofilm on the pumice thin. At the same time the thin biofilm seems to prevent the activity of denitrifiers implicating the existence of a trade off between rate and the amount of nitrogen loss. Microbiological analyses identified a comparatively low number of species (26 in the filter material, 12 in the filtrate) indicating that urine serves as a strongly selective medium and filter units for the degradation of mixed feedstock have to be pre-conditioned on the intended substrates from the beginning.

  18. Effect of supplemental nitrogen from urea on digestibility, rumen fermentation pattern, microbial populations and nitrogen balance in growing goats

    Wanwisa Ngampongsai

    2008-08-01

    Full Text Available For this study, four Thai Native (TN x Anglo Nubian (AN crossbred growing goats with an average liveweight of 19.0+1 kg were randomly used in a 4x4 Latin square design to determine the effect of supplemental nitrogen from urea on digestibility, rumen fermentation pattern, microbial populations and nitrogen balance in growing goats. Fresh elephant grass(FEG was offered ad libitum as the roughage. Four dietary treatments with supplemental nitrogen from urea were T1 = urea at 0% cassava chip, (CC = 30%, T2 = urea at 1% (CC = 40%, T3 = urea at 2% (CC = 50% and T4 = urea at 3% (CC = 60%,respectively. Based on this experiment, it was found that there was no significant difference (p>0.05 among treatment groups regarding nutrient intake (OMI, CPI, NDFI and ADFI and digestion coefficients of nutrients (DM, OM, CP, NDF and ADF, while digestible nutrient intake of CP (g/d was affected by increasing urea levels. Ruminal volatile fatty acidprofiles were similar among treatments. Moreover, rumen microorganism populations were not affected (p>0.05 by increasing urea levels. The amount of N absorption and retention were similar among treatments, except for T4 which tended to be slightly lower in N absorption as compared to control diet, but higher N output retained (% of N intake than the control-fed goats. From the overall results, it can be concluded that a higher level of urea (3% could be used with a high level of CC (60% in concentrate when fed with FEG and it was found to be a good approach to exploiting the use of local feedresources for goat production.

  19. Comparison of indigenous and exogenous microbial populations during slurry phase biodegradation of long-term hydrocarbon-contaminated soil.

    Aburto-Medina, Arturo; Adetutu, Eric M; Aleer, Sam; Weber, John; Patil, Sayali S; Sheppard, Petra J; Ball, Andrew S; Juhasz, Albert L

    2012-11-01

    In this study, a number of slurry-phase strategies were trialled over a 42 day period in order to determine the efficacy of bioremediation for long-term hydrocarbon-contaminated soil (145 g kg(-1) C(10)-C(40)). The addition of activated sludge and nutrients to slurries (bioaugmentation) resulted in enhanced hydrocarbon removal (51.6 ± 8.5 %) compared to treatments receiving only nutrients (enhanced natural attenuation [ENA]; 41.3 ± 6.4 %) or no amendments (natural attenuation; no significant hydrocarbon removal, P hydrocarbons in ENA slurries. Microbial diversity in slurries was monitored using DGGE with dominant bands excised and sequenced for identification. Applying the different bioremediation strategies resulted in the formation of four distinct community clusters associated with the activated sludge (inoculum), bioaugmentation strategy at day 0, bioaugmentation strategy at weeks 2-6 and slurries with autoclaved sludge and nutrient additions (bioaugmentation negative control). While hydrocarbon-degrading bacteria genera (e.g. Aquabacterium and Haliscomenobacter) were associated with the hydrocarbon-contaminated soil, bioaugmentation of soil slurries with activated sludge resulted in the introduction of bacteria associated with hydrocarbon degradation (Burkholderiales order and Klebsiella genera) which presumably contributed to the enhanced efficacy for this slurry strategy.

  20. Patterns of ecological specialization among microbial populations in the Red Sea and diverse oligotrophic marine environments.

    Thompson, Luke R; Field, Chris; Romanuk, Tamara; Ngugi, David; Siam, Rania; El Dorry, Hamza; Stingl, Ulrich

    2013-06-01

    Large swaths of the nutrient-poor surface ocean are dominated numerically by cyanobacteria (Prochlorococcus), cyanobacterial viruses (cyanophage), and alphaproteobacteria (SAR11). How these groups thrive in the diverse physicochemical environments of different oceanic regions remains poorly understood. Comparative metagenomics can reveal adaptive responses linked to ecosystem-specific selective pressures. The Red Sea is well-suited for studying adaptation of pelagic-microbes, with salinities, temperatures, and light levels at the extreme end for the surface ocean, and low nutrient concentrations, yet no metagenomic studies have been done there. The Red Sea (high salinity, high light, low N and P) compares favorably with the Mediterranean Sea (high salinity, low P), Sargasso Sea (low P), and North Pacific Subtropical Gyre (high light, low N). We quantified the relative abundance of genetic functions among Prochlorococcus, cyanophage, and SAR11 from these four regions. Gene frequencies indicate selection for phosphorus acquisition (Mediterranean/Sargasso), DNA repair and high-light responses (Red Sea/Pacific Prochlorococcus), and osmolyte C1 oxidation (Red Sea/Mediterranean SAR11). The unexpected connection between salinity-dependent osmolyte production and SAR11 C1 metabolism represents a potentially major coevolutionary adaptation and biogeochemical flux. Among Prochlorococcus and cyanophage, genes enriched in specific environments had ecotype distributions similar to nonenriched genes, suggesting that inter-ecotype gene transfer is not a major source of environment-specific adaptation. Clustering of metagenomes using gene frequencies shows similarities in populations (Red Sea with Pacific, Mediterranean with Sargasso) that belie their geographic distances. Taken together, the genetic functions enriched in specific environments indicate competitive strategies for maintaining carrying capacity in the face of physical stressors and low nutrient availability.

  1. Influence of erythromycin A on the microbial populations in aquaculture sediment microcosms.

    Kim, Yong-Hak; Cerniglia, Carl E

    2005-07-01

    Degradation of erythromycin A was studied using two sediment samples obtained from the salmon and trout hatchery sites at Hupp Springs (HS) and Goldendale (GD), Washington, United States. The former site had been treated for 3 years with erythromycin-medicated feed prior to the experiments, and the latter site had not been treated with any antibiotic for at least 6 years. The two sediment microcosms treated with either N-[methyl-14C]erythromycin A or [1,3,5,7,9,11,13-14C]erythromycin A showed S-curves for erythromycin A mineralization with a prolonged lag time of 120 days, except for GD microcosms treated with [1,3,5,7,9,11,13-14C]erythromycin A. We proposed a simplified logistic model to interpret the mineralization curves under the assumption of the low densities of initial populations metabolizing erythromycin A. The model was helpful for knowing the biological potential for erythromycin A degradation in sediments. Although erythromycin A added to the two sediment microcosms did not significantly alter the numbers of total viable aerobic bacteria or erythromycin-resistant bacteria, it affected the bacterial composition. The influence on the bacterial composition appeared to be greater in GD microcosms without pre-exposure to antibiotics. PCR-RFLP and DNA sequence analyses of the 16S ribosomal RNA gene and the erythromycin esterase (ere) gene revealed that ereA type 2 (ereA2) was present in potentially erythromycin-degrading Pseudomonas spp. strains GD100, GD200, HS100, HS200 and HS300, isolated from erythromycin-treated and non-treated GD and HS microcosms. Erythromycin A appeared to influence the development and proliferation of strain GD200, possibly via the lateral gene transfer of ereA2.

  2. Influence of erythromycin A on the microbial populations in aquaculture sediment microcosms

    Kim, Yong-Hak [Division of Microbiology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR 72079 (United States)]. E-mail: yhkim660628@hotmail.com; Cerniglia, Carl E. [Division of Microbiology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR 72079 (United States)]. E-mail: ccerniglia@nctr.fda.gov

    2005-07-01

    Degradation of erythromycin A was studied using two sediment samples obtained from the salmon and trout hatchery sites at Hupp Springs (HS) and Goldendale (GD), Washington, United States. The former site had been treated for 3 years with erythromycin-medicated feed prior to the experiments, and the latter site had not been treated with any antibiotic for at least 6 years. The two sediment microcosms treated with either N-[methyl-{sup 14}C]erythromycin A or [1,3,5,7,9,11,13-{sup 14}C]erythromycin A showed S-curves for erythromycin A mineralization with a prolonged lag time of 120 days, except for GD microcosms treated with [1,3,5,7,9,11,13-{sup 14}C]erythromycin A. We proposed a simplified logistic model to interpret the mineralization curves under the assumption of the low densities of initial populations metabolizing erythromycin A. The model was helpful for knowing the biological potential for erythromycin A degradation in sediments. Although erythromycin A added to the two sediment microcosms did not significantly alter the numbers of total viable aerobic bacteria or erythromycin-resistant bacteria, it affected the bacterial composition. The influence on the bacterial composition appeared to be greater in GD microcosms without pre-exposure to antibiotics. PCR-RFLP and DNA sequence analyses of the 16S ribosomal RNA gene and the erythromycin esterase (ere) gene revealed that ereA type 2 (ereA2) was present in potentially erythromycin-degrading Pseudomonas spp. strains GD100, GD200, HS100, HS200 and HS300, isolated from erythromycin-treated and non-treated GD and HS microcosms. Erythromycin A appeared to influence the development and proliferation of strain GD200, possibly via the lateral gene transfer of ereA2.

  3. Patterns of ecological specialization among microbial populations in the Red Sea and diverse oligotrophic marine environments

    Thompson, Luke R

    2013-05-11

    Large swaths of the nutrient-poor surface ocean are dominated numerically by cyanobacteria (Prochlorococcus), cyanobacterial viruses (cyanophage), and alphaproteobacteria (SAR11). How these groups thrive in the diverse physicochemical environments of different oceanic regions remains poorly understood. Comparative metagenomics can reveal adaptive responses linked to ecosystem-specific selective pressures. The Red Sea is well-suited for studying adaptation of pelagic-microbes, with salinities, temperatures, and light levels at the extreme end for the surface ocean, and low nutrient concentrations, yet no metagenomic studies have been done there. The Red Sea (high salinity, high light, low N and P) compares favorably with the Mediterranean Sea (high salinity, low P), Sargasso Sea (low P), and North Pacific Subtropical Gyre (high light, low N). We quantified the relative abundance of genetic functions among Prochlorococcus, cyanophage, and SAR11 from these four regions. Gene frequencies indicate selection for phosphorus acquisition (Mediterranean/Sargasso), DNA repair and high-light responses (Red Sea/Pacific Prochlorococcus), and osmolyte C1 oxidation (Red Sea/Mediterranean SAR11). The unexpected connection between salinity-dependent osmolyte production and SAR11 C1 metabolism represents a potentially major coevolutionary adaptation and biogeochemical flux. Among Prochlorococcus and cyanophage, genes enriched in specific environments had ecotype distributions similar to nonenriched genes, suggesting that inter-ecotype gene transfer is not a major source of environment-specific adaptation. Clustering of metagenomes using gene frequencies shows similarities in populations (Red Sea with Pacific, Mediterranean with Sargasso) that belie their geographic distances. Taken together, the genetic functions enriched in specific environments indicate competitive strategies for maintaining carrying capacity in the face of physical stressors and low nutrient availability. 2013 The

  4. Modeling of decomposition activity and priming effect in soil using the versatile index of microbial physiological state

    Blagodatskiy, Sergey

    2015-04-01

    The implementation of microbial biomass in soil organic matter (SOM) models is still unresolved issue. The approaches using explicit description of microbial biomass (decomposer) interaction with SOM usually cannot be easily verified by means of experimental estimating of total microbial biomass dynamics. Standard experimental methods, such as fumigation extraction or direct microscopic count, does not represent microbial activity (Blagodatskaya and Kuzyakov, 2013), which is essential for the control of decomposition rate. More advanced approaches, explicitly simulating intracellular metabolic activity (Resat et al., 2012) and e.g. production and turnover of extracellular enzymes (Lawrence et al., 2009) are prohibitively complex for the field and larger scales, which are most often under demand for SOM modelling. One possible parsimonious solution is an application of index of microbial physiological state (r), which describes the adaptive variation of the cell composition and metabolic activity by one variable (Panikov, 1995). This variable (r) can reflect the microbial response to the availability of carbon and nitrogen and shift of microbial biomass between active and dormant state (Blagodatsky and Richter, 1998), but also can be used for the description of the effect of external factors, such as temperature and moisture, on microbial activity. This approach is extremely useful for the description of priming effect (Blagodatsky et al., 2010) and the influence of substrate availability and external factors on the size and dynamics of priming. Distinguishing of these two types of driving forces for priming is crucial for modelling of SOM dynamics and steady-state stocks of different SOM pools. I will present the analysis of model response on combination of limiting factors presented as functions controlling the change of microbial physiological state and size of priming effect. Alternatively, the direct effect of the same factors on decomposition rate and priming

  5. CO2-induced shift in microbial activity affects carbon trapping and water quality in anoxic bioreactors

    Kirk, Matthew F.; Santillan, Eugenio F. U.; Sanford, Robert A.; Altman, Susan J.

    2013-12-01

    Microbial activity is a potentially important yet poorly understood control on the fate and environmental impact of CO2 that leaks into aquifers from deep storage reservoirs. In this study we examine how variation in CO2 abundance affected competition between Fe(III) and SO42--reducers in anoxic bioreactors inoculated with a mixed-microbial community from a freshwater aquifer. We performed two sets of experiments: one with low CO2 partial pressure (∼0.02 atm) in the headspace of the reactors and one with high CO2 partial pressure (∼1 atm). A fluid residence time of 35 days was maintained in the reactors by replacing one-fifth of the aqueous volume with fresh medium every seven days. The aqueous medium was composed of groundwater amended with small amounts of acetate (250 μM), phosphate (1 μM), and ammonium (50 μM) to stimulate microbial activity. Synthetic goethite (1 mmol) and SO42- (500 μM influent concentration) were also available in each reactor to serve as electron acceptors. Results of this study show that higher CO2 abundance increased the ability of Fe(III) reducers to compete with SO42- reducers, leading to significant shifts in CO2 trapping and water quality. Mass-balance calculations and pyrosequencing results demonstrate that SO42- reducers were dominant in reactors with low CO2 content. They consumed 85% of the acetate after acetate consumption reached steady state while Fe(III) reducers consumed only 15% on average. In contrast, Fe(III) reducers were dominant during that same interval in reactors with high CO2 content, consuming at least 90% of the acetate while SO42- reducers consumed a negligible amount (bioreactors enhanced CO2 solubility trapping relative to the low-CO2 bioreactors by increasing alkalinity generation (6X). Hence, the shift in microbial activity we observed was a positive feedback on CO2 trapping. More rapid Fe(III) reduction degraded water quality, however, by leading to high Fe(II) concentration.

  6. Active Microbial Methane Production and Organic Matter Degradation in a Devonian Black Shale

    Martini, A. M.; Petsch, S. T.; Nuesslein, K.; McIntosh, J. C.

    2003-12-01

    Microorganisms employ many novel strategies to derive energy and obtain nutrients, and in doing so alter the chemistry of their environments in ways that are significant for formation and transformation of geologic materials. One such strategy is natural gas generation in sedimentary basins. Previous research has shown that stable isotopic signatures of CH4, CO2 and H2O in formation waters of gas-producing black shales indicate a microbial origin for several economically viable natural gas reserves. However, these signatures leave several intriguing issues unaddressed, including the identity of the organisms and their metabolic roles and impacts on mineral, isotopic and biomarker signatures. We hypothesize that the extreme reducing conditions required for sedimentary basin methanogenesis are simply the end product of a cascade of microbial processes, initiated by anaerobic respiration of shale organic matter through NO3, SO4 and/or Fe(III) reduction, secondary processing of anaerobe biomass by fermentative organisms yielding volatile fatty acids and H2, and ultimately CO2 reduction and/or acetate fermentation to produce CH4. This research holds importance for the several aspects of the geochemical carbon cycle. It describes anaerobic hydrocarbon degradation leading to methanogenesis in a sedimentary basin; in many instances this activity has generated economically viable reserves of natural gas. It also provides a benchmark detailing how post-depositional microbial activity in rocks may confound and overprint ancient biosignatures. Interpretation of past environmental conditions depends on molecular and isotopic signatures contained in ancient sedimentary rocks, separated from signatures of metabolically similar modern microbiota living in sedimentary basins. In addition, this research sheds light on an unrecognized and thus unconstrained source of reduced gases to Earth's atmosphere, important for understanding the rates and controls on carbon cycling through

  7. Effects of Seasonal Changes (The Spring and The Autumn on Microbial Population of the Surface Soils Planted the Various Tree Species

    Hasan Hüseyin Koç

    2014-02-01

    Full Text Available Microbial population of soil and its structure is affected with chemical and biological changes such as plant-root secretions. Upper layer of the soil is exposed to mixture of stems, fruiting bodies and leaves of trees. Seven trees growing at same area were chosen. Their upper layers of the soil were collected from depth 5-10 cm as samples in spring and autumn. Their microbial populations were investigated in order to determine in terms of climate changes. In order to determine the number of the total microorganisms, gram-negative bacteria and spore-forming bacteria (cfu/g were used by the serial dilution techniques. As a result, the highest numbers of microorganisms from the soil of the apple tree were determined as the total microbial count in the autumn, although the lowest number of microorganisms was obtained from the soil of the pine tree. However, the number of the gram-negative bacteria was the highest in the soil of linden tree, although the number of gram negative bacteria was the lowest in the soil of apricot, mulberry and apple trees. For spore - forming bacterium, the highest number from the mulberry soil and the lowest number from the linden tree have been obtained. In the spring, the highest numbers of microorganisms from the soil of the apple tree were obtained as the total microbial count, although the lowest number of microorganisms was obtained from the soil of the apricot tree. For the number of the gram-negative bacteria was the highest in the soil of walnut tree, although the number of gram negative bacteria was the lowest in the soil of apricot trees. However spore - forming bacterium, the highest number from the soil of the poplar tree and the lowest number from the mulberry tree have been obtained. In general, the rich diversity of the microbial population was shown morphologically in autumn.

  8. Spreading topsoil encourages ecological restoration on embankments: soil fertility, microbial activity and vegetation cover.

    Rivera, Desirée; Mejías, Violeta; Jáuregui, Berta M; Costa-Tenorio, Marga; López-Archilla, Ana Isabel; Peco, Begoña

    2014-01-01

    The construction of linear transport infrastructure has severe effects on ecosystem functions and properties, and the restoration of the associated roadslopes contributes to reduce its impact. This restoration is usually approached from the perspective of plant cover regeneration, ignoring plant-soil interactions and the consequences for plant growth. The addition of a 30 cm layer of topsoil is a common practice in roadslope restoration projects to increase vegetation recovery. However topsoil is a scarce resource. This study assesses the effects of topsoil spreading and its depth (10 to 30 cm) on two surrogates of microbial activity (β-glucosidase and phosphatase enzymes activity and soil respiration), and on plant cover, plant species richness and floristic composition of embankment vegetation. The study also evaluates the differences in selected physic-chemical properties related to soil fertility between topsoil and the original embankment substrate. Topsoil was found to have higher values of organic matter (11%), nitrogen (44%), assimilable phosphorous (50%) and silt content (54%) than the original embankment substrate. The topsoil spreading treatment increased microbial activity, and its application increased β-glucosidase activity (45%), phosphatase activity (57%) and soil respiration (60%). Depth seemed to affect soil respiration, β-glucosidase and phosphatase activity. Topsoil application also enhanced the species richness of restored embankments in relation to controls. Nevertheless, the depth of the spread topsoil did not significantly affect the resulting plant cover, species richness or floristic composition, suggesting that both depths could have similar effects on short-term recovery of the vegetation cover. A significant implication of these results is that it permits the application of thinner topsoil layers, with major savings in this scarce resource during the subsequent slope restoration work, but the quality of topsoil relative to the

  9. Spreading topsoil encourages ecological restoration on embankments: soil fertility, microbial activity and vegetation cover.

    Desirée Rivera

    Full Text Available The construction of linear transport infrastructure has severe effects on ecosystem functions and properties, and the restoration of the associated roadslopes contributes to reduce its impact. This restoration is usually approached from the perspective of plant cover regeneration, ignoring plant-soil interactions and the consequences for plant growth. The addition of a 30 cm layer of topsoil is a common practice in roadslope restoration projects to increase vegetation recovery. However topsoil is a scarce resource. This study assesses the effects of topsoil spreading and its depth (10 to 30 cm on two surrogates of microbial activity (β-glucosidase and phosphatase enzymes activity and soil respiration, and on plant cover, plant species richness and floristic composition of embankment vegetation. The study also evaluates the differences in selected physic-chemical properties related to soil fertility between topsoil and the original embankment substrate. Topsoil was found to have higher values of organic matter (11%, nitrogen (44%, assimilable phosphorous (50% and silt content (54% than the original embankment substrate. The topsoil spreading treatment increased microbial activity, and its application increased β-glucosidase activity (45%, phosphatase activity (57% and soil respiration (60%. Depth seemed to affect soil respiration, β-glucosidase and phosphatase activity. Topsoil application also enhanced the species richness of restored embankments in relation to controls. Nevertheless, the depth of the spread topsoil did not significantly affect the resulting plant cover, species richness or floristic composition, suggesting that both depths could have similar effects on short-term recovery of the vegetation cover. A significant implication of these results is that it permits the application of thinner topsoil layers, with major savings in this scarce resource during the subsequent slope restoration work, but the quality of topsoil relative to

  10. Microbial respiration and kinetics of extracellular enzymes activities through rhizosphere and detritusphere at agricultural site

    Löppmann, Sebastian; Blagodatskaya, Evgenia; Kuzyakov, Yakov

    2014-05-01

    Rhizosphere and detritusphere are soil microsites with very high resource availability for microorganisms affecting their biomass, composition and functions. In the rhizosphere low molecular compounds occur with root exudates and low available polymeric compounds, as belowground plant senescence. In detritusphere the substrate for decomposition is mainly a polymeric material of low availability. We hypothesized that microorganisms adapted to contrasting quality and availability of substrates in the rhizosphere and detritusphere are strongly different in affinity of hydrolytic enzymes responsible for decomposition of organic compounds. According to common ecological principles easily available substrates are quickly consumed by microorganisms with enzymes of low substrate affinity (i.e. r-strategists). The slow-growing K-strategists with enzymes of high substrate affinity are better adapted for growth on substrates of low availability. Estimation of affinity of enzyme systems to the substrate is based on Michaelis-Menten kinetics, reflecting the dependency of decomposition rates on substrate amount. As enzymes-mediated reactions are substrate-dependent, we further hypothesized that the largest differences in hydrolytic activity between the rhizosphere and detritusphere occur at substrate saturation and that these differences are smoothed with increasing limitation of substrate. Affected by substrate limitation, microbial species follow a certain adaptation strategy. To achieve different depth gradients of substrate availability 12 plots on an agricultural field were established in the north-west of Göttingen, Germany: 1) 4 plots planted with maize, reflecting lower substrate availability with depth; 2) 4 unplanted plots with maize litter input (0.8 kg m-2 dry maize residues), corresponding to detritusphere; 3) 4 bare fallow plots as control. Maize litter was grubbed homogenously into the soil at the first 5 cm to ensure comparable conditions for the herbivore and

  11. Microbial community structure and biodegradation activity of particle-associated bacteria in a coal tar contaminated creek.

    Debruyn, Jennifer M; Sayler, Gary S

    2009-05-01

    The Chattanooga Creek Superfund site (Chattanooga, TN) is one of the most polluted waterways in the southeastern U.S. with high polycyclic aromatic hydrocarbon (PAH) concentrations in the sediments. PAHs associate with suspended solids in the water column, and may be redeposited onto the floodplain. These suspended particles represent an interesting but understudied environment for PAH-degrading microbial communities. This study tested the hypotheses that particle-associated bacterial (PAB) communities have genotypic potential (PAH-dioxygenase genes) and activity (naphthalene and pyrene mineralization), and can contribute to natural attenuation of PAHs in Chattanooga Creek. Upstream of the Superfund site, mineralization ranged from 0.2 to 2.0% of added 14C-naphthalene and 0 to 0.1% 14C-pyrene (after 40 h), with first order biodegradation rate constants (k1) ranging from 1.09 to 9.18 x 10(-5) h(-1) and 0 to 1.13 x 10(-6) h(-1), respectively. Mineralization was significantly greater in PAB communities within the contaminated zone, with 11.8 to 31.2% 14C-naphthalene (k1 5.34 to 14.2 x 10(-4) h(-1)) and 1.3 to 6.6% 14C-pyrene mineralized (k1 2.89 to 15.0 x 10(-5) h(-1)). Abundances of nagAc (naphthalene dioxygenase) and nidA (pyrene dioxygenase) genes indicated that PAB communities harbored populations with genetic potential for both low- and high-molecularweight PAH degradation, and quantification of Mycobacterium 16S rDNA genes indicated that PAH-degrading mycobacteria are also prevalent in this environment. Phylogenetic comparisons (T-RFLPs) between PAB and sediments indicated these microbial communities were taxonomically distinct, but shared some functional similarities, namely PAH catabolic genotypes, mineralization capabilities, and community structuring along a contamination gradient

  12. Influence of anthropogenic activities on microbial and nutrient levels along the Mara River tributaries, Kenya

    Douglas Nyambane Anyona

    2014-05-01

    Full Text Available Background: A number of factors have a negative impact on natural surface water resources across the world. Although sources of surface water pollution are numerous, anthropogenic activities have been singled out as among the most important and of great concern. The aim of this study was to assess the influence of anthropogenic activities on nutrients and microbial levels along the Amala and Nyangores tributaries of the Mara River in Kenya. Materials and Methods: Four sampling sites along each tributary were specifically selected from which water samples were collected and analyzed for nutrients by use of spectrophotometric techniques, and coliform bacterial presence by a multiple tube fermentation technique. Results: Higher levels of total phosphorus were recorded along the Nyangores than the Amala tributary (P= 0.02. Significant differences in phosphorus levels were recorded between different sites along the Nyangores tributary (P=<0.001 and also along the Amala tributary (P= 0.0036. However, total nitrogen levels varied only within sites along the Nyangores tributary (P<0.0001 but not along the Amala tributary. Similarly, Escherichia coli and total coliform levels varied significantly within Nyangores tributary sites. Sites with frequent and direct human and livestock contact had higher microbial and nutrient levels, indicative of a localized pollution effect. Conclusion: The findings imply that the health of local communities who depend on this water for domestic use might be compromised. As such, regular monitoring, strict enforcement of environmental protection laws, public education and proper sewage disposal is recommended.

  13. Microbial activity, arbuscular mycorrhizal fungi and inoculation of woody plants in lead contaminated soil

    Gattai, Graziella S.; Pereira, Sônia V.; Costa, Cynthia M. C.; Lima, Cláudia E. P.; Maia, Leonor C.

    2011-01-01

    The goals of this study were to evaluate the microbial activity, arbuscular mycorrhizal fungi and inoculation of woody plants (Caesalpinia ferrea, Mimosa tenuiflora and Erythrina velutina) in lead contaminated soil from the semi-arid region of northeastern of Brazil (Belo Jardim, Pernambuco). Dilutions were prepared by adding lead contaminated soil (270 mg Kg-1) to uncontaminated soil (37 mg Pb Kg soil-1) in the proportions of 7.5%, 15%, and 30% (v:v). The increase of lead contamination in the soil negatively influenced the amount of carbon in the microbial biomass of the samples from both the dry and rainy seasons and the metabolic quotient only differed between the collection seasons in the 30% contaminated soil. The average value of the acid phosphatase activity in the dry season was 2.3 times higher than observed during the rainy season. There was no significant difference in the number of glomerospores observed between soils and periods studied. The most probable number of infective propagules was reduced for both seasons due to the excess lead in soil. The mycorrhizal colonization rate was reduced for the three plant species assayed. The inoculation with arbuscular mycorrhizal fungi benefited the growth of Erythrina velutina in lead contaminated soil. PMID:24031701

  14. The impact of temperature on microbial diversity and AOA activity in the Tengchong Geothermal Field, China.

    Li, Haizhou; Yang, Qunhui; Li, Jian; Gao, Hang; Li, Ping; Zhou, Huaiyang

    2015-11-26

    Using a culture-independent method that combines CARD-FISH, qPCR and 16S rDNA, we investigated the abundance, community structure and diversity of microbes along a steep thermal gradient (50-90 °C) in the Tengchong Geothermal Field. We found that Bacteria and Archaea abundance changed markedly with temperature changes and that the number of cells was lowest at high temperatures (90.8 °C). Under low-temperature conditions (52.3-74.6 °C), the microbial communities were dominated by Bacteria, which accounted for 60-80% of the total number of cells. At 74.6 °C, Archaea were dominant, and at 90.8 °C, they accounted for more than 90% of the total number of cells. Additionally, the microbial communities at high temperatures (74.6-90.8 °C) were substantially simpler than those at the low-temperature sites. Only a few genera (e.g., bacterial Caldisericum, Thermotoga and Thermoanaerobacter, archaeal Vulcanisaeta and Hyperthermus) often dominated in high-temperature environments. Additionally, a positive correlation between Ammonia-Oxidizing Archaea (AOA) activity and temperature was detected. AOA activity increased from 17 to 52 pmol of NO2(-) per cell d(-1) with a temperature change from 50 to 70 °C.

  15. Microbial activity, arbuscular mycorrhizal fungi and inoculation of woody plants in lead contaminated soil

    Graziella S Gattai

    2011-09-01

    Full Text Available The goals of this study were to evaluate the microbial activity, arbuscular mycorrhizal fungi and inoculation of woody plants (Caesalpinia ferrea, Mimosa tenuiflora and Erythrina velutina in lead contaminated soil from the semi-arid region of northeastern of Brazil (Belo Jardim, Pernambuco. Dilutions were prepared by adding lead contaminated soil (270 mg Kg-1 to uncontaminated soil (37 mg Pb Kg soil-1 in the proportions of 7.5%, 15%, and 30% (v:v. The increase of lead contamination in the soil negatively influenced the amount of carbon in the microbial biomass of the samples from both the dry and rainy seasons and the metabolic quotient only differed between the collection seasons in the 30% contaminated soil. The average value of the acid phosphatase activity in the dry season was 2.3 times higher than observed during the rainy season. There was no significant difference in the number of glomerospores observed between soils and periods studied. The most probable number of infective propagules was reduced for both seasons due to the excess lead in soil. The mycorrhizal colonization rate was reduced for the three plant species assayed. The inoculation with arbuscular mycorrhizal fungi benefited the growth of Erythrina velutina in lead contaminated soil.

  16. An Electrode-based approach for monitoring in situ microbial activity during subsurface bioremediation

    Williams, K.H.; Nevin, K.P.; Franks, A.; Englert, A.; Long, P.E.; Lovley, D.R.

    2009-11-15

    Current production by microorganisms colonizing subsurface electrodes and its relationship to substrate availability and microbial activity was evaluated in an aquifer undergoing bioremediation. Borehole graphite anodes were installed downgradient from a region of acetate injection designed to stimulate bioreduction of U(VI); cathodes consisted of graphite electrodes embedded at the ground surface. Significant increases in current density ({<=}50 mA/m{sup 2}) tracked delivery of acetate to the electrodes, dropping rapidly when acetate inputs were discontinued. An upgradient control electrode not exposed to acetate produced low, steady currents ({<=}0.2 mA/m{sup 2}). Elevated current was strongly correlated with uranium removal but minimal correlation existed with elevated Fe(II). Confocal laser scanning microscopy of electrodes revealed firmly attached biofilms, and analysis of 16S rRNA gene sequences indicated the electrode surfaces were dominated (67-80%) by Geobacter species. This is the first demonstration that electrodes can produce readily detectable currents despite long-range (6 m) separation of anode and cathode, and these results suggest that oxidation of acetate coupled to electron transfer to electrodes by Geobacter species was the primary source of current. Thus it is expected that current production may serve as an effective proxy for monitoring in situ microbial activity in a variety of subsurface anoxic environments.

  17. Effect of rice straw application on microbial community and activity in paddy soil under different water status.

    Pan, Fuxia; Li, Yaying; Chapman, Stephen James; Yao, Huaiying

    2016-03-01

    Rice straw application and flooding are common practices in rice production, both of which can induce changes in the microbial community. This study used soil microcosms to investigate the impact of water status (saturated and nonsaturated) and straw application (10 g kg(-1) soil) on soil microbial composition (phospholipid fatty acid analysis) and activity (MicroResp(™) method). Straw application significantly increased total PLFA amount and individual PLFA components independent of soil moisture level. The amount of soil fungal PLFA was less than Gram-negative, Gram-positive, and actinomycete PLFA, except the drained treatment with rice straw application, which had higher fungal PLFA than actinomycete PLFA at the initial incubation stage. Straw amendment and waterlogging had different effects on microbial community structure and substrate-induced pattern. PLFA profiles were primarily influenced by straw application, whereas soil water status had the greater influence on microbial respiration. Of the variation in PLFA and respiration data, straw accounted for 30.1 and 16.7 %, while soil water status explained 7.5 and 29.1 %, respectively. Our results suggest that (1) the size of microbial communities in paddy soil is more limited by carbon substrate availability rather than by the anaerobic conditions due to waterlogging and (2) that soil water status is more important as a control of fungal growth and microbial community activity.

  18. Changes in microbial activity of soils during the natural restoration of abandoned lands in central Russia

    Ovsepyan, Lilit; Mostovaya, Anna; Lopes de Gerenyu, Valentin; Kurganova, Irina

    2015-04-01

    Most changes in land use affect significantly the amount of soil organic carbon (SOC) and alter the nutrition status of soil microbial community. The arable lands withdrawal induced usually the carbon sequestration in soil, the significant shifts in quality of soil organic matter and structure of microbial community. This study was aimed to determine the microbial activity of the abandoned lands in Central Russia due to the process of natural self-restoration. For the study, two representative chronosequences were selected in Central Russia: (1) deciduous forest area, DFA (Moscow region, 54o49N'; 37o34'E; Haplic Luvisols) and (2) forest steppe area, FSA (Belgorod region 50o36'N, 36o01'E Luvic Phaeozems). Each chronosequence included current arable, abandoned lands of different age, and forest plots. The total soil organic carbon (Corg, automatic CHNS analyzer), carbon immobilized in microbial biomass (Cmic, SIR method), and respiratory activity (RA) were determined in the topsoil (0-5, 5-10, 10-20 and 20-30 cm layers) for each plots. Relationships between Corg, Cmic, and RA were determined by liner regression method. Our results showed that the conversion of croplands to the permanent forest induced the progressive accumulation Corg, Cmic and acceleration of RA in the top 10-cm layer for both chronosequences. Carbon stock increased from 24.1 Mg C ha-1 in arable to 45.3 Mg C ha-1 in forest soil (Luvic Phaeozems, Belgorod region). In Haplic Luvisols (Moscow region), SOC build up was 2 time less: from 13.5 Mg C ha-1 in arable to 27.9 Mg C ha-1 in secondary forest. During post-agrogenic evolution, Cmic also increased significantly: from 0.34 to 1.43 g C kg-1 soil in Belgorod region and from 0.34 to 0.64 g C kg-1 soil in Moscow region. RA values varied widely in soils studied: from 0.54-0.63 mg C kg-1h-1 in arable plots to 2.02-3.4 mg C kg-1h-1 in forest ones. The close correlations between Cmic, RA and Corg in the top 0-5cm layer (R2 = 0.81-0.90; PSports.

  19. Microbial Biomass and Activity in Geomorphic Features in Forested and Urban Restored and Degraded Streams

    Geomorphic spatial heterogeneity affects sediment denitrification, an anaerobic microbial process that results in the loss of nitrogen (N), and other anaerobic microbial processes such as methanogenesis in urban streams. We measured sediment denitrification potential (DEA), metha...

  20. Effect of monospecific and mixed sea-buckthorn (Hippophae rhamnoides) plantations on the structure and activity of soil microbial communities.

    Yu, Xuan; Liu, Xu; Zhao, Zhong; Liu, Jinliang; Zhang, Shunxiang

    2015-01-01

    This study aims to evaluate the effect of different afforestation models on soil microbial composition in the Loess Plateau in China. In particular, we determined soil physicochemical properties, enzyme activities, and microbial community structures in the top 0 cm to 10 cm soil underneath a pure Hippophae rhamnoides (SS) stand and three mixed stands, namely, H. rhamnoides and Robinia pseucdoacacia (SC), H. rhamnoides and Pinus tabulaeformis (SY), and H. rhamnoides and Platycladus orientalis (SB). Results showed that total organic carbon (TOC), total nitrogen, and ammonium (NH4(+)) contents were higher in SY and SB than in SS. The total microbial biomass, bacterial biomass, and Gram+ biomass of the three mixed stands were significantly higher than those of the pure stand. However, no significant difference was found in fungal biomass. Correlation analysis suggested that soil microbial communities are significantly and positively correlated with some chemical parameters of soil, such as TOC, total phosphorus, total potassium, available phosphorus, NH4(+) content, nitrate content (NH3(-)), and the enzyme activities of urease, peroxidase, and phosphatase. Principal component analysis showed that the microbial community structures of SB and SS could clearly be discriminated from each other and from the others, whereas SY and SC were similar. In conclusion, tree species indirectly but significantly affect soil microbial communities and enzyme activities through soil physicochemical properties. In addition, mixing P. tabulaeformis or P. orientalis in H. rhamnoides plantations is a suitable afforestation model in the Loess Plateau, because of significant positive effects on soil nutrient conditions, microbial community, and enzyme activities over pure plantations.

  1. GC-MS Analysis and anti-microbial activity of Psidium Guajava (leaves grown in Malva region of India

    Kapoor Nisha

    2011-12-01

    Full Text Available The essential oil of the leaves of Psidium guajava grown at Ujjain M.P. (India was isolated and analyzed by gas chromatography coupled with mass spectrometry (GC-MS. The components of the essential oil were identified by comparing their retention indices and mass spectra fragmentation patterns with those stored on the MScomputer library and also from the published literatures. The present study describes the phytochemical profile and anti-microbial activity of essential oil of P. guajava. Furthermore, anti-microbial activity of oil was evaluated using agar well diffusion method. The anti-microbial test results showed that the oil had a potential anti-microbial activity against all twelve Gram+ve and Gram-ve bacterial strains such as: Staphylococcus aureus, Streptoccocus faecalis, Bacillus subtillis, Lactobacillus spp., Enterococcus aerogenes, Acinetobacter spp.(Gram Positive and Escherichia coli, Proteus vulgari, Enterobacter aerogenes , Salmonella typhimurium, Pseudomonas aeruginoso, Klebsiella pneumoniae (Gram Nagative . Essential oil showed maximum zone of inhibition and minimal inhibition concentration against Bacillus subtillus and Escherichia coli bacterial strains. These results permitted the conclusion to be made that, it is the first report of the GCMS analysis and anti-microbial activity on a P. guajava., a naturally growing species from Malva Region of India.