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PubMedDate not supplied

Biodegrader metabolic expansion during polyaromatic hydrocarbons rhizoremediation.

Root-microbe interactions are considered to be the primary process of polyaromatic hydrocarbon (PAH) phytoremediation, since bacterial degradation has been shown to be the dominant pathway for environmental PAH dissipation. However, the precise mechanisms driving PAH rhizostimulation symbiosis remain largely unresolved. In this study, we assessed PAH degrading bacterial abundance in contaminated soils planted with 18 different native Michigan plant species. Phenanthrene metabolism assays suggested that each plant species differentially influenced the relative abundance of PAH biodegraders, though they generally were observed to increase heterotrophic and biodegradative cell numbers relative to unplanted soils. Further study of >1800 phenanthrene degrading isolates indicated that most of the tested plant species stimulated biodegradation of a broader range of PAH compounds relative to the unplanted soil bacterial consortia. These observations suggest that a principal contribution of planted systems for PAH bioremediation may be via expanded metabolic range of the rhizosphere bacterial community.

Bacteria↗
PubMed2006

Dynamics of the nitrogen transformation in a shallow stream and possible interventions.

This paper presents the assessment of the efficiency of the main biological nitrogen transformation processes in a shallow well-oxygenated river and conditions under which they are active and stabilise. The process dynamics was studied with the help of mathematical modelling of 2 years on-line data series measured in a reach of the Toess River, Switzerland. The algal nitrogen uptake was very stable and unaffected by most but frequent flood events. Daylight photosynthetic nitrogen uptake stabilised at 6 mgN mstreambed(-2) h(-1) (15 degrees C), dark uptake on storage products at rates of 0.5-2.5 mgN mstreambed(-2) h(-1). Nitrogen uptake by heterotrophic bacteria in the hyporheic zone was relatively constant at a level of 1.5-3.5 mgN mstreambed(-2) h(-1). Streambed nitrification could establish only during periods with average an daily concentration of at least 0.3 g(NH4-N) m(-3) in river water for several weeks. The maximum nitrification rate was 35 mgN mstreambed(-2) h(-1) for 3 g(NH4-N) m(-3). The effects of reduced nitrification in the WWTP and of river banks shading on a sudden ammonium peak were simulated. A river reach endangered by ammonium spills should be kept open to sun to favour ammonium uptake by algae. In-stream nitrification reduces ammonium peaks efficiently but leads to toxic nitrite concentrations.

Bacteria, Aerobic↗
PubMedDate not supplied

[Microbiological characteristics of the lakes in the Yaroslavl region].

The paper presents data concerning the activity of microflora in water and ooze deposits of lakes of the Yaroslavl Region. Microbiological processes in water depend mainly on the rate of production or organic substance at the account of phytoplankton photosynthesis, which varies from 0.18 to 6.3 gC/m2. Destruction of organic substance in water of most lakes exceeded production. Production of bacterial biomass was within limits of 0.2--5.8 gC/m2/day and lower, as a rule, than production of phytoplankton. The number of bacteria in different lakes varied from 1.7 to 35 X 10(6) per 1 ml. Heterotrophic assimilation of carbon dioxide was rather high and reached 34 mcgC/litre/day, its ratio to biomass being ca. 6.8%. The total number of bacteria in ooze deposits of lakes varied from 0.6 to 2.7 X 10(9) g/m2. Aerobic destruction varied from 0.03 to 0.78 gC/m2.

Bacteria↗
PubMed2004

Investigation of Cr(VI) reduction in continuous-flow activated sludge systems.

The aim of this research was to investigate hexavalent chromium, Cr(VI), reduction by activated sludge and to evaluate the use of continuous-flow activated sludge systems for the treatment of Cr(VI)-containing wastewater. Three series of experiments were conducted using two parallel lab-scale activated sludge systems. During the first experiment, one system was used as a control, while the other received Cr(VI) concentrations equal to 0.5, 1, 3 and 5mg l(-1). For all concentrations added, approximately 40% of the added Cr(VI) was removed during the activated sludge process. Determination of chromium species in the dissolved and particulate phase revealed that the removed Cr(VI) was sorbed by the activated sludge flocs mainly as trivalent chromium, Cr(III), while the residual chromium in the dissolved phase was mainly detected as Cr(VI). Activated sludge ability to reduce Cr(VI) was independent of the acclimatization of biomass to Cr(VI) and it was not affected by the toxic effect of Cr(VI) on autotrophic and heterotrophic microorganisms. During the second experiment, both systems were operated under two different hydraulic residence time (theta equal to 20 and 28h) and three different initial organic substrate concentration (COD equal to 300, 150 and 0mg l(-1)). Cr(VI) reduction was favored by an increase of theta, while it was limited by influent COD concentration. Finally, at the last experiment the effect of anoxic and anaerobic reactors on Cr(VI) reduction was investigated. It was observed that the use of an anoxic zone or an anaerobic-anoxic zone ahead of the aerobic reactor favored Cr(VI) reduction, increasing mean percentage Cr(VI) reduction to almost 80%.

Anaerobiosis↗
PubMed1996

Isolation of Thermus strains from hot composts (60 to 80 degrees C).

High numbers (10(7) to 10(10) cells per g [dry weight]) of heterotrophic, gram-negative, rod-shaped, non-sporeforming, aerobic, thermophilic bacteria related to the genus Thermus were isolated from thermogenic composts at temperatures between 65 and 82 degrees C. These bacteria were present in different types of wastes (garden and kitchen wastes and sewage sludge) and in all the industrial composting systems studied (open-air windows, boxes with automated turning and aeration, and closed bioreactors with aeration). Isolates grew fast on a rich complex medium at temperatures between 40 and 80 degrees C, with optimum growth between 65 and 75 degrees C. Nutritional characteristics, total protein profiles, DNA-DNA hybridization (except strain JT4), and restriction fragment length polymorphism profiles of the DNAs coding for the 16S rRNAs (16S rDNAs) showed that Thermus strains isolated from hot composts were closely related to Thermus thermophilus HB8. These newly isolated T. thermophilus strains have probably adapted to the conditions in the hot-compost ecosystem. Heterotrophic, ovalspore-forming, thermophilic bacilli were also isolated from hot composts, but none of the isolates was able to grow at temperatures above 70 degrees C. This is the first report of hot composts as habitats for a high number of thermophilic bacteria related to the genus Thermus. Our study suggests that Thermus strains play an important role in organic-matter degradation during the thermogenic phase (65 to 80 degrees C) of the composting process.

Environmental Microbiology↗
PubMed1969

Microbial dissimilatory sulfur cycle in acid mine water.

Ferric, sulfate, and hydrogen ions are produced from pyritic minerals associated with coal as a result of autotrophic bacterial metabolism. Water carrying these ions accumulated behind a porous dam composed of wood dust originating at a log-cutting mill. As water seeped through the porous dam, it was enriched in organic nutrients which then supported growth and metabolism of heterotrophic bacteria in the water downstream from the dam. The heterotrophic microflora within and below the sawdust dam included dissimilatory sulfate-reducing anaerobic bacteria which reduce sulfate to sulfide. The sulfide produced caused the chemical reduction of ferric to ferrous ion, and black FeS precipitate was deposited on the pond bottom. A net increase in the pH of the lower pond water was observed when compared to the upper pond water. Microbial activity in the wood dust was demonstrated, and a sequence of cellulose degradation processes was inferred on the basis of sugar accumulation in mixed cultures in the laboratory, ultimately yielding fermentation products which serve as nutrients for sulfate-reducing bacteria. Some of the microorganisms were isolated and characterized. The biochemical and growth characteristics of pure culture isolates were generally consistent with observed reactions in the acidic environment, with the exception of sulfate-reducing bacteria. Mixed cultures which contained sulfate-reducing bacteria reduced sulfate at pH 3.0 in the laboratory with sawdust as the only nutrient. Pure cultures of sulfate-reducing bacteria isolated from the mixed cultures did not reduce sulfate below pH 5.5.

Bacteria↗
PubMed2006

Adaptation and acclimation of photosynthetic microorganisms to permanently cold environments.

Persistently cold environments constitute one of our world's largest ecosystems, and microorganisms dominate the biomass and metabolic activity in these extreme environments. The stress of low temperatures on life is exacerbated in organisms that rely on photoautrophic production of organic carbon and energy sources. Phototrophic organisms must coordinate temperature-independent reactions of light absorption and photochemistry with temperature-dependent processes of electron transport and utilization of energy sources through growth and metabolism. Despite this conundrum, phototrophic microorganisms thrive in all cold ecosystems described and (together with chemoautrophs) provide the base of autotrophic production in low-temperature food webs. Psychrophilic (organisms with a requirement for low growth temperatures) and psychrotolerant (organisms tolerant of low growth temperatures) photoautotrophs rely on low-temperature acclimative and adaptive strategies that have been described for other low-temperature-adapted heterotrophic organisms, such as cold-active proteins and maintenance of membrane fluidity. In addition, photoautrophic organisms possess other strategies to balance the absorption of light and the transduction of light energy to stored chemical energy products (NADPH and ATP) with downstream consumption of photosynthetically derived energy products at low temperatures. Lastly, differential adaptive and acclimative mechanisms exist in phototrophic microorganisms residing in low-temperature environments that are exposed to constant low-light environments versus high-light- and high-UV-exposed phototrophic assemblages.

Acclimatization↗
PubMed1989

[The identification of microorganisms from groundwater and characterization of their physiologic activities].

The microbiological method presented in this contribution allows the following investigations: --Identification of aerobic, heterotrophic environmentally-related organisms. --Investigation of different physiological activities of the test bacteria (e.g., degradation of different organic carbonaceous compounds, formation of extracellular enzymes). --Characterization of biological communities and their diversity. --Estimation of activities in environmental samples and mixed cultures. --Evaluation of a micro-site quality, e.g., reductions in the numbers of species or in a specific activity due to the effects of toxic substances. --Monitoring of the microbial community and its activities during biorestoration processes.

Bacteria↗
PubMed2005

Comparative genomics of two closely related unicellular thermo-acidophilic red algae, Galdieria sulphuraria and Cyanidioschyzon merolae, reveals the molecular basis of the metabolic flexibility of Galdieria sulphuraria and significant differences in carbohydrate metabolism of both algae.

Unicellular algae serve as models for the study and discovery of metabolic pathways, for the functional dissection of cell biological processes such as organellar division and cell motility, and for the identification of novel genes and gene functions. The recent completion of several algal genome sequences and expressed sequence tag collections and the establishment of nuclear and organellar transformation methods has opened the way for functional genomics approaches using algal model systems. The thermo-acidophilic unicellular red alga Galdieria sulphuraria represents a particularly interesting species for a genomics approach owing to its extraordinary metabolic versatility such as heterotrophic and mixotrophic growth on more than 50 different carbon sources and its adaptation to hot acidic environments. However, the ab initio prediction of genes required for unknown metabolic pathways from genome sequences is not trivial. A compelling strategy for gene identification is the comparison of similarly sized genomes of related organisms with different physiologies. Using this approach, candidate genes were identified that are critical to the metabolic versatility of Galdieria. Expressed sequence tags and high-throughput genomic sequence reads covering >70% of the G. sulphuraria genome were compared to the genome of the unicellular, obligate photoautotrophic red alga Cyanidioschyzon merolae. More than 30% of the Galdieria sequences did not relate to any of the Cyanidioschyzon genes. A closer inspection of these sequences revealed a large number of membrane transporters and enzymes of carbohydrate metabolism that are unique to Galdieria. Based on these data, it is proposed that genes involved in the uptake of reduced carbon compounds and enzymes involved in their metabolism are crucial to the metabolic flexibility of G. sulphuraria.

Algal Proteins↗
PubMed1996

Automated systems for identification of heterotrophic marine bacteria on the basis of their Fatty Acid composition.

The fatty acid methyl ester composition of a total of 71 marine strains representing the genera Alteromonas, Deleya, Oceanospirillum, and Vibrio was determined by gas-liquid chromatographic analysis. Over 70 different fatty acids were found. The predominant fatty acids were 16:0, 16:1 cis 9, summed-in-feature (SIF) 4 (15:0 iso 2OH and/or 16:1 trans 9) and SIF 7 (18:1 cis 11, 18:1 trans 9, and/or 18:1 trans 6) for all the strains considered, but minor quantitative variations could be used to distinguish the different genera. In addition to a conventional statistical processing method to analyze the data and draw comparison between species and genera, an approach involving neutral network-based elaboration is applied. The statistical analysis and dendrogram representation gave a comparison of the species considered, while the neural network computation provided a more accurate assignment of species to their genera. Moreover, by using neural networks, it was possible to conclude that only 22 fatty acids were important for the identification of the marine genera considered. A database of Alteromonas, Deleya, Oceanospirillum, and Vibrio fatty acid methyl ester profiles was generated and is now routinely used to identify fresh marine isolates.

Journal Article↗
PubMed2006

Controls on the distribution of productivity and organic resources in Antarctic Dry Valley soils.

The Antarctic Dry Valleys are regarded as one of the harshest terrestrial habitats on Earth because of the extremely cold and dry conditions. Despite the extreme environment and scarcity of conspicuous primary producers, the soils contain organic carbon and heterotrophic micro-organisms and invertebrates. Potential sources of organic compounds to sustain soil organisms include in situ primary production by micro-organisms and mosses, spatial subsidies from lacustrine and marine-derived detritus, and temporal subsidies ('legacies') from ancient lake deposits. The contributions from these sources at different sites are likely to be influenced by local environmental conditions, especially soil moisture content, position in the landscape in relation to lake level oscillations and legacies from previous geomorphic processes. Here we review the abiotic factors that influence biological activity in Dry Valley soils and present a conceptual model that summarizes mechanisms leading to organic resources therein.

Antarctic Regions↗
PubMed1980

Influence of seasonal temperature on the temperature optima of bacteria in sediments of lake george, new york.

Temperature optima for the heterotrophic utilization of glucose and an amino acid mixture were determined throughout the year in sediments from Lake George, N.Y. The temperature optimum decreased with decreasing in situ temperature in the fall and winter, suggesting that selection for or adaptation by a psychrotrophic bacterial population occurred. Replicate plating of bacterial isolates from 3 and 20 degrees C indicated that a psychrotrophic bacterial population was present in the sediments throughout the year. These results indicate that decomposition and nutrient cycling processes in the sediments within the littoral zone of Lake George were probably not completely inhibited by winter temperatures, although process rates were decreased.

Journal Article↗
PubMed2005

Microbiological parameters as indicators of compost maturity.

AIMS: The objectives of this study were to determine the changes of microbial properties of pig manure collected from pens with different management strategies and composted using different turning and moisture regimes; relate their association with humification parameters and compost temperature; and identify the most suitable microbial indicators of compost maturity. METHODS AND RESULTS: Six different microbial parameters, including total bacterial count, oxygen consumption rate, ATP content, dehydrogenase activity, and microbial biomass C and N, along with humification parameters [humic acid (HA), fulvic acid (FA) and HA : FA ratio] and compost temperature were monitored during composting. Significant positive correlations were found between temperature and microbial properties, including O2 consumption rate, ATP content, dehydrogenase activity, and microbial biomass N. The humification parameters also showed significant correlations with microbial properties of the manure compost. For instance, HA contents of pig manures was positively correlated with total aerobic heterotrophs, and microbial biomass N and C; and negatively correlated with O2 consumption rate, ATP content, and dehydrogenase activity. Among the six microbial parameters examined, dehydrogenase activity was the most important factor affecting compost temperature and humification parameters. Composting strategies employed in this study affected the speed of composting and time of maturation. If the moisture content is maintained weekly at 60% with a 4-day turning frequency, the pig manure will reach maturity in 56 days. CONCLUSIONS: The composting process went through predictable changes in temperature, microbial properties and chemical components despite differences in the initial pig manure and composting strategies used. Among the six microbial parameters used, dehydrogenase activity is the most suitable indicator of compost maturity. Compared with respiration rate, ATP content and microbial biomass procedures, dehydrogenase activity is the simplest, quickest, and cheapest method that can be used to monitor the stability and maturity of composts. SIGNIFICANCE AND IMPACT OF THE STUDY: The results presented here show that microbial parameters can be used in revealing differences between composts and compost maturity. The statistical relationship established between humification parameters and microbial parameters, particularly dehydrogenase activity, demonstrates that it is possible to monitor the composting process more easily and rapidly by avoiding longer and more expensive analytical procedures.

Adenosine Triphosphate↗
PubMed1995

Formation and microbial utilization of amorphous aggregates in the sea: ecological significance.

Amorphous organic particles, ("marine snow"), are thought to play a vital role in the transfer of carbon and energy from the euphotic layers of the ocean to the deep sea bed. These particles are mainly derived from phytoplankton extracellular release. As 10 to 40% of the dissolved organic carbon consists of colloidal material, colloids may represent a prominent role in these transfer processes. These colloids adsorb charged molecules efficiently and can coagulate further to form the recently described transparent exopolymer particles and eventually the ubiquitous macroscopic marine snow. The other mechanism proposed leading ultimately to marine snow formation is inefficient top-down control of phytoplankton growth by zooplankton. In the senesce of the phytoplankton bloom the cell surface becomes sticky due to the release of polysaccharides, and single phytoplankton cells then aggregate. Subsequently these aggregates become densely colonized by auto- and heterotrophic microbes, but while the abundance of these microorganisms is from 2 to 4 orders of magnitude higher than in the ambient water, their growth rates are usually not significantly increased in the aggregates. In this review, the reasons for this conspicuous pattern are discussed and recently investigated novel types of particles and their significance in the light of oceanic carbon transfer are presented.

Colloids↗
PubMed2026

Simultaneous removal of nitrogen, Cu2+, and bisphenol A in a hydrogel-biochar-AQDS immobilized bioreactor with added bicarbonate: Performance and metagenomic insights.

As the complexity of industrial wastewater pollution continues to increase, the simultaneous removal of nitrogen, metal contaminants, and persistent organic pollutants under low carbon conditions has become a key challenge for biological treatment systems. To address the operational instability and dependence on carbon sources observed in immobilized systems when exposed to copper (Cu2+) and bisphenol A (BPA), the Pseudoalteromonas japonicus strain LY0623 was integrated into a hydrogel-biochar-AQDS composite carrier to construct a multifunctional immobilized biofilm system. Notably, under conditions containing only NaHCO3, the R4 system achieved an NH4+-N removal rate of 89%. Under conditions where Cu2+ and BPA coexist, the R4 system achieved removal of NH4+-N (89%), NO3--N (100%), Cu2+ (85%), and BPA (88%). Sediment characterization confirmed that Cu2+ was immobilized through adsorption, complexation, and microbiologically induced carbonate precipitation (MICP). Metagenomic analysis further indicated that the Pseudomonadota phylum remained the dominant phylum, while functional pathways associated with inorganic carbon assimilation, HNAD nitrogen metabolism, endogenous carbon transformation, biomineralization, electron transfer, and aromatic compound degradation were preserved. By combining ammonia oxidation driven energy production, inorganic carbon utilization, redox mediated processes, and biomineralization, this study provides a highly promising low carbon strategy for treating industrial wastewater containing mixed pollutants.

Bisphenol A Compounds↗
PubMed2003

Quantitative steps in symbiogenesis and the evolution of homeostasis.

The merging of two independent populations of heterotrophs and autotrophs into a single population of mixotrophs has occurred frequently in evolutionary history. It is an example of a wide class of related phenomena, known as symbiogenesis. The physiological basis is almost always (reciprocal) syntrophy, where each species uses the products of the other species. Symbiogenesis can repeat itself after specialization on particular assimilatory substrates. We discuss quantitative aspects and delineate eight steps from two free-living interacting populations to a single fully integrated endosymbiotic one. The whole process of gradual interlocking of the two populations could be mimicked by incremental changes of particular parameter values. The role of products gradually changes from an ecological to a physiological one. We found conditions where the free-living, epibiotic and endobiotic populations of symbionts can co-exist, as well as conditions where the endobiotic symbionts outcompete other symbionts. Our population dynamical analyses give new insights into the evolution of cellular homeostasis. We show how structural biomass with a constant chemical composition can evolve in a chemically varying environment if the parameters for the formation of products satisfy simple constraints. No additional regulation mechanisms are required for homeostasis within the context of the dynamic energy budget (DEB) theory for the uptake and use of substrates by organisms. The DEB model appears to be dosed under endosymbiosis. This means that when each free-living partner follows DEB rules for substrate uptake and use, and they become engaged in an endosymbiotic relationship, a gradual transition to a single fully integrated system is possible that again follows DEB rules for substrate uptake and use.

Animals↗
PubMed1981

Regulation of the synthesis of ribulose-1,5-bisphosphate carboxylase and its subunits in the flagellate Chlorogonium elongatum. I. The effect of light and acetate on the synthesis and the degradation of the enzyme.

Shifting of heterotrophically cultured cells of Chlorogonium elongatum to autotrophic culture conditions results in a more than tenfold increase in the level of the chloroplastic enzyme ribulose-1,5-bisphosphate carboxylase. This increase in enzyme amount is caused by an increased synthesis of the enzyme de novo under both growth conditions. The synthesis of the enzyme is mainly under the control of two factors. Light promotes the synthesis, while acetate, the carbon source of this organisms, has a strong inhibitory effect on this process. Since a mutant lacking chlorophyll shows a normal response to the change of culture conditions the chlorophylls can be ruled out as photoreceptors.

Acetates↗
PubMed1986

Biodegradation of tert-butylphenyl diphenyl phosphate.

The biodegradation of tert-butylphenyl diphenyl phosphate (BPDP) was examined in microcosms containing sediment and water from five different ecosystems as part of our studies to elucidate the environmental fate of phosphate ester flame retardants. Biodegradation of [14C]BPDP was monitored in the environmental microcosms by measuring the evolution of 14CO2. Over 37% of BPDP was mineralized after 8 weeks in microcosms from an ecosystem which had chronic exposure to agricultural chemicals. In contrast, only 1.7% of BPDP was degraded to 14CO2 in samples collected from a noncontaminated site. The exposure concentration of BPDP affected the percentage which was degraded to 14CO2 in microcosms from the two most active ecosystems. Mineralization was highest at a concentration of 0.1 mg of BPDP and was inhibited with 10- and 100-fold higher concentrations of BPDP in these microcosms. Indigenous heterotrophic and BPDP-utilizing microbial populations and phosphoesterase enzyme activities were highest in sediments which had the highest biodegradation of BPDP. We observed adaptive increases in both microbial populations and phosphoesterase enzymes in some sediments acclimated to BPDP. Chemical analyses of the residues in the microcosms indicated undegraded BPDP and minor amounts of phenol, tert-butylphenol, diphenyl phosphate, and triphenyl phosphate as biodegradation products. These data suggest that the microbial degradation of BPDP results from at least three catabolic processes and is highest when low concentrations of BPDP are exposed to sediment microorganisms of eutrophic ecosystems which have high phosphotri- and diesterase activities and previous exposure to anthropogenic chemicals.

Animals↗