Bioremediation approaches for organic pollutants: a critical perspective

Bioremediation of PAHs and VOCs: Advances in clay mineral-microbial interaction

Bioremediation is an effective strategy for cleaning up organic contaminants, such as polycyclic aromatic hydrocarbons (PAHs) and volatile organic compounds (VOCs). Advanced bioremediation implies that biotic agents are more efficient in degrading the contaminants completely. Bioremediation by microbial degradation is often employed and to make this process efficient, natural and cost-effective materials can serve as supportive matrices. Clay/modified clay minerals are effective adsorbents of PAHs/VOCs, and readily available substrate and habitat for microorganisms in the natural soil and sediment. However, the mechanism underpinning clay-mediated biodegradation of organic compounds is often unclear, and this requires critical investigation. This review describes the role of clay/modified clay minerals in hydrocarbon bioremediation through interaction with microbial agents in specific scenarios. The vision is on a faster, more efficient and cost-effective bioremediation technique using clay-based products. This review also proposes future research directions in the field of clay modulated microbial degradation of hydrocarbons.

Dynamics of brominated flame retardants removal in contaminated wastewater sewage sludge under anaerobic conditions

Disposal of solid waste to landfills from waste water sewage treatment plants (WWTPs) serves as a potential source of contamination by polybrominated diphenyl ethers (PBDEs) and hexabromocyclododecane (HBCD). Native microbial communities have been found to degrade a variety of xenobiotics, such as PBDEs and HBCDs. This study investigates the potential of autochthonous microflora to remove 11 PBDE congeners and HBCDs in waste water sludge under anaerobic conditions. Laboratory microcosms were constructed with sewage sludge from the WWTPs of Hradec Kralove and Brno. BDE 209 was detected as the prevailing congener in concentrations 685 and 1403 ng/g dw and the total amounts of 10 lower PBDEs (BDE 28, 47, 49, 66, 85, 99, 100, 153, 154, 183) were 605 and 205 ng/g dw in sludge from Hradec Kralove and Brno, respectively. The levels of HBCD were detected in both sludge lower than 24 ng/g dw. The experiment was carried out for 15 months. After three months of incubation, HBCD was completely degraded to below detection limits. In sewage from both WWTPs, the higher brominated DEs were removed faster than the lower brominated congeners. One exception was tri-BDE, which was degraded completely within 15 months of cultivation. A significant increase in congener tetra-BDE 49 concentrations was observed over the course of the experiment in all tested sewage. The relative distribution of individual congeners among all PBDEs changed after 15 months of the incubation in favour of lower brominated congeners. This indicates that debromination is the major mechanism of anaerobic biodegradation. Despite of the increase of BDE 49, the overall removal of all 11 PBDEs achieved the levels of 47.4 and 68.7% in samples from WWTPs Hradec Kralove and Brno, respectively.

Chemotaxis and degradation of organophosphate compound by a novel moderately thermo-halo tolerant Pseudomonas sp. strain BUR11: evidence for possible existence of two pathways for degradation

An organophosphate (OP) degrading chemotactic bacterial strain BUR11 isolated from an agricultural field was identified as a member of Pseudomonas genus on the basis of its 16S rRNA gene sequence. The strain could utilize parathion, chlorpyrifos and their major hydrolytic intermediates as sole source of carbon for its growth and exhibited positive chemotactic response towards most of them. Optimum concentration of parathion for its growth was recorded to be 200 ppm and 62% of which was degraded within 96 h at 37 °C. Growth studies indicated the strain to be moderately thermo-halo tolerant in nature. Investigation based on identification of intermediates of parathion degradation by thin layer chromatography (TLC), high performance liquid chromatography (HPLC), gas chromatography (GC) and liquid chromatography mass spectrometry (LC-MS/MS) provided evidence for possible existence of two pathways. The first pathway proceeds via 4-nitrophenol (4-NP) while the second proceeds through formation of 4-aminoparathion (4-APar), 4-aminophenol (4-AP) and parabenzoquinone (PBQ). This is the first report of chemotaxis towards organophosphate compound by a thermo-halo tolerant bacterium.

The effect of oil spills on the bacterial diversity and catabolic function in coastal sediments: a case study on the Prestige oil spill

The accident of the Prestige oil tanker in 2002 contaminated approximately 900 km of the coastline along the northern Spanish shore, as well as parts of Portugal and France coast, with a mixture of heavy crude oil consisting of polycyclic aromatic hydrocarbons, alkanes, asphaltenes and resins. The capacity of the autochthonous bacterial communities to respond to the oil spill was assessed indirectly by determining the hydrocarbon profiles of weathered oil samples collected along the shore, as well as through isotope ratios of seawater-dissolved CO2, and directly by analyses of denaturing gradient gel electrophoresis fingerprints and 16S rRNA gene libraries. Overall, the results evidenced biodegradation of crude oil components mediated by natural bacterial communities, with a bias towards lighter and less substituted compounds. The changes observed in the Proteobacteria, the most abundant phylum in marine sediments, were related to the metabolic profiles of the sediment. The presence of crude oil in the supratidal and intertidal zones increased the abundance of Alpha- and Gammaproteobacteria, dominated by the groups Sphingomonadaceae, Rhodobacteraceae and Chromatiales, whilst Gamma- and Deltaproteobacteria were more relevant in subtidal zones. The phylum Actinobacteria, and particularly the genus Rhodococcus, was a key player in the microbial response to the spill, especially in the degradation of the alkane fraction. The addition of inorganic fertilizers enhanced total biodegradation rates, suggesting that, in these environments, nutrients were insufficient to support significant growth after the huge increase in carbon sources, as evidenced in other spills. The presence of bacterial communities able to respond to a massive oil input in this area was consistent with the important history of pollution of the region by crude oil.

Compost Amendment Enhances Natural Revegetation of a Mediterranean Degraded Agricultural Soil

A vegetation analysis was carried out on a degraded agricultural soil of the Mediterranean area (Campania region, southern Italy) in order to study the effects of different fertilization practices (quality compost, mineral fertilizers, mixed fertilization, and no fertilization) on the whole spontaneous vegetation community. The study was performed for two consecutive years at three different scales (species level, community structure, and community properties), using three different units of abundance (number of individuals, biomass, and cover of each species). The observations were carried out in spring, after 5 and 6 years of soil treatments, on a total area of 4 m(2) for each soil treatment and in each year. The different fertilization practices did not determine changes in species composition; however, the relative abundance of dominant species increased in compost and mixed fertilized soils, particularly in the second year of observation. Although the dominance and diversity were unaffected by the different fertilization practices, the total biomass and total number of individuals increased in compost-amended soils. These results indicate the effectiveness of soil quality compost amendments to enhance natural revegetation, a key step in the recovery of degraded areas.

Fiber-Optic Chemical Sensors and Fiber-Optic Bio-Sensors

This review summarizes principles and current stage of development of fiber-optic chemical sensors (FOCS) and biosensors (FOBS). Fiber optic sensor (FOS) systems use the ability of optical fibers (OF) to guide the light in the spectral range from ultraviolet (UV) (180 nm) up to middle infrared (IR) (10 μm) and modulation of guided light by the parameters of the surrounding environment of the OF core. The introduction of OF in the sensor systems has brought advantages such as measurement in flammable and explosive environments, immunity to electrical noises, miniaturization, geometrical flexibility, measurement of small sample volumes, remote sensing in inaccessible sites or harsh environments and multi-sensing. The review comprises briefly the theory of OF elaborated for sensors, techniques of fabrications and analytical results reached with fiber-optic chemical and biological sensors.

Optimization of simultaneous removal of Cr (VI) and phenol by a native bacterial consortium: its use for bioaugmentation of co-polluted effluents

AIMS

This study was designed to isolate, identify and characterize micro-organisms or mixed cultures capable of simultaneously removing Cr (VI) and phenol in the surrounding area of a tannery localized in Elena, Córdoba, Argentina. In addition, nutritional and physical factors were optimized in order to improve the removal efficiency in a real effluent.

METHODS AND RESULTS

The consortium SFC 500-1, composed of two bacterial strains belonging to Acinetobacter and Bacillus genus, was isolated from the heavily polluted wastewater discharge channel of a local tannery. SFC 500-1 was able to remove phenol at environmentally relevant concentrations (1000 mg l(-1) ) and reduce Cr (VI) to Cr (III), which was immobilized in the bacterial biomass. The consortium simultaneously removed these contaminants under a wide range of physicochemical conditions and different growth media, even in a tannery effluent.

CONCLUSION

The ability of SFC 500-1 to simultaneously reduce Cr (VI) and degrade phenol in different synthetic growth media and even in the effluent from which it was isolated with high efficiency makes this consortium a potential candidate for the biotreatment of effluents.

SIGNIFICANCE AND IMPACT OF THE STUDY

This finding is important, taking into account that industrial effluents present complex mixtures of toxic substances as well as native flora which often affect the bioremediation process. Considering the ecological advantages of using native bacteria for bioremediation, as well as the high efficiency of the consortium SFC 500-1 to simultaneously remove Cr (VI) and phenol, this could be a suitable biological system to improve the biotreatment of polluted effluents through a bioaugmentation strategy.

Sugarcane bagasse as support for immobilization of Bacillus pumilus HZ-2 and its use in bioremediation of mesotrione-contaminated soils

The degrading microorganisms isolated from environment usually fail to degrade pollutants when used for bioremediation of contaminated soils; thus, additional treatments are needed to enhance biodegradation. In the present study, the potential of sugarcane bagasse as bacteria-immobilizing support was investigated in mesotrione biodegradation. A novel isolate Bacillus pumilus HZ-2 was applied in bacterial immobilization, which was capable of degrading over 95 % of mesotrione at initial concentrations ranging from 25 to 200 mg L(-1) within 4 days in flask-shaking tests. Scanning electron microscope (SEM) images showed that the bacterial cells were strongly absorbed and fully dispersed on bagasse surface after immobilization. Specially, 86.5 and 82.9 % of mesotrione was eliminated by bacteria immobilized on bagasse of 100 and 60 mesh, respectively, which indicated that this immobilization was able to maintain a high degrading activity of the bacteria. Analysis of the degradation products determined 2-amino-4-methylsulfonylbenzoic acid (AMBA) and 4-methylsulfonyl-2-nitrobenzoic acid (MNBA) as the main metabolites in the biodegradation pathway of mesotrione. In the sterile soil, approximately 90 % of mesotrione was degraded after supplementing 5.0 % of molasses in bacteria-bagasse composite, which greatly enhanced microbial adaptability and growth in the soil environment. In the field tests, over 75 % of mesotrione in soil was degraded within 14 days. The immobilized preparation demonstrated that mesotrione could be degraded at a wide range of pH values (5.0-8.0) and temperatures (25-35 °C), especially at low concentrations of mesotrione (5 to 20 mg kg(-1)). These results showed that sugarcane bagasse might be a good candidate as bacteria-immobilizing support to enhance mesotrione degradation by Bacillus p. HZ-2 in contaminated soils.

Disposal of historically contaminated soil in the cement industry and the evaluation of environmental performance

Approximately 400000t of DDTs/HCHs-contaminated soil (CS) needed to be co-processed in a cement kiln with a time limitation of 2y. A new pre-processing facility with a "drying, grinding and DDTs/HCHs vaporizing" ability was equipped to meet the technical requirements for processing cement raw meal and the environmental standards for stack emissions. And the bottom of the precalciner with high temperatures >1000°C was chosen as the CS feeding point for co-processing, which has rarely been reported. To assess the environmental performance of CS pre- and co-processing technologies, according to the local regulation, a test burn was performed by independent and accredited institutes systematically for determination of the clinker quality, kiln stack gas emissions and destruction efficiency of the pollutant. The results demonstrated that the clinker was of high quality and not adversely affected by CS co-processing. Stack emissions were all below the limits set by Chinese standards. Particularly, PCDD/PCDF emissions ranged from 0.0023 to 0.0085ngI-TEQNm(-3). The less toxic OCDD was the peak congener for CS co-processing procedure, while the most toxic congeners (i.e. 2,3,7,8-TeCDD, 1,2,3,7,8-PeCDD and 2,3,4,7,8-PeCDD) remained in a minor proportion. Destruction and removal efficiency (DRE) and destruction efficiency (DE) of the kiln system were better than 99.9999% and 99.99%, respectively, at the highest CS feeding rate during normal production. To guarantee the environmental performance of the system the quarterly stack gas emission was also monitored during the whole period. And all of the results can meet the national standards requirements.

Polycyclic aromatic hydrocarbons in deep sea sediments: Microbe-pollutant interactions in a remote environment

Recalcitrant polycyclic aromatic hydrocarbons (PAHs) released into seawater end up in the deep sea sediments (DSSs). However, their fate here is often oversimplified by theoretical models. Biodegradation of PAHs in DSSs, is assumed to be similar to biodegradation in surface habitats, despite high hydrostatic pressures and low temperatures that should significantly limit PAH biodegradation. Bacteria residing in the DSSs (related mainly to α- and γ-Proteobacteria) have been shown to or predicted to possess distinct genes, enzymes and metabolic pathways, indicating an adaptation of these bacterial communities to the psychro-peizophilic conditions of the DSSs. This work summarizes some of the most recent research on DSS hydrocarbonoclastic populations and mechanisms of PAH degradation and discusses the challenges posed by future high CO2 and UV climate scenarios on biodegradation of PAHs in DSSs.

Waste lubricating oil removal in a batch reactor by mixed bacterial consortium: a kinetic study

The growth kinetics and biodegradation of two waste lubricating oil samples including waste engine oil (WEO) and waste transformer oil (WTO) were studied using pure isolates and mixed culture of Ochrobactrum sp. C1 and Bacillus sp. K1. The mixed culture significantly influenced degradation efficiency of the pure isolates through bioaugmentation process. In particular, the mixed culture was capable of growing on various n-alkanes and polycyclic aromatic hydrocarbons and was able to tolerate unusually high concentrations of waste lubricants (WEO-86.0 g/L and WTO-81.5 g/L). The initial concentration of waste lubricating oils has been varied in the range of 1-10 % (v/v). Under this experimental range, the bacterial growth has been observed to follow Haldane-type kinetics characterizing the presence of substrate inhibition. Haldane model was used to fit the exponential growth data and the following kinetic parameters were obtained: μ max = 0.078 h(-1), K S = 23.101 g/L, K i = 43.844 g/L for WEO; and μ max = 0.044 h(-1), K S = 10.662 g/L, K i = 58.310 g/L for WTO. The values of intrinsic kinetic parameters, like specific growth rate μ max, half saturation constant, K S, inhibition constant, K i and the maximum substrate concentration, S max and growth yield coefficient Y x/s , have been determined using each model hydrocarbon and their mixture as limiting substrate. Relative changes in the values of the kinetic parameters have been correlated to the number of carbon atoms present in n-alkanes. The metabolites from degradation of model hydrocarbon compounds have been identified by GC-MS to elucidate the possible pathway of waste lubricating oil degradation process.

A wind-powered BDD electrochemical oxidation process for the removal of herbicides

In the search for greener treatment technologies, this work studies the coupling of a wind turbine energy supply with an electrolytic cell (CWTEC device) for the remediation of wastewater polluted with pesticide 2,4-dichlorophenoxyacetic acid (2,4-D). The discontinuous and unforeseeable supply of energy is the main challenge inspiring this new proposal, which aims at reducing the environmental impact of electrolytic treatment by using a green energy supply. The results obtained using the coupled technologies are compared with those obtained by powering the electrolyser with a traditional power supply with a similar current intensity. The mineralisation of wastewater can be accomplished independently of how the electrolytic cell is powered, although differences in performance are clearly observed in the total organic carbon (TOC) and 2,4-D decays. These changes can be explained in terms of the changing profile of the current intensity, which influences the concentrations of the oxidants produced and thereby the mediated electrolytic process.

Oil spill problems and sustainable response strategies through new technologies

Crude oil and petroleum products are widespread water and soil pollutants resulting from marine and terrestrial spillages. International statistics of oil spill sizes for all incidents indicate that the majority of oil spills are small (less than 7 tonnes). The major accidents that happen in the oil industry contribute only a small fraction of the total oil which enters the environment. However, the nature of accidental releases is that they highly pollute small areas and have the potential to devastate the biota locally. There are several routes by which oil can get back to humans from accidental spills, e.g. through accumulation in fish and shellfish, through consumption of contaminated groundwater. Although advances have been made in the prevention of accidents, this does not apply in all countries, and by the random nature of oil spill events, total prevention is not feasible. Therefore, considerable world-wide effort has gone into strategies for minimising accidental spills and the design of new remedial technologies. This paper summarizes new knowledge as well as research and technology gaps essential for developing appropriate decision-making tools in actual spill scenarios. Since oil exploration is being driven into deeper waters and more remote, fragile environments, the risk of future accidents becomes much higher. The innovative safety and accident prevention approaches summarized in this paper are currently important for a range of stakeholders, including the oil industry, the scientific community and the public. Ultimately an integrated approach to prevention and remediation that accelerates an early warning protocol in the event of a spill would get the most appropriate technology selected and implemented as early as possible - the first few hours after a spill are crucial to the outcome of the remedial effort. A particular focus is made on bioremediation as environmentally harmless, cost-effective and relatively inexpensive technology. Greater penetration into the remedial technologies market depends on the harmonization of environment legislation and the application of modern laboratory techniques, e.g. ecogenomics, to improve the predictability of bioremediation.

Managing long-term polycyclic aromatic hydrocarbon contaminated soils: a risk-based approach

Polycyclic aromatic hydrocarbons (PAHs) are a family of contaminants that consist of two or more aromatic rings fused together. Soils contaminated with PAHs pose significant risk to human and ecological health. Over the last 50 years, significant research has been directed towards the cleanup of PAH-contaminated soils to background level. However, this achieved only limited success especially with high molecular weight compounds. Notably, during the last 5-10 years, the approach to remediate PAH-contaminated soils has changed considerably. A risk-based prioritization of remediation interventions has become a valuable step in the management of contaminated sites. The hydrophobicity of PAHs underlines that their phase distribution in soil is strongly influenced by factors such as soil properties and ageing of PAHs within the soil. A risk-based approach recognizes that exposure and environmental effects of PAHs are not directly related to the commonly measured total chemical concentration. Thus, a bioavailability-based assessment using a combination of chemical analysis with toxicological assays and nonexhaustive extraction technique would serve as a valuable tool in risk-based approach for remediation of PAH-contaminated soils. In this paper, the fate and availability of PAHs in contaminated soils and their relevance to risk-based management of long-term contaminated soils are reviewed. This review may serve as guidance for the use of site-specific risk-based management methods.

Metal-tolerant PAH-degrading bacteria: development of suitable test medium and effect of cadmium and its availability on PAH biodegradation

The use of metal-tolerant polyaromatic hydrocarbon (PAH)-degrading bacteria is viable for mitigating metal inhibition of organic compound biodegradation in the remediation of mixed contaminated sites. Many microbial growth media used for toxicity testing contain high concentrations of metal-binding components such as phosphates that can reduce solution-phase metal concentrations thereby underestimate the real toxicity. In this study, we isolated two PAHs-degrading bacterial consortia from long-term mixed contaminated soils. We have developed a new mineral medium by optimising the concentrations of medium components to allow the bacterial growth and at the same time maintain high bioavailable metal (Cd(2+) as a model metal) in the medium. This medium has more than 60 % Cd as Cd(2+) at pH 6.5 as measured by an ion selective electrode and visual MINTEQ model. The Cd-tolerant patterns of the consortia were tested and minimum inhibitory concentration (MIC) derived. The consortium-5 had the highest MIC of 5 mg l(-1) Cd followed by consortium-9. Both cultures were able to completely metabolise 200 mg l(-1) phenanthrene in less than 4 days in the presence of 5 mg l(-1) Cd. The isolated metal-tolerant PAH-degrading bacterial cultures have great potential for bioremediation of mixed contaminated soils.

Simultaneous removal of harmful algal blooms and microcystins using microorganism- and chitosan-modified local soil

Cyanobacterial harmful algal blooms (cyano-HAB) and microcystins (MCs) can cause a potential threat to public health. Here, a method for simultaneous removal of cyano-HAB and MCs was developed using chitosan-modified local soil (MLS) flocculation plus microorganism-modified soil capping. The experiment was conducted in simulated columns containing algal water collected from Lake Taihu (China). More than 90% of algal cells and intracellular MCs were flocculated and removed from water using chitosan-MLS and the sunken flocs were treated by different capping materials including Pseudomonas sp. An18 modified local soil. During 40 days of incubation, dissolved MC-LR and MC-RR showed 10-fold increase in the flocculation-only system. The increase of MC-LR and MC-RR in water was reduced by 30 and 70% in soil capping treatments; however, the total content of MCs in the sediment-water column remained similar to that in the control and flocculation only systems. In contrast, both dissolved MCs and total MCs were reduced by 90% in Pseudomonas sp. An18 modified soil capping treatment. The high performance of toxin decomposition was due to the combined effects of flocculation and MC-degrading bacteria that embedded in the capping material, which prevents dilution of bacteria biomass, concentrates algal cells, confines released toxins, and enhances toxin biodegradation.

The genus Geobacillus and their biotechnological potential

The genus Geobacillus comprises a group of Gram-positive thermophilic bacteria, including obligate aerobes, denitrifiers, and facultative anaerobes that can grow over a range of 45-75°C. Originally classified as group five Bacillus spp., strains of Bacillus stearothermophilus came to prominence as contaminants of canned food and soon became the organism of choice for comparative studies of metabolism and enzymology between mesophiles and thermophiles. More recently, their catabolic versatility, particularly in the degradation of hemicellulose and starch, and rapid growth rates have raised their profile as organisms with potential for second-generation (lignocellulosic) biorefineries for biofuel or chemical production. The continued development of genetic tools to facilitate both fundamental investigation and metabolic engineering is now helping to realize this potential, for both metabolite production and optimized catabolism. In addition, this catabolic versatility provides a range of useful thermostable enzymes for industrial application. A number of genome-sequencing projects have been completed or are underway allowing comparative studies. These reveal a significant amount of genome rearrangement within the genus, the presence of large genomic islands encompassing all the hemicellulose utilization genes and a genomic island incorporating a set of long chain alkane monooxygenase genes. With G+C contents of 45-55%, thermostability appears to derive in part from the ability to synthesize protamine and spermine, which can condense DNA and raise its Tm.

A Comprehensive Review of Aliphatic Hydrocarbon Biodegradation by Bacteria

Hydrocarbons are relatively recalcitrant compounds and are classified as high-priority pollutants. However, these compounds are slowly degraded by a large variety of microorganisms. Bacteria are able to degrade aliphatic saturated and unsaturated hydrocarbons via both aerobic and anaerobic pathways. Branched hydrocarbons and cyclic hydrocarbons are also degraded by bacteria. The aerobic bacteria use different types of oxygenases, including monooxygenase, cytochrome-dependent oxygenase and dioxygenase, to insert one or two atoms of oxygen into their targets. Anaerobic bacteria, on the other hand, employ a variety of simple organic and inorganic molecules, including sulphate, nitrate, carbonate and metals, for hydrocarbon oxidation.

In silico understanding of the cyclodextrin-phenanthrene hybrid assemblies in both aqueous medium and bacterial membranes

The explicit-solvent molecular dynamic (MD) simulation and adaptive biased forces (ABF) methods were employed to systemically study the structural and thermodynamic nature of the β-cyclodextrin (βCD) monomer, phenanthrene (Phe) monomer, and their inclusion complexes in both the aqueous and membrane environments, aiming at clarifying the atomic-level mechanisms underlying in the CD-enhanced degradation of polycyclic aromatic hydrocarbons (PAHs) by bacteria. Simulations showed that βCD and Phe monomers could associate together to construct two distinctive assemblies, i.e, βCD1-Phe1 and βCD2-Phe1, respectively. The membrane-involved equilibrium simulations and the data of potential of mean forces (PMFs) further confirmed that Phe monomer was capable of penetrating through the membranes without confronting any large energy barrier, whereas, the single βCD and βCD-involved assemblies were unable to pass across the membranes. These observations clearly suggested that βCD only served as the carrier to enhance the bioavailability of Phe rather than the co-substrate in the Phe biodegradation process. The Phe-separation PMF profiles indicated that the maximum of the Phe uptake by bacteria would be achieved by the "optimal" βCD:Phe molar ratio, which facilitated the maximal formation of βCD1-Phe1 inclusion and the minimal construction of βCD2-Phe1 complex.

Microbial respiration and natural attenuation of benzene contaminated soils investigated by cavity enhanced Raman multi-gas spectroscopy

Soil and groundwater contamination with benzene can cause serious environmental damage. However, many soil microorganisms are capable to adapt and are known to strongly control the fate of organic contamination. Innovative cavity enhanced Raman multi-gas spectroscopy (CERS) was applied to investigate the short-term response of the soil micro-flora to sudden surface contamination with benzene regarding the temporal variations of gas products and their exchange rates with the adjacent atmosphere. (13)C-labeled benzene was spiked on a silty-loamy soil column in order to track and separate the changes in heterotrophic soil respiration - involving (12)CO2 and O2- from the natural attenuation process of benzene degradation to ultimately form (13)CO2. The respiratory quotient (RQ) decreased from a value 0.98 to 0.46 directly after the spiking and increased again within 33 hours to a value of 0.72. This coincided with the maximum (13)CO2 concentration rate (0.63 μmol m(-2) s(-1)), indicating the highest benzene degradation at 33 hours after the spiking event. The diffusion of benzene in the headspace and the biodegradation into (13)CO2 were simultaneously monitored and 12 days after the benzene spiking no measurable degradation was detected anymore. The RQ finally returned to a value of 0.96 demonstrating the reestablished aerobic respiration.

Molecular responses of Frankia sp. strain QA3 to naphthalene

The Frankia-actinorhizal plant symbiosis plays a significant role in plant colonization in soils contaminated with heavy metals and toxic aromatic hydrocarbons. The molecular response of Frankia upon exposure to soil contaminants is not well understood. To address this issue, we subjected Frankia sp. strain QA3 to naphthalene stress and showed that it could grow on naphthalene as a sole carbon source. Bioinformatic analysis of the Frankia QA3 genome identified a potential operon for aromatic compound degradation as well as several ring-hydroxylating dioxygenases. Under naphthalene stress, the expression of these genes was upregulated. Proteome analysis showed a differential protein profile for cells under naphthalene stress. Several protein spots were analyzed and used to identify proteins involved in stress response, metabolism, and energy production, including a lignostilbene dioxygenase. These results provide a model for understanding the molecular response of Frankia to common soil pollutants, which may be required for survival and proliferation of the bacterium and their hosts in polluted environments.

Aerobic biodegradation of selected polybrominated diphenyl ethers (PBDEs) in wastewater sewage sludge

Due to widespread accumulation of polybrominated diphenyl ethers (PBDEs) in our surroundings, it is important to clarify their fate in the environment and the options of their elimination. The aim of this study was to monitor the biodegradation of the most frequent congeners (BDE 28, 47, 49, 66, 85, 99, 100, 153, 154, 183 and 209) under aerobic condition by indigenous microflora in 2 industrially contaminated sewage sludge samples. BDE 209 was detected as the predominating congener in concentrations 685 ng/g and 1403 ng/g dry weight in sewage sludge from WWTPs (waste water treatment plants) Hradec Kralove and Brno, respectively. The total amount of 10 lower PBDEs was 605 and 205 ng/g dry weight, respectively. The aerobic degradation was significantly enhanced by the addition of yeast extract and 4-bromobiphenyl. The total concentrations of all 11 PBDE congeners were lowered and their elimination was detected reaching 62–78% of their initial amounts after 11 months of cultivation. The degradation of most abundant congener BDE 209 followed the first-order kinetics with constant detected between 2.77 × 10(−3) d(−1) and 3.79 × 10−(3)d(−1) and the half-lives of BDE 209 degradation ranged between 6.0 and 8.2 months. This work clearly demonstrates that both lower brominated PBDEs as well as the major representative BDE 209 could be successfully removed from municipally contaminated sludge under aerobic conditions.

Interaction of copper and 2,4,5-trichlorophenol on bioremediation potential and biochemical properties in co-contaminated soil incubated with Clitocybe maxima

The bioremediation of soil co-contaminated with heavy metal and organic pollutants has attracted considerable attention in recent years.

Isolation and characterization of a highly efficient chlorpyrifos degrading strain of Cupriavidus taiwanensis from sludge

In this study, a highly effective chlorpyrifos (CP)-degrading bacterium (termed strain X1) was isolated from the sludge of drain outlet of a chlorpyrifos manufacturer. Strain X1 was identified as Cupriavidus taiwanensis based upon the analysis of the 16S rDNA gene and biochemical characteristics, which is capable of transforming CP into 3,5,6-trichloro-2-pyridinol (TCP), and the resulting TCP was further metabolized when performed in an aqueous medium. Degradation experiments were carried out under different conditions at the range of pH (5.0∼9.0) and temperature (22∼42 °C), and the optimized pH and temperature were 7.0 and 32 °C respectively. Biotransformation of high concentration of CP was also determined; 400 mg l(À1) of CP was completely transformed within 36 h; approximately 95% of CP was removed within 48 h when concentration of CP was up to 500 mg l(À1) . A genomic library was successfully constructed to clone the gene encoding the CP hydrolase, and a positive transformant with clear hydrolytic zones was obtained and analyzed. The insert gene sequence exhibited close relationship with 99% similar to opdB gene encoding parathion hydrolase, whereas, transformant failed in degrading the accumulated TCP. These results highlight the potential of this bacterium to be used in the cleanup of CP.

The option to abandon: stimulating innovative groundwater remediation technologies characterized by technological uncertainty

Many studies on technology adoption demonstrate that uncertainty leads to a postponement of investments by integrating a wait option in the economic analysis. The aim of this study however is to demonstrate how the investment in new technologies can be stimulated by integrating an option to abandon. Furthermore, this real option analysis not only considers the ex ante decision analysis of the investment in a new technology under uncertainty, but also allows for an ex post evaluation of the investment. Based on a case study regarding the adoption of an innovative groundwater remediation strategy, it is demonstrated that when the option to abandon the innovative technology is taken into account, the decision maker decides to invest in this technology, while at the same time it determines an optimal timing to abandon the technology if its operation proves to be inefficient. To reduce uncertainty about the effectiveness of groundwater remediation technologies, samples are taken. Our analysis shows that when the initial belief in an effective innovative technology is low, it is important that these samples provide correct information in order to justify the adoption of the innovative technology.

Suitability of Miscanthus species for managing inorganic and organic contaminated land and restoring ecosystem services. A review

The mitigation of potential health hazards and land scarcity due to land use change can be addressed by restoring functional and ecosystem services of contaminated land. Physico-chemical remediation options are criticized as being costly and not providing environment-friendly solutions. The use of plants and associated microorganisms could be a sustainable, cost-effective option to reduce pollutant exposure. Phytomanagement aims at using valuable non-food crops to alleviate environmental and health risks induced by pollutants, and at restoring ecosystem services. Suitable plant species must be tolerant to contaminants, reduce their transfer into the food chain, and efficiently produce marketable biomass. Based on Miscanthus' capacity to sequestrate inorganic contaminants into the root system and to induce dissipation of persistent organic contaminants in soil, these plant species are favorable for phytostabilization and phytodegradation. Among Miscanthus species, the noninvasive hybrid Miscanthus × giganteus, with a high lignocellulosic content, is a promising biomass crop for the bio-economy, notably the biorefinery and bioenergy industries. Planting this species on contaminated and marginal land is a promising option to avoid changes in arable land use to mitigate the food vs. biofuel controversy. Key issues in promoting sustainable management of Miscanthus sp. on contaminated land are: (a) crop suitability, integration, and sustainability in a region with a potential local market; (b) site suitability in relation to the species' requirements and potential, (c) biotic interactions in the landscape diversity; and (d) increase in shoot yields in line with various stressors (e.g., pollutants, drought, cold temperatures), and with minimal inputs.

A Pseudomonas putida strain genetically engineered for 1,2,3-trichloropropane bioremediation

1,2,3-Trichloropropane (TCP) is a toxic compound that is recalcitrant to biodegradation in the environment. Attempts to isolate TCP-degrading organisms using enrichment cultivation have failed. A potential biodegradation pathway starts with hydrolytic dehalogenation to 2,3-dichloro-1-propanol (DCP), followed by oxidative metabolism. To obtain a practically applicable TCP-degrading organism, we introduced an engineered haloalkane dehalogenase with improved TCP degradation activity into the DCP-degrading bacterium Pseudomonas putida MC4. For this purpose, the dehalogenase gene (dhaA31) was cloned behind the constitutive dhlA promoter and was introduced into the genome of strain MC4 using a transposon delivery system. The transposon-located antibiotic resistance marker was subsequently removed using a resolvase step. Growth of the resulting engineered bacterium, P. putida MC4-5222, on TCP was indeed observed, and all organic chlorine was released as chloride. A packed-bed reactor with immobilized cells of strain MC4-5222 degraded >95% of influent TCP (0.33 mM) under continuous-flow conditions, with stoichiometric release of inorganic chloride. The results demonstrate the successful use of a laboratory-evolved dehalogenase and genetic engineering to produce an effective, plasmid-free, and stable whole-cell biocatalyst for the aerobic bioremediation of a recalcitrant chlorinated hydrocarbon.

How microorganisms use hydrophobicity and what does this mean for human needs?

Cell surface hydrophobicity (CSH) plays a crucial role in the attachment to, or detachment from the surfaces. The influence of CSH on adhesion of microorganisms to biotic and abiotic surfaces in medicine as well as in bioremediation and fermentation industry has both negative and positive aspects. Hydrophobic microorganisms cause the damage of surfaces by biofilm formation; on the other hand, they can readily accumulate on organic pollutants and decompose them. Hydrophilic microorganisms also play a considerable role in removing organic wastes from the environment because of their high resistance to hydrophobic chemicals. Despite the many studies on the environmental and metabolic factors affecting CSH, the knowledge of this subject is still scanty and is in most cases limited to observing the impact of hydrophobicity on adhesion, aggregation or flocculation. The future of research seems to lie in finding a way to managing the microbial adhesion process, perhaps by steering cell hydrophobicity.

Methylobacterium populi VP2: plant growth-promoting bacterium isolated from a highly polluted environment for polycyclic aromatic hydrocarbon (PAH) biodegradation

The use of microorganisms to accelerate the natural detoxification processes of toxic substances in the soil represents an alternative ecofriendly and low-cost method of environmental remediation compared to harmful incineration and chemical treatments. Fourteen strains able to grow on minimal selective medium with a complex mixture of different classes of xenobiotic compounds as the sole carbon source were isolated from the soil of the ex-industrial site ACNA (Aziende Chimiche Nazionali Associate) in Cengio (Savona, Italy). The best putative degrading isolate, Methylobacterium populi VP2, was identified using a polyphasic approach on the basis of its phenotypic, biochemical, and molecular characterisation. Moreover, this strain also showed multiple plant growth promotion activities: it was able to produce indole-3-acetic acid (IAA) and siderophores, solubilise phosphate, and produce a biofilm in the presence of phenanthrene and alleviate phenanthrene stress in tomato seeds. This is the first report on the simultaneous occurrence of the PAH-degrading ability by Methylobacterium populi and its multiple plant growth-promoting activities. Therefore, the selected indigenous strain, which is naturally present in highly contaminated soils, is good candidate for plant growth promotion and is capable of biodegrading xenobiotic organic compounds to remediate contaminated soil alone and/or soil associated with plants.

Chlorinated persistent organic pollutants, obesity, and type 2 diabetes

Persistent organic pollutants (POPs) are lipophilic compounds that travel with lipids and accumulate mainly in adipose tissue. Recent human evidence links low-dose POPs to an increased risk of type 2 diabetes (T2D). Because humans are contaminated by POP mixtures and POPs possibly have nonmonotonic dose-response relations with T2D, critical methodological issues arise in evaluating human findings. This review summarizes epidemiological results on chlorinated POPs and T2D, and relevant experimental evidence. It also discusses how features of POPs can affect inferences in humans. The evidence as a whole suggests that, rather than a few individual POPs, background exposure to POP mixtures-including organochlorine pesticides and polychlorinated biphenyls-can increase T2D risk in humans. Inconsistent statistical significance for individual POPs may arise due to distributional differences in POP mixtures among populations. Differences in the observed shape of the dose-response curves among human studies may reflect an inverted U-shaped association secondary to mitochondrial dysfunction or endocrine disruption. Finally, we examine the relationship between POPs and obesity. There is evidence in animal studies that low-dose POP mixtures are obesogenic. However, relationships between POPs and obesity in humans have been inconsistent. Adipose tissue plays a dual role of promoting T2D and providing a relatively safe place to store POPs. Large prospective studies with serial measurements of a broad range of POPs, adiposity, and clinically relevant biomarkers are needed to disentangle the interrelationships among POPs, obesity, and the development of T2D. Also needed are laboratory experiments that more closely mimic real-world POP doses, mixtures, and exposure duration in humans.

Electrokinetic-enhanced bioremediation of organic contaminants: a review of processes and environmental applications

There is current interest in finding sustainable remediation technologies for the removal of contaminants from soil and groundwater. This review focuses on the combination of electrokinetics, the use of an electric potential to move organic and inorganic compounds, or charged particles/organisms in the subsurface independent of hydraulic conductivity; and bioremediation, the destruction of organic contaminants or attenuation of inorganic compounds by the activity of microorganisms in situ or ex situ. The objective of the review is to examine the state of knowledge on electrokinetic bioremediation and critically evaluate factors which affect the up-scaling of laboratory and bench-scale research to field-scale application. It discusses the mechanisms of electrokinetic bioremediation in the subsurface environment at different micro and macroscales, the influence of environmental processes on electrokinetic phenomena and the design options available for application to the field scale. The review also presents results from a modelling exercise to illustrate the effectiveness of electrokinetics on the supply electron acceptors to a plume scale scenario where these are limiting. Current research needs include analysis of electrokinetic bioremediation in more representative environmental settings, such as those in physically heterogeneous systems in order to gain a greater understanding of the controlling mechanisms on both electrokinetics and bioremediation in those scenarios.

Genome-wide analysis of Sphingomonas wittichii RW1 behaviour during inoculation and growth in contaminated sand

The efficacy of inoculation of single pure bacterial cultures into complex microbiomes, for example, in order to achieve increased pollutant degradation rates in contaminated material (that is, bioaugmentation), has been frustrated by insufficient knowledge on the behaviour of the inoculated bacteria under the specific abiotic and biotic boundary conditions. Here we present a comprehensive analysis of genome-wide gene expression of the bacterium Sphingomonas wittichii RW1 in contaminated non-sterile sand, compared with regular suspended batch growth in liquid culture. RW1 is a well-known bacterium capable of mineralizing dibenzodioxins and dibenzofurans. We tested the reactions of the cells both during the immediate transition phase from liquid culture to sand with or without dibenzofuran, as well as during growth and stationary phase in sand. Cells during transition show stationary phase characteristics, evidence for stress and for nutrient scavenging, and adjust their primary metabolism if they were not precultured on the same contaminant as found in the soil. Cells growing and surviving in sand degrade dibenzofuran but display a very different transcriptome signature as in liquid or in liquid culture exposed to chemicals inducing drought stress, and we obtain evidence for numerous 'soil-specific' expressed genes. Studies focusing on inoculation efficacy should test behaviour under conditions as closely as possible mimicking the intended microbiome conditions.

Soil mesocosm studies on atrazine bioremediation

Accumulation of pesticides in the environment causes serious issues of contamination and toxicity. Bioremediation is an ecologically sound method to manage soil pollution, but the bottleneck here, is the successful scale-up of lab-scale experiments to field applications. This study demonstrates pilot-scale bioremediation in tropical soil using atrazine as model pollutant. Mimicking field conditions, three different bioremediation strategies for atrazine degradation were explored. 100 kg soil mesocosms were set-up, with or without atrazine application history. Natural attenuation and enhanced bioremediation were tested, where augmentation with an atrazine degrading consortium demonstrated best pollutant removal. 90% atrazine degradation was observed in six days in soil previously exposed to atrazine, while soil without history of atrazine use, needed 15 days to remove the same amount of amended atrazine. The bacterial consortium comprised of 3 novel bacterial strains with different genetic atrazine degrading potential. The progress of bioremediation was monitored by measuring the levels of atrazine and its intermediate, cyanuric acid. Genes from the atrazine degradation pathway, namely, atzA, atzB, atzD, trzN and trzD were quantified in all mesocosms for 60 days. The highest abundance of all target genes was observed on the 6th day of treatment. trzD was observed in the bioaugmented mesocosms only. The bacterial community profile in all mesocosms was monitored by LH-PCR over a period of two months. Results indicate that the communities changed rapidly after inoculation, but there was no drastic change in microbial community profile after 1 month. Results indicated that efficient bioremediation of atrazine using a microbial consortium could be successfully up-scaled to pilot scale.

Impact of soil amendments and the plant rhizosphere on PAH behaviour in soil

Carbonaceous amendments reduce PAH dissolved concentrations (Cfree), limiting their uptake and toxicity. A soil contaminated with PAHs was mixed with activated carbon (AC), charcoal or compost and planted with radish (Raphanus sativus L.), and Cfree, chemical activities and diffusive uptake of the PAHs measured over 2 months. For AC, Cfree and diffusive uptake were decreased by up to 94% compared to the unamended soil within one week. In addition, the sum chemical activity of the PAHs remained below the threshold for baseline toxicity. In contrast, charcoal and compost only led to modest reductions in Cfree and diffusive uptake, with sum chemical activities that could potentially result in baseline toxicity being observed. Furthermore, both Cfree and diffusive uptake were lower in the planted compared to unplanted soils. Therefore, only AC successfully reduced PAH acute toxicity in the soil, but plant-promoted microbial degradation may also play an important role in PAH attenuation.

Microbial-electrochemical bioremediation and detoxification of dibenzothiophene-polluted soil

Bioremediation is a relatively efficient and cost-effective technology for treating polluted soils. However, the availability of suitable electron acceptors to sustain microbial respiration can reduce the microbial activity. This work aims to evaluate the impact of burying electrically conductive electron acceptors in soil for enhancing the removal of dibenzothiophene (DBT) by native electrogenic microbes. Although this novel approach is based on the use of a microbial electrochemical technology as microbial fuel cells, our goal is not to harvest energy but to maximize bioremediation, so we concluded to name the device as Microbial Electroremediating Cell (MERC). Our results proved that stimulating the microbial electrogenic metabolism, DBT removal was enhanced by more than 3-fold compared to the natural attenuation. On top of that, ecotoxicological test using green algae confirms a decrease of 50% in the toxicity of the treated soil during incubation in MERC, in contrast to the unaltered values detected under natural conditions.