Showing papers on "Microbial biodegradation published in 2009"

Bacterial degradation of aromatic compounds

Abstract: Aromatic compounds are among the most prevalent and persistent pollutants in the environment. Petroleum-contaminated soil and sediment commonly contain a mixture of polycyclic aromatic hydrocarbons (PAHs) and heterocyclic aromatics. Aromatics derived from industrial activities often have functional groups such as alkyls, halogens and nitro groups. Biodegradation is a major mechanism of removal of organic pollutants from a contaminated site. This review focuses on bacterial degradation pathways of selected aromatic compounds. Catabolic pathways of naphthalene, fluorene, phenanthrene, fluoranthene, pyrene, and benzo[a]pyrene are described in detail. Bacterial catabolism of the heterocycles dibenzofuran, carbazole, dibenzothiophene, and dibenzodioxin is discussed. Bacterial catabolism of alkylated PAHs is summarized, followed by a brief discussion of proteomics and metabolomics as powerful tools for elucidation of biodegradation mechanisms.

Plant-associated bacterial degradation of toxic organic compounds in soil.

Abstract: A number of toxic synthetic organic compounds can contaminate environmental soil through either local (e.g., industrial) or diffuse (e.g., agricultural) contamination. Increased levels of these toxic organic compounds in the environment have been associated with human health risks including cancer. Plant-associated bacteria, such as endophytic bacteria (non-pathogenic bacteria that occur naturally in plants) and rhizospheric bacteria (bacteria that live on and near the roots of plants), have been shown to contribute to biodegradation of toxic organic compounds in contaminated soil and could have potential for improving phytoremediation. Endophytic and rhizospheric bacterial degradation of toxic organic compounds (either naturally occurring or genetically enhanced) in contaminated soil in the environment could have positive implications for human health worldwide and is the subject of this review.

Isolation and characterization of Halomonas sp. strain C2SS100, a hydrocarbon-degrading bacterium under hypersaline conditions.

Abstract: Aims: To isolate and characterize an efficient hydrocarbon-degrading bacterium under hypersaline conditions, from a Tunisian off-shore oil field. Methods and Results: Production water collected from ‘Sercina’ petroleum reservoir, located near the Kerkennah island, Tunisia, was used for the screening of halotolerant or halophilic bacteria able to degrade crude oil. Bacterial strain C2SS100 was isolated after enrichment on crude oil, in the presence of 100 g l−1 NaCl and at 37°C. This strain was aerobic, Gram-negative, rod-shaped, motile, oxidase + and catalase +. Phenotypic characters and phylogenetic analysis based on the 16S rRNA gene of the isolate C2SS100 showed that it was related to members of the Halomonas genus. The degradation of several compounds present in crude oil was confirmed by GC–MS analysis. The use of refined petroleum products such as diesel fuel and lubricating oil as sole carbon source, under the same conditions of temperature and salinity, showed that significant amounts of these heterogenic compounds could be degraded. Strain C2SS100 was able to degrade hexadecane (C16). During growth on hexadecane, cells surface hydrophobicity and emulsifying activity increased indicating the production of biosurfactant by strain C2SS100. Conclusions: A halotolerant bacterial strain Halomonas sp. C2SS100 was isolated from production water of an oil field, after enrichment on crude oil. This strain is able to degrade hydrocarbons efficiently. The mode of hydrocarbon uptake is realized by the production of a biosurfactant which enhances the solubility of hydrocarbons and renders them more accessible for biodegradation. Significance and Impact of the Study: The biodegradation potential of the Halomonas sp. strain C2SS100 gives it an advantage for possibly application on bioremediation of water, hydrocarbon-contaminated sites under high-salinity level.

Surfactant-mediated Biodegradation of Polycyclic Aromatic Hydrocarbons

Abstract: Polycyclic aromatic hydrocarbons (PAHs) are toxic environmental pollutants that are known or suspected carcinogens or mutagens. Bioremediation has been used as a general way to eliminate them from the contaminated sites or aquifers, but their biodegradation is rather limited due to their low bioavailability because of their sparingly soluble nature. Surfactant-mediated biodegradation is a promising alternative. The presence of surfactants can increase the solubility of PAHs and hence potentially increase their bioavailability. However, inconclusive results have been reported on the effects of surfactant on the biodegradation of PAHs. In this work, surfactant-mediated biodegradation of PAHs is reviewed.

Microbial transformation of xenobiotics for environmental bioremediation

Abstract: The accumulation of recalcitrant xenobiotic compounds is due to continuous efflux from population and industrial inputs that have created a serious impact on the pristine nature of our environment. Apart from this, these compounds are mostly carcinogenic, posing health hazards which persist over a long period of time. Metabolic pathways and specific operon systems have been found in diverse but limited groups of microbes that are responsible for the transformation of xenobiotic compounds. Distinct catabolic genes are either present on mobile genetic elements, such as transposons and plasmids, or the chromosome itself that facilitates horizontal gene transfer and enhances the rapid microbial transformation of toxic xenobiotic compounds. Biotransformation of xenobiotic compounds in natural environment has been studied to understand the microbial ecology, physiology and evolution for their potential in bioremediation. Recent advance in the molecular techniques including DNA fingerprinting, microarrays and metagenomics is being used to augment the transformation of xenobiotic compounds. The present day understandings of aerobic, anaerobic and reductive biotransformation by co-metabolic processes and an overview of latest developments in monitoring the catabolic genes of xenobiotic-degrading bacteria are discussed elaborately in this work. Till date, several reviews have come up, highlighting the problem of xenobiotic pollution, yet a comprehensive understanding of the microbial biodegradation of xenobiotics and its application is in nascent stage. Therefore, this is an attempt to understand the microbial role in biotransformation of xenobiotic compounds in context to the modern day biotechnology.

The Role of Indigenous Microorganisms in the Biodegradation of Naturally Occurring Petroleum, the Reduction of Iron, and the Mobilization of Arsenite from West Bengal Aquifer Sediments

Abstract: High levels of naturally occurring arsenic are found in the shallow reducing aquifers of West Bengal, Bangladesh, and other areas of Southeast Asia. These aquifers are used extensively for drinking water and irrigation by the local population. Mechanisms for its release are unclear, although increasing evidence points to a microbial control. The type of organic matter present is of vital importance because it has a direct impact on the rate of microbial activity and on the amount of arsenic released into the ground water. The discovery of naturally occurring hydrocarbons in an arsenic-rich aquifer from West Bengal provides a source of potential electron donors for this process. Using microcosm-based techniques, seven sediments from a site containing naturally occurring hydrocarbons in West Bengal were incubated with synthetic ground water for 28 d under anaerobic conditions without the addition of an external electron donor. Arsenic release and Fe(III) reduction appeared to be microbially mediated, with variable rates of arsenic mobilization in comparison to Fe(III) reduction, suggesting that multiple processes are involved. All sediments showed a preferential loss of petroleum-sourced n-alkanes over terrestrially sourced sedimentary hydrocarbons n-alkanes during the incubation, implying that the use of petroleum-sourced n-alkanes could support, directly or indirectly, microbial Fe(III) reduction. Samples undergoing maximal release of As(III) contained a significant population of Sulfurospirillum sp., a known As(V)-reducing bacterium, providing the first evidence that such organisms may mediate arsenic release from West Bengali aquifers.

Biodegradation and surfactant-mediated biodegradation of diesel fuel by 218 microbial consortia are not correlated to cell surface hydrophobicity

Abstract: In this study, we elucidated the role of cell surface hydrophobicity (microbial adhesion to hydrocarbons method, MATH) and the effect of anionic rhamnolipids and nonionic Triton X-100 surfactants on biodegradation of diesel fuel employing 218 microbial consortia isolated from petroleum-contaminated soils. Applied enrichment procedure with floating diesel fuel as a sole carbon source in liquid cultures resulted in consortia of varying biodegradation potential and diametrically different cell surface properties, suggesting that cell surface hydrophobicity is a conserved parameter. Surprisingly, no correlations between cell surface hydrophobicity and biodegradation of diesel fuel were found. Nevertheless, both surfactants altered cell surface hydrophobicity of the consortia in similar manner: increased for the hydrophilic and decreased for the hydrophobic cultures. In addition to this, the surfactants exhibited similar influence on diesel fuel biodegradation: Increase was observed for initially slow-degrading cultures and the opposite for fast degraders. This indicates that in the surfactant-mediated biodegradation, effectiveness of surfactants depends on the specification of microorganisms and not on the type of surfactant. In contrary to what was previously reported for pure strains, cell surface hydrophobicity, as determined by MATH, is not a good descriptor of biodegrading potential for mixed cultures.

Bacterial Community Dynamics during Bioremediation of Diesel Oil-Contaminated Antarctic Soil

Abstract: The effect of nutrient and inocula amendment in a bioremediation field trial using a nutrient-poor Antarctic soil chronically contaminated with hydrocarbons was tested. The analysis of the effects that the treatments caused in bacterial numbers and hydrocarbon removal was combined with the elucidation of the changes occurring on the bacterial community, by 16S rDNA-based terminal restriction fragment length polymorphism (T-RFLP) typing, and the detection of some of the genes involved in the catabolism of hydrocarbons. All treatments caused a significant increase in the number of bacteria able to grow on hydrocarbons and a significant decrease in the soil hydrocarbon content, as compared to the control. However, there were no significant differences between treatments. Comparison of the soil T-RFLP profiles indicated that there were changes in the structure and composition of bacterial communities during the bioremediation trial, although the communities in treated plots were highly similar irrespective of the treatment applied, and they had a similar temporal dynamics. These results showed that nutrient addition was the main factor contributing to the outcome of the bioremediation experiment. This was supported by the lack of evidence of the establishment of inoculated consortia in soils, since their characteristic electrophoretic peaks were only detectable in soil profiles at the beginning of the experiment. Genetic potential for naphthalene degradation, evidenced by detection of nahAc gene, was observed in all soil plots including the control. In treated plots, an increase in the detection of catechol degradation genes (nahH and catA) and in a key gene of denitrification (nosZ) was observed as well. These results indicate that treatments favored the degradation of aromatic hydrocarbons and probably stimulated denitrification, at least transiently. This mesocosm study shows that recovery of chronically contaminated Antarctic soils can be successfully accelerated using biostimulation with nutrients, and that this causes a change in the indigenous bacterial communities and in the genetic potential for hydrocarbon degradation.

Biodegradation of the sulfonylurea herbicide chlorimuron-ethyl by the strain Pseudomonas sp. LW3

Abstract: The chlorimuron-ethyl-degrading bacterium LW3 was isolated from contaminated soil and identified by 16S rRNA gene sequencing as Pseudomonas sp When chlorimuron-ethyl was provided as the sole nitrogen source, the degradation efficiency in liquid medium was about 810% after 7 days of inoculation with strain LW3 The effects of chlorimuron-ethyl concentration and temperature on biodegradation were examined Two metabolites of degradation were analyzed by LC/MS Based on the identified products, strain LW3 seemed to be able to degrade chlorimuron-ethyl by cleavage of the sulfonylurea bridge The inoculation of strain LW3 to chlorimuron-ethyl-treated soil resulted in a higher degradation rate than in uninoculated soil, regardless of the soil being sterilized or nonsterilized This microbial culture has great potential for the bioremediation of soil contaminated with chlorimuron-ethyl

Influence of nutrients addition and bioaugmentation on the hydrocarbon biodegradation of a chronically contaminated Antarctic soil.

Abstract: Complexity involved in the transport of soils and the restrictive legislation for the area makes on-site bioremediation the strategy of choice to reduce hydrocarbons contamination in Antarctica. The effect of biostimulation (with N and P) and bioaugmentation (with two bacterial consortia and a mix of bacterial strains) was analysed by using microcosms set up on metal trays containing 2.5 kg of contaminated soil from Marambio Station. At the end of the assay (45 days), all biostimulated systems showed significant increases in total heterotrophic aerobic and hydrocarbon-degrading bacterial counts. However, no differences were detected between bioaugmented and nonbioaugmented systems, except for J13 system which seemed to exert a negative effect on the natural bacterial flora. Hydrocarbons removal efficiencies agreed with changes in bacterial counts reaching 86 and 81% in M10 (bioaugmented) and CC (biostimulated only) systems. Results confirmed the feasibility of the application of bioremediation strategies to reduce hydrocarbon contamination in Antarctic soils and showed that, when soils are chronically contaminated, biostimulation is the best option. Bioaugmentation with hydrocarbon-degrading bacteria at numbers comparable to the total heterotrophic aerobic counts showed by the natural microflora did not improve the process and showed that they would turn the procedure unnecessarily more complex.

Application of Electrolysis to Stimulate Microbial Reductive PCE Dechlorination and Oxidative VC Biodegradation

Abstract: A novel approach was applied to stimulate biodegradation of chloroethenes by a coupled bioelectro-process. In a flow-through column system, microbial dechlorination of tetrachloroethene to cis-dichloroethene, vinyl chloride, and ethene was stimulated by hydrogen produced by water electrolysis. Dechlorinating bacteria (Dehalococcoides spp. and Desulfitobacterium spp.) and also methanogens and homoacetogens were detected in the anaerobic column. Simultaneously, oxidative biodegradation of lower chlorinated metabolites (vinyl chloride) was stimulated by electrolytic oxygen formation in the corresponding aerobic column. The process was stable for more than 100 days and an average removal of approximately 23 μmol/d PCE and 72 μmol/d vinyl chloride was obtained with a current density of 0.05 mA/cm2. Abiotic electrochemical degradation of the contaminants was not observed. Microbial dechlorination correlated with the current densities in the applied range of 0.01−0.05 mA/cm2. The results are promising for enviro...

Performance Assessment of Bioremediation and Natural Attenuation

Abstract: Bioremediation and monitored natural attenuation are among the most cost-effective approaches to manage soil and groundwater contamination by hazardous organic pollutants. However, these remediation alternatives are not universally applicable and may be marginally effective for recalcitrant pollutants if the necessary microbial catabolic capacity is not present or expressed. Thus, regulatory and public approval of bioremediation and natural attenuation requires documentation of the efficacy of microbial degradation of the target pollutants. Performance assessment generally consists of three components: documented contaminant mass loss, geochemical fingerprints associated with biodegradation, and microcosm studies that show direct evidence of biodegradation. More recently, new molecular and isotope fractionation techniques have emerged to complement existing technologies for the forensic analysis and the demonstration of bioremediation and natural attenuation. This critical review examines the current state-of-art in performance assessment methods and discusses future research directions.

Biodegradation of oxo-biodegradable polyethylene

Abstract: Biodegradation of polyethylene and oxobiodegradable polyethylene films was studied in this work. Abiotic oxidation, which is the first stage of oxobiodegradation, was carried out for a period corresponding to 4 years of thermo-oxidation at composting temperatures. The oxidation was followed by biodegradation, which was achieved by inoculating the microorganism Pseudomonas aeruginosa on polyethylene film in mineral medium and monitoring its degradation. The changes in the molecular weight of polyethylene and the concentration of oxidation products were monitored by size exclusion chromatography and Fourier transform infrared (FTIR) spectroscopy, respectively. It has been found that the initial abiotic oxidation helps to reduce the molecular weight of oxo-biodegradable polyethylene and form easily biodegradable product fractions. In the microbial degradation stage, P. aeruginosa is found to form biofilm on polymer film indicating its growth. Molecular weight distribution data for biodegraded oxo-biodegradable polyethylene have shown that P. aeruginosa is able to utilize the low-molecular weight fractions produced during oxidation. However, it is not able to perturb the whole of the polymer volume as indicated by the narrowing of the polymer molecular weight distribution curve toward higher molecular fractions. The decrease in the carbonyl index, which indicates the concentration of carbonyl compounds, with time also indicates the progress of biodegradation.

Pyrene degradation and copper and zinc uptake by Fusarium solani and Hypocrea lixii isolated from petrol station soil

Abstract: Aims: This study aimed to isolate and identify potential polycyclic aromatic hydrocarbon (PAH)-degrading and/or metal-tolerant fungi from PAH-contaminated and metal-contaminated soils. Methods and Results: Pyrene-degrading fungi were isolated from contaminated soil and tested for metal (Cu, Zn and Pb) compound solubilization and metal accumulation. Three strains of Fusarium solani and one of Hypocrea lixii were able to degrade more than 60% of initial supplied pyrene (100 mg l−1) after 2 weeks. The isolates were grown on toxic metal (Cu, Pb and Zn)-containing media: all isolates accumulated Cu in their mycelia to values ranging from c. 5·9 to 10·4 mmol per kg dry weight biomass. The isolates were also able to accumulate Zn (c. 3·7–7·2 mmol per kg dry weight biomass) from zinc phosphate-amended media. None of the isolates accumulated Pb. Conclusions: These fungal isolates appear to show promise for use in bioremediation of pyrene or related xenobiotics and removal of copper and zinc from wastes contaminated singly or in combination with these substances. Significance and Impact of the Study: Microbial responses to mixed organic and inorganic pollution are seldom considered: this research highlights the abilities of certain fungal strains to interact with both xenobiotics and toxic metals and is relevant to other studies on natural attenuation and bioremediation of polluted sites.

Biodegradation of BTEX at high salinity by an enrichment culture from hypersaline sediments of Rozel Point at Great Salt Lake.

Abstract: Aims: The primary goal of this research was to assess the biodegradation of benzene, toluene, ethylbenzene and xylenes in sediment from Great Salt Lake, near Rozel Point, UT. Methods and Results: An enrichment culture that degraded benzene or toluene as the sole carbon source at high salinity was developed from a sediment sample obtained from Rozel Point. The enrichment degraded benzene or toluene within 1, 2 and 5 weeks in the presence of 14%, 23% and 29% NaCl respectively. PCR studies using degenerate primers revealed that degradation occurred primarily via catechol and the meta-cleavage pathway. Molecular analysis showed that the Gammaproteobacteria were the dominant members of the enrichment and that shifts in community composition occurred during benzene metabolism. Conclusions: This study demonstrated that micro-organisms at Rozel Point have the ability to degrade hydrocarbons over a broad range of salinities (1–5 mol l−1 NaCl) and that the members of the Gammaproteobacteria class play an important role in the degradation process. Significance and Impact of the Study: These results are significant as little is known about the fate of petroleum seeps at Rozel Point. Also, the identity of microbes and the key enzymes involved in the degradation steps are important for understanding natural attenuation potential of hydrocarbons.

Dynamics of soil microbial populations involved in 2,4-D biodegradation revealed by FAME-based Stable Isotope Probing.

Abstract: Stable Isotope Probing (SIP) is a powerful tool for analysing the fate of pesticides in soil. Together with FAME (Fatty Acid Methyl Esters), it can help identify biodegradation pathways and recycling into the microbial biomass. The fate of ring-labelled 13C-2,4-dichlorophenoxyacetic acid or 2,4-D (C2,4-D) was determined in soil during a 6-month incubation. The distribution of 13C among the microbial biomass, the CO2 respired, the water, methanol and dichloromethane soluble fractions, and the residual non-extracted bulk soil was measured. Molecular analyses were carried out on the lipid and the non-extractable fractions. After 8 days, about half of the initial amount of C2,4-D was mineralised; the other half remained in soil as non-extractable residues (NER). C2,4-D continued to be mineralised, suggesting that NER were still bioavailable. Analysis of C2,4-D-enriched FAME contained in the lipid fraction suggested that a succession of microbial populations was involved in 2,4-D biodegradation. This is possibly due to the change of 2,4-D availability. The C2,4-D yield coefficient and degrader diversity evolved during the incubation, providing corroboratory evidence that different physiological groups were active during the incubation. The 13C-labelled microbial community was always less diverse than the total community, even at the end of the incubation, suggesting that the cross-feeding community is also a specific part of the total community. This work shows that molecular analysis of 13C-labelled pesticides is a useful tool for understanding both chemical and biological aspects of their fate in soil.

Microbial availability of different forms of phenanthrene in soils.

Abstract: Microbial degradation is the most important removal process for hydrophobic organic compounds (HOCs) in soil or sediment, and chemical availability is often a governing factor However, the availab

Populations of heavy fuel oil-degrading marine microbial community in presence of oil sorbent materials

Abstract: Aims: To investigate the feasibility of applying sorbent material X-Oil® in marine oil spill mitigation and to survey the interactions of oil, bacteria and sorbent. Methods and Results: In a series of microcosms, 25 different treatments including nutrient amendment, bioaugmentation with Alcanivorax borkumensis and application of sorbent were tested. Microbial community dynamics were analysed by DNA fingerprinting methods, RISA and DGGE. Results of this study showed that the microbial communities in microcosms with highly active biodegradation were strongly selected in favour of A. borkumensis. Oxygen consumption measurements in microcosms and gas chromatography of oil samples indicated the fast and intense depletion of linear alkanes as well as high oxygen consumption within 1 week followed by consequent slower degradation of branched and polyaromatic hydrocarbons. Conclusion: Under given conditions, A. borkumensis was an essential organism for biodegradation, dominating the biofilm microbial community formation and was the reason of emulsification. Significance and Impact of the Study: This study strongly emphasizes the pivotal importance of A. borkumensis as an essential organism in the initial steps of marine hydrocarbon degradation. Interaction with the sorbent material X-Oil® proved to be neutral to beneficial for biodegradation and also promoted the growth of yet unknown micro-organisms.