Aerobic Biodegradation of High Explosives, Phase I - HMX

The Pantex facility near Amarillo, Texas, has soil and groundwater contaminated with differing combinations of high explosives (HEs), including hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX), octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine (HMX), and 2,4,6-trinitrotoluene (TNT). This project was concerned with direct treatment of HMX in groundwater withdrawn at this plant. Several physical and chemical treatment schemes for the treatment of HMX have been successful. However, the successful biological treatment of HMX has been limited to anaerobic environments. The objective of this work was to identify microbial consortia and amendments capable of aerobically biodegrading HMX in water. Microbial consortia and amendments employed were provided as livestock manure and soil with its indigenous flora from nearby historically contaminated sites. Possible losses of HMX by nonbiological means such as adsorption and photolysis were accounted for by appropriate abiotic experiments. Loss of the parent compound was measured by high-performance liquid chromatography, using a modification of U.S. Environmental Protection Agency (EPA) Method 8330. Results varied from no degradation to a reduction of parent HMX from 6 to 1 mg/L in 5.2 days. Evidence for biodegradation was supported by the appearance of metabolites. Metabolite identification was performed at Oak Ridge National Laboratory. Five metabolites (four intermediate and one final) were identified.     

Efficacy of Aldicarb to Rotylenchulus reniformis and Biodegradation in Cotton Field Soils

The microbial degradation of aldicarb was examined in the greenhouse using soil from four cotton fields with a history of aldicarb use. The addition of aldicarb at 0.59 kg a.i./ha to natural soil increased Rotylenchulus reniformis numbers 6.6% in one soil and decreased R. reniformis numbers only 25.8% in another soil as compared to the corresponding natural soil without aldicarb. The use of increasing rates of aldicarb did not increase the efficacy of aldicarb in these soils. Rotylenchulus reniformis numbers were reduced 39.8, 22.6, and 6.8%, and increased 5.7% for aldicarb applied at 0.29, 0.59, 0.85, and 1.19 kg a.i./ha, respectively, in one natural soil. In another natural soil, R. reniformis numbers were reduced 42.5 and 21.9% for aldicarb applied at 0.29 and 1.19 kg a.i./ha, respectively, but increased 19.1 and 10.6% for aldicarb applied at 0.59 and 0.85 kg a.i./ha, respectively. Autoclaving the soils restored aldicarb toxicity in both soils, and R. reniformis numbers were reduced 96 and 99%, respectively, as compared to autoclaved soil without aldicarb. Bacterial populations were greater in the natural soils where aldicarb did not reduce R. reniformis numbers relative to the same soils that were autoclaved. However, no bacterial species was consistently associated with aldicarb degradation.     

In Situ Bioremediation of Carbon Tetrachloride: Field Test Results

Results of a 7-month field test of in situ bioremediation of carbon tetrachloride (CT) under denitrifying conditions are reported. The demonstration was conducted in a portion of a several-square-mile CT and nitrate plume. Pretest CT and nitrate levels were 12.5 ± 0.14 μM and 3.87 ± 0.26 mM, respectively. During the test, the CT concentration dropped by 3.71 ± μM, representing an estimated total of 1.42 kg of CT destroyed. The total quantities of acetate and nitrate injected during the demonstration were 221 and 300 kg, respectively. Nitra injection was composed of short-duration, high-concentration pulses added with acetate pulses, and continuously injected nitrate that was present in the surrounding groundwater. Biomass was distributed successfully within the flow field without fouling the injection well. Levels of planktonic denitrifiers increased 10- and 5-fold in monitoring wells 3 and 6 m downstream from the injection well, respectively. A distributed growth pattern was indicated through reductions in the concentrations of acetate, nitrate, and nitrite between these wells. Chloroform (CF) production was controlled by adjusting acetate and nitrate pulsing to keep low levels of nitrate in most of the flow field. Under this regime only 1 mol% of transformed CT appeared as CF. In contrast, approximately 33 mol% of CT transformed to appear as CF when nutrient-feeding conditions were adjusted so that nitrate was consistently absent.     

In Situ Detection of an Uncultured Predominant Bacillus in Dutch Grassland Soils

Uncultured predominant Bacillus ribotype DA001 in Dutch Drentse A grassland soils, as revealed by its 16S rRNA sequence, was detected in soil by fluorescent whole-cell in situ hybridization. A prominent rod-shaped cell type was identified in bacterial suspensions prepared from soil by a multiple 16S rRNA probing approach.     

Remediation of Pb and Cd Polluted Soils Using In Situ Immobilization and Phytoextraction Techniques

In situ immobilization and phytoextraction techniques have been used for remediation of Pb and Cd polluted soils. Three rates (0.25, 0.5 and 1.0%) of seven immobilizing agents (cement, slag, phosphate rock, bitumen, Fe- and Al-gels, and δ-MnO₂) were tested on three soils containing various levels of Pb (48–192.0 ug/g) and Cd (0.75–3.45 ug/g). All immobilizing agents reduced the plant available Pb and Cd as extracted by DTPA (diethylenetriaminepentaacetic acid). The effectiveness of the various agents in immobilizing Pb and Cd followed the descending order: bitumen > cement > slag > Fe-gel > Al-gel > phosphate rock > δ -MnO₂. Cement and phosphate rock fixed Pb and Cd mainly in the carbonate form, whereas the slag, bitumen, Fe-gel, Al-gel and δ -MnO₂ fixed the metals mainly in the oxide form.

The results of pot experiment proved the high ability of barnyard grass (Echinnochloa stagninum) to accumulate elevated amounts of Pb and Cd (ranging from 291–2421 and 6.1–45.9 ug metal/g dry matter, respectively). These amounts are higher than those reported for hyperaccumulators, particularly for Pb. The amounts of Pb and Cd removed by barnyard grass represent, on average, 46 and 72% of their initial total contents in the soils, respectively. These results proved that, without any other soil treatments, barnyard grass is highly efficient in removing considerable amounts of Pb and Cd from polluted soil within a reasonably short period of time. Therefore, use of barnyard grass for the phytoremediation of Pb and Cd polluted soils is feasible and recommended as an environmentally safe and cheap method. The most significant finding of this study is to name the barnyard grass as an efficient lead accumulator plant.     

Microbiological and Geochemical Heterogeneity in an In Situ Uranium Bioremediation Field Site

The geochemistry and microbiology of a uranium-contaminated subsurface environment that had undergone two seasons of acetate addition to stimulate microbial U(VI) reduction was examined. There were distinct horizontal and vertical geochemical gradients that could be attributed in large part to the manner in which acetate was distributed in the aquifer, with more reduction of Fe(III) and sulfate occurring at greater depths and closer to the point of acetate injection. Clone libraries of 16S rRNA genes derived from sediments and groundwater indicated an enrichment of sulfate-reducing bacteria in the order Desulfobacterales in sediment and groundwater samples. These samples were collected nearest the injection gallery where microbially reducible Fe(III) oxides were highly depleted, groundwater sulfate concentrations were low, and increases in acid volatile sulfide were observed in the sediment. Further down-gradient, metal-reducing conditions were present as indicated by intermediate Fe(II)/Fe(total) ratios, lower acid volatile sulfide values, and increased abundance of 16S rRNA gene sequences belonging to the dissimilatory Fe(III)- and U(VI)-reducing family Geobacteraceae. Maximal Fe(III) and U(VI) reduction correlated with maximal recovery of Geobacteraceae 16S rRNA gene sequences in both groundwater and sediment; however, the sites at which these maxima occurred were spatially separated within the aquifer. The substantial microbial and geochemical heterogeneity at this site demonstrates that attempts should be made to deliver acetate in a more uniform manner and that closely spaced sampling intervals, horizontally and vertically, in both sediment and groundwater are necessary in order to obtain a more in-depth understanding of microbial processes and the relative contribution of attached and planktonic populations to in situ uranium bioremediation.     

Rapid Acyl-Homoserine Lactone Quorum Signal Biodegradation in Diverse Soils

Signal degradation impacts all communications. Although acyl-homoserine lactone (acyl-HSL) quorum-sensing signals are known to be degraded by defined laboratory cultures, little is known about their stability in nature. Here, we show that acyl-HSLs are biodegraded in soils sampled from diverse U.S. sites and by termite hindgut contents. When amended to samples at physiologically relevant concentrations, ¹⁴C-labeled acyl-HSLs were mineralized to ¹⁴CO₂ rapidly and, at most sites examined, without lag. A lag-free turf soil activity was characterized in further detail. Heating or irradiation of the soil prior to the addition of radiolabel abolished mineralization, whereas protein synthesis inhibitors did not. Mineralization exhibited an apparent K_m of 1.5 μM acyl-HSL, ca. 1,000-fold lower than that reported for a purified acyl-HSL lactonase. Under optimal conditions, acyl-HSL degradation proceeded at a rate of 13.4 nmol·h⁻¹·g of fresh weight soil⁻¹. Bioassays established that the final extent of signal inactivation was greater than for its full conversion to CO₂ but that the two processes were well coupled kinetically. A most probable number of 4.6 × 10⁵ cells·g of turf soil⁻¹ degraded physiologically relevant amounts of hexanoyl-[1-¹⁴C]HSL to ¹⁴CO₂. It would take chemical lactonolysis months to match the level of signal decay achieved in days by the observed biological activity. Rapid decay might serve either to quiet signal cross talk that might otherwise occur between spatially separated microbial aggregates or as a full system reset. Depending on the context, biological signal decay might either promote or complicate cellular communications and the accuracy of population density-based controls on gene expression in species-rich ecosystems.     

Phenanthrene Biodegradation in Soils Using an Antarctic Bacterial Consortium

Biodegradation of polycyclic aromatic hydrocarbons (PAHs) in Antarctic soils is limited by low temperatures, lack of adequate levels of nutrients, low number of PAH-tolerant members in the autochthonous microbiota and low bioavailability of contaminants. In the present work, microcosms systems (performed in 1-L glass flasks containing Antarctic soil supplemented with 1744 ppm of phenanthrene) were used to study (i) the effect of biostimulation with a complex organic source of nutrients (fish meal) combined with a surfactant (Brij 700); (ii) the effect of bioaugmentation with a psychrotolerant PAH-degrading bacterial consortium (M10); (iii) the effect of the combination of both strategies. The authors found that combination of biostimulation and bioaugmentation caused a significant removal (46.6%) of phenanthrene after 56 days under Antarctic environmental conditions. When bioaugmentation or biostimulation were applied separately, nonsignificant reduction in phenanthrene concentration was observed. Microtox test showed a low increase in toxicity only in the most efficient system. Results proved that “in situ” bioremediation process of phenanthrene-contaminated soils is possible in Antarctic stations. In addition, inoculation with a psychrotolerant PAH-degrading bacterial consortium in association with a mix of fish meal and a high-molecular-weight surfactant improved phenanthrene removal and should be the selected strategy when the number of hydrocarbons degrading bacteria in the target soil is low.     

Trichloroethene Biodegradation Potential in Wetland Soils and Paleowetland Sediments

Trichloroethene (TCE) plumes extend north-northeast toward the Ohio River from the Paducah Gaseous Diffusion Plant (PGDP), a Superfund site in the Gulf Coastal Plain of western Kentucky. Wetlands in the floodplain are in the paths of these plumes, and on-site contamination has migrated downward from the Regional Gravel Aquifer (RGA) into the upper McNairy Formation, which overlies a bedrock aquifer. Intrinsic biodegradation in these two environments at the margins of the RGA could limit further contaminant migration and ecosystem or water-quality degradation. To assess cometabolic biodegradation potential in these uncontaminated environments, we attempted to culture and enumerate methanogens, sulfate- and Fe(III)-reducers, and methanotrophs, which have been implicated elsewhere as TCE degraders. Soil samples were collected at three wetland sites in the floodplain. McNairy sediments were collected beneath one of the suspected source areas at PGDP. Methanogens, sulfate reducers, and methanotrophs were abundant in wetland soils, with populations generally decreasing with depth. Methanogens were the only group cultured from McNairy sediments, and they showed little activity compared with wetland methanogen cultures. TCE loss in methanogenic batch cultures by chemoautotrophic and acetoclastic methanogens was monitored, but no significant degradation was observed.     

北方冬小麦/夏玉米轮作体系土壤氨挥发的原位测定

采用通气法测定了北方冬小麦／夏玉米轮作体系田间土壤的原位氨挥发。结果表明,与冬小麦施用基肥相比,夏玉米追肥后土壤的氨挥发速率很快升高,但军发高峰期持续时间较短,最大氨挥发速率亦低于冬小麦,冬小麦拨节期追肥,氨挥发速率低且呈波动变化,未出现高峰值,从整个生长季节来看,冬小麦不施氮和每公顷施氮120、240、360kg时的累计挥发量分别为4．4、6．9、13．0、38．4kgN/hm^2,夏玉米为8．4、15．1、20．0、26．1kgN/hm^2。按我国北方冬小麦／夏玉米播种面积1864．4万hm^2计,每年由氨挥发向大气排放的氨素达23．8－120．2万t,其中17．2－96．4万t来自氮肥,相当于氮肥投入的2．1％－9．5％。     

A Long-Term Field Study of In Situ Bioremediation in a Fractured Conglomerate Trichloroethene Source Zone

ABSTRACT An 8-year bioremediation field study was conducted in a trichloroethene (TCE)-contaminated, highly indurated (i.e., hard), recharge-limited (i.e., contains little water) conglomerate where common remediation strategies, such as groundwater recirculation and direct push installation of a large well network, could not be used. A tracer test using isotopically distinct water from the Hetch Hetchy Reservoir indicated that remediation fluids mainly flowed through fractures and sand lenses in the conglomerate. This was confirmed during in situ bioremediation of the site, in which Dehalococcoides (from a bioaugmentation culture) and volatile fatty acids (from injection of lactate) were the most accurate indicators of transport between wells. Some contaminants were also displaced out of the area due to injection of tracer water. Despite these difficulties, dissolved contaminant mass decreased by an estimated 80% by the end of the test, reaching the lowest values ever recorded at this site. Furthermore, the persistence of ethene 4 years after bioaugmentation suggests that the dechlorinating capacity of the remaining microbial community is comparable to the matrix diffusion of TCE into the dissolved phase.     

In Situ Detection of High Levels of Horizontal Plasmid Transfer in Marine Bacterial Communities

Gene transfer of the conjugative plasmid pBF1 from Pseudomonas putida to indigenous bacteria in seawater was investigated with a detection system for gene transfer based on the green fluorescent protein (GFP) (C. Dahlberg et al., Mol. Biol. Evol. 15:385–390, 1998). pBF1 was tagged with the gfp gene controlled by a lac promoter which is down regulated in the donor cell by a chromosomal repressor (lacI^q). The plasmid donor cells (Pseudomonas putida KT2442) subsequently do not express gfp. Transfer to recipient strains lacking the repressor results in expression of gfp. The transconjugant can subsequently be detected by epifluorescence microscopy on a single-cell level. By using this method, transfer of pBF1::gfp and expression of the gfp gene were first shown to occur during nutrient-limiting conditions to several defined recipient bacteria in artificial seawater. Second, we measured transfer of pBF1 from P. putida to the marine bacterial community directly in seawater samples, on a single-cell level, without limiting the detection of gene transfer to the culturable fraction of bacteria. Plasmid transfer was detected on surfaces and in bulk seawater. Seawater bacteria with different morphologies were shown to receive the plasmid. Gene transfer frequencies of 2.3 × 10⁻⁶ to 2.2 × 10⁻⁴ transconjugants per recipient were recorded after 3 days of incubation.     

Microbial Population Dynamics Associated with Crude-Oil Biodegradation in Diverse Soils

Soil bacterial population dynamics were examined in several crude-oil-contaminated soils to identify those organisms associated with alkane degradation and to assess patterns in microbial response across disparate soils. Seven soil types obtained from six geographically distinct areas of the United States (Arizona, Oregon, Indiana, Virginia, Oklahoma, and Montana) were used in controlled contamination experiments containing 2% (wt/wt) crude oil spiked with [1-¹⁴C]hexadecane. Microbial populations present during hydrocarbon degradation were analyzed using both 16S rRNA gene sequence analysis and by traditional methods for cultivating hydrocarbon-oxidizing bacteria. After a 50-day incubation, all seven soils showed comparable hydrocarbon depletion, where >80% of added crude oil was depleted and approximately 40 to 70% of added [¹⁴C]hexadecane was converted to ¹⁴CO₂. However, the initial rates of hydrocarbon depletion differed up to 10-fold, and preferential utilization of shorter-chain-length n-alkanes relative to longer-chain-length n-alkanes was observed in some soils. Distinct microbial populations developed, concomitant with crude-oil depletion. Phylogenetically diverse bacterial populations were selected across different soils, many of which were identical to hydrocarbon-degrading isolates obtained from the same systems (e.g., Nocardioides albus, Collimonas sp., and Rhodococcus coprophilus). In several cases, soil type was shown to be an important determinant, defining specific microorganisms responding to hydrocarbon contamination. However, similar Rhodococcus erythropolis-like populations were observed in four of the seven soils and were the most common hydrocarbon-degrading organisms identified via cultivation.     

Fenton's Reagent-Based In Situ Chemical Oxidation Treatment of Saturated and Unsaturated Soils at a Historic Railroad Site

A targeted treatment program utilizing in situ chemical oxidation was used to remediate diesel fuel-derived petroleum compounds in unsaturated and saturated soils at a historic railroad facility. This program consisted of multiple injections at varying depths within temporary Geoprobe® injection points. The actual treatment time was less than 3 months. Overall concentrations of volatile and semivolatile organic petroleum compounds were reduced by approximately 70%, while the total petroleum hydrocarbon concentration was reduced by nearly 50%. Treatment efficiency in unsaturated soil was similar to that in saturated soil. The results of the remedial program indicate that the effect of grain size of the subsurface materials on treatment efficacy is significant. The project has shown that the use of this technology can be as effective as other in situ treatment technologies used for treating subsurface diesel fuel contamination.     

Biodegradation of Aliphatic vs. Aromatic Hydrocarbons in Fertilized Arctic Soils

The objectives of this study were to (1) test a simple bioremediation treatment strategy in the Arctic and (2) examine the effect of fertilization on the degradation of aliphatic and aromatic hydrocarbons. The site is a coarse sand pad that once supported fuel storage tanks. Concentrations of diesel-range organics at the beginning of the study (July 1996) ranged from 250 to 860 mg/kg soil. Replicate field plots treated with fertilizer yielded final concentrations of 0, 50, 100, or 200 mg N/kg soil. Soil samples were collected three times during the thaw season and analyzed for physical and chemical properties, microbial populations and activities, and concentrations of semivolatile hydrocarbons. Soil pH and soil-water potentials declined as a result of fertilizer application. Addition of fertilizer significantly increased soil respiration potentials, but not the populations of microorganisms measured. Fertilizer addition also resulted in ∼50% loss of measured aliphatic and aromatic hydrocarbons in surface and subsurface soils. For fertilized plots, hydrocarbon loss was not related to the amount of fertilizer added. Losses of aliphatic hydrocarbons were attributed to biotic processes, whereas losses of aromatic hydrocarbons likely were a result of both biotic and abiotic processes.     

Monitoring of Ralstonia eutropha KT1 in Groundwater in an Experimental Bioaugmentation Field by In Situ PCR

Ralstonia eutropha KT1, which degrades trichloroethylene, was injected into the aquifer after activation with toluene, and then the number of bacteria was monitored by in situ PCR targeting the phenol hydroxylase gene and by fluorescent in situ hybridization (FISH) targeting 16S rRNA. Before injection of the bacterial suspension, the total concentration of bacteria in the groundwater was approximately 3 × 10⁵ cells/ml and the amount of Ralstonia and bacteria carrying the phenol hydroxylase gene as a percentage of total bacterial cells was less than 0.1%. The concentration of bacteria carrying the phenol hydroxylase gene detected by in situ PCR was approximately 3 × 10⁷ cells/ml 1 h after injection, and the concentration of Ralstonia detected by FISH was similar. The number of bacteria detected by in situ PCR was similar to that detected by FISH 4 days after the start of the extraction of groundwater. On and after day 7, however, the number of bacterial cells detected by FISH was less than that detected by in situ PCR.     

Biodegradation of the Phenylurea Herbicide Isoproturon and its Metabolites in Agricultural Soils

Degradation of the phenylurea herbicide isoproturon (3-(4-isopropylphenyl)-1,1-dimethylurea) and several phenylurea and aniline metabolites was studied in agricultural soils previously exposed to isoproturon. The potential for degradation of the demethylated metabolite 3-(4-isopropylphenyl)-1-methylurea in the soils was much higher compared to isoproturon. In the most active soil only 6% of added ¹⁴C-labelled isoproturon was mineralised to ¹⁴C₂ within 20 days while in the same period 45% of added ¹⁴C-labelled 3-(4-isopropylphenyl)-1-methylurea was mineralized. This indicates that the initial N-demethylation may be a limiting step in the complete mineralization of isoproturon. Repeated addition of 3-(4-isopropylphenyl)-1-methylurea to the soil and further subculturing in mineral medium led to a highly enriched mixed bacterial culture with the ability to mineralize 3-(4-isopropylphenyl)-1-methylurea.The culture did not degrade either isoproturon or the didemethylatedmetabolite 3-(4-isopropylphenyl)-urea when provided as sole source of carbon and energy. The metabolite 4-isopropyl-aniline was also degraded and utilised for growth, thus indicating that 3-(4-isopropylphenyl)-1-methylurea is degraded byan initial cleavage of the methylurea-group followed by mineralizationof the phenyl-moiety. Several attempts were made to isolate pure bacterial cultures degrading 3-(4-isopropylphenyl)-1-methylurea or 4-isopropyl-aniline,but they were not successful.     

In Situ Detection of Freshwater Fungi in an Alpine Stream by New Taxon-Specific Fluorescence In Situ Hybridization Probes

New rRNA-targeting oligonucleotide probes permitted the fluorescence in situ hybridization (FISH) identification of freshwater fungi in an Austrian second-order alpine stream. Based on computer-assisted comparative sequence analysis, nine taxon-specific probes were designed and evaluated by whole-fungus hybridizations. Oligonucleotide probe MY1574, specific for a wide range of Eumycota, and the genus (Tetracladium)-specific probe TCLAD1395, as well as the species-specific probes ALacumi1698 (Alatospora acuminata), TRIang322 (Tricladium angulatum), and Alongi340 (Anguillospora longissima), are targeted against 18S rRNA, whereas probes TmarchB10, TmarchC1_1, TmarchC1_2, and AlongiB16 are targeted against the 28S rRNA of Tetracladium marchalianum and Anguillospora longissima, respectively. After 2 weeks and 3 months of exposure of polyethylene slides in the stream, attached germinating conidia and growing hyphae of freshwater fungi were accessible for FISH. Growing hyphae and germinating conidia on leaves and in membrane cages were also visualized by the new FISH probes.