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Applied Microbiology and Biotechnology (v.48, #6)
Petroleum hydrocarbon bioremediation: sampling and analytical techniques, in situ treatments and commercial microorganisms currently used by A. Korda; P. Santas; A. Tenente; R. Santas (pp. 677-686).
The sampling and analytical methods, along with available microorganisms, used for in situ hydrocarbon bioremediation are reviewed. Each treatment method is briefly described and its advantages and limitations pertaining to potential applications are evaluated. Bioremediation provides cost-effective, contaminant- and substrate-specific treatments equally successful in reducing the concentrations of single compounds or mixtures of biodegradable materials. In situ treatments rarely yield undesirable byproducts, but precautions and preliminary baseline tests are always recommended. Sampling methods should adhere to good laboratory and field practices and usually do not require highly trained personnel. Analytical methods vary in sensitivity, cost, duration of sample analysis and personnel training required. Voucher specimens of bacterial strains used in bioremediation exist in various repositories (e.g. ATCC, DSM, etc.) or are commercially available, and are usually covered by patent rights. Each one of these strains may yield spectacular results in vitro for specific target compounds. However, the overall success of such strains in treating a wide range of contaminants in situ remains limited. The reintroduction of indigenous microorganisms isolated from the contaminated site after culturing seems to be a highly effective bioremediation method, especially when microorganism growth is supplemented by oxygen and fertilizers.
Microbes and metals by H. L. Ehrlich (pp. 687-692).
Many base metals and a few precious metals as well as some metalloids can be enzymatically or non-enzymatically concentrated and dispersed by microbes in their environment. Some of these activities are commercially exploited or have a potential for it. This article summarizes these activities and the commercial or potentially commercial use of some of them.
A novel process of inosine 5′-monophosphate production using overexpressed guanosine/inosine kinase by H. Mori; A. Iida; T. Fujio; S. Teshiba (pp. 693-698).
A novel process for producing inosine 5′-monophosphate (5′-IMP) has been demonstrated. The process consists of two sequential bioreactions; the first is a fermentation of inosine by a mutant of Corynebacterium ammoniagenes, and the second is a unique phosphorylating reaction of inosine by guanosine/inosine kinase (GIKase). GIKase was produced by an Escherichia coli recombinant strain, MC1000(pIK75), which overexpressed the enzyme up to 50% of the total cellular protein. The overproducing plasmid, pIK75, which was randomly screened out from deletion plasmids with various lengths of intermediate sequence between the E. coli trpL Shine-Dalgarno sequence, derived from the vector plasmid, and the start codon of the GIKase structural gene. In pIK75, the start ATG was placed 16 bp downstream of the trpL Shine-Dalgarno sequence under the control of the E. coli trp promoter. Fermentation of inosine and its phosphorylation were sequentially performed in a 5-l jar fermenter. At the end of inosine fermentation by C. ammoniagenes KY13761, culture broth of MC1000(pIK75) was mixed with that of KY13761 to start the phosphorylating reaction. Inosine in the reaction mixture was stoichiometrically phosphorylated, and 91 mM 5′-IMP accumulated in a 12-h reaction. This new biological process has advantages over traditional methods for producing 5′-IMP.
Enzymatic production of ethyl (R )-4-chloro-3-hydroxybutanoate: asymmetric reduction of ethyl 4-chloro-3-oxobutanoate by an Escherichia coli transformant expressing the aldehyde reductase gene from yeast by M. Kataoka; L. P. S. Rohani; K. Yamamoto; M. Wada; H. Kawabata; K. Kita; H. Yanase; S. Shimizu (pp. 699-703).
The asymmetric reduction of ethyl 4-chloro-3-oxobutanoate (COBE) to ethyl (R)-4-chloro-3-hydroxybutanoate (CHBE) using Escherichia coli JM109 (pKAR) cells expressing the aldehyde reductase gene from Sporobolomyces salmonicolor AKU4429 as a catalyst was studied. The reduction required NADP+, glucose and glucose dehydrogenase for NADPH regeneration. In an aqueous system, the substrate was unstable, and inhibition of the reaction by the substrate was also observed. Efficient conversion of COBE to (R)-CHBE with a satisfactory enantiomeric excess (ee) was attained on incubation with transformant cells in an n-butyl acetate/water two-phase system containing the above NADPH-regeneration system. Under the optimized conditions, with the periodical addition of COBE, glucose and glucose dehydrogenase, the (R)-CHBE yield reached 1530 mM (255 mg/ml) in the organic phase, with a molar conversion yield of 91.1% and an optical purity of 91% ee. The calculated turnover of NADP+, based on the amounts of NADP+ added and CHBE formed, was about 5100 mol/mol.
Over-production of stereoselective nitrile hydratase from Pseudomonas putida 5B in Escherichia coli : activity requires a novel downstream protein by S. Wu; R. D. Fallon; M. S. Payne (pp. 704-708).
The stereoselective nitrile hydratase (NHase) from Pseudomonas putida 5B has been over-produced in Escherichia coli. Maximal enzyme activity requires the co-expression of a novel downstream gene encoding a protein (P14K) of 127 amino acids, which shows no significant homology to any sequences in the protein database. Nitrile hydratase produced in transformed E. coli showed activity as high as 472 units/mg dry cell (sixfold higher than 5B), and retained the stereoselectivity observed in the native organism. Separated from the end of the β subunit by only 51 bp, P14K appears to be part of an operon that includes the α and β structural genes of nitrile hydratase, and other potential coding sequences.
Evaluation of Candida acidothermophilum in ethanol production from lignocellulosic biomass by K. L. Kadam; S. L. Schmidt (pp. 709-713).
A Saccharomyces-cerevisiae-based simultaneous saccharification and fermentation (SSF) of lignocellulosic biomass is limited to an operating temperature of about 37 °C, and even a small increase in temperature can have a deleterious effect. This points to a need for a more thermotolerant yeast. To this end, S. cerevisiae D5A and a thermotolerant yeast, Candida acidothermophilum, were tested at 37 °C, 40 °C, and 42 °C using dilute-acid-pretreated poplar as substrate. At 40 °C, C. acidothermophilum produced 80% of the theoretical ethanol yield, which was higher than the yield from S.cerevisiae D5A at either 37 °C or 40 °C. At 42 °C, C. acidothermophilum showed a slight drop in performance. On the basis of preliminary estimates, SSF with C. acidothermophilum at 40 °C can reduce cellulase costs by about 16%. Proportionately greater savings can be realized at higher temperatures if such a high-temperature SSF is feasible. This demonstrates the advantage of using thermophilic or thermotolerant yeasts.
Liquid fermentation to produce biomass of mycoherbicidal strains of Fusarium oxysporum by K. P. Hebbar; R. D. Lumsden; S. M. Poch; J. A. Lewis (pp. 714-719).
Conditions for optimizing spore production, especially chlamydospores, by host-specific mycoherbicidal strains of Fusarium oxysporum causing vascular wilts in coca (Erythroxylum coca) and poppy (Papaver somniferum) were studied in 2.5-1 fermentors. The fermentor dissolved oxygen and pH had significant effects on the growth characteristics of F. oxysporum strains. The effect of the fungal strain, however was not significant for most of the variables studied except for chlamydospore formation. After 14 days of fermentation, the spore types produced were microconidia and chlamydospores, with very little production of macroconidia. While the total viable counts were significantly higher under high than under low dissolved O2, the chlamydospore counts were significantly higher under low than under high dissolved O2. The percentage of chlamydospores obtained, as a proportion of total viable was significantly higher when the fermentor pH was increased, than when it was not. Scaling-up the liquid fermentation to 20 l, yielded log10 c = 6.8 (where c = chlamydospores ml−1) after 14 days' fermentation, with biomass viable counts of log10 v∼8.0 (where v = viable counts g−1 air-dried biomass). A single-step liquid fermentation reported in this study increased chlamydospore yields and reduced the time required for their production with techniques currently available from 5 weeks to less than 2 weeks.
The adverse effect of nitrogen limitation and excess-cellobiose on Fibrobacter succinogenes S85 by G. Maglione; J. B. Russell (pp. 720-725).
Fibrobacter succinogenes S85 cultures that were cellobiose-limited converted cellobiose to succinate and acetate, produced little glucose or cellotriose, maintained an intracellular ATP concentration of 4.1 mM and a membrane potential of 140 mV for 24 h, did not lyse at a rapid rate once they had reached stationary phase, and had a most probable number of viable cells that was greater than 106/ml. When the cellobiose concentration was increased 6-fold (5 mM to 30 mM), ammonia was depleted and the cultures left 10 mM cellobiose. Cultures provided with excess cellobiose produced succinate and acetate while they were growing, but there was little increase in fermentation acids after the ammonia was depleted and growth ceased. The stationary-phase, cellobiose-excess cultures had a lysis rate that was 7-fold faster than that of the cellobiose-limited cultures, and the most probable number was only 3.3 × 103 cells/ml. The stationary-phase, cellobiose-excess cultures had 2.5 times as much cellular polysaccharide as the cellobiose-limited cultures, but the intracellular ATP and membrane potential were very low (0.1 mM and 40 mV respectively). Methylglyoxal, a potentially toxic end-product of carbohydrate fermentation, could not be detected, and fresh inocula grew rapidly in spent medium that was supplemented with additional ammonia. Stationary-phase, cellobiose-excess cultures converted cellobiose to glucose and cellotriose, but the apparent K m of cellotriose formation was 15-fold lower than the K m of glucose production (0.7 mM compared to 10 mM).
Production of indole-3-acetic acid by mutant strains of Ustilago maydis (maize smut / huitlacoche) by M. E. Sosa-Morales; F. Guevara-Lara; V. M. Martínez-Juárez; O. Paredes-López (pp. 726-729).
Production of indole-3-acetic acid (IAA) by four strains of the maize pathogen Ustilago maydis was analyzed. The fungus induces gall formation on its host plant and IAA production by U. maydis may be required as a pathogenicity or virulence factor. The study included the FB2 wild-type strain and the 103, 130FZ and 130FT mutants. Results show that treatment with clofibric acid, alone or in combination with UV light, can be used to obtain U. maydis strains with defective IAA production in vitro, as quantified with the Salkowski reagent and by HPLC. The strain with the lowest production was 130FT, and its peak IAA level represented only 16% of the highest value obtained for the FB2 wild-type strain (124 μg/ml).
Optimization of microbial transglutaminase production using experimental designs by M. Junqua; R. Duran; C. Gancet; P. Goulas (pp. 730-734).
In prokaryotes, transglutaminase (TGase) has been found only in actinomycetes from the genus Streptoverticillium. The role of this TGase, as well as the mechanism regulating the enzyme expression, are still unknown. In order to improve TGase production by Streptoverticillium cinnamoneum CBS 683.68 and simultaneously elucidate the relationship between growth and TGase activity, we decided to study these two responses using different designs of statistical analysis. Among the five factors tested, casein, glycerol, peptones, yeast extract and oligoelements, only oligoelements were found to have no effect either on growth or on TGase production in a complete factorial design. The two factors casein and glycerol were found to have a highly significant effect on both dry weights and TGase activity in a Box-Behnken design used to improve the model. Finally, the TGase activity was increased three times to reach 0.331±0.038 U/ml with optimum concentrations of casein (38.4 g/l) and glycerol (31.2 g/l) calculated with the help of a composite design. In the course of these experiments, the two responses varied in the same way, demonstrating that growth and TGase production were tightly correlated under the conditions described. However, TGase was produced during the stationary phase of growth in optimized medium, indicating that the enzyme production could be induced.
Regulation of lysine ɛ-aminotransferase by carbon source and lack of control by phosphate in Streptomyces clavuligerus by N. Rius; A. L. Demain (pp. 735-737).
Cephalosporin production by Streptomyces clavuligerus is known to be negatively regulated by carbon sources, e.g., glycerol and starch, and by phosphate at high concentrations. Formation of lysine ɛ-aminotransferase (LAT) activity, the first enzyme of the biosynthetic pathway, was affected by a high concentration of carbon source. Whereas 3% starch more than doubled LAT activity production as compared to 1% starch, 3% glycerol repressed LAT activity formation by 20%–30%. LAT activity production was not affected by 100 mM K2HPO4. Our results thus show that the negative effects of 2% glycerol and 3% starch and 100 mM phosphate on cephalosporin production are not due to an effect on production of LAT activity. However, repression of LAT activity by 3% glycerol would be expected to play a negative role in antibiotic production.
Bacterial degradation of styrene in waste gases using a peat filter by M. Arnold; A. Reittu; A. von Wright; P. J. Martikainen; M.-L. Suihko (pp. 738-744).
A biofiltration process was developed for styrene-containing off-gases using peat as filter material. The average styrene reduction ratio after 190 days of operation was 70% (max. 98%) and the mean styrene elimination capacity was 12 g m−3 h−1 (max. 30 g m−3 h−1). Efficient styrene degradation required addition of nutrients to the peat, adjustment of the pH to a neutral level and efficient control of the humidity. Maintenance of the water balance was easier in a down-flow than in an up-flow process, the former consequently resulting in much better filtration efficiency. The optimum operation temperature was around 23 °C, but the styrene removal was still satisfactory at 12 °C. Seven different bacterial isolates belonging to the genera Tsukamurella, Pseudomonas, Sphingomonas, Xanthomonas and an unidentified genus in the γ group of the Proteobacteria isolated from the microflora of active peat filter material were capable of styrene degradation. The isolates differed in their capacity to decompose styrene to carbon dioxide and assimilate it to biomass. No toxic intermediate degradation products of styrene were detected in the filter outlet gas or in growing cultures of isolated bacteria. The use of these isolates in industrial biofilters is beneficial at low styrene concentrations and is safe from both the environmental and public health points of view.
Bioremediation of pentachlorophenol-contaminated soil by bioaugmentation using activated soil by C. Barbeau; L. Deschênes; D. Karamanev; Y. Comeau; R. Samson (pp. 745-752).
The use of an indigenous microbial consortium, pollutant-acclimated and attached to soil particles (activated soil), was studied as a bioaugmentation method for the aerobic biodegradation of pentachlorophenol (PCP) in a contaminated soil. A 125-l completely mixed soil slurry (10% soil) bioreactor was used to produce the activated soil biomass. Results showed that the bioreactor was very effective in producing a PCP-acclimated biomass. Within 30 days, PCP-degrading bacteria increased from 105 cfu/g to 108 cfu/g soil. Mineralization of the PCP added to the reactor was demonstrated by chloride accumulation in solution. The soil-attached consortium produced in the reactor was inhibited by PCP concentrations exceeding 250 mg/l. This high level of tolerance was attributed to the beneficial effect of the soil particles. Once produced, the activated soil biomass remained active for 5 weeks at 20 °C and for up to 3 months when kept at 4 °C. The activated attached soil biomass produced in the completely mixed soil slurry bioreactor, as well as a PCP-acclimated flocculent biomass obtained from an air-lift immobilized-soil bioreactor, were used to stimulate the bioremediation of a PCP-impacted sandy soil, which had no indigenous PCP-degrading microorganisms. Bioaugmentation of this soil by the acclimated biomass resulted in a 99% reduction (from 400 mg/kg to 5 mg/kg in 130 days) in PCP concentration. The PCP degradation rates obtained with the activated soil biomass, produced either as a biomass attached to soil particles or as a flocculent biomass, were similar.
A microbial method using whole cells of Thiobacillus thiooxidans for measuring sulphate in waters by K. Nakamura; M. A. Yudiarto; N. Kaneko; H. Kurosawa; Y. Amano (pp. 753-757).
A microbial method to determine sulphate concentration in water was developed on the basis of sulphate-dependent acid phosphatase (APase) in whole cells of Thiobacillus thiooxidans. The activity of the APase was determined colorimetrically by using p-nitrophenylphosphate as substrate. The APase was activated by sulphate. A linear relationship was obtained between the activity of the APase and the concentration of sulphate in the range 0–0.6 mM. Therefore, the sulphate concentration was estimated from the APase activity, represented by the absorbance (A 400). The microbial method was applied to the determination sulphate in water. The lower limit of detection was 0.02 mM, the relative standard deviation being 2% for 10 measurements on a standard sample. As for practical samples, which were taken from rain, river and tap water, good agreement was obtained between the values measured by the microbial method and those given by a conventional barium chloranilate method. The relative standard deviation was 2.1% for 12 measurements of tap water. The activity of the APase was stable over a period of more than 100 days when the cells were stored in 0.1 M sodium acetate/acetic acid buffer (pH 5.0) at 4 °C.