Isolation of ribonucleic acid from animal tissue by use of chaotropic agents

A method is presented for solubilizing and isolating pulse-labeled RNA from isolated nuclei, whole cells, and the insoluble material which collects at the interface between the phenol and aqueous layers during phenol extraction procedures. For this we have used solutions of the chaotropic salt, lithium trichloroacetate. It appears that the method may be useful for extracting the more stable RNA species as well. The RNA extracted from whole cells and phenol interface precipitate is undegraded, as determined by acrylamide gel electrophoresis after exposure to dimethyl sulfoxide. Pulse-labeled RNA extracted from isolated nuclei shows a marked tendency to aggregate and this fraction is being investigated further.     

Air-stripping effects on cell growth with volatile substrates

The removal of substate molecules from aerobic microbial cultures is due to both consumption by microorganisms and stripping by the air stream. The air stripping component can be described by a constant parameter for low concentrations of volatile substrates. This air stripping parameter was found to have a value of 0.0033 h(-1) for phenol molecules in a typical fermentation situation. The determination and inclusion of this constant is important for modeling microbial growth. For Pseudomonas putida growing on phenol, it is shown that air stripping is responsible for all of the original decline in phenol concentration. Further, the kinetic inhibition constant is sensitive to both the value of the air stripping parameter and the value of the initial concentration of bacteria. The experimental data for Pseudomonas putida growing on phenol was fit by a non-linear, least squares technique to isolate the inhibition constant between 100 and 600 ppm.     

Lacto-Phenol Preparations

More or less permanent mounts of fungi, algae, root tips, epidermis, germinating spores, and other small objects may be made readily by transferring the material to Amann's lacto-phenol containing anilin blue, W. S. or acid fuchsin, used singly or mixed. The addition of 20 to 25% of glacial acetic acid to these mixtures is frequently advantageous; or material may be stained with various dyes—acid fuchsin, anilin blue, W. S. (cotton blue), rose bengal, phloxine, hematoxylin—in aqueous solutions containing 5% of phenol, and then mounted in lacto-phenol, 50% glycerin or phenolglycerin, depending on the dye used. The phenol solutions of acid fuchsin and anilin blue are acidified with acetic acid and those of rose bengal and phloxine are made slightly alkaline with ammonium hydroxide. The addition of ferric chloride to acid fuchsin or acidified hematoxylin may improve staining. Fixation may be preferable but may be omitted, especially with fungi. Formulae for the mounting media and ten staining mixtures are given.     

Selected problems with phenol toxicity

Some data on the toxicity of phenol are surveyed. Environmental and health hazards are discussed. Pending standards are given. These are 0.3-19 mg/m3 in the air and working places in different countries. Acceptable phenol concentration in the air is 10 mg/m3 in Poland. The same standard for public buildings is 0.012 mg/m3. Toxic effects of phenol were reported in case of occupational exposition to 5 mg/m3 of air. Data concerning urine levels of phenol in children living in the buildings of increased phenol levels in the air and health impact of this are discussed.     

Formation of tyrosine from glycine, formaldehyde and phenol under the action of a partially purified preparation of tyrosine phenol lyase: The participation of a different enzyme

In the presence of a partially purified preparation of tyrosine phenol lyase, tyrosine is formed in solutions containing glycine, formaldehyde and phenol. The enzyme preparation also catalysed the splitting of allothreonine to glycine and acetaldehyde. An enzyme which is different from tyrosine phenol lyase was shown to be responsible for this aldolase reaction. When an enzyme preparation with a higher specific activity of tyrosine phenol lyase, but without aldolase activity, was used the formation of tyrosine from glycine, formaldehyde and phenol was not observed. It is assumed that the first stage of the process is the formation of serine from glycine and formaldehyde catalysed by the enzyme responsible for the aldolase reaction. Serine in its turn is converted to tyrosine by tyrosine phenol lyase.     

THE USE OF STORED SUSPENSIONS OF ESCHERICHIA COLI I IN THE EVALUATION OF BACTERICIDAL ACTION

SUMMARY: Suspensions of Escherichia coli I, consisting of washed cells suspended in a phosphate buffer solution, maintained a higher viability and resistance to phenol than suspensions either of unwashed cells or of washed cells suspended in water. When stored for 5 weeks at room temperature, variations in their extinction times on exposure to aqueous phenol solutions were not significantly greater than variations with suspensions freshly prepared for each determination. Loss of resistance of a stored suspension to phenol, roxenol, lysol and potassium laurate was roughly parallel. Conditions of culture of the bacteria influenced the survival of suspensions, but the results indicated that pronounced differences may only be found in suspensions prepared from young cultures. The use of stored suspensions in the routine evaluation of bactericides is recommended.     

Color and toxicity removal following tyrosinase-catalyzed oxidation of phenols

The products of phenol oxidation catalyzed by mushroom tyrosinase (polyphenol oxidase, EC 1.14.18.1) were assessed in terms of their residual color and toxicity. The addition of aluminum sulfate had little effect on the removal of colored products from phenol solutions treated with tyrosinase. Although chitosan was used successfully to remove the color when added before the reaction initiation or after the reaction completion, the required dose of chitosan was lower when it was added after the reaction. In this case, the minimum doses of chitosan required to achieve 90% color removal were proportional to the logarithm of the initial concentration of phenol. The color removal induced by chitosan addition appeared to be the result of chemical interaction followed by a coagulation mechanism. All treated solutions of phenol and chlorophenols, except 2,4-dichlorophenol, had substantially lower toxicities than their corresponding initial toxicities, as measured using the Microtox assay. Chitosan addition significantly enhanced the reduction in toxicity. The toxicities of the phenol solutions treated with tyrosinase were markedly lower than previously reported toxicities of solutions treated with peroxidase enzymes.     

Factors Affecting the Activity of Phenolic Disinfectants

Low challenge phenol coefficient and high challenge use-dilution tests were made on a neutral cocoanut oil soap emulsion of o-phenylphenol and aqueous solutions of sodium o-phenylphenate prepared in the laboratory from the phenol using a stoichiometric amount of NaOH as well as with increasing amounts of excess NaOH. The phenol had considerably greater activity in both test methods when emulsified with the neutral soap than when converted to the phenate and dissolved in water. Use dilution test results against Salmonella choleraesuis with both the phenol and the phenate were within the range which would have been predicted from the Salmonella typhosa coefficient results employing the conventional conversion multiple of 20 to determine the maximal number of parts of water to which one part of germicide could be added. With the emulsified phenol this was also true where Staphylococcus aureus was employed in both procedures. With the aqueous solution of the phenate the maximal safe use-dilution by the phenol coefficient found for S. aureus and the same conventional conversion procedure was roughly five times higher than the maximal safe use-dilution found by the use-dilution method. Results with aqueous solutions of the phenate to which increasing amounts of excess NaOH were added showed no significant differences in the phenol coefficient method with either S. typhosa or S. aureus. In the use-dilution method, significant decreases in activity were found as the excess NaOH was increased to 4% with both S. choleraesuis and S. aureus. Although the pH values of aqueous solutions of the phenate were raised as the amount of free NaOH was increased, the decreases in pH observed as the dilution with water was increased were such that only small differences existed at the high critical killing dilutions found in the low challenge phenol coefficient method, whereas rather large differences existed at the lower critical killing dilutions in the high challenge use-dilution method.     

Procedures and equipment for staining large numbers of plant root samples for endomycorrhizal assay

A simplified method of clearing and staining large numbers of plant roots for vesicular-arbuscular (VA) mycorrhizal assay is presented. Equipment needed for handling multiple samples is described, and two formulations for the different chemical solutions are presented. Because one formulation contains phenol, its use should be limited to basic studies for which adequate laboratory exhaust hoods are available and great clarity of fungal structures is required. The second staining formulation, utilizing lactic acid instead of phenol, is less toxic, requires less elaborate laboratory facilities, and has proven to be completely satisfactory for VA assays.     

Expanded application of a two-phase partitioning bioreactor through strain development and new feeding strategies

This research demonstrated the microbial treatment of concentrated phenol wastes using a two-phase partitioning bioreactor (TPPB). TPPBs are characterized by a cell-containing aqueous phase and an immiscible and biocompatible organic phase that partitions toxic substrates to the cells on the basis of their metabolic demand and the thermodynamic equilibrium of the system. Process limitations imposed by the capability of wild-type Pseudomonas putida ATCC 11172 to utilize long chain alcohols were addressed by strain modification (transposon mutagenesis) to eliminate this undesirable biochemical characteristic, enabling use of a range of previously bioavailable organics as delivery solvents. Degradation of phenol in a system with the modified strain as catalyst and industrial grade Adol 85 NF (primarily oleyl alcohol) as the solvent was demonstrated, with the system ultimately degrading 36 g of phenol within 38 h. Volumetric phenol consumption rates by wild type P. putida ATCC 11172 and the genetically modified derivative revealed equivalent phenol degrading capabilities (0.49 g/L x h vs 0.47 g/L x h respectively, in paired fermentations), with the latter presenting a more efficient remediation option due to decreased solvent losses arising from the modified strain's forced inability to consume the delivery solvent as a substrate. Two feeding strategies and system configurations were evaluated to expand practical applications of TPPB technology. The ability to operate with a lower solvent ratio over extended periods revealed potential for long-term application of TPPB to the treatment of large masses of phenol while minimizing solvent costs. Repeated recovery of 99% of phenol from concentrated phenol solutions and subsequent treatment within a TPPB scheme demonstrated applicability of the approach to the remediation of highly contaminated "effluents" as well as large masses of bulk phenol. Operation of the TPPB system in a dispersed manner, rather than as two distinct phases, resulted in volumetric consumption rates similar to those previously achieved only in systems operated with enriched air.     

Identification and Genetic Characterization of Phenol-Degrading Bacteria from Leaf Microbial Communities

Microbial communities on aerial plant leaves may contribute to the degradation of organic air pollutants such as phenol. Epiphytic bacteria capable of phenol degradation were isolated from the leaves of green ash trees grown at a site rich in airborne pollutants. Bacteria from these communities were subjected, in parallel, to serial enrichments with increasing concentrations of phenol and to direct plating followed by a colony autoradiography screen in the presence of radiolabeled phenol. Ten isolates capable of phenol mineralization were identified. Based on 16S rDNA sequence analysis, these isolates included members of the genera Acinetobacter, Alcaligenes, and Rhodococcus. The sequences of the genes encoding the large subunit of a multicomponent phenol hydroxylase (mPH) in these isolates indicated that the mPHs of the gram-negative isolates belonged to a single kinetic class, and that is one with a moderate affinity for phenol; this affinity was consistent with the predicted phenol levels in the phyllosphere. PCR amplification of genes for catechol 1,2-dioxygenase (C12O) and catechol 2,3-dioxygenase (C23O) in combination with a functional assay for C23O activity provided evidence that the gram-negative strains had the C12O−, but not the C23O−, phenol catabolic pathway. Similarly, the Rhodococcus isolates lacked C23O activity, although consensus primers to the C12O and C23O genes of Rhodococcus could not be identified. Collectively, these results demonstrate that these leaf surface communities contained several taxonomically distinct phenol-degrading bacteria that exhibited diversity in their mPH genes but little diversity in the catabolic pathways they employ for phenol degradation.     

Destruction and formation of toxins by one bacterial species affect biodegradation by a second species

Two strains of Pseudomonas able to grow on phenol or p-nitrophenol (PNP) were isolated from sewage. Pseudomonas sp. PN101 mineralized and formed nitrite from PNP but did not mineralize phenol, and Pseudomonas sp. PH111 mineralized phenol but not PNP. Phenol increased the lag period before Pseudomonas sp. PN101 grew on and mineralized PNP, but this toxicity was reduced by inoculation of the medium with Pseudomonas sp. PH111. PNP inhibited growth of Pseudomonas sp. PH111 and slightly increased the length of the acclimation period for the mineralization of phenol by the bacterium. Inoculation of Pseudomonas sp. PN101 into solutions containing PNP and phenol increased the lag period prior to growth of Pseudomonas sp. PH111 on phenol and markedly lengthened the lag period for its mineralization of phenol. Coinciding with this delay in the onset of phenol degradation was the accumulation of an organic compound formed from PNP by Pseudomonas sp. PN101. This compound was not mineralized by the phenol-degrading bacterium. The data suggest that bacteria may interact during the decomposition of chemical mixtures by destroying or by forming toxins that affect the biodegradation of individual components of those mixtures.     

A comprehensive kinetic model of laccase‐catalyzed oxidation of aqueous phenol

A comprehensive model was developed to describe the kinetics of the laccase‐catalyzed oxidation of phenol that incorporates enzyme kinetics, enzyme inactivation, variable reaction stoichiometry between substrate and oxygen, and oxygen mass‐transfer. The model was calibrated and validated against data obtained from experiments conducted in an open system, which allowed oxygen to transfer from air to the reacting mixture and phenol conversion to approach completion. Inactivation of laccase was observed over the course of the reaction and was found to be dependent on the rate of substrate transformation. A single kinetic expression was sufficient to describe laccase inactivation arising from interaction with reacting species over time. Excellent agreement was found between model predictions of phenol and oxygen concentrations and experimental data over time for a wide range of initial substrate concentrations and enzyme activities. © 2009 American Institute of Chemical Engineers Biotechnol. Prog., 2009     

SALT ERROR OF INDICATORS DUE TO STANDARD ALKALINE BUFFERS THEMSELVES. II

Previous results of the comparison of colors given by indicators in alkaline buffers and pure aqueous sodium hydroxide have been repeated and confirmed. The electrometric determinations show that the sodium hydroxide was pure and gave theoretical values for the concentration of hydroxyl ion. The slight but distinct neutralising effect of dilute solutions of alkali has been measured electrometrically and the allowances to be made are recorded graphically. It is found that whereas alizarin yellow G, tropæolin O and thymol violet may be used without appreciable error (in accordance with our previous communication) the grave discrepancies remain for phenolphthalein, o-cresol phthalein and thymol blue and phenol red which must be ascribed to salt error in the alkaline buffer itself.     

Loss of preservative from a tuberculin solution in rubber stoppered vials fastened with different seals

A tuberculin purified protein derivative (PPD) solution containing 0.3% phenol as a preservative was dispensed in glass vials closed with rubber stoppers fastened in three different ways, namely with Tear-off seals, Flip-off seals and partial seals. After various times of storage at 5 degrees C and 37 degrees C, the phenol content in the tuberculin solution was determined. It was found that the Flip-off seals allowed the phenol to escape at a faster rate than the Tear-off seals and that vials closed with partial seals showed the highest loss of phenol. Although these losses were much more pronounced at 37 degrees C than at 5 degrees C, the phenol content at the latter temperature was, over a period of three years, within the limits of acceptability for tuberculin products capped with Tear-off or Flip-off seals. A loss of phenol also occurred from tuberculin solution stored at -28 degrees C in vials capped with either Tear-off or partial seals. In addition to the Tear-off and Flip-off seals other seals such as the "controlled score' Flip-off seal and the Alcoa Steri-Twist cap were evaluated for their imperviousness to air. Except for the Alcoa Steri-Twist cap none of the seals we have investigated were air tight and hence entirely satisfactory to prevent losses of phenol by evaporation from tuberculin products.(ABSTRACT TRUNCATED AT 250 WORDS)     

Bacterial degradation of airborne phenol in the phyllosphere

Despite the vast surface area of terrestrial plant leaves and the large microbial communities they support, little is known of the ability of leaf-associated microorganisms to access and degrade airborne pollutants. Here, we examined bacterial acquisition and degradation of phenol on leaves by an introduced phenol degrader and by natural phyllosphere communities. Whole-cell gfp-based Pseudomonas fluorescens bioreporter cells detected phenol on leaves that had previously been transiently exposed to gaseous phenol, indicating that leaves accumulated phenol; moreover, they accumulated it in sites that were accessible to epiphytic bacteria and to concentrations that were at least 10-fold higher than those in the air. After inoculated leaves were exposed to gaseous 14C-phenol, leaves harbouring the phenol-degrading Pseudomonas sp. strain CF600 released eight times more 14CO2 than did leaves harbouring a non-degrading mutant, demonstrating that CF600 actively mineralized phenol on leaves. We evaluated phenol degradation by natural microbial communities on green ash leaves that were collected from a field site rich in airborne organic pollutants. We found that significantly more phenol was mineralized by these leaves when the communities were present than by these leaves following surface sterilization. Thus, phenol-degrading organisms were present in these natural communities and were metabolically capable of phenol degradation. Collectively, these results provide the first direct evidence that bacteria on leaves can degrade an organic pollutant from the air, and indicate that bacteria on leaves could potentially contribute to the natural attenuation of organic air pollutants.     

Reactivity of nicotinamide-adenine dinucleotide dimer in plant phenol oxidase systems

The enzymie system in mung bean seedlings which earlier workers characterized as a diaphorase capable of oxidizing the 1,2- and 1,6-dihydropyridine isomers of NADH is, in fact, a phenol oxidase. The NAD species whose oxidation was observed is actually the dimeric 1-electron product obtained in the electrolytic reduction of NAD⁺ solutions. The unidentified “cofactor” required along with the enzyme for the oxidation of the dimer is probably a naturally occurring phenol. Similar activity is found in a variety of plants, including other types of beans as well as corn, cotton, and wheat. The dimer is also reactive with respect to a commercial mushroom phenol oxidase preparation. It cannot be stated whether the NAD dimer is in any sense a natural reactant in such systems, but the supposedly unusual mung bean activity is clarified.     

Molecular markers of oxidative stress in the expired air of healthy humans

Chromatography-mass spectrometry of molecular metabolites in the expired air of resting healthy humans has been used to identify oxyketones, mainly 1-hydroxy-2-propanone (acetol), aldehydes (decenal, benzaldehyde), acetophenone, phenol, and fatty acids. During physical exercise (oxidative stress), the levels of ketones (heptanone-2 and heptanone-3), phenol, aldehydes identified (decenal and octadecenal), and acetol in the expired air decreased significantly, apparently, due to the prevalence of an alternative methylglycoxal metabolism of carbohydrates. It has been shown that the dynamics of saturated hydrocarbons in the expired air can be a source of information about the responses of the body to oxidative stress; while the concentration of acetone can be used as an indicator of fitness, the adequacy of physical loading, and an indicator of the development of hypoxic states.     

On the Composition of “Viscol” and the Employment of Gum Arabic for Mounting Media

“Viscol”, a water soluble permanent mounting medium hardening through evaporation of water under the cover glass, has been analyzed. It proves to consist of a mixture of gum arabic, glycerol, phenol and water and is especially suitable for simple botanical preparations. The use of gum arabic for hardening permanent mounting media is reviewed. Instead of a glycerol-phenol-water mixture a lactophenol, potassium acetate or zinc chloride solution mixed with gum arabic may be used for a permanent mounting medium. However, gum arabic contains calcium, magnesium and potassium ions giving crystals with the solutions mentioned. In the case of lactophenol and potassium acetate, the calcium and magnesium ions must be removed beforehand, which is done by precipitation with sodium or potassium carbonate. In the case of zinc chloride the potassium ions must be removed, which is done by dialysis with zinc chloride. It is pointed out that the same principles may be used for a great variety of different mounting media.     

First evidence of catalytic mediation by phenolic compounds in the laccase-induced oxidation of lignin models.

The sulfonephthalein indicator, phenol red, exhibits an unusually slow rate of oxidation by laccase from Poliporus pinsitus, in spite of the fact that it is a phenol and therefore a natural substrate for this phenoloxidase enzyme. Nevertheless, after prolonged exposure to laccase (24 h) phenol red is oxidized by more than 90%. We found that phenol red, which can be oxidatively converted into a resonance-stabilized phenoxy radical, performs as a mediator in the laccase-catalyzed oxidation of a nonphenolic substrate (4-methoxybenzyl alcohol) and also of a hindered phenol (2,4,6-tri-tert-butylphenol). In particular, phenol red was found to be at least 10 times more efficient than 3-hydroxyanthranilate (a reported natural phenolic mediator of laccase) in the oxidation of 4-methoxybenzyl alcohol. Other phenols, which do not bear structural analogies to phenol red, underwent rapid degradation and did not perform as laccase mediators. On the other hand, several variously substituted sulfonephthaleins, of different pK2 values, mediated the laccase catalysis, the most efficient being dichlorophenol red, which has the lowest pK2 of the series. The mediating efficiency of phenol red and dichlorophenol red was found to be pH dependent, as was their oxidation Ep value (determined by cyclic voltammetry). We argue that the relative abundance of the phenoxy anion, which is easier to oxidize than the protonated phenol, may be one of the factors determining the efficiency of a phenolic mediator, together with its ability to form relatively stable oxidized intermediates that react with the desired substrate before being depleted in undesired routes.