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At least 19 recordsLinked to original sources

Photoacoustic calorimetry and quantum yields of Mo(CO)(6) ligand exchange in linear alkanes: determination of volume of reaction, energetics, and kinetics of nucleophile displacement of alkane from Mo(CO)(5)(alkane).

Photoacoustic calorimetry (PAC) and actinometry studies were used to determine the enthalpies and volumes of reaction for the production of a transient intermediate, Mo(CO)(5)-alkane, and for its subsequent reaction with tetrahydrofuran (THF). Both the enthalpy and the volume of reaction contribute to the photoacoustic signal and have been resolved by changing the solvent thermal expansion properties with a series of linear alkanes. The enthalpies for substitution of CO on Mo(CO)(6) by an alkane and of coordinated alkane on Mo(CO)(5)(alkane) by THF are 30 and -14 kcal/mol, respectively. Likewise, the volumes of reaction are 18 and -1 mL/mol. From available data for the Mo--CO bond energy, these results allow the calculation of the Mo-alkane and Mo-THF bond energies (11 and 25 kcal/mol, respectively). The Mo-alkane result is 7 kcal/mol less than that from our previous PAC study, which ignored the volume of reaction, and is in better agreement with the results of kinetic studies. The large absolute difference in the reaction volumes for each step is partially attributed to a void volume created during the formation of the Mo--THF bond. In general, the volume of reaction cannot be neglected in the calculation of enthalpies of ligand substitution from PAC studies. The quantum yields for photosubstitution of Mo(CO)(6), in contrast to Cr(CO)(6), were found to be insensitive to the chain length of the alkane solvent.

Journal Article↗

Molecular and thermal diffusion coefficients of alkane-alkane and alkane-aromatic binary mixtures: effect of shape and size of molecules.

New molecular and thermal diffusion coefficients of binary mixtures of normal decane-normal alkanes and methylnaphthalene-normal alkanes are measured at atmospheric pressure and T = 25 degrees C. The normal alkanes used in this work include nC5-nC20. Thermal diffusion coefficients were measured in a thermogravitational column. Molecular diffusion coefficients were measured using an open-ended capillary tube technique. Results show a significant effect of molecular shape and size on thermal and molecular diffusion coefficients. Molecular diffusion coefficients show a monotonic behavior in both aromatic-normal alkane and normal decane-normal alkane mixtures. Thermal diffusion coefficients reveal a nonmonotonic trend with molecular size in the normal decane-normal alkane mixtures. This is the first report of the nonmonotonic behavior in the literature. The data presented in this paper provide an accurate self-molecular diffusion coefficient for nC10 from binary data.

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Cytochrome P450 alkane hydroxylases of the CYP153 family are common in alkane-degrading eubacteria lacking integral membrane alkane hydroxylases.

Several strains that grow on medium-chain-length alkanes and catalyze interesting hydroxylation and epoxidation reactions do not possess integral membrane nonheme iron alkane hydroxylases. Using PCR, we show that most of these strains possess enzymes related to CYP153A1 and CYP153A6, cytochrome P450 enzymes that were characterized as alkane hydroxylases. A vector for the polycistronic coexpression of individual CYP153 genes with a ferredoxin gene and a ferredoxin reductase gene was constructed. Seven of the 11 CYP153 genes tested allowed Pseudomonas putida GPo12 recombinants to grow well on alkanes, providing evidence that the newly cloned P450s are indeed alkane hydroxylases.

Alkanes↗

Monitoring of alkane-degrading bacteria in a sea-water microcosm during crude oil degradation by polymerase chain reaction based on alkane-catabolic genes.

Behaviour of microbial populations responsible for degrading n-alkanes, a major component of crude oil, was monitored during crude oil degradation in a sea-water microcosm by both traditional colony culturing and molecular techniques. A DNA extraction method applicable to crude oil-amended sea-water samples was developed to obtain DNA applicable to most probable number (MPN) polymerase chain reaction (PCR). The population of alkane-degrading bacteria responsible for degradation of n-alkanes in a crude oil-amended microcosm altered, so that shorter alkanes were degraded first by alkane-degrading bacteria possessing alkane hydroxylase genes from group I (Kohno et al., 2002, Microb Environ 17: 114-121) and longer ones afterwards by those possessing alkane hydroxylase genes from group II. Thus, the degradation mechanism of the n-alkanes can be clarified during crude oil degradation. Application of the method of detecting different types of alkane-catabolic genes, as shown in the present study, enabled bacterial groups preferring alkanes of either shorter or longer chain lengths to be enumerated selectively.

Alkanes↗

Utilization of n-alkanes by a newly isolated strain of Acinetobacter venetianus: the role of two AlkB-type alkane hydroxylases.

A bacterial strain capable of utilizing n-alkanes with chain lengths ranging from decane (C10H22) to tetracontane (C40H82) as a sole carbon source was isolated using a system for screening microorganisms able to grow on paraffin (mixed long-chain n-alkanes). The isolate, identified according to its 16S rRNA sequence as Acinetobacter venetianus, was designated A. venetianus 6A2. Two DNA fragments encoding parts of AlkB-type alkane hydroxylase homologues, designated alkMa and alkMb, were polymerase chain reaction-amplified from the genome of A. venetianus 6A2. To study the roles of these two alkM paralogues in n-alkane utilization in A. venetianus 6A2, we constructed alkMa, alkMb, and alkMa/alkMb disruption mutants. Studies on the growth patterns of the disruption mutants using n-alkanes with different chain lengths as sole carbon source demonstrated central roles for the alkMa and alkMb genes in utilization of C10 to C18 n-alkanes. Comparative analysis of these patterns also suggested different substrate preferences for AlkMa and AlkMb in n-alkane utilization. Because both single and double mutants were able to grow on n-alkanes with chain lengths of C20 and longer, we concluded that yet another enzyme(s) for the utilization of these n-alkanes must exist in A. venetianus 6A2.

Acinetobacter↗

Physiological function of the Pseudomonas putida PpG6 (Pseudomonas oleovorans) alkane hydroxylase: monoterminal oxidation of alkanes and fatty acids.

Pseudomonas putida PpG6 is able to utilize purified n-alkanes of six to ten carbon atoms for growth. It can also grow on the primary terminal oxidation products of these alkanes and on 1-dodecanol but not on the corresponding 2-ketones or 1,6-hexanediol, adipic acid, or pimelic acid. Revertible point mutants can be isolated which have simultaneously lost the ability to grow on all five n-alkane growth substrates but which can still grow on octanol or nonanol. An acetate-negative mutant defective in isocitrate lysase activity is unable to grow on even-numbered alkanes and fatty acids. Analysis of double mutants defective in acetate and propionate or in acetate and glutarate metabolism shows that alkane carbon is assimilated only via acetyl-coenzyme A and propionyl-coenzyme A. These results support the following conclusions: (i) The n-alkane growth specificity of P. putida PpG6 is due to the substrate specificity of whole-cell alkane hydroxylation; (ii) there is a single alkane hydroxylase enzyme complex; (iii) the physiological role of this complex is to initiate the monoterminal oxidation of alkane chains; and (iv) straight-chain fatty acids from butyric through nonanoic are degraded exclusively by beta-oxidation from the carboxyl end of the molecule.

Alkanes↗

Cometabolism of methyl tertiary butyl ether and gaseous n-alkanes by Pseudomonas mendocina KR-1 grown on C5 to C8 n-alkanes.

Pseudomonas mendocina KR-1 grew well on toluene, n-alkanes (C5 to C8), and 1 degrees alcohols (C2 to C8) but not on other aromatics, gaseous n-alkanes (C1 to C4), isoalkanes (C4 to C6), 2 degrees alcohols (C3 to C8), methyl tertiary butyl ether (MTBE), or tertiary butyl alcohol (TBA). Cells grown under carbon-limited conditions on n-alkanes in the presence of MTBE (42 micromoles) oxidized up to 94% of the added MTBE to TBA. Less than 3% of the added MTBE was oxidized to TBA when cells were grown on either 1 degrees alcohols, toluene, or dextrose in the presence of MTBE. Concentrated n-pentane-grown cells oxidized MTBE to TBA without a lag phase and without generating tertiary butyl formate (TBF) as an intermediate. Neither TBF nor TBA was consumed by n-pentane-grown cells, while formaldehyde, the expected C1 product of MTBE dealkylation, was rapidly consumed. Similar Ks values for MTBE were observed for cells grown on C5 to C8 n-alkanes (12.95 +/- 2.04 mM), suggesting that the same enzyme oxidizes MTBE in cells grown on each n-alkane. All growth-supporting n-alkanes (C5 to C8) inhibited MTBE oxidation by resting n-pentane-grown cells. Propane (Ki = 53 micromoles) and n-butane (Ki = 16 micromoles) also inhibited MTBE oxidation, and both gases were also consumed by cells during growth on n-pentane. Cultures grown on C5 to C8 n-alkanes also exhibited up to twofold-higher levels of growth in the presence of propane or n-butane, whereas no growth stimulation was observed with methane, ethane, MTBE, TBA, or formaldehyde. The results are discussed in terms of their impacts on our understanding of MTBE biodegradation and cometabolism.

Alkanes↗

Reversed hexagonal phase formation in lecithin-alkane-water systems with different acyl chain unsaturation and alkane length.

Investigations of lipid-alkane systems are important for an understanding of the interactions between lipids and hydrophobic/amphiphilic peptides or other hydrophobic biological molecules. A study of the formation of nonlamellar phases in several phosphatidylcholine (PC)-alkane-2H2O systems has been performed. The PC molecules chosen in this work are dipalmitoyl-PC (DPPC), 1-palmitoyl-2-oleoyl-PC (POPC), dioleoyl-PC (DOPC), and dilinoleoyl-PC (DLiPC), lipids that in excess water form just a lamellar liquid-crystalline phase up to at least 90 degrees C. The addition of n-alkanes (C8-C20) to these PC-2H2O systems induces the formation of reversed hexagonal (HII) and isotropic phases. The water and dodecane concentrations required to form these phases depend on the degree of acyl chain unsaturation of the PC molecules and increase in the order DLiPC approximately DOPC less than POPC less than DPPC. The most likely explanation to this result is that the diameter of the lipid-water cylinders in the HII phase grows gradually larger with increased acyl chain saturation and more water and dodecane are consequently needed to fill the water cylinders and the void volumes between the cylinders, respectively. The ability of the alkanes to promote the formation of an HII phase is strongly chain length dependent. Although the number of alkane carbon atoms added per DOPC molecule in the DOPC-n-alkane-2H2O mixtures was kept constant, this ability decreased on going from octane to eicosane. The thermal history of a DPPC-n-dodecane-2H2O sample was important for its phase behavior.(ABSTRACT TRUNCATED AT 250 WORDS)

Alkanes↗

Nonhalogenated anesthetic alkanes and perhalogenated nonimmobilizing alkanes inhibit alpha(4)beta(2) neuronal nicotinic acetylcholine receptors.

UNLABELLED: The nonhalogenated anesthetic alkanes, cyclopropane and butane, do not enhance gamma-aminobutyric acid-elicited GABAergic currents, suggesting that these agents produce anesthesia via interactions with other molecular targets. Perhalogenated nonimmobilizing alkanes, such as 1,2-dichlorohexafluorocyclobutane and 2,3-dichlorooctafluorobutane, also fail to enhance GABAergic currents, but display specific behavioral effects that are distinct from those of structurally similar anesthetics. At concentrations predicted to be anesthetic, 1,2-dichlorohexafluorocyclobutane and 2,3-dichlorooctafluorobutane produce amnesia but fail to produce immobility. Neuronal nicotinic acetylcholine (nACh) receptors are sensitive to many anesthetics and are thought to have an important role in learning and memory. We postulated that neuronal nACh receptors might mediate the common amnestic action of nonhalogenated and perhalogenated alkanes. To test the hypothesis that neuronal nACh receptors have a role in mediating the behavioral effects of general anesthetics and nonimmobilizers, we quantified the inhibitory potencies of nonhalogenated anesthetic alkanes and perhalogenated nonimmobilizing alkanes on currents mediated by alpha(4)beta(2) neuronal nACh receptors. Our studies reveal that anesthetics and nonimmobilizers significantly inhibit alpha(4)beta(2) neuronal nACh receptors at concentrations that suppress learning and with potencies that correlate with their hydrophobicities. These results support the hypothesis that alpha(4)beta(2) neuronal nACh receptors mediate the amnestic actions of alkanes but not their immobilizing actions. IMPLICATIONS: The results of this study suggest that the immobilizing actions of general anesthetics do not result from the inhibition of alpha(4beta2) neuronal nicotinic acetylcholine receptors. However, the inhibition of neuronal nicotinic acetylcholine receptors may account for the amnestic activities of general anesthetics and nonimmobilizers.

Algorithms↗

Biotransformation of various alkanes using the Escherichia coli expressing an alkane hydroxylase system from Gordonia sp. TF6.

Biotransformation using alkane-oxidizing bacteria or their alkane hydroxylase (AH) systems have been little studied at the molecular level. We have cloned and sequenced genes from Gordonia sp. TF6 encoding an AH system, alkB2 (alkane 1-monooxygenase), rubA3 (rubredoxin), rubA4 (rubredoxin), and rubB (rubredoxin reductase). When expressed in Escherichia coli, these genes allowed the construction of biotransformation systems for various alkanes. Normal alkanes with 5 to 13 carbons were good substrates for this biotransformation, and oxidized to their corresponding 1-alkanols. Surprisingly, cycloalkanes with 5 to 8 carbons were oxidized to their corresponding cycloalkanols as well. This is the first study to achieve biotransformation of alkanes using the E. coli expressing the minimum component genes of the AH system. Our biotransformation system has facilitated assays and analysis leading to improvement of AH systems, and has indicated a cycloalkane oxidation pathway in microorganisms for the first time.

Alkanes↗

Insight into binding of alkanes to transition metals from NMR spectroscopy of isomeric pentane and isotopically labeled alkane complexes.

Alkane complexes of the type Cp'Re(CO)2(alkane) (Cp' = cyclopentadienyl or (isopropyl)cyclopentadienyl; alkane = isotopomers of n-pentane and cyclopentane) have been characterized using NMR spectroscopy following photolysis of Cp'Re(CO)3 in the appropriate alkane at 163-193 K. In the case of n-pentane, three different complexes are observed corresponding to binding of the three different types of carbon in this alkane. ROESY NMR experiments indicate that these isomeric complexes are slowly interconverting intramolecularly at 173 K. The order of the energetically preferred site of coordination is methylene (C2) approximately central methylene (C3) > methyl (C1) but with a spread of <0.2 kcal mol-1. Isotopic perturbation of resonance (IPR) experiments, conducted on several isotopomers of (i-PrCp)Re(CO)2(1-pentane), showed a large shielding of the 1H NMR chemical shift of the proton in a bound CHD2 moiety (delta -3.62) and CH2D (delta -2.64) compared with that of a bound CH3 moiety (delta -1.99). Likewise, the value of 1JCH for the coordinated methyl group of isotopomers of (i-PrCp)Re(CO)2(1-pentane) reduces in the order CH3 > CH2D > CHD2. This suggests that the alkane coordinates in an eta2-C,H fashion with a rapid exchange of bound hydrogen or deuterium within a methyl or methylene group, and that binding of a hydrogen atom is preferred over a deuterium by an amount of 0.23 +/- 0.03 kcal mol-1.

Journal Article↗

Investigation of the mechanism of alkane reductive elimination and skeletal isomerization in Tp'Rh(CNneopentyl)(R)H complexes: the role of alkane complexes.

Experiments are described that provide indirect evidence for the involvement of alkane sigma-complexes in oxidative addition/reductive elimination reactions of Tp'Rh(L)(R)H complexes (Tp' = tris-3,5-dimethylpyrazolylborate, L = CNCH(2)CMe(3)). Reductive elimination rates in benzene-d(6) were determined for loss of alkane from Tp'Rh(L)(R)H, where R = methyl, ethyl, propyl, butyl, pentyl, and hexyl, to generate RH and Tp'Rh(L)(C(6)D(5))D. The isopropyl hydride complex Tp'Rh(L)(CHMe(2))H was found to rearrange to the n-propyl hydride complex Tp'Rh(L)(CH(2)CH(2)CH(3))H in an intramolecular reaction. The sec-butyl complex behaves similarly. These same reactions were studied by preparing the corresponding metal deuteride complexes, Tp'Rh(L)(R)D, and the scrambling of the deuterium label into the alpha- and omega-positions of the alkyl group monitored by (2)H NMR spectroscopy. Inverse isotope effects observed in reductive elimination are shown to be the result of an inverse equilibrium isotope effect between the alkyl hydride(deuteride) complex and the sigma-alkane complex. A kinetic model has been proposed using alkane complexes as intermediates and the selectivities available to these alkane complexes have been determined by kinetic modeling of the deuterium scrambling reactions.

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Molecular simulations of liquid-liquid interfacial properties: water-n-alkane and water-methanol-n-alkane systems.

Direct molecular dynamics simulations of the liquid-liquid interface of water-n-alkane and water-methanol-n-alkane systems have been performed in order to study the interfacial properties of these systems. The simulations were carried out using the NERD revised force field of Nath et al. for the n-alkanes, the simple point charge extended model for water, and the optimized potential for liquid simulations model for methanol. In order to validate the model employed in this work for the n-alkanes we calculated the coexisting densities, surface tension, and thickness of the interface for pure n-pentane. For all the systems studied the interfacial tension and thickness were calculated at 298.15 K. Our results show that, by adjusting the number of molecules to reproduce the liquid densities in the direct simulation method of the liquid-liquid interface in multicomponent systems, we are able to reproduce available experimental data for interfacial tension. The interfacial thickness is underpredicted and a constant negative deviation of approximately 2.5 A from the experimental data is usually observed. We find that methanol acts like surfactant when it is added to the water-n-alkane mixtures, reducing the interfacial tension of the liquid-liquid ternary system. The interfacial tension results agree quantitatively well for the range of concentrations of methanol studied.

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Alkane hydroxylases involved in microbial alkane degradation.

This review focuses on the role and distribution in the environment of alkane hydroxylases and their (potential) applications in bioremediation and biocatalysis. Alkane hydroxylases play an important role in the microbial degradation of oil, chlorinated hydrocarbons, fuel additives, and many other compounds. Environmental studies demonstrate the abundance of alkane degraders and have lead to the identification of many new species, including some that are (near)-obligate alkanotrophs. The availability of a growing collection of alkane hydroxylase gene sequences now allows estimations of the relative abundance of the different enzyme systems and the distribution of the host organisms.

Alkanes↗

Physiological roles of acetoacetyl-CoA thiolase in n-alkane-utilizable yeast, Candida tropicalis: possible contribution to alkane degradation and sterol biosynthesis.

The presence of two types of thiolases, acetoacetyl-CoA thiolase and 3-ketoacyl-CoA thiolase, was demonstrated in peroxisomes of n-alkane-grown Candida tropicalis [Kurihara, T., Ueda, M., & Tanaka, A. (1989) J. Biochem. 106, 474-478], while acetoacetyl-CoA thiolase was also shown to be present in cytosol. The activity of the enzyme in cytosol was constant irrespective of culture conditions, while the peroxisomal enzyme was inducibly synthesized in the alkane-grown yeast cells. These results indicate that peroxisomal acetoacetyl-CoA thiolase participates in alkane degradation, while the cytosolic enzyme is associated with other fundamental metabolic processes, probably sterol biosynthesis, because this enzyme can catalyze the first step of the sterol biosynthesis. 3-Hydroxy-3-methylglutaryl (HMG)-CoA reductase, a key regulatory enzyme of sterol biosynthesis, was found to be localized exclusively in microsomes of the alkane-grown yeast cells. These results suggest that yeast peroxisomes do not contribute to sterol biosynthesis, unlike the case of mammalian cells.

Acetyl-CoA C-Acetyltransferase↗

Expression of alkane hydroxylase from Acinetobacter sp. Strain ADP1 is induced by a broad range of n-alkanes and requires the transcriptional activator AlkR.

In Acinetobacter sp. strain ADP1, alkane degradation depends on at least five essential genes. rubAB and xcpR are constitutively transcribed. Here we describe inducible transcription of alkM, which strictly depends on the presence of the transcriptional activator AlkR. alkR itself is expressed at a low level, while a chromosomally located alkM::lacZ fusion is inducible by middle-chain-length alkanes from heptane to undecane, which do not support growth of ADP1, and by long-chain-length alkanes from dodecane to octadecane, which are used as sources of carbon and energy. The putative AlkM substrate 1-dodecene is also an effective inducer. Products of alkane hydroxylase activity like 1-dodecanol prevent induction of alkM expression. alkM is expressed only in stationary phase, suggesting its dependence on at least one other regulatory mechanism.

Acinetobacter↗

Pathological hepatic accumulation of long-chain n-alkanes ("paraffin liver") in cows (Harbitz and Fölling, 1940). An overlooked discovery. Description of lesions and identification of alkanes.

About 50 years ago crystalline deposits of a substance representing approximately 7 per cent wet tissue weight and believed to be hentriacontane or a mixture of similar long-chain n-alkanes (30-34 carbon atoms) were detected in two discoloured and swollen cow livers. Stored purified extracts from these livers were recently reanalysed using gas chromatography and mass spectrometry. They were found to contain about equal amounts of nonacosane and hentriacontane with a small admixture of tritriacontane and other long carbon-chain alkanes. On the basis of histological findings, five additional cases of "paraffin liver" in cows have been recorded. In the discussion comparison is made with the only known case of a similar disorder in a human, visceral accumulation of the same three alkanes as in the cows, which was recently described in the literature. Concerning the origin of the deposits, importance is given to the fact that the long-chain alkanes with odd carbon numbers identified both in cattle and man predominate in the cuticular waxes of many dietary plants. The very large quantities of the abnormal substance in the cow livers indicate low toxicity, and evidently accumulation over long periods of time.

Alkanes↗

Proton transfer from alkane radical cations to alkane molecules: selectivity with respect to the site of proton donation and proton acceptance.

Information on the donor and acceptor site selectivity in the proton transfer from n-alkane radical cations to n-alkane molecules is gathered from gamma-irradiated frozen CCl(3)F/n-alkane solutions (symmetric transfer) and mixed n-alkane crystals (asymmetric transfer) by EPR spectroscopy at 77 K and gas chromatographic analysis after melting. The proton-donor site is related very strictly to the structure of the semi-occupied molecular orbital of the parent radical cation, with proton transfer taking place from those C-H bonds that carry appreciable unpaired-electron and positive-charge density. Proton acceptance is restricted to C-H bonds at secondary carbon atoms (no proton transfer to C-C bonds nor to C-H bonds at primary carbon atoms), with a preference for the penultimate position and equal (but considerably lower) transfer to the interior sites. In mixed n-alkane crystals, additional selectivity with respect to the site of proton acceptance results from structural factors in combination with the donor site selectivity (structurally determined acceptor site selectivity).

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