Dynamics of charge migration in poly(para-phenylene vinylene) films and nanocomposites with single walled carbon nanotubes.

We present in this paper a comprehensive study of the migration dynamics of the charges underlying transient photoluminescence (PL) processes in poly(para-phenylene vinylene) (PPV) samples from room temperature to 13 K. In order to interpret experimental data, we have modelled the long-time PL decays (from 100 to 1000 ps) using a time function proportional to [Formula: see text] in which the parameter α is evaluated in a Monte Carlo simulation on polymeric chains. The one dimensional chains (2000 sites long) are formed by random sequences of long and short conjugated segments whose bimodal distributions have been elaborated in previous works in order to reproduce the PL band shapes and peak positions. Intra-chain and inter-chain dynamics are taken into account in the migration of the photogenerated charges from short to long conjugated segments. The statistical analysis is performed by averaging over a total of 10(6) trials for each initial conditions. The values of α have been determined for pristine PPV films and PPV composite films with single-walled carbon nanotubes. This theoretical analysis is in good agreement with experimental data and provides a coherent description for the migration of the photogenerated charges in such inhomogeneous polymeric systems.

Cloning, purification, and characterization of galactomannan-degrading enzymes from Myceliophthora thermophila.

Genes of ß-mannosidase 97 kDa, GH family 2 (bMann9), ß-mannanase 48 kDa, GH family 5 (bMan2), and α-galactosidase 60 kDa, GH family 27 (aGal1) encoding galactomannan-degrading glycoside hydrolases of Myceliophthora thermophila C1 were successfully cloned, and the recombinant enzymes were purified to homogeneity and characterized. bMann9 displays only exo-mannosidase activity, the K(m) and k(cat) values are 0.4 mM and 15 sec(-1) for p-nitrophenyl-ß-D-mannopyranoside, and the optimal pH and temperature are 5.3 and 40°C, respectively. bMann2 is active towards galactomannans (GM) of various structures. The K(m) and k(cat) values are 1.3 mg/ml and 67 sec(-1) for GM carob, and the optimal pH and temperature are 5.2 and 69°C, respectively. aGal1 is active towards p-nitrophenyl-α-D-galactopyranoside (PNPG) as well as GM of various structures. The K(m) and k(cat) values are 0.08 mM and 35 sec(-1) for PNPG, and the optimal pH and temperature are 5.0 and 60°C, respectively.

Characterization of a GH family 3 ß-glycoside hydrolase from Chrysosporium lucknowense and its application to the hydrolysis of ß-glucan and xylan.

The Bxl5-gene encoding a GH3 glycoside hydrolase of Chrysosporium lucknowense C1 was successfully cloned, the homologous recombinant product was secreted, purified and characterized. Bxl5 (120 ± 5 kDa) was able to hydrolyze low molecular weight substrates and polysaccharides containing ß-glucosidic as well as ß-xylosidic residues. The K(m) and V(max)/E values were found to be 0.3mM and 88 s(-1) on p-nitrophenyl-ß-d-glucopyranoside (PNPG), and 13.5mM and 1.8s(-1) on p-nitrophenyl-ß-d-xylopyranoside (PNPX). Optimal pH and temperature for Bxl5 were 4.6 and 75°C for the PNPG hydrolysis, and 5.0-5.5 and 70°C for PNPX hydrolysis. The enzyme was quite stable when incubated at elevated temperatures up to 65°C. Bxl5 hydrolyzes polymeric ß-glucans by the exo-mechanism allowing their complete conversion to d-glucose and is effective for xylan hydrolysis in combination with endo-acting xylan-degrading enzymes. The enzyme seems to be a very promising for bioconversion purposes.

Generation of a catR deficient mutant of P. putida KT2440 that produces cis, cis-muconate from benzoate at high rate and yield.

Pseudomonas putida KT2440-JD1 was derived from P. putida KT2440 after N-methyl-N'-nitro-N-nitrosoguanidine (NTG)-mutagenesis and exposure to 3-fluorobenzoate (3-FB). The mutant was no longer able to grow using benzoate as a sole carbon source, but co-metabolized benzoate to cis, cis-muconate during growth on glucose, which accumulated in the growth medium. The specific production rate (q(pm)) was 0.18±0.03 g cis, cis-muconate/(g(DCW) h) in continuous cultures, and increased to 1.4 g cis, cis-muconate/(g(DCW) h) during wash-out cultivation. Transcriptome analysis showed that the cat operon was not induced in P. putida KT2440-JD1 in the presence of 5mM benzoate, due to a point mutation in the highly conserved DNA binding domain of the transcriptional regulator (catR) of the cat operon. The ben operon was highly expressed in the presence of benzoate in the mutant and its parental strain. This operon contains PP_3166 (catA2), which was shown to be a second catechol 1,2-dioxygenase besides catA. P. putida KT2440-JD1 is the first cis, cis-muconate-accumulating mutant that was characterized at the genetic level. The specific production rate achieved is at least eight times higher than those reported for other cis, cis-muconate-producing strains.

Chrysosporium lucknowense arabinohydrolases effectively degrade sugar beet arabinan.

The filamentous fungus Chrysosporium lucknowense (C1) is a rich source of cell wall degrading enzymes. In the present paper four arabinose releasing enzymes from C1 were characterized, among them one endoarabinanase, two arabinofuranosidases and one exoarabinanase. Combinations of these enzymes released up to 80% of the arabinose present in sugar beet arabinan to fermentable monosugars. Besides the main product arabinobiose, unknown arabinose oligomers are produced from highly branched arabinan when endoarabinanase was combined with exoarabinanase and/or arabinofuranosidase. All described arabinose releasing enzymes are temperature stable up to 50 degrees C and have a broad pH stability. This makes C1 arabinohydrolases suitable for many biotechnical applications, like co-fermentation bioethanol production.

Coaxial nickel/poly(p-phenylene vinylene) nanowires as luminescent building blocks manipulated magnetically.

A template-based strategy was developed which combines a wet-chemical technique and electrodeposition within nanoporous membranes. Morphological, structural and chemical characterization by means of electron microscopy and related techniques demonstrate unambiguously that coaxial nickel/poly(p-phenylene vinylene) (PPV) nanowires have been successfully synthesized. Moreover, modification of their optical and magnetic properties due to the nanoscale and the core-shell structure has been studied. The nickel-PPV nanowires exhibit a slightly blueshifted photoluminescence (PL), which is directly related to the tubular morphology of the PPV shell. The effect of the nickel core on the PL intensity of the PPV shell is discussed. The ferromagnetic behavior has been shown with the magnetization easy axis along the wire axis. These arrays of coaxial semiconducting polymer-metal nanowires embedded in a polymer membrane are interesting for flexible electronics and photovoltaic devices. Furthermore, their magnetic manipulation has been demonstrated, which opens the way to use them as multifunctional building blocks for bio-applications.

Elaboration of conjugated polymer nanowires and nanotubes for tunable photoluminescence properties.

Prototypal photoluminescent nanofibres of poly-(p-phenylene-vinylene) (PPV) were prepared by the wetting template method in polycarbonate nanoporous membranes with an easy all-in solution polymer precursor route. Both nanowires and nanotubes were obtained by varying the dilution of the polymer precursor in methanol prior to thermal conversion. PPV nanotubes exhibit unique features, such as blue-shifted emission at 2.80 eV, higher quantum yield, and longer fluorescence lifetime with respect to PPV films. These effects are attributed to the cancellation of interchain interactions that are consistent with nanoscale tubular structures formed from weakly interacting and short polymer chain segments. The synthesis of these objects opens up perspectives for tunable photoluminescence properties in the blue spectral range and for biochemical applications.

Steady state and transient photoluminescence in poly-p-phenylene vinylene films and nanofibers.

We report in this paper experimental data on steady state and transient photoluminescence of poly-p-phenylene vinylene in the form of nanofibers prepared with a template method and converted at 110 degrees C. Results are compared to those obtained from films of different thicknesses converted at the same temperature. Data are analyzed by a model of bimodal distribution of conjugation lengths and the photoluminescence band shapes, evaluated in the framework of this model, are also presented.

Evidence of temperature dependent charge migration on conjugated segments in poly-p-phenylene vinylene and single-walled carbon nanotubes composite films.

We present new results of temperature dependence of photoluminescence spectra carried out on poly-p-phenylene vinylene (PPV) and on PPV composite films with single-walled carbon nanotubes. By performing studies at different temperatures (87 and 300 K), we show that a distribution of conjugated PPV segments is needed to interpret experimental data. At the microscopic scale, such a distribution corresponds to the morphological picture of poorly packed short chain segments and well-packed ordered long chain segments. Within this scheme, a new interpretation emerges for explaining the specific behavior of the photoluminescence bands. In particular, the two most intense components of the photoluminescence spectra of PPV thermally converted at 300 degrees C (2.23 and 2.43 eV at 300 K) change drastically their relative intensity when the observation temperature decreases. This effect is interpreted as due to the inhibition of charge migration to longer segments and to radiative recombination occurring mainly on n = 5 conjugated segments.

High-rate 3-methylcatechol production in Pseudomonas putida strains by means of a novel expression system.

The bioconversion of toluene into 3-methylcatechol was studied as a model system for the production of valuable 3-substituted catechols in general. For this purpose, an improved microbial system for the production of 3-methylcatechol was obtained. Pseudomonas putida strains containing the todC1C2BAD genes involved in the conversion of toluene into 3-methylcatechol were used as hosts for introducing extra copies of these genes by means of a novel integrative expression system. A construct was made containing an expression cassette with the todC1C2BAD genes cloned under the control of the inducible regulatory control region for naphthalene and phenanthrene degradation, nagR. Introducing this construct into wild-type P. putida F1, which degrades toluene via 3-methylcatechol, or into mutant P. putida F107, which accumulates 3-methylcatechol, yielded biocatalysts carrying multiple copies of the expression cassette. As a result, up to 14 mM (1.74 g l(-1)) of 3-methylcatechol was accumulated and the specific production rate reached a level of 105 micromol min(-1) g(-1) cell dry weight, which is four times higher than other catechol production systems. It was shown that these properties were kept stable in the biocatalysts without the need for antibiotics in the production process. This is an important step for obtaining designer biocatalysts.

Integrated bioproduction and extraction of 3-methylcatechol.

Pseudomonas putida MC2 is a solvent-tolerant strain that accumulates 3-methylcatechol. In aqueous media, 10 mM of 3-methylcatechol was produced and production was limited by 3-methylcatechol toxicity to the biocatalyst. Production levels increased by introduction of a second, organic phase that provides the substrate toluene and extracts the product from the culture medium. Octanol was shown to be an appropriate second phase with respect to tolerance of the strain for this solvent and with respect to partitioning of both substrate and product. Per unit of overall reactor volume (octanol and water), best results were obtained with 50% (v/v) of octanol: an overall 3-methylcatechol concentration of 25 mM was reached with 96% of the product present in the octanol phase. These product concentrations are much higher than in aqueous media without organic solvent, indicating that biocatalysis in an organic/aqueous two-phase system is an improved set-up for high production levels of 3-methylcatechol.

An insertion sequence prepares Pseudomonas putida S12 for severe solvent stress.

The novel insertion sequence ISS12 plays a key role in the tolerance of Pseudomonas putida S12 to sudden toluene stress. Under normal culturing conditions the P. putida S12 genome contained seven copies of ISS12. However, a P. putida S12 population growing to high cell density after sudden addition of a separate phase of toluene carried eight copies. The survival frequency of cells in this variant P. putida S12 population was 1000 times higher than in "normal" P. putida S12 populations. Analysis of the nucleotide sequence flanking the extra ISS12 insertion revealed integration into the srpS gene. srpS forms a gene cluster with srpR and both are putative regulators of the solvent resistance pump SrpABC. SrpABC makes a major contribution to solvent tolerance in P. putida S12 and is induced by toluene. The basal level of srp promoter activity in the P. putida S12 variant was seven times higher than in wild-type P. putida S12. Introduction of the intact srpRS gene cluster in the variant resulted in a dramatic decrease of survival frequency after a toluene shock. These findings strongly suggest that interruption of srpS by ISS12 up-regulates expression of the solvent pump, enabling the bacterium to tolerate sudden exposure to lethal concentrations of toxic solvents. We propose that P. putida S12 employs ISS12 as a mutator element to generate diverse mutations to swiftly adapt when confronted with severe adverse conditions.

A genetically modified solvent-tolerant bacterium for optimized production of a toxic fine chemical.

The aim of the study was to investigate whether toxic fine chemical production can be improved using the solvent-tolerant Pseudomonas putida S12 in a two-liquid-phase system consisting of aqueous media and a water-immiscible octanol phase with production of 3-methylcatechol from toluene as the model conversion. For this purpose the genes involved in this conversion, todC1C2BAD from P. putida F1, were introduced into P. putida S12 with high stable expression. Production of 3-methylcatechol was monitored in batch incubations with different media using a single medium and a two-liquid medium-octanol system. The maximum concentration of 3-methylcatechol increased two-fold using the two-liquid medium-octanol system, irrespective of the selected medium.

Molecular characterization of the glyceraldehyde-3-phosphate dehydrogenase gene of Phaffia rhodozyma.

The glyceraldehyde-3-phosphate dehydrogenase (GPD; EC1.2.1.12)-encoding gene (gpd) was isolated from a genomic library of Phaffia rhodozyma CBS 6938. Unlike some other eukaryotic organisms the gpd gene is represented by a single copy in P. rhodozyma. The complete nucleotide sequence of the coding, as well as the flanking non-coding regions was determined. The nucleotide sequence of gpd predicted six introns and a polypeptide chain of 339 amino acids. The codon usage in the gpd gene of P. rhodozyma was highly biased and was significantly different from the codon usage in other yeasts. Phylogenetic analysis of different yeasts and filamentous asco- and basidiomycetes gpd sequences indicated that the gpd gene of P. rhodozyma forms a cluster with the corresponding genes of filamentous basidiomycetes.

Ultrastructural and electron energy loss spectroscopy studies of sequestration mechanisms of Cd and Cu in the marine diatom Skeletonema costatum.

The marine diatom Skeletonema costatum was used to study mechanisms of detoxification when submitted to cadmium and copper contamination. After 96 h of growth, concentration corresponding to 50% growth inhibition (IC50, 96 h) was 0.224 mg/L for cadmium and 0.045 mg/L for copper, indicating that copper is more toxic for S. costatum than cadmium. Heavy cellular damages were observed for cadmium and copper concentrations close to the IC50. Exposure to these concentrations induced a migration of inclusions from the peripheral cytoplasm to the vacuole. Electron energy loss spectroscopy (EELS) investigations demonstrated that Cd and Cu were specifically trapped in these inclusions. However, Cu was less sequestered than cadmium in the vacuole. EELS determination of oxidation states evidenced that trace metals were sequestered as Cd2+ and Cu2+. Nitrogen and sulfur are involved in metallic storage, especially in the case of cadmium contamination.

Cadmium bioaccumulation in Tetraselmis suecica: an electron energy loss spectroscopy (EELS) study.

Electron energy loss spectroscopy (EELS) was used to study the distribution of cadmium within the microalga Tetraselmis suecica when submitted to cadmium contamination. This analytical technique, which is associated to transmission electron microscopes, demonstrated that cadmium was stored specifically in the osmiophilic vesicles of T. suecica. The EELS study of the oxidation states revealed that cadmium was stored as Cd2+. In addition, the EELS quantification showed a significant relationship between cadmium, nitrogen, and sulfur concentrations. The toxic element is probably bounded to organic molecules via S-Cd bounds.

The crystal structure of human alpha-thrombin complexed with LY178550, a nonpeptidyl, active site-directed inhibitor.

The crystal structure of human alpha-thrombin in complex with LY178550, a nonpeptidyl, active site-directed inhibitor, has been solved to 2.07 A resolution by the method of X-ray crystallography. The final model of the complex has a crystallographic R-value of 21.5% (Rfree = 23.1%) with 0.014 A and 2.4 degrees standard deviation from ideal bond lengths and angles, respectively. Well-defined electron density was observed for the inhibitor in the active site. The inhibitor binds to the active site in an L-shaped manner, mimicking the bound conformation of the tripeptide arginal series of thrombin inhibitors (Chirgadze NY et al., 1992, American Crystallographic Association Meeting 20: 116 [Abstr. PB311]). The basic amidine of LY178550 forms a salt bridge with Asp 189 within the specificity pocket, while the 4-benzylpiperidine side chain engages in a number of hydrophobic interactions at the S2 and S3 binding sites. The inhibitor does not interact in any fashion with the active site sequence Ser 214-Gly 216, as occurs with many of the inhibitors studied previously. The indole N-H of the inhibitor forms a hydrogen bond to the gamma-oxygen of the catalytic serine (Ser 195).

Crystal structure of the obese protein leptin-E100.

Mutations in the obese gene (OB) or in the gene encoding the OB receptor(OB-R) result in obesity, infertility and diabetes in a variety of mouse phenotypes. The demonstration that OB protein (also known as leptin) can normalize body weight in ob/ob mice has generated enormous interest. Most human obesity does not appear to result from a mutant form of leptin: rather, serum leptin concentrations are increased and there is an apparent inability to transport it to the central nervous system (CNS). Injection of leptin into the CNS of overfed rodents resistant to peripheral administration was found to induce biological activity. Consequently, for the leptin to act as a weight-lowering hormone in human obesity, it appears that appropriate concentrations must be present in the CNS. This places a premium on understanding the structure of the hormone in order to design more potent and selective agonists. Here we report the crystal structure at 2.4A resolution of a human mutant OB protein (leptin-E100) that has comparable biological activity to wild type but which crystallizes more readily. The structure reveals a four-helix bundle similar to that of the long-chain helical cytokine family.

High copy number integration into the ribosomal DNA of the yeast Phaffia rhodozyma.

This report describes a transformation system leading to stable high copy number integration into the ribosomal DNA (rDNA) of the astaxanthin-producing yeast Phaffia rhodozyma. A plasmid was constructed that contains the transposon Tn5 encoded kanamycin resistance gene (KmR) fused in frame to the 5'-terminal portion of the Phaffia actin gene. This marker, driven by the Phaffia actin promoter, confers resistance to G418 (Geneticin). The plasmid also contains a rDNA portion that comprises the 18S rDNA and promotes high copy integration leading to stable Phaffia transformants that maintained the plasmid at high copy number after 15 generations of non-selective growth. Phaffia, strain CBS 6938, was found to contain the rDNA units in clusters distributed over three chromosomes with a total copy number of 61. Phaffia transformants were shown to have over 50 copies of pGB-Ph9 integrated in tandem in chromosomes that contain rDNA loci. The chromosomal shifts that occur as a result of these integrations as shown by pulsed field electrophoresis strongly suggest that Phaffia is haploid.

New trends in macromolecular X-ray crystallography.

Advances in experimental and computational techniques have reaffirmed the role of protein X-ray crystallography as one of the primary providers of structural information both to enhance our fundamental understanding of biological systems and also to assist the design and optimization of important therapeutics. Today, the most important challenge facing macromolecular X-ray crystallography is the need to grow suitable crystals of a given protein. Once this has been accomplished, most often the question is not whether the structure will be solved but rather how fast this will be done. A dramatic example of this is the crystal structure of cytochrome c oxidase. The search for crystallization conditions took about 15 years and then the structure was solved in about one year.