A combined experimental and DFT investigation on the structure and CO-releasing properties of mono and binuclear fac-ReI(CO)3 complexes with 5-pyridin-2-ylmethylene-amino uracils.

The synthesis, structure and CO-releasing properties of a number of new tricarbonyl rhenium(i) complexes with 5-substituted-6-amino-1,3-dimethyluracils are reported and their structural features discussed on the basis of both spectral and X-ray crystallographic analyses. The 5-substituent library includes -N[double bond, length as m-dash]CH-2py (DAAUPic) and -CH[double bond, length as m-dash]N-N[double bond, length as m-dash]CH-2py (FDUHzPic) as additional metal binding components and chloride, acetonitrile or pyridine acting as ancillary ligands. The compounds have been identified by elemental analysis, NMR, MS and IR spectroscopy. In addition, [ReCl(CO)3(DAAUPic)], [Re(CO)3(FDUHzPic)py]ClO4, [Re(CO)3(FDUHzPic)py]PF6, [Re2Cl2(CO)6(FDUHzPic)] and [Re2Cl(CO)6(FDUHzPicH-1)(H2O)] structures have been solved by X-ray diffraction methods. These studies have clearly shown that the preferred coordination mode to rhenium takes place through the (N1F,N52)-pyridin-2-yl-methyleneamine moiety, the uracil coordinative availability (O4-N51 or N6-N51) being used only to bind the second metal center. The CO-releasing ability of these rhenium compounds has been investigated by the reaction with myoglobin; the corresponding studies have revealed that two of the mononuclear complexes and their related binuclear analogues are able to release CO to a moderate extent. This ability has also been theoretically assessed through a QTAIM analysis. The results, although non-conclusive, may explain somehow possible different preferences in CO releasing power after a comparison between the nature of Re-CO links in mononuclear and binuclear compounds.

Effect of five-membered ring and heteroatom substitution on charge transport properties of perylene discotic derivatives: A theoretical approach.

Density functional theory calculations were carried out to investigate the evolvement of charge transport properties of a set of new discotic systems as a function of ring and heteroatom (B, Si, S, and Se) substitution on the basic structure of perylene. The replacement of six-membered rings by five-membered rings in the reference compound has shown a prominent effect on the electron reorganization energy that decreases ∼0.2 eV from perylene to the new carbon five-membered ring derivative. Heteroatom substitution with boron also revealed to lower the LUMO energy level and increase the electron affinity, therefore lowering the electron injection barrier compared to perylene. Since the rate of the charge transfer between two molecules in columnar discotic systems is strongly dependent on the orientation of the stacked cores, the total energy and transfer integral of a dimer as a disc is rotated with respect to the other along the stacking axis have been predicted. Aimed at obtaining a more realistic approach to the bulk structure, the molecular geometry of clusters made up of five discs was fully optimized, and charge transfer rate and mobilities were estimated for charge transport along a one dimensional pathway. Heteroatom substitution with selenium yields electron transfer integral values ∼0.3 eV with a relative disc orientation of 25°, which is the preferred angle according to the dimer energy profile. All the results indicate that the tetraselenium-substituted derivative, not synthetized so far, could be a promising candidate among those studied in this work for the fabrication of n-type semiconductors based on columnar discotic liquid crystals materials.

DFT study of the effect of fluorine atoms on the crystal structure and semiconducting properties of poly(arylene-ethynylene) derivatives.

The effect of fluorine substitution on the molecular structure, crystal packing, and n-type semiconducting properties of a set of poly(arylene-ethynylene) polymers based on alternating thiadiazole and phenyl units linked through ethynylene groups has been studied by means of Density Functional Theory. As a result, an enlargement in the interplanar distance between cofacial polymer chains, as well as a decrease of the electronic coupling and electron mobility is predicted. On the other hand, fluorination could facilitate electron injection into the material. A polymer containing both alkoxy pendant chains and fluorine atoms is proposed as a compromise solution between efficiency of electron injection and charge transport within the material.

A DFT approach to the charge transport related properties in columnar stacked π-conjugated N-heterocycle cores including electron donor and acceptor units.

We present a density functional theory (DFT) study on charge-transport related properties in a series of discotic systems based on 1,3,5-triazine and tris[1,2,4]triazolo[1,3,5]triazine central cores as electron acceptor units, and phenyl-thiophene and N-carbazolyl-thiophene segments as electron donor units. The presence of both electron donor and acceptor moieties in the π-conjugated core could lead to new discotic liquid crystal (DLC) materials which are predicted to display ambipolar charge transport behavior in such a way that electrons could move through the central part of the next cores while holes mainly do through the peripheral groups. A significant increase in hole mobility when N-carbazolyl is present as an electron donor unit in the peripheral region is predicted. In addition, a detailed topological analysis of the electron charge density within the framework provided by Quantum Theory of Atoms in Molecules (QTAIM) has been performed in order to characterize intra- and intermolecular interactions in terms of hydrogen bonds and/or π···π stacking which contribute to the stabilization of the columnar stack and the helical self-assembly at the molecular scale.

Application of a set of complementary techniques to understand how varying the proportion of two wastes affects humic acids produced by vermicomposting.

A better understanding of how varying the proportion of different organic wastes affects humic acid (HA) formation during vermicomposting would be useful in producing vermicomposts enriched in HAs. With the aim of improving the knowledge about this issue, a variety of analytical techniques [UV-visible spectroscopic, Fourier transform infrared, fluorescence spectra, solid-state cross-polarization magic-angle spinning (CPMAS) (13)C nuclear magnetic resonance (NMR) spectra, and thermal analysis] was used in the present study to characterize HAs isolated from two mixtures at two different ratios (2:1 and 1:1) of tomato-plant debris (TD) and paper-mill sludge (PS) before and after vermicomposting. The results suggest that vermicomposting increased the HA content in the TD/PS 2:1 and 1:1 mixtures (15.9% and 16.2%, respectively), but the vermicompost produced from the mixture with a higher amount of TD had a greater proportion (24%) of HAs. Both vermicomposting processes caused equal modifications in the humic precursors contained in the different mixtures of TD and PS, and consequently, the HAs in the vermicomposts produced from different waste mixtures exhibited analogous characteristics. Only the set of analytical techniques used in this research was able to detect differences between the HAs isolated from each type of vermicompost. In conclusion, varying the proportion of different wastes may have a stronger influence on the amount of HAs in vermicomposts than on the properties of HAs.

Theoretical estimation of the optical bandgap in a series of poly(aryl-ethynylene)s: a DFT study.

Aimed to optimize the ratio accuracy/computational cost, in this work we study the performance of three different theoretical methodologies in the calculation of the optical bandgap for a test set made of a number of poly(aryl-ethynylene)s related polymers. Infinite, ideal polymer chains were first optimized by means of periodic calculations. Different length oligomers were afterward generated by direct replication of the corresponding periodic structure and their optical bandgaps were calculated by means of different time dependent-density functional theory (TD-DFT) methodologies. These results were fitted to an exponential function for each oligomer family in order to get a theoretical estimation of the optical bandgap for each polymer to be compared to the experimental reported values. The best result was obtained for TD-M06-2X yielding an average deviation of 3.4% with respect to the experimental values.

Crystal structure and charge transport properties of poly(arylene-ethynylene) derivatives: a DFT approach.

In the present study, a series of crystalline poly(arylene-ethynylene) copolymers containing phenylethynylene and 2,5-dialkoxy-phenylethynylene units together with 1,3,4-thiadiazole rings has been modeled by means of periodic calculations. Optimized three-dimensional polymeric structures show interchain distances that are consistent with the experimental values reported for a related polymer. It has also been observed that the presence of pendant alkoxy chains brings on both a further flattening and a separation of the coplanar chains. This fact is linked to a decrease of the interchain cofacial distance. The electron transport character of the polymer crystal structures was assessed through Marcus theory. Electronic coupling between neighboring polymer chains is most influenced by the presence of alkoxy chains giving rise to an expectable enhancement of the electron hopping mobility.

Heteropolyhedral silver compounds containing the polydentate ligand N,N,O-E-[6-(hydroxyimino)ethyl]-1,3,7-trimethyllumazine. Preparation, spectral and XRD structural study and AIM calculations.

The oxime derived from 6-acetyl-1,3,7-trimethyllumazine (1) ((E-6-(hydroxyimino)ethyl)-1,3,7-trimethylpteridine-2,4(1H,3H)-dione, DLMAceMox) has been prepared and its molecular and crystal structure determined from spectral and XRD data. The oxime ligand was reacted with silver nitrate, perchlorate, thiocyanate, trifluoromethylsulfonate and tetrafluoroborate to give complexes with formulas [Ag(2)(DLMAceMox)(2)(NO(3))(2)](n) (2), [Ag(2)(DLMAceMox)(2)(ClO(4))(2)](n) (3), [Ag(2)(DLMAceMox)(2)(SCN)(2)] (4), [Ag(2)(DLMAceMox)(2)(CF(3)SO(3))(2)(CH(3)CH(2)OH)]·CH(3)CH(2)OH (5) and [Ag(DLMAceMox)(2)]BF(4) (6). Single-crystal XRD studies show that the asymmetrical residual unit of complexes 2, 3 and 5 contains two quite different but connected silver centers (Ag1-Ag2, 2.9-3.2 Å). In addition to this, the Ag1 ion displays coordination with the N5 and O4 atoms from both lumazine moieties and a ligand (nitrato, perchlorato or ethanol) bridging to another disilver unit. The Ag2 ion is coordinated to the N61 oxime nitrogens, a monodentate and a (O,O)-bridging nitrato/perchlorato or two monodentate O-trifluoromethylsulfonato anions. The coordination polyhedra can be best described as a strongly distorted octahedron (around Ag1) and a square-based pyramid (around Ag2). The Ag-N and Ag-O bond lengths range between 2.22-2.41 and 2.40-2.67 Å, respectively. Although the structure of 4 cannot be resolved by XRD, it is likely to be similar to those described for 2, 3 and 5, containing Ag-Ag units with S-thiocyanato terminal ligands. Finally, the structure of the tetrafluoroborate compound 6 is mononuclear with a strongly distorted tetrahedral AgN(4) core (Ag-N, 2.27-2.43 Å). Always, the different Ag-N distances found clearly point to the more basic character of the oxime N61 nitrogen atom when compared with the pyrazine N5 one. A topological analysis of the electron density within the framework provided by the quantum theory of atoms in molecules (QTAIM) using DFT(M06L) levels of theory has been performed. Every Ag-Ag and Ag-ligand interaction has been characterized in terms of Laplacian of the electron density, [nabla](2)ρ(r), and the total energy density, H(r).

A Tuned LRC-DFT Design of Ambipolar Diketopyrrolopyrrole-Containing Quinoidal Molecules Interesting for Molecular Electronics.

This work presents a Density Functional Theory (DFT) study on the charge transport related properties of two quinoidal diketopyrrolopyrrole (DPP) based systems. System A, recently synthesized, shows high efficiency as n-type organic semiconductor material while system B, not synthesized yet, has a linking benzothiadiazole (BT) unit between DPP moieties and would display an ambipolar character. The use of tuned, long-range corrected (LRC) functionals allows one to predict HOMO, LUMO, and charge transport properties for compound A in concordance with those experimentally observed. The use of BT building blocks allows for a conclusion that compound B is expected to display balanced and efficient charge injection along with high mobilities both for holes and electrons, which points to its potential to obtain high performances as an ambipolar semiconductor.

Confinement Effects on UV-Visible Absorption Spectra: ß-Carotene Inside Carbon Nanotube as a Test Case.

The effect of the confinement in a single-wall carbon nanotube on the optical properties of ß-carotene is studied at the time-dependent density functional theory level. A complex computational protocol has been developed, based on a multilayered ONIOM approach making use of a recent range-separated hybrid functional as well as dispersion corrections. The role of both mechanical and electronic embedding has been clearly pointed out, showing how the inclusion of the latter is mandatory for a correct description of the experimental data. The correct calculation of the bathochromic shift experimentally observed upon encapsulation (0.23 eV) shows the ability of this computational protocol to reproduce all the physics behind such a complex host-guest interaction. From a more chemical point of view, this study allows one to show how such a shift is related to both geometrical and polarization effects.

Use of DGGE and COMPOCHIP for investigating bacterial communities of various vermicomposts produced from different wastes under dissimilar conditions.

This study describes the use of denaturing gradient gel electrophoresis (DGGE) and COMPOCHIP (i.e. a microarray targeting typical bacteria of stabilized organic materials and pathogenic bacteria) for investigating the bacterial communities of four different vermicomposts. These included a commercial vermicompost produced from cattle manure (CM) and three vermicomposts produced at pilot-scale by recycling: damaged tomato fruits (DT); olive-mill waste mixed with biosolids (OB); and winery wastes (WW). DGGE provided distinctive fingerprints of each vermicompost, which were statistically related to their particular chemical features. The comparison of the various vermicompost fingerprints showed that they contained bacterial communities with an average similarity coefficient of close to 80%. COMPOCHIP detected the presence of Sphingobacterium, Streptomyces, Alpha-Proteobacteria, Delta-Proteobacteria, and Firmicutes in all the vermicomposts. COMPOCHIP showed differences in the abundance of particular bacterial taxa among the vermicomposts, giving an idea about the usefulness of each vermicompost in the search for bacteria valuable to biotechnology. The joint use of DGGE and COMPOCHIP is a useful tool to compare vermicompost bacterial communities and to assess the potential of different vermicomposts as bioactive organic materials.

Role of vermicompost chemical composition, microbial functional diversity, and fungal community structure in their microbial respiratory response to three pesticides.

The relationships between vermicompost chemical features, enzyme activities, community-level physiological profiles (CLPPs), fungal community structures, and its microbial respiratory response to pesticides were investigated. Fungal community structure of vermicomposts produced from damaged tomato fruits (DT), winery wastes (WW), olive-mill waste and biosolids (OB), and cattle manure (CM) were determined by denaturing gradient gel electrophoresis of 18S rDNA. MicroResp™ was used for assessing vermicompost CLPPs and testing the microbial response to metalaxyl, imidacloprid, and diuron. Vermicompost enzyme activities and CLPPs indicated that WW, OB, and DT had higher microbial functional diversity than CM. The microbiota of the former tolerated all three pesticides whereas microbial respiration in CM was negatively affected by metalaxyl and imidacloprid. The response of vermicompost microbiota to the fungicide metalaxyl was correlated to its fungal community structure. The results suggest that vermicomposts with higher microbial functional diversity can be useful for the management of pesticide pollution in agriculture.

Impact of imidacloprid residues on the development of Eisenia fetida during vermicomposting of greenhouse plant waste.

Pesticide application in agriculture causes residues in post-harvest plant waste at different concentrations. Knowledge concerning how pesticide concentrations in such waste affect earthworms is essential for recycling greenhouse plant debris through vermicomposting. Here, we have evaluated the effects of imidacloprid (IMD) residues on earthworms (Eisenia fetida) during the vermicomposting of plant waste from greenhouse crops in Spain. Before, the effect of different IMD concentrations on earthworms was tested using cattle manure as an optimum waste for worm development. The results after using cattle manure indicate that IMD dose ≥ 5 mg kg(-1) hinders worm growth and even causes death, whereas IMD dose ≤ 2 mg IMD kg(-1) allows worm growth similar to control but impedes reproduction. The results from the vermicomposting of plant waste reveal that IMD inhibits adequate worm growth and increases mortality. Although 89% worms became sexually mature in substrate containing 2 mg IMD kg(-1), they did not produce cocoons. IMD also affected microorganisms harboured in the substrates for vermicomposting, as indicated by the reduction in their dehydrogenase activity. This enzyme activity was restored after vermicomposting. This study provides a sound basis for the vermicomposting of pesticide-contaminated plant waste.

Influence of the alkyl and alkoxy side chains on the electronic structure and charge-transport properties of polythiophene derivatives.

Density Functional Theory has been used to study the structural, electronic and charge-transport properties of two regio-regular head-to-tail polythiophene derivatives, i.e. poly(3-hexyl-thiophene), P3HT, and poly(3-oxyhexyl-thiophene), P3OHT. The effect of substituents on the electronic structure was analyzed by means of bandwidth, bandgap, effective mass, total and partial densities of states and crystal orbital overlap populations. Electronic couplings were estimated from band diagrams as the splitting of the valence band. The neutral and cationic states of isolated oligomers were optimized using the supercell approximation. The hole-transfer rates and mobilities were evaluated according to Marcus's theory. Results provide a compelling illustration of the effect of side chains on the crystal packing, electronic structure and charge-transport properties. Thus, the hole mobility calculated for the alkyl derivative was 0.15 cm(2) V(-1) s(-1) (experimental mobility is 0.10 cm(2) V(-1) s(-1)), while the alkoxy derivative has a theoretical mobility of 0.49 cm(2) V(-1) s(-1). The obtained results hopefully could motivate experimentalists to try out P3OHT for an improved charge carrier mobility.

Continuous-feeding vermicomposting as a recycling management method to revalue tomato-fruit wastes from greenhouse crops.

Huge quantities of discarded fruits generated from greenhouse crops represent a worldwide environmental problem. The aim of this work was to assess the efficiency of vermicomposting as a recycling management option for biotransforming tomato-fruit wastes from greenhouses into an organic nutrient-rich product available for agricultural purposes. A pilot vermireactor was constructed. It was provided with a manure layer, where an initial population of Eisenia fetida was introduced and fed continuously at a high organic loading rate (13.6 kg TOC m(-3)wk(-1)) for 150 days. Vermicompost chemical and enzymatic parameters as well as the bacterial and fungal community structure were determined for 210 days (vermicomposting plus a maturation period). Earthworm biomass increased after 90 days, and then declined due to increasing pH, electrical conductivity and ammonium concentration. The temporal patterns of dehydrogenase, ß-glucosidase, protease and urease were related to earthworm growth and the stabilization of organic matter. Bacterial DGGE profiles differed between the period of degradation of labile substrates and the maturation step. Fungal communities at the stage of maximum earthworm biomass differed most, suggesting a gut passage effect. The end product was chemically stable and enriched in nutrients, demonstrating that tomato-fruit wastes can be successfully vermicomposted into a valuable soil amendment. We suggest continuous-feeding vermicomposting as an environmentally sound management option for greenhouse wastes.

Feasibility of vermicomposting for vegetable greenhouse waste recycling.

This study was conducted in order to evaluate the feasibility of Eisenia andrei for vermicomposting heterogeneous-plant (HP), tomato-plant (P), and damaged tomato-fruit (T) greenhouse vegetable wastes. Earthworm growth and reproduction were monitored over a 12-week period, and variations in chemical parameters, enzyme activity, phytotoxicity test, and genetic fingerprinting of bacterial communities were evaluated. While high rates of salinity prevented earthworm survival in HP and P (>10 dS m(-1)), T was vermicomposted recording an adequate earthworm growth and cocoon production. The latter waste was successfully stabilized, as indicated by the significant decrease in its TOC content ( approximately 13-26%) and C:N ratio ( approximately 16-36%) and its high germination indices ( approximately 39-72%). The similar enzyme activities levels and bacterial community fingerprintings recorded in diverse vermicomposts obtained from T waste indicate that this type of waste favoured the existence of analogous bacterial communities responsible for the high degree of stabilization and maturity detected.

Density functional theory study of the optical and electronic properties of oligomers based on phenyl-ethynyl units linked to triazole, thiadiazole, and oxadiazole rings to be used in molecular electronics.

In the present work, we have studied from a theoretical perspective the geometry and electronic properties of the series of related compounds 2,5-bis(phenylethynyl)-1,3,4-thiadiazole, 2,5-bis(phenylethynyl)-1,3,4-oxadiazole, and 2,5-bis(phenylethynyl)-1,2,4-triazole as candidates for electron-conducting polymers and compounds with desirable (opto)electronic properties. The effect of the ethynyl group (-C[Triple Bond]C-) on the structure and electronic properties was also studied. The influence of planarity on electrical conductivity has been studied by a natural-bond-orbital analysis. The (opto)electronic properties and conducting capability were investigated through the highest occupied molecular orbital (HOMO)-lowest unoccupied molecular orbital (LUMO) gap, excitation energy, bond length alternation, LUMO energy, electron affinities, and intramolecular reorganization energy. Finally, the evolution of some properties such as optical bandgap and electron affinity with the increase of the number of repeat units in the oligomer chain has been checked.

Atmospheric reactions of (H)- and (D)-fluoroalcohols with chlorine atoms.

The reactions of Cl with a series of fluoroalcohols and deuterated fluoroalcohols, CF(3)CH(2)OH (k(4)), CF(3)CH(OH)CH(3) (k(5)), CF(3)CH(OH)CF(3) (k(6)), CF(3)CH(OD)CF(3) (k(7)) and CF(3)CD(OD)CF(3) (k(8)), are investigated as a function of temperature in the range of 268-378 K by laser photolysis-resonance fluorescence. To our knowledge, only the CF(3)CH(2)OH + Cl reaction has been previously studied from a kinetic point of view. The derived Arrhenius expressions obtained using our kinetic data are: k(4) = (1.79+/-0.17) x 10(-13) exp[(410+/-26)/T], k(5) = (1.20+/-0.11) x 10(-12) exp[(394+/-14)/T], k(6) = (2.32+/-0.18) x 10(-13) exp[-(740+/-12)/T], k(7) = (6.45+/-1.87) x 10(-13) exp[-(1136+/-94)/T] and k(8) = (4.19+/-1.09) x 10(-13) exp[-(1378+/-81)/T] (in units of cm(3) molecule(-1) s(-1) and where errors are +/-sigma). Moreover, a theoretical insight into the mechanisms of these reactions is pursued through ab initio Möller-Plesset second-order perturbation treatment calculations with the 6-311G** basis set. Optimized geometries are obtained for reagents, transition states and molecular complexes appearing along the different reaction pathways. Furthermore, molecular energies are calculated at the quadratic configuration interaction with single, double and triple excitations [QCISD(T)] level to obtain an estimation of the activation energies. Finally, the rate constants are calculated through transition-state theory using Wigner's transmission coefficient in order to include the tunnelling-effect corrections.

Theoretical study of the effect of ethynyl group on the structure and electrical properties of phenyl-thiadiazole systems as precursors of electron-conducting materials.

2,5-Bis(phenylethynyl)-1,3,4-thiadiazole (PhEtTh) and 2,5-diphenyl-1,3,4-thiadiazole (PhTh) are expected to be building blocks for polymer materials that could be employed to conduct electricity due to their narrow highest occupied molecular orbital-lowest unoccupied molecular orbital (HOMO-LUMO) energy gaps. In this work, a theoretical, comparative study about the effect of the ethynyl group on the planarity and electrical conductivity of this kind of systems has been carried out. Thus, several ab initio (Hartree-Fock, Moller-Plesset) and DFT (B3LYP, B3PW91, M05, M05-2X) methods and basis sets (6-31G(*), 6-31G+G(**), 6-311G(**), cc-pVDZ, cc-pVTZ) have been tested. As a result, PhEtTh showed better properties for its use as electric conducting material relative to PhTh due to its smaller HOMO-LUMO gap, as well as its enhanced trend to retain the planarity provided the reduction in steric hindrances that the ethynyl group (-C[triple bond]C-) permits. Solvent effects were also modeled for ethanol and chloroform under the conductor-like polarizable continuum model approximation. Finally, electronic transitions in gas and solution phases were predicted by using TDDFT approximation in order to compare the theoretical lambda(max) with the experimental values reported in literature for both compounds.

Kinetic and theoretical study of the reaction of Cl atoms with a series of linear thiols.

The reactions of Cl with a series of linear thiols: 1-propanethiol (k(1)), 1-butanethiol (k(2)), and 1-pentanethiol (k(3)) were investigated as a function of temperature (in the range of 268-379 K) and pressure (in the range of 50-200 Torr) by laser photolysis-resonance fluorescence. Only 1-propanethiol has previously been studied, but at 1 Torr of total pressure. The derived Arrhenius expressions obtained using our kinetic data were as follows: k(1)=(3.97+/-0.44)x10(-11) exp[(410+/-36)T], k(2)=(1.01+/-0.16)x10(-10) exp[(146+/-23)T], and k(3)=(1.28+/-0.10)x10(-10) exp[(129+/-25)T] (in units of cm(3) molecule(-1) s(-1)). Moreover, a theoretical insight into mechanisms of these reactions has also been pursued through ab initio Moller-Plesset second-order perturbation treatment calculations with 6-311G(**) basis set. Optimized geometries have been obtained for transition states and molecular complexes appearing along the different reaction pathways. Furthermore, molecular energies have been calculated at QCISD(T) level in order to get an estimation of the activation energies. Finally, the nature of the molecular complexes and transitions states is analyzed by using kinetic-potential and natural bond orbital total energy decomposition schemes.