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Sample records for matrix isolation ftir

  1. Structure of isothiocyanic acid dimers. Theoretical and FTIR matrix isolation studies

    NASA Astrophysics Data System (ADS)

    Krupa, Justyna; Wierzejewska, Maria

    2016-05-01

    A quantum mechanical study of the potential energy surface for the HNCS dimer is reported. The calculations were performed using DFT and ab initio MP2 methods. The most stable is a cyclic form with a double N-H⋯S interaction and the interaction energy in the range of 16.91-18.92 kJ mol-1. An open HNCS dimer bound by the N-H⋯N hydrogen bond is by ca 3.3-5.1 kJ mol-1 less stable. Experimental FTIR matrix isolation studies of HNCS/N2 system show that exclusively less stable open dimer is formed in solid nitrogen. Possible reasons for the observed discrepancy between theory and experiment are discussed.

  2. Conformational analysis and photolysis of matrix isolated 3-chloropropanoyl chloride monitored by FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Piétri, Nathalie; Piot, Jérôme; Aycard, Jean-Pierre

    1998-02-01

    Fourier transform infrared spectra of 3-chloropropanoyl chloride 1, both as a neat liquid and isolated in an argon matrix at 10 K, have been analyzed. These spectra reveal the existence of three conformers, the SA conformer (ф 1(C3C2ClO) = 0° and ф 2(C1C2C3Cl3) = 180°) being the most stable. The semi-empirical PM3 and ab initio 6-31G∗ methods were used to evaluate the relative stability of these conformers, and to calculate the infrared spectra. Irradiation of 3-chloropropanoyl chloride, at λ > 230 nm, yields 3-chloro-1,2-propenone 2 and acryloyl chloride 3 as primary photoproducts. Photolysis of these compounds induces the formation of CO, HCl, vinyl chloride and ethyne as final products. The shifts of the ν HCl stretching mode, below the frequency of monomeric HCl in argon matrix, are indicative of the formation of HCl : CO and HCl : ethyne complexes. The identification of the reaction products is performed by comparison of experimental FTIR spectra and literature data.

  3. Theoretical DFT and matrix isolation FTIR studies of 2-(1,2,4-triazolyl)phenol isomers

    NASA Astrophysics Data System (ADS)

    Pagacz-Kostrzewa, Magdalena; Sałdyka, Magdalena; Wierzejewska, Maria; Khomenko, Dmytro M.; Doroschuk, Roman O.

    2016-07-01

    The structure, isomerization pathways and vibrational spectra of the important heterocyclic 2-(1,2,4-triazolyl)phenol molecule were investigated by DFT calculations and matrix isolation FTIR spectroscopy. Among forty-five minima located on PES three isomers with intramolecular hydrogen bond Osbnd H⋯N, 2-TRP1, 1-TRP1 and 1-TRP2, are the most stable forms with the calculated abundance of 83.4%, 10.3% and 6.0%, respectively. The presented FTIR results allow identification and characterization of these species. Several hydrogen bond parameters such as OH bond distance, νOH wavenumber shift and occupancy of the antibonding σ∗(OH) orbital were found to be linearly related with the estimated interaction energy.

  4. Matrix isolation FTIR spectroscopic and DFT studies of metal-carbide clusters

    NASA Astrophysics Data System (ADS)

    Bejjani, Micheline

    2011-01-01

    Several metal containing molecules, including MgCN, NaCN, KCl, AlOH, and AlF have been observed in the interstellar medium. Additionally, transition metals have been observed. Many carbon containing molecules have also been observed in astrophysical sources. The purpose of the present research is to provide information on the spectral properties of metal carbide molecules that are potentially observable in space. Additional interest for studying small metal carbide molecules is the understanding of larger clusters including metallofullerenes and metallocarbohedrenes, and the catalytic growth of carbon nanotubes. FTIR spectra were obtained by condensing the vapor produced by dual laser ablation of metal and carbon rods in an argon matrix at ˜12K. Comparison of the observed 13C enriched vibrational spectra to the DFT simulated isotopic spectra has enabled the identification of vibrational fundamentals of linear MnC3, linear MgC3-, and chain ZnC3. The linear MnC3 has been detected for the first time. Its nu 1(sigma) vibrational fundamental has been observed at 1846.9 cm -1. Although previous photoelectron studies by Wang and Li have reported evidence for the cyclic isomer of MnC3, their assignment was inconclusive since the linear and fanlike structures have been found to lie very close in energy, and the observed PE frequency matched the frequencies predicted for the vibrational fundamentals of both the linear and the fanlike isomers of MnC3. Theoretical investigations of MgC3 - have indicated that the bent, linear, fan and kite structures are close in energy, and thus are potentially observables. In the present work, the nu1(sigma) asymmetric carbon stretching mode of linear MgC3- has been observed at 1797.5 cm-1. A second absorption at 1190.1 cm-1 which is correlated in intensity to the nu1(sigma) has tentatively been assigned to the nu2(sigma) vibrational fundamental. Although DFT calculations on ZnC3 have indicated that the linear, bent and kite structures are

  5. Crystal structure, matrix-isolation FTIR, and UV-induced conformational isomerization of 3-quinolinecarboxaldehyde.

    PubMed

    Kuş, Nihal; Henriques, Marta Sofia; Paixão, José António; Lapinski, Leszek; Fausto, Rui

    2014-09-25

    The crystal structure of 3-quinolinecarboxaldehyde (3QC) has been solved, and the compound has been shown to crystallize in the space group P21/c (monoclinic) with a = 6.306(4), b = 18.551(11), c = 6.999(4) Å, β = 106.111(13)°, and Z = 4. The crystals were found to exhibit pseudomerohedral twinning with a twin law corresponding to a two-fold rotation around the monoclinic (100) reciprocal lattice axis (or [4 0 1] in direct space). Individual molecules adopt the syn conformation in the crystal, with the oxygen atom of the aldehyde substituent directed toward the same side of the ring nitrogen atom. In the gas phase, the compound exists in two nearly isoenergetic conformers (syn and anti), which could be successfully trapped in solid argon at 10 K, and their infrared spectra are registered and interpreted. Upon in situ irradiation of matrix-isolated 3QC with UV light (λ > 315 nm), significant reduction of the population of the less stable anti conformer was observed, while that of the conformational ground state (syn conformer) increased, indicating occurrence of the anti → syn isomerization. Upon irradiation at higher energy (λ > 235 nm), the syn → anti reverse photoreaction was observed. Interpretation of the structural, spectroscopic, and photochemical experimental data received support from quantum chemical theoretical results obtained at both DFT/B3LYP (including TD-DFT investigation of excited states) and MP2 levels, using the 6-311++G(d,p) basis set. PMID:25144919

  6. The OH-Initiated Oxidation of CS2 in the Presence of NO: FTIR Matrix-Isolation and Theoretical Studies.

    PubMed

    Bil, A; Grzechnik, K; Sałdyka, M; Mielke, Z

    2016-09-01

    We studied the photochemistry of the carbon disulfide-nitrous acid system with the help of Fourier transform infrared (FTIR) matrix isolation spectroscopy and theoretical methods. The irradiation of the CS2···HONO complexes, isolated in solid argon, with the filtered output of the mercury lamp (λ > 345 nm) was found to produce OCS, SO2, and HNCS; HSCN was also tentatively identified. The (13)C, (15)N, and (2)H isotopic shifts as well as literature data were used for product identifications. The evolution of the measured FTIR spectra with irradiation time and the changes in the spectra after matrix annealing indicated that the identified molecules are the products of different reaction channels: OCS being a product of another reaction path than SO2 and HNCS or HSCN. The possible reaction channels between SC(OH)S/SCS(OH) radicals and NO were studied using DFT/B3LYP/aug-cc-pVTZ method. The SC(OH)S and/or SCS(OH) intermediates are formed when HONO attached to CS2 photodissociates into OH and NO. The calculations indicated that SC(OH)S radical can form with NO two stable adducts. The more stable SC(OH)S···NO structure is a reactant for a simple one-step process leading to OCS and HONS molecules. An alternative, less-stable complex formed between SC(OH)S and NO leads to formation of OCS and HSNO. The calculations predict only one stable complex between SCS(OH) radical and NO, which can dissociate along two channels leading to HNCS and SO2 or HSCN and SO2 as the end products. The identified photoproducts indicate that both SC(OH)S and SCS(OH) adducts are intermediates in the CS2 + OH + NO reaction leading to different reaction products. PMID:27491274

  7. A theoretical and matrix-isolation FT-IR investigation of the conformational landscape of N-acetylcysteine

    NASA Astrophysics Data System (ADS)

    Boeckx, Bram; Ramaekers, Riet; Maes, Guido

    2010-06-01

    The conformational landscape of N-acetylcysteine (NAC) has been investigated by a combined experimental matrix-isolation FT-IR and theoretical methodology. This combination is a powerful tool to study the conformational behavior of relatively small molecules. Geometry optimizations at the HF/3-21 level resulted in 438 different geometries with an energy difference smaller than 22 kJ mol -1. Among these, six conformations were detected with a relative energy difference smaller than 10 kJ mol -1 at the DFT(B3LYP)/6-31++G∗∗ level of theory. These were finally subjected to MP2/6-31++G∗∗ optimizations which resulted in five minima. The vibrational and thermodynamical properties of these conformations were calculated at both the DFT and MP2 methodologies. Experimentally NAC was isolated in an argon matrix at 16 K after being sublimated at 323 K. The most stable MP2 form appeared to be dominant in the experimental spectra but the presence of three other conformations with Δ EMP2 < 10 kJ mol -1 was also demonstrated. The experimentally observed abundance of the H-bond containing conformations appeared to be in good accordance with the predicted MP2 value.

  8. C dbnd N sbnd N dbnd C conformational isomers of 2'-hydroxyacetophenone azine: FTIR matrix isolation and DFT study

    NASA Astrophysics Data System (ADS)

    Grzegorzek, Joanna; Mielke, Zofia; Filarowski, Aleksander

    2010-07-01

    2'-hydroxyacetophenone azine (APA) has been studied by matrix isolation infrared spectroscopy and quantum chemical calculations. The DFT/B3LYP/6-311++G(2d,2p) calculations demonstrated the existence of two conformers for the lowest energy E/ E configuration of APA, a s- trans and a gauche ones. The conformers are characterized by similar energies and differ in the value of a C dbnd N sbnd N dbnd C angle, that was calculated to be 180° for a planar s-trans conformer and 155° for a non-planar gauche one . The calculated barrier for conformational interconversion is also very low, ca. 1 kJ mol -1 for the conversion from a gauche conformer to a trans one. The FTIR spectra of an argon matrix doped with APA from a vapour above solid sample evidence the presence of both conformers that exhibit reversible interconversion at matrix temperatures. The comparison of the theoretical spectra with the experimental ones and reversible temperature dependence of the experimental spectra allowed for unambiguous spectroscopic characterization of the trans and gauche conformers. The experiment also demonstrated that a gauche conformer is more stable than a trans one. The spectra analysis indicates that transformation from a trans conformer to a gauche one weakens the intramolecular O sbnd H⋯N bonds in the molecule.

  9. Matrix Isolation FTIR and AB Initio Studies on the Conformations of Dimethyl and Diethyl Carbonate and Their Complexes with Water

    NASA Astrophysics Data System (ADS)

    Kar, Bishnu Prasad; Ramanathan, N.; Sundararajan, K.; Viswanathan, K. S.

    2011-06-01

    Dimethyl carbonate (DMC) and diethyl carbonate (DEC) have been studied for their conformations using matrix isolation infrared spectroscopy and ab initio computations. In addition to the above studies, the complexes of the two compounds with water have also been studied. The experiments were corroborated with ab initio calculations at the B3LYP/6-31++G** level. The organic carbonates were trapped in argon and nitrogen matrixes using an effusive source maintained at two different temperatures; i.e. room temperature and 170°C. In addition the matrix was also deposited using a supersonic jet source. These experiments were performed to alter the relative population of the various conformations, to aid us in the assignments of the vibrational features. The conformation of DMC corresponding to the global minimum of DMC was found to be a cis-cis conformer where the two methyl groups are found to be at cis position with respect to the carbonyl oxygen. The next higher energy conformer corresponded to a cis-trans structure with a near trans-near trans structure being the highest energy conformer. In our experimental matrix isolation spectra of DMC, we were able to assign features due to the cis-cis and cis-trans conformers. The features of the higher energy cis-trans conformer was confirmed with our experiments using the elevated temperature effusive source and the supersonic source. DEC displays a richer conformational landscape due to the presence of a longer carbon chain. The computational and experimental indicate that the ground state conformer for this compound is one in which carbon attached to oxygen adopts a cis configuration with respect to the carbonyl oxygen, while the terminal carbon adopts an anti conformation. A detailed study of the conformational picture of DEC will be presented. In addition to the above conformational studies, 1:1 hydrogen bonded complexes of DMC and DEC with water were also observed in the matrix, which was corroborated by our

  10. Gas chromatographic/matrix isolation/FTIR studies of decomposition products of Irganox 1010 in an aqueous ethanol system

    NASA Astrophysics Data System (ADS)

    Chen, Jo-Yun T.; Mossoba, Madgi M.; Varner, S. L.; Roach, J. A.; Sphon, J. A.; Page, Samuel W.

    1989-12-01

    Irganox 1010 is an antioxidant used in food packaging. The degradation products of Irganox 1010 in a 50% aqueous ethanol system at 90C were examined by GC/MS and GC/MI/FTIR. The data suggest Irganox 10101 is hydrolyzed to form (3) benzenepropanoic acid, 3,5-bis (1,1-dimethylethyl)4-hydroxy-which reacts with solvent ethanol to form (f) its ethyl ester. The 4 other decomposition products (a) 2.5 cyclohexadiene-I,4-dione, 2,6-bis(1.1-dimethylethyl)-; (B) 3.5-bis-(1,1,-dimethylethyl)-2.5 cyclohexadiene-4-one spiro (5'-tetrahydrofuran-2'-one); (C) benzofuran, 2,3-dihydro-3.3-dimethyl-5 ethenyl-7-(1,1-dimethylethyl)-and (D) benzaldehyede, 3.5-bis-(1,1-dimethylethyl)-4-hydroxy-, can result from osidation, dehydration and decarboxylation processes of (E).

  11. Matrix-isolation FTIR, theoretical structural analysis and reactivity of amino-saccharins: N-(1,1-dioxo-1,2-benzisothiazol-3-yl)- N-methyl amine and - N,N-dimethyl amine

    NASA Astrophysics Data System (ADS)

    Almeida, R.; Gómez-Zavaglia, A.; Kaczor, A.; Ismael, A.; Cristiano, M. L. S.; Fausto, R.

    2009-12-01

    In this work, two novel amino-substituted derivatives of saccharin, N-(1,1-dioxo-1,2-benzisothiazol-3-yl)- N-methyl amine (MBAD) and N-(1,1-dioxo-1,2-benzisothiazol-3-yl)- N, N-dimethyl amine (DMBAD), were synthesized and characterized, and their molecular structure and vibrational properties were investigated by matrix-isolation FTIR spectroscopy and theoretical calculations undertaken using different levels of approximation. The calculations predicted the existence of two conformers of MBAD. The lowest energy form was predicted to be considerably more stable than the second conformer (Δ E > ca. 20 kJ mol -1) and was the sole form contributing to the infrared spectrum of the compound isolated in solid xenon. Both conformers have planar amine moieties. In the case of DMBAD, only one doubly-degenerated-by-symmetry conformer exists, with the amine nitrogen atom considerably pyramidalized. The effect of the electron-withdrawing saccharyl ring on the C-N bond lengths is discussed. The different structural preferences around the amine nitrogen atom in the two molecules were explained in terms of repulsive interactions involving the additional methyl group of DMBAD. Observed structural features are correlated with the reactivity exhibited by the two compounds towards nucleophiles. The experimentally obtained spectra of the matrix-isolated monomers of MBAD and DMBAD were fully assigned by comparison with the corresponding calculated spectra.

  12. The nature and fate of natural resins in the geosphere. XII. Investigation of C-ring aromatic diterpenoids in Raritan amber by pyrolysis-GC-matrix isolation FTIR-MS

    PubMed Central

    Anderson, Ken B

    2006-01-01

    Upper Cretaceous amber from the Raritan Formation (Sayerville, New Jersey) has been investigated by Pyrolysis-GC-MS and Pyrolysis-GC-matrix isolation FTIR-MS. Results establish the existence of two distinct forms of amber in this deposit. Both forms are Class Ib ambers, but they are unambiguously differentiated on the basis of their (intact) diterpenoid composition. The presence of callitrisate in both forms, and cupraene in samples designated form 1, strongly suggest that both derive from related-but-distinct species within the Cupressaceae. In addition to callitrisate, dehydroabietate and analogous 17-nor-, 16,17-dinor- and 15,16,17-trinor- analogues of these compounds are also observed. The distributions of these products in multiple samples suggest that they are the result of biological emplacement, rather than diagenetic modification of the parent compounds. This indicates that the distributions of diterpenes observed in these samples are representative of the original bioterpenoids and, hence, are useful for chemotaxonomic analyses. PMID:16759406

  13. Conformational isomerism of pyridoxal. Infrared matrix isolation and theoretical studies

    NASA Astrophysics Data System (ADS)

    Kwiatek, Anna; Mielke, Zofia

    2015-01-01

    A combined matrix isolation FTIR and theoretical DFT/B3LYP/6-311++G(2p,2d) study of pyridoxal was performed. The calculations resulted in five stable PLHB conformers stabilized by intramolecular Osbnd H⋯O bonding between phenolic OH and carbonyl Cdbnd O groups and another thirteen conformers in which OH or/and aldehyde groups are rotated by 180° around CO or/and CC bonds leading, respectively, to formation of PLO, PLA and PLOA conformers. The analysis of the spectra of the as-deposited matrix indicated that two most stable PLHB1 and PLHB2 conformers with intramolecular hydrogen bond are present in the matrix. The exposure of the PL/Ar matrix to mercury lamp radiation (λ > 345 nm) induced conformational change of PLHB isomers to PLOA ones.

  14. Conformational isomerism of pyridoxal. Infrared matrix isolation and theoretical studies.

    PubMed

    Kwiatek, Anna; Mielke, Zofia

    2015-01-25

    A combined matrix isolation FTIR and theoretical DFT/B3LYP/6-311++G(2p,2d) study of pyridoxal was performed. The calculations resulted in five stable PLHB conformers stabilized by intramolecular O-H⋯O bonding between phenolic OH and carbonyl C=O groups and another thirteen conformers in which OH or/and aldehyde groups are rotated by 180° around CO or/and CC bonds leading, respectively, to formation of PLO, PLA and PLOA conformers. The analysis of the spectra of the as-deposited matrix indicated that two most stable PLHB1 and PLHB2 conformers with intramolecular hydrogen bond are present in the matrix. The exposure of the PL/Ar matrix to mercury lamp radiation (λ>345 nm) induced conformational change of PLHB isomers to PLOA ones. PMID:25173527

  15. Conformational isomerism of pyridoxal. Infrared matrix isolation and theoretical studies.

    PubMed

    Kwiatek, Anna; Mielke, Zofia

    2015-01-25

    A combined matrix isolation FTIR and theoretical DFT/B3LYP/6-311++G(2p,2d) study of pyridoxal was performed. The calculations resulted in five stable PLHB conformers stabilized by intramolecular O-H⋯O bonding between phenolic OH and carbonyl C=O groups and another thirteen conformers in which OH or/and aldehyde groups are rotated by 180° around CO or/and CC bonds leading, respectively, to formation of PLO, PLA and PLOA conformers. The analysis of the spectra of the as-deposited matrix indicated that two most stable PLHB1 and PLHB2 conformers with intramolecular hydrogen bond are present in the matrix. The exposure of the PL/Ar matrix to mercury lamp radiation (λ>345 nm) induced conformational change of PLHB isomers to PLOA ones.

  16. FTIR spectra and conformational structure of deutero-β-alanine isolated in argon matrices

    NASA Astrophysics Data System (ADS)

    Stepanian, Stepan G.; Ivanov, Alexander Yu; Adamowicz, Ludwik

    2016-02-01

    Low temperature FTIR spectra of β-alanine-d3 isolated in argon matrices are used to determine the conformational composition of this compound. UV irradiation of the matrix samples is found to change the relative populations of the β-alanine-d3 conformers. The populations of conformers I and II with an Nsbnd D⋯O intramolecular H-bond decrease after the UV irradiation while the populations of conformer V with an N⋯Dsbnd O H-bond and conformer IV which has no intramolecular H-bonds increase. This behavior of the β-alanine-d3 conformers are used to separate the bands of the different conformers. The analysis of the experimental FTIR spectra is based on the calculated harmonic B3LYP/6-311++G(df,pd) frequencies and on the MP2/aug-cc-pVDZ frequencies calculated with a method that includes anharmonic effects. Polynomial scaling of the calculated frequencies is used to achieve better agreement with the experimental data. The observation of the wide band of the OD stretching vibration at 2201 cm-1 is a direct evidence of the presence of the β-alanine-d3 conformer V in the Ar matrix. In total ten bands of conformer V are detected. The influence of the matrix environment on the structures and the IR spectra of the β-alanine and β-alanine-d3 conformers is investigated. This involves performing calculations of the β-alanine conformers embedded in argon clusters containing from 163 to 166 argon atoms using the M06-2X and B3LYP(GD3BJ) density-functional methods. Good agreement between the calculated and the experimental matrix splitting is demonstrated.

  17. Matrix isolation as a tool for studying interstellar chemical reactions

    NASA Technical Reports Server (NTRS)

    Ball, David W.; Ortman, Bryan J.; Hauge, Robert H.; Margrave, John L.

    1989-01-01

    Since the identification of the OH radical as an interstellar species, over 50 molecular species were identified as interstellar denizens. While identification of new species appears straightforward, an explanation for their mechanisms of formation is not. Most astronomers concede that large bodies like interstellar dust grains are necessary for adsorption of molecules and their energies of reactions, but many of the mechanistic steps are unknown and speculative. It is proposed that data from matrix isolation experiments involving the reactions of refractory materials (especially C, Si, and Fe atoms and clusters) with small molecules (mainly H2, H2O, CO, CO2) are particularly applicable to explaining mechanistic details of likely interstellar chemical reactions. In many cases, matrix isolation techniques are the sole method of studying such reactions; also in many cases, complexations and bond rearrangements yield molecules never before observed. The study of these reactions thus provides a logical basis for the mechanisms of interstellar reactions. A list of reactions is presented that would simulate interstellar chemical reactions. These reactions were studied using FTIR-matrix isolation techniques.

  18. Gas chromatography/matrix-isolation apparatus

    DOEpatents

    Reedy, Gerald T.

    1986-01-01

    A gas-sample collection device provides matrix isolation of individual gas bands from a gas chromatographic separation and for the spectroscopic analysis of the individual sample bands. The device includes a vacuum chamber containing a rotatably supported, specular carousel having at least one reflecting surface for holding a sample deposited thereon. A gas inlet is provided for depositing a mixture of sample and matrix material on the reflecting surface which is maintained at a sufficiently low temperature to cause solidification. A first parabolic mirror directs an incident beam of electromagnetic radiation, such as in the infrared (IR) spectrum, from a source onto the sample/matrix mixture while a second parabolic mirror directs a second beam of electromagnetic radiation reflected by the specular surface to an IR spectrometer for determining the absorption spectra of the sample material deposited on the reflecting surface. The pair of off-axis parabolic mirrors having a common focal point are positioned outside of the vacuum chamber and may be displaced in combination for improved beam positioning and alignment. The carousel is provided with an aperture for each reflecting surface to facilitate accurate positioning of the incident beam relative to the gas-samples under analysis. Improved gas-sample deposition is insured by the use of a long focal length stereomicroscope positioned outside of the vacuum chamber for monitoring sample formation through a window, while the sample collector is positioned outside of the zone bounded by the incident and reflected electromagnetic beams for improved sample access and monitoring.

  19. Gas chromatography/matrix-isolation apparatus

    DOEpatents

    Reedy, G.T.

    1986-06-10

    A gas-sample collection device provides matrix isolation of individual gas bands from a gas chromatographic separation and for the spectroscopic analysis of the individual sample bands. The device includes a vacuum chamber containing a rotatably supported, specular carousel having at least one reflecting surface for holding a sample deposited thereon. A gas inlet is provided for depositing a mixture of sample and matrix material on the reflecting surface which is maintained at a sufficiently low temperature to cause solidification. A first parabolic mirror directs an incident beam of electromagnetic radiation, such as in the infrared (IR) spectrum, from a source onto the sample/matrix mixture while a second parabolic mirror directs a second beam of electromagnetic radiation reflected by the specular surface to an IR spectrometer for determining the absorption spectra of the sample material deposited on the reflecting surface. The pair of off-axis parabolic mirrors having a common focal point are positioned outside of the vacuum chamber and may be displaced in combination for improved beam positioning and alignment. The carousel is provided with an aperture for each reflecting surface to facilitate accurate positioning of the incident beam relative to the gas-samples under analysis. Improved gas-sample deposition is insured by the use of a long focal length stereomicroscope positioned outside of the vacuum chamber for monitoring sample formation through a window, while the sample collector is positioned outside of the zone bounded by the incident and reflected electromagnetic beams for improved sample access and monitoring. 10 figs.

  20. Spectroscopic characterization of matrix isolated transient species

    NASA Astrophysics Data System (ADS)

    Lue, Christopher J.

    Part I describes the electronic spectra of various actinide containing compounds isolated in solid Ar using laser induced fluorescence (LIF) spectroscopy. The IR spectra for many of the same molecules were also recorded to aid in the identification of the fluorescing species in the LIF spectra. LIF spectra of UO2 isolated in solid Ar were recorded to investigate the interactions between actinide compounds and the rare gas matrix host. At the time of the experiments, it had been proposed that for UO2 and CUO, the interactions between the actinide containing molecule and Ar were strong enough to reorder the low-lying electronic states of the molecule. The experiments presented here showed no evidence of a reordering of low-lying electronic states based on comparison of the matrix spectra with theoretical predictions and gas phase spectra. An attempt to observe fluorescence from higher order uranium oxides was undertaken. A matrix was made by ablating U metal in a 1.0% O2/Ar mixture. UO3 was a probable molecule formed in the experiment. And, while absorptions belonging to UO3 were observed in IR spectra, LIF from the same matrix provided evidence that another molecule was fluorescing. Two different vibrational frequencies observed in the U-O symmetric stretching region were indicative of at least two low-lying electronic states in fluorescing molecule. UO3 is a closed shell molecule, and it is unlikely that it has any low-lying electronic states. Instead, the fluorescence was attributed to the open shell species (UO2)+(O2) -. LIF and IR spectra of thermally vaporized UCl4 isolated in solid Ar were recorded. UCl4 contains U(IV), which is the most stable oxidation state other than U(VI). Before these experiments, no fluorescence had been recorded that could be attributed to UCl4. Based on the observed vibrational frequencies in the fluorescence bands and the lifetime of the fluorescence, it was determine that there was at least two different fluorescing species. The

  1. Rapid Isolation of Phenol Degrading Bacteria by Fourier Transform Infrared (FTIR) Spectroscopy.

    PubMed

    Li, Fei; Song, Wen-jun; Wei, Ji-ping; Wang, Su-ying; Liu, Chong-ji

    2015-05-01

    Phenol is an important chemical engineering material and ubiquitous in industry wastewater, its existence has become a thorny issue in many developed and developing country. More and more stringent standards for effluent all over the world with human realizing the toxicity of phenol have been announced. Many advanced biological methods are applied to industrial wastewater treatment with low cost, high efficiency and no secondary pollution, but the screening of function microorganisms is certain cumbersome process. In our study a rapid procedure devised for screening bacteria on solid medium can degrade phenol coupled with attenuated total reflection fourier transform infrared (ATR-FTIR) which is a detection method has the characteristics of efficient, fast, high fingerprint were used. Principal component analysis (PCA) is a method in common use to extract fingerprint peaks effectively, it couples with partial least squares (PLS) statistical method could establish a credible model. The model we created using PCA-PLS can reach 99. 5% of coefficient determination and validation data get 99. 4%, which shows the promising fitness and forecasting of the model. The high fitting model is used for predicting the concentration of phenol at solid medium where the bacteria were grown. The highly consistent result of two screening methods, solid cultural with ATR-FTIR detected and traditional liquid cultural detected by GC methods, suggests the former can rapid isolate the bacteria which can degrade substrates as well as traditional cumbersome liquid cultural method. Many hazardous substrates widely existed in industry wastewater, most of them has specialize fingerprint peaks detected by ATR-FTIR, thereby this detected method could be used as a rapid detection for isolation of functional microorganisms those can degrade many other toxic substrates.

  2. Rapid characterisation of Klebsiella oxytoca isolates from contaminated liquid hand soap using mass spectrometry, FTIR and Raman spectroscopy.

    PubMed

    Dieckmann, Ralf; Hammerl, Jens Andre; Hahmann, Hartmut; Wicke, Amal; Kleta, Sylvia; Dabrowski, Piotr Wojciech; Nitsche, Andreas; Stämmler, Maren; Al Dahouk, Sascha; Lasch, Peter

    2016-06-23

    Microbiological monitoring of consumer products and the efficiency of early warning systems and outbreak investigations depend on the rapid identification and strain characterisation of pathogens posing risks to the health and safety of consumers. This study evaluates the potential of three rapid analytical techniques for identification and subtyping of bacterial isolates obtained from a liquid hand soap product, which has been recalled and reported through the EU RAPEX system due to its severe bacterial contamination. Ten isolates recovered from two bottles of the product were identified as Klebsiella oxytoca and subtyped using matrix-assisted laser desorption/ionisation time-of-flight mass spectrometry (MALDI TOF MS), near-infrared Fourier transform (NIR FT) Raman spectroscopy and Fourier transform infrared (FTIR) spectroscopy. Comparison of the classification results obtained by these phenotype-based techniques with outcomes of the DNA-based methods pulsed-field gel electrophoresis (PFGE), multi-locus sequence typing (MLST) and single nucleotide polymorphism (SNP) analysis of whole-genome sequencing (WGS) data revealed a high level of concordance. In conclusion, a set of analytical techniques might be useful for rapid, reliable and cost-effective microbial typing to ensure safe consumer products and allow source tracking. PMID:27053001

  3. FTIR/PCA study of propanol in argon matrix: The initial stage of clustering and conformational transitions

    NASA Astrophysics Data System (ADS)

    Doroshenko, Iryna; Balevicius, Vytautas; Pitsevich, George; Aidas, Kestutis; Sablinskas, Valdas; Pogorelov, Valeriy

    2014-12-01

    FTIR spectra of 1-propanol in an argon matrix were studied in the range 11-30 K. Principal component analysis of dynamic FTIR spectra and nonlinear band shape fitting has been carried out. The peaks of monomer, open dimer, mixed propanol-water dimer and those of higher H-bond clusters have been resolved and analyzed. The attribution of certain FTIR peaks has been supported by proper density functional theory calculations. Analyzing dependences of the integral band intensities of various aggregates on temperature it has been deduced that in the initial stage of clustering monomers and dimers are the basic building blocks forming higher H-bond clusters. The peaks assigned to two conformers of monomers and mixed propanol-water dimers were investigated processing the temperature dependences of their integral intensities in Arrhenius plot. The obtained values of 0.18 kJ.mol-1 for propanol monomer and 0.26 kJ.mol-1 for mixed dimer are well comparable with the energy differences between the global minimum conformation of 1-propanol (Gt) and some other energetically higher structures (Tt or Tg).

  4. Bone matrix calcification during embryonic and postembryonic rat calvarial development assessed by SEM-EDX spectroscopy, XRD, and FTIR spectroscopy.

    PubMed

    Henmi, Akiko; Okata, Hiroshi; Anada, Takahisa; Yoshinari, Mariko; Mikami, Yasuto; Suzuki, Osamu; Sasano, Yasuyuki

    2016-01-01

    Bone mineral is constituted of biological hydroxyapatite crystals. In developing bone, the mineral crystal matures and the Ca/P ratio increases. However, how an increase in the Ca/P ratio is involved in maturation of the crystal is not known. The relationships among organic components and mineral changes are also unclear. The study was designed to investigate the process of calcification during rat calvarial bone development. Calcification was evaluated by analyzing the atomic distribution and concentration of Ca, P, and C with scanning electron microscopy (SEM)-energy-dispersive X-ray (EDX) spectroscopy and changes in the crystal structure with X-ray diffraction (XRD) and Fourier transform infrared (FTIR) spectroscopy. Histological analysis showed that rat calvarial bone formation started around embryonic day 16. The areas of Ca and P expanded, matching the region of the developing bone matrix, whereas the area of C became localized around bone. X-ray diffraction and FTIR analysis showed that the amorphous-like structure of the minerals at embryonic day 16 gradually transformed into poorly crystalline hydroxyapatite, whereas the proportion of mineral to protein increased until postnatal week 6. FTIR analysis also showed that crystallization of hydroxyapatite started around embryonic day 20, by which time SEM-EDX spectroscopy showed that the Ca/P ratio had increased and the C/Ca and C/P ratios had decreased significantly. The study suggests that the Ca/P molar ratio increases and the proportion of organic components such as proteins of the bone matrix decreases during the early stage of calcification, whereas crystal maturation continues throughout embryonic and postembryonic bone development.

  5. The nature of the structural gradient in epoxy curing at a glass fiber/epoxy matrix interface using FTIR imaging.

    PubMed

    González-Benito, J

    2003-11-15

    The curing process of an epoxide system was studied at the interface formed between a silane-coated glass fiber and an epoxy matrix. The gradient in the structure of the epoxy resin as a result of the cure process at the fiber/matrix interfacial region was monitored by FTIR imaging. For comparison, the epoxy curing at the interface formed between the epoxy resin and (a) an uncoated glass fiber and (b) a polyorganosiloxane (obtained from the silane used for the glass-fiber coating) were also monitored. Chemically specific images of the OH and the H-N-H groups near the interface region were obtained. These images suggest that there is a chemical gradient in the structure of the matrix from the fiber surface to the polymer bulk due to different conversions. The basis of the different kinetics of the curing reactions is a result of amino group inactivation at the interface. This deactivation translates into an off-stoichiometry of the reaction mixture, which is a function of the distance from the surface of the glass fiber.

  6. Iron pentacarbonyl detection limits in the cigarette smoke matrix using FT-IR spectroscopy

    NASA Astrophysics Data System (ADS)

    Parrish, Milton E.; Plunkett, Susan E.; Harward, Charles N.

    2005-11-01

    Endogenous metals present in tobacco from agricultural practices have been purported to generate metal carbonyls in cigarette smoke. Transition metal catalysts, such as iron oxide, have been investigated for the reduction of carbon monoxide (CO) in cigarette smoke. These studies motivated the development of an analytical method to determine if iron pentacarbonyl [Fe(CO) 5] is present in mainstream smoke from cigarette models having cigarette paper made with iron oxide. An FT-IR puff-by-puff method was developed and the detection limit was determined using two primary reference spectra from different sources to estimate the amount of Fe(CO) 5 present in a high-pressure steel cylinder of CO. We do not detect Fe(CO) 5 in a single 35 mL puff from reference cigarettes or from those cigarette models having cigarette paper made with iron oxide, with a 30-ppbV limit of detection (LOD). Also, it was shown that a filter containing activated carbon would remove Fe(CO) 5.

  7. Deconvolution of petroleum mixtures using mid-FTIR analysis and non-negative matrix factorization

    NASA Astrophysics Data System (ADS)

    Livanos, George; Zervakis, Michalis; Pasadakis, Nikos; Karelioti, Marouso; Giakos, George

    2016-11-01

    The aim of this study is to develop an efficient, robust and cost effective methodology capable of both identifying the chemical fractions in complex commercial petroleum products and numerically estimating their concentration within the mixture sample. We explore a methodology based on attenuated total reflectance fourier transform infrared (ATR-FTIR) analytical signals, combined with a modified factorization algorithm to solve this ‘mixture problem’, first in qualitative and then in quantitative mode. The proposed decomposition approach is self-adapting to data without prior knowledge and is able of accurately estimating the weight contributions of constituents in the entire chemical compound. The results of the presented work to petroleum analysis indicate that it is possible to deconvolve the mixing process and recover the content in a chemically complex petroleum mixture using the infrared signals of a limited number of samples and the principal substances forming the mixture. A focus application of the proposed methodology is the quality control of commercial gasoline by identifying and quantifying the individual fractions utilized for its formulation via a fast, robust and efficient procedure based on mathematical analysis of the acquired spectra.

  8. Ultraviolet Spectroscopy of Matrix-isolated Amorphous Carbon Particles

    NASA Astrophysics Data System (ADS)

    Schnaiter, M.; Mutschke, H.; Henning, Th.; Lindackers, D.; Strecker, M.; Roth, P.

    1996-06-01

    In view of the interstellar 217.5 nm and the circumstellar 230--250 nm extinction features, the UV extinction behavior of small matrix-isolated amorphous carbon grains is investigated experimentally. The particles were produced in a flame by burning acetylene with oxygen at low pressure. To prevent coagulation, the condensing primary soot grains (average diameter ~6 nm) were extracted by a molecular beam technique into a high-vacuum chamber. There they were deposited into a layer of solid argon, isolated from each other. The particle mass and size were controlled using a particle mass spectrometer. The measured UV extinction of the matrix-isolated particles is compared with measurements on samples produced in the conventional way by collecting carbon smoke on substrate as well as with scattering calculations for small spheres and ellipsoides. The laboratory data give a good representation of the circumstellar extinction feature observed in the spectrum of V348 Sgr.

  9. Long wavelength photochemistry of ozone and n-butylferrocene: A matrix isolation study

    NASA Astrophysics Data System (ADS)

    Pinelo, Laura F.; Ault, Bruce S.

    2016-07-01

    The photochemical reaction of ozone and n-butylferrocene has been studied using a combination of argon-matrix isolation, infrared spectroscopy, and theoretical calculations. The dark deposition produced a vivid green matrix that, when irradiated with red light, turned a brownish-red color. This green matrix as well as slightly red-shifted O3 infrared absorptions are indicative of the formation an initial charge transfer complex between ozone and n-butylferrocene. The spectral results support the photodissociation of the complexed ozone with red light (λ ≥ 600 nm) producing an oxygen atom, O(3P), and a dioxygen molecule, O2(3Σ). The O(3P) then reacts with n-butylferrocene to form products consisting of an iron atom with a coordinated n-butylcyclopentadienyl or cyclopentadienyl ring and either: (1) a pyran, (2) an aldehyde, or (3) a bidentate cyclic aldehyde with a seven-membered ring including the iron atom. The photochemical products were characterized with FT-IR spectroscopy, 18O-labeled O3 experiments, and DFT calculations using the B3LYP functional with the 6-311++G(d, 2p) basis set. A possible mechanism for the photochemical reaction is discussed.

  10. Matrix Isolation Studies of Carbonic Acid—The Vapor Phase above the β-Polymorph

    PubMed Central

    2013-01-01

    Twenty years ago two different polymorphs of carbonic acid, α- and β-H2CO3, were isolated as thin, crystalline films. They were characterized by infrared and, of late, by Raman spectroscopy. Determination of the crystal structure of these two polymorphs, using cryopowder and thin film X-ray diffraction techniques, has failed so far. Recently, we succeeded in sublimating α-H2CO3 and trapping the vapor phase in a noble gas matrix, which was analyzed by infrared spectroscopy. In the same way we have now investigated the β-polymorph. Unlike α-H2CO3, β-H2CO3 was regarded to decompose upon sublimation. Still, we have succeeded in isolation of undecomposed carbonic acid in the matrix and recondensation after removal of the matrix here. This possibility of sublimation and recondensation cycles of β-H2CO3 adds a new aspect to the chemistry of carbonic acid in astrophysical environments, especially because there is a direct way of β-H2CO3 formation in space, but none for α-H2CO3. Assignments of the FTIR spectra of the isolated molecules unambiguously reveal two different carbonic acid monomer conformers (C2v and Cs). In contrast to the earlier study on α-H2CO3, we do not find evidence for centrosymmetric (C2h) carbonic acid dimers here. This suggests that two monomers are entropically favored at the sublimation temperature of 250 K for β-H2CO3, whereas they are not at the sublimation temperature of 210 K for α-H2CO3. PMID:23631554

  11. Identification of different species of Bacillus isolated from Nisargruna Biogas Plant by FTIR, UV-Vis and NIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Ghosh, S. B.; Bhattacharya, K.; Nayak, S.; Mukherjee, P.; Salaskar, D.; Kale, S. P.

    2015-09-01

    Definitive identification of microorganisms, including pathogenic and non-pathogenic bacteria, is extremely important for a wide variety of applications including food safety, environmental studies, bio-terrorism threats, microbial forensics, criminal investigations and above all disease diagnosis. Although extremely powerful techniques such as those based on PCR and microarrays exist, they require sophisticated laboratory facilities along with elaborate sample preparation by trained researchers. Among different spectroscopic techniques, FTIR was used in the 1980s and 90s for bacterial identification. In the present study five species of Bacillus were isolated from the aerobic predigester chamber of Nisargruna Biogas Plant (NBP) and were identified to the species level by biochemical and molecular biological (16S ribosomal DNA sequence) methods. Those organisms were further checked by solid state spectroscopic absorbance measurements using a wide range of electromagnetic radiation (wavelength 200 nm to 25,000 nm) encompassing UV, visible, near Infrared and Infrared regions. UV-Vis and NIR spectroscopy was performed on dried bacterial cell suspension on silicon wafer in specular mode while FTIR was performed on KBr pellets containing the bacterial cells. Consistent and reproducible species specific spectra were obtained and sensitivity up to a level of 1000 cells was observed in FTIR with a DTGS detector. This clearly shows the potential of solid state spectroscopic techniques for simple, easy to implement, reliable and sensitive detection of bacteria from environmental samples.

  12. Direct FTIR analysis of isolated trans fatty acids in edible oils using disposable polyethylene film.

    PubMed

    Xu, Lirong; Zhu, Xufei; Chen, Xiumei; Sun, Daijun; Yu, Xiuzhu

    2015-10-15

    A new transmission-based Fourier transform infrared (FTIR) spectroscopy method has been developed to determine trans fatty acids (TFA) content in edible oils using disposable polyethylene (PE) film as a spectral acquisition accessory. Calibration standards were devised by gravimetrically adding TFA to TFA-free oil. The response was measured at 990-945 cm(-1) against the baseline. A linear relationship between the areas in the spectral regions 1670-1625 cm(-1) and 990-945 cm(-1) in TFA-free oil samples was established to compensate for interference due to underlying triacylglycerol absorptions in the trans measurement region (990-945 cm(-1)). Subsequently, the area measured at 990-945 cm(-1) was corrected for interference, using the linear equation obtained, to determine TFA content. Results indicated that the PE film-based FTIR method for analyzing TFA content in edible oils was simple and rapid, and could be used effectively as an alternative to gas chromatography and mass spectrometry methods.

  13. Matrix isolation spectroscopy and the stability of polycyclic aromatics in coal ash: Final report

    SciTech Connect

    Mamantov, G.; Wehry, R.L.

    1987-06-01

    Matrix Isolation Spectroscopy (MIS) overcomes some limitations of conventional molecular fluorescence and infrared (IR) spectroscopies by producing spectra having perhaps 10 times narrower spectral peaks. Analyte molecules are prevented from interacting with each other (or any other foreign molecules) because they are surrounded by an inert solid matrix (e.g., N/sub 2/, Ar, Ne, or Kr) at temperatures <20 K. For IR applications, such matrices exhibit no spectral interferences (phonon peaks occur at <85 cm/sup -1/). When interfaced with conventional gas chromatography (GC), MIS can usually resolve coeluting compounds in complex organic mixtures and is particularly effective for analysis of polycyclic aromatic compounds (PAC). Often, pretreatment is not necessary if there are <10 different compounds in the sample. Owing to the low energy throughput of MIS, combining with dispersive IR is not an effective technique, whereas combining with Fourier-transform infrared (FTIR) and ultraviolet (uv)-visible fluorescence is. Also, matrix-isolation (MI) combinations with other methods, such as electron paramagnetic resonance (EPR), Raman spectroscopy, secondary ion mass spectrometry (SIMS), and photoacoustic spectroscopy (PAS), may be useful. Laser excitation provides a sensitivity of <1 mg/kg. Resolution can be improved using a monochromatic laser, a polarized excitation source and polarized emitted fluorescence, and measuring fluorescence decay time. A separate study showed that PAC are photochemically stabilized in coal ash because of its carbonaceous matter (pie-pie bonding and porosity effect). Nonphotochemical degradation (generally oxidation) occurs for specific PAC (especially those containing a benzylic C-atom, e.g., fluorene).

  14. Reaction of matrix-isolated iron atoms with carbon disulfide

    SciTech Connect

    Doeff, M.M.

    1986-07-02

    This study was undertaken to determine the type of bonding, as well as the extent of reactivity between CS/sub 2/ and iron atoms. The results of several matrix isolation experiments in which either pure CS/sub 2/ or SC/sub 2//Ar and CS/sub 2//Kr mixtures were condensed with iron atoms and studied by infrared and Moessbauer spectroscopy are presented. All the spectra indicate the presence of only one product of the reaction between Fe and CS/sub 2/ no matter what the composition of the matrix. Conditions were also such that only monomeric Fe complexes were expected; therefore, it is concluded that the complex formed in these matrices has a composition of Fe(CS/sub 2/). Results of annealing experiments carried out to determine the stability of the complex were interpreted to mean that the Fe(CS/sub 2/) formed in a 100% CS/sub 2/ matrix is stable to at least 60 K, begins to decompose between 60 and 80 K to form a new iron-containing species, and forms a very stable, nonvolatile residue at room temperature. 22 references, 1 figure.

  15. FTIR study of ammonia formation via the successive hydrogenation of N atoms trapped in a solid N2 matrix at low temperatures.

    PubMed

    Hidaka, Hiroshi; Watanabe, Motohiro; Kouchi, Akira; Watanabe, Naoki

    2011-09-21

    A Fourier transform infrared absorption spectroscopy (FTIR) study showed that NH(3) was formed by the successive reaction of hydrogen atoms with nitrogen atoms in an N(2) matrix at 10 K. Reactions appeared to proceed via the Langmuir-Hinshelwood mechanism because NH(3) formation was not observed at 20 K. At this temperature, H atoms did not adsorb significantly onto the N(2) matrix; i.e., the surface residence times were short. Furthermore, NH(3) yields via the successive hydrogenation of N atoms were significant, even after H atom deposition onto the N(2) matrix containing trapped N atoms onto which had been deposited a superficial pure solid N(2) adlayer. This result clearly indicates that H atoms diffuse in pure solid N(2) matrices at 10 K.

  16. Synchronous fluorescence/matrix isolation method for trace organic analysis

    SciTech Connect

    Pardue, H.L.

    1987-11-01

    The primary object involved the development and evaluation of two-dimensional imaging detectors for synchronous fluorescence spectroscopy with adaptation to determination of trace amounts of organics such as polynuclear aromatic hydrocarbons (PAH's). A secondary objective was adaptation of chromatographic and matrix-isolation methods to this detection mode. The general plan was to illuminate (excite) the sample with several different wavelengths along its vertical axis and to use a polychromator at 90/sup 0/ to the excitation axis to resolve the fluorescent radiation. A two-dimensional imaging detector was used to monitor the resulting two-dimensional pattern of resolved fluorescence spectra (horizontal axis) at each of several excitation wavelengths (vertical axis). Data along one or more diagonal axes of the two-dimensional pattern were used as the synchronous fluorescence spectra at one or more wavelength differences (..delta..lambda) between excitation and emission spectra. 13 figs., 5 tabs.

  17. Matrix isolation apparatus with extended sample collection capability

    DOEpatents

    Reedy, Gerald T.

    1987-01-01

    A gas-sample collection device provides for the matrix isolation of increased amounts of a sample material for spectrographic analysis from a gas chromatographic separation. The device includes an evacuated sample collection chamber containing a disc-like specular carousel having a generally circular lateral surface upon which the sample is deposited in an inert gas matrix for infrared (IR) spectral analysis. The evacuated sample chamber is mounted in a fixed manner and is coupled to and supports a rotating cryostatic coupler which, in turn, supports the specular carousel within the collection chamber. A rotational drive system connected to the cryostatic coupler provides for its rotational displacement as well as that of the sample collecting carousel. In addition, rotation of the cryostatic coupler effects vertical displacement of the carousel to permit the collection of an extended sample band in a helical configuration on the entire lateral surface of the carousel. The various components of the carousel's angular/linear displacement drive system are located exterior to the cryostatic coupler for easy access and improved operation. The cryostatic coupler includes a 360.degree. rotary union assembly for permitting the delivery of a high pressure working fluid to the cryostatic coupler in a continuous flow manner for maintaining the specular carousel at a low temperature, e.g., 10.degree.-20.degree. K., for improved uninterrupted gas sample collection and analysis.

  18. Device for collecting and analyzing matrix-isolated samples

    DOEpatents

    Reedy, Gerald T.

    1979-01-01

    A gas-sample collection device is disclosed for matrix isolation of individual gas bands from a gas chromatographic separation and for presenting these distinct samples for spectrometric examination. The device includes a vacuum chamber containing a rotatably supported, specular carrousel having a number of external, reflecting surfaces around its axis of rotation for holding samples. A gas inlet is provided for depositing sample and matrix material on the individual reflecting surfaces maintained at a sufficiently low temperature to cause solidification. Two optical windows or lenses are installed in the vacuum chamber walls for transmitting a beam of electromagnetic radiation, for instance infrared light, through a selected sample. Positioned within the chamber are two concave mirrors, the first aligned to receive the light beam from one of the lenses and focus it to the sample on one of the reflecting surfaces of the carrousel. The second mirror is aligned to receive reflected light from that carrousel surface and to focus it outwardly through the second lens. The light beam transmitted from the sample is received by a spectrometer for determining absorption spectra.

  19. A combined matrix isolation spectroscopy and cryosolid positron moderation apparatus

    SciTech Connect

    Molek, Christopher D.; Michael Lindsay, C.; Fajardo, Mario E.

    2013-03-15

    We describe the design, construction, and operation of a novel apparatus for investigating efficiency improvements in thin-film cryogenic solid positron moderators. We report results from solid neon, argon, krypton, and xenon positron moderators which illustrate the capabilities and limitations of our apparatus. We integrate a matrix isolation spectroscopy diagnostic within a reflection-geometry positron moderation system. We report the optical thickness, impurity content, and impurity trapping site structures within our moderators determined from infrared absorption spectra. We use a retarding potential analyzer to modulate the flow of slow positrons, and report positron currents vs. retarding potential for the different moderators. We identify vacuum ultraviolet emissions from irradiated Ne moderators as the source of spurious signals in our channel electron multiplier slow positron detection channel. Our design is also unusual in that it employs a sealed radioactive Na-22 positron source which can be translated relative to, and isolated from, the cryogenic moderator deposition substrate. This allows us to separate the influences on moderator efficiency of surface contamination by residual gases from those of accumulated radiation damage.

  20. FT-IR spectroscopy: A powerful tool for studying the inter- and intraspecific biodiversity of cultivable non-Saccharomyces yeasts isolated from grape must.

    PubMed

    Grangeteau, Cédric; Gerhards, Daniel; Terrat, Sebastien; Dequiedt, Samuel; Alexandre, Hervé; Guilloux-Benatier, Michèle; von Wallbrunn, Christian; Rousseaux, Sandrine

    2016-02-01

    The efficiency of the FT-IR technique for studying the inter- and intra biodiversity of cultivable non-Saccharomyces yeasts (NS) present in different must samples was examined. In first, the capacity of the technique FT-IR to study the global diversity of a given sample was compared to the pyrosequencing method, used as a reference technique. Seven different genera (Aureobasidium, Candida, Cryptococcus, Hanseniaspora, Issatchenkia, Metschnikowia and Pichia) were identified by FT-IR and also by pyrosequencing. Thirty-eight other genera were identified by pyrosequencing, but together they represented less than 6% of the average total population of 6 musts. Among the species identified, some of them present organoleptic potentials in winemaking, particularly Starmerella bacillaris (synonym Candidazemplinina). So in a second time, we evaluated the capacity of the FT-IR technique to discriminate the isolates of this species because few techniques were able to study intraspecific NS yeast biodiversity. The results obtained were validated by using a classic method as ITS sequencing. Biodiversity at strain level was high: 19 different strains were identified from 58 isolates. So, FT-IR spectroscopy seems to be an accurate and reliable method for identifying major genera present in the musts. The two biggest advantages of the FT-IR are the capacity to characterize intraspecific biodiversity of non-Saccharomyces yeasts and the possibility to discriminate a lot of strains. PMID:26688103

  1. Force degradation behavior of glucocorticoid deflazacort by UPLC: isolation, identification and characterization of degradant by FTIR, NMR and mass analysis

    PubMed Central

    Deshmukh, Rajesh; Sharma, Lata; Tekade, Muktika; Kesharwani, Prashant; Trivedi, Piyush; Tekade, Rakesh K.

    2016-01-01

    Abstract In this investigation, sensitive and reproducible methods are described for quantitative determination of deflazacort in the presence of its degradation product. The method was based on high performance liquid chromatography of the drug from its degradation product on reverse phase using Acquity UPLC BEH C18 columns (1.7 µm, 2.1 mm × 150 mm) using acetonitrile and water (40:60 V/V) at a flow rate of 0.2 mL/minute in UPLC. UV detection was performed at 240.1 nm. Deflazacort was subjected to oxidative, acid, base, hydrolytic, thermal and photolytic degradation. The drug was found to be stable in water and thermal stress, as well as under neutral stress conditions. However, forced-degradation study performed on deflazacort showed that the drug degraded under alkaline, acid and photolytic stress. The degradation products were well resolved from the main peak, which proved the stability-indicating power of the method. The developed method was validated as per ICH guidelines with respect to accuracy, linearity, limit of detection, limit of quantification, accuracy, precision and robustness, selectivity and specificity. Apart from the aforementioned, the results of the present study also emphasize the importance of isolation characterization and identification of degradant. Hence, an attempt was made to identify the degradants in deflazacort. One of the degradation products of deflazacort was isolated and identified by the FTIR, NMR and LC-MS study.

  2. Methyl tunnelling in pure and matrix isolated halogenomesitylenes

    NASA Astrophysics Data System (ADS)

    Meinnel, J.; Mani, M.; Nusimovici, M.; Carlile, C. J.; Hennion, B.; Carrié, R.; Wyncke, B.; Sanquer, M.; Tonnard, F.

    1994-10-01

    The trihalogenomesitylenes, C 6(CH 3) 3X 3, where X = Cl, Br, I crystallise in the triclinic P overline1 space- group, such that the three methyl groups in one molecule see different environments. Indeed, we have detected three tunnelling and three torsional transitions in the pure compounds. In the case of a 3.7% mixture of protonated tribromomesitylene in a matrix of hexabromobenzene, we have detected only one tunnelling transition at 102μeV; from this, we conclude that the three methyl groups of the TBM molecule in the dilute mixture are equivalent in what is a relatively symmetrical environment and as a consequence also in the isolated molecule. A solid solution of 6% fully protonated trichloromesitylene in a matrix of fully deuterated TCM gives three transitions similar to those in the pure compound, indicating that there is no strong coupling between the different methyl groups. We also present Raman and FIR spectra of pure TBM giving the phonon frequencies at the Γ point. Some IR absorption maxima fall near maxima of the neutron spectra, indicating coupling between some phonons and the torsional transitions. So as to give us a model of the tribromomesitylene system we have optimised atom-atom Buckingham-type coefficients so as to reproduce the experimental phonon frequencies. The coefficients were used to calculate the intermolecular contribution Vex(θ) to Vs(θ), the potential hindering the methyl groups. The intramolecular contribution Vin(θ) was found using the quantum chemistry program AM1. The total hindering potential Vs(θ) so obtained allowed us to calculate the principal dynamic features of the methyl rotors in reasonable agreement with the experiments.

  3. UV-tunable laser induced phototransformations of matrix isolated anethole

    SciTech Connect

    Krupa, Justyna; Wierzejewska, Maria E-mail: rfausto@ci.uc.pt; Nunes, Cláudio M.; Fausto, Rui E-mail: rfausto@ci.uc.pt

    2014-03-14

    A matrix isolation study of the infrared spectra and structure of anethole (1-methoxy-4-(1-propenyl)benzene) has been carried out, showing the presence of two E conformers (AE1, AE2) of the molecule in the as-deposited matrices. Irradiation using ultraviolet-tunable laser light at 308–307 nm induced conformationally selective phototransformations of these forms into two less stable Z conformers (AZ1, AZ2). The back reactions were also detected upon irradiation at 301 nm. On the whole, the obtained results allow for full assignment of the infrared spectra of all the four experimentally observed anethole isomers and showed that the narrowband UV-induced E-Z photoisomerization is an efficient and selective way to interconvert the two isomers of anethole into each other, with conformational discrimination. Photolysis of anethole was observed as well, with initial methoxyl O–C bond cleavage and formation of CH{sub 3} and p-propenylphenoxy (AR) radicals, followed by radical recombination to form 2-methyl-4-propenyl-2,4-cyclohexadienone, which subsequently undergoes ring-opening generating several conformers of long-chain conjugated ketenes. Interpretation of the experimental observations was supported by density functional theory (B3LYP and B2PLYD) calculations.

  4. Isolation and characterization of chicken bile matrix metalloproteinase

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Avian bile is rich in matrix metalloproteinases (MMP), the enzymes that cleave extracellular matrix (ECM) proteins such as collagens and proteoglycans. Changes in bile MMP expression have been correlated with hepatic and gall bladder pathologies but the significance of their expression in normal, he...

  5. The novel acid degradation products of losartan: Isolation and characterization using Q-TOF, 2D-NMR and FTIR.

    PubMed

    Kumar Pandey, Avadhesh; Rapolu, Ravi; Raju, Ch Krishnam; Sasalamari, Gururaj; Kumar Goud, Sanath; Awasthi, Atul; Navalgund, Sameer G; Surendranath, Koduru V

    2016-02-20

    Forced degradation of losartan potassium in acidic condition resulted into three potential unknown impurities. These unknown degradation products marked as LD-I, LD-II and LD-III were analyzed using a new reverse-phase high performance liquid chromatography (HPLC), eluting at 3.63, 3.73 and 3.91 relative retention times with respect to losartan potassium (LOS) peak. All three were isolated from reaction mass using preparative HPLC and their structures were elucidated using LC-MS/MS, multidimensional NMR and FTIR spectroscopic techniques, as 5(2),11(2)-dibutyl-5(4),11(4)-dichloro-1(1)H,5(1)H,7(1)H,11(1)H-1(5,1),7(1,5)-ditetrazola-5,11(1,5)-diimidazola-2,8(1,2),3,9(1,4)-tetrabenzenacyclododecaphane,(Z)-5(2),11(2)-dibutyl-5(4),11(4)-dichloro-1(1)H,5(1)H,7(2)H,11(1)H-1(5,1),7(2,5)-ditetrazola-5,11(1,5)-diimidazola-2,8(1,2),3,9(1,4)-tetrabenzenacyclododecaphane, and 5(2),11(2)-dibutyl-5(4),11(4)-dichloro-1(2)H,5(1)H,7(2)H,11(1)H-1(5,2),7(2,5)-ditetrazola-5,11(1,5)-diimidazola-2,8(1,2),3,9(1,4)-tetrabenzenacyclododecaphane, respectively. To best of our knowledge, all three degradation products are novel impurities which are not discussed at any form of publication yet. PMID:26704631

  6. Matrix isolation spectra of metal atoms and ions: Ti, Zr, and Mo in Ar and Kr

    NASA Astrophysics Data System (ADS)

    Steinbrüchel, Christoph; Gruen, Dieter M.

    1981-01-01

    UV-absorption spectra are reported of neutral atoms and ions of Ti, Zr, and Mo in Ar and Kr matrices. The matrix-isolated species are produced by ion bombardment of a bulk metal target. Thermal and photoannealing experiments indicate that sputtered neutral atoms may occupy one or two distinct matrix sites, depending on the system. Sputtered ions, after being neutralized in the matrix, either go preferentially into the higher energy site, i.e., the site whose absorption bands are shifted farther to the blue, when atoms already populate two sites, or they create a new site at higher energy when there is only one site for atoms. Deconvolution of matrix isolation spectra into contributions from individual sites shows that spectra due to atoms in a particular site correspond much better to gas phase spectra than do total matrix isolation spectra. Matrix shifts of atomic absorption bands for both sites can be rationalized using a model by McCarty and Robinson if allowance is made for matrix distortion around solute atoms. The blue, or close-packed, site is found to correspond to a solute atom replacing a single matrix atom without inducing appreciable matrix distortion, whereas the red, or expanded, site requires the cage around a solute atom to be enlarged by a few percent.

  7. The biomolecule of 5-bromocytosine: FT-IR and FT-Raman spectra and DFT calculations. Identification of the tautomers in the isolated state and simulation the spectra in the solid state.

    PubMed

    Alcolea Palafox, M; Rastogi, V K; Kumar, Satendra; Joe, Hubert

    2013-07-01

    An accurate assignment of the IR spectrum in Ar matrix of 5-bromocytosine and of the IR and Raman spectra in the solid state was carried out. For this purpose Density functional calculations (DFTs) were performed to clarify wavenumber assignments of the experimental observed bands. The calculated values were scaled using scaling equations and they were compared with IR and Raman experimental data. Good reproduction of the experimental wavenumbers is obtained and the% error is very small in the majority of cases. In the isolated state all the tautomer forms of 5-bromocytosine were determined and optimized. The wavenumbers corresponding to C1 and C2b tautomers were identified and assigned in the IR experimental spectrum reported in Ar matrix. Our study confirms the existence of at least two tautomers, the amino-oxo and the amino-hydroxy in the isolated state. In the solid state the FT-IR and FT-Raman spectra of 5-bromocytosine in the powder form were recorded in the region 400-4000 cm(-1) and 50-3500 cm(-1), respectively. The unit cell found in the crystal was simulated as a tetramer form in three tautomers. Thus, it has been possible to assign all the 33 normal modes of vibration. The study indicates that the features, that are the characteristic of the vibrational spectra of cytosine, are retained by the spectra of 5-bromocytosine and it exists in the solid phase in the amino-oxo form.

  8. Matrix isolation sublimation: An apparatus for producing cryogenic beams of atoms and molecules

    SciTech Connect

    Sacramento, R. L.; Alves, B. X.; Silva, B. A.; Wolff, W.; Cesar, C. L.; Oliveira, A. N.; Li, M. S.

    2015-07-15

    We describe the apparatus to generate cryogenic beams of atoms and molecules based on matrix isolation sublimation. Isolation matrices of Ne and H{sub 2} are hosts for atomic and molecular species which are sublimated into vacuum at cryogenic temperatures. The resulting cryogenic beams are used for high-resolution laser spectroscopy. The technique also aims at loading atomic and molecular traps.

  9. Isolation, Characterization, and Aggregation of a Structured Bacterial Matrix Precursor*

    PubMed Central

    Chai, Liraz; Romero, Diego; Kayatekin, Can; Akabayov, Barak; Vlamakis, Hera; Losick, Richard; Kolter, Roberto

    2013-01-01

    Biofilms are surface-associated groups of microbial cells that are embedded in an extracellular matrix (ECM). The ECM is a network of biopolymers, mainly polysaccharides, proteins, and nucleic acids. ECM proteins serve a variety of structural roles and often form amyloid-like fibers. Despite the extensive study of the formation of amyloid fibers from their constituent subunits in humans, much less is known about the assembly of bacterial functional amyloid-like precursors into fibers. Using dynamic light scattering, atomic force microscopy, circular dichroism, and infrared spectroscopy, we show that our unique purification method of a Bacillus subtilis major matrix protein component results in stable oligomers that retain their native α-helical structure. The stability of these oligomers enabled us to control the external conditions that triggered their aggregation. In particular, we show that stretched fibers are formed on a hydrophobic surface, whereas plaque-like aggregates are formed in solution under acidic pH conditions. TasA is also shown to change conformation upon aggregation and gain some β-sheet structure. Our studies of the aggregation of a bacterial matrix protein from its subunits shed new light on assembly processes of the ECM within bacterial biofilms. PMID:23632024

  10. The role of matrix material and CCl4 (electron acceptor) on the ionization mechanisms of matrix-isolated naphthalene

    NASA Technical Reports Server (NTRS)

    Salama, F.; Allamandola, L. J.

    1991-01-01

    The formation mechanisms and optical properties of polycyclic aromatic hydrocarbons (PAH) isolated in argon and neon matrices were studied in a systematic manner in an attempt to provide spectroscopic data on PAH ions under conditions relevant to astrophysical applications. The results obtained indicate the strong influence of the matrix material on the competing radiative (fluorescence and phosphorescence) and nonradiative (internal conversion and intersystem crossing) relaxation processes of the trapped molecule.

  11. FT-IR and FT-Raman characterization of non-cellulosic polysaccharides fractions isolated from plant cell wall.

    PubMed

    Chylińska, Monika; Szymańska-Chargot, Monika; Zdunek, Artur

    2016-12-10

    The purpose of this work was to reveal the structural changes of cell wall polysaccharides' fractions during tomato fruit development by analysis of spectral data. Mature green and red ripe tomato fruit were taken into consideration. The FT-IR spectra of water soluble pectin (WSP), imidazole soluble pectin (ISP) and diluted alkali soluble pectin (DASP) contained bands typical for pectins. Whereas for KOH fraction spectra bands typical for hemicelluloses were present. The FT-IR spectra showed the drop down of esterification degree of WSP and ISP polysaccharides during maturation. The changes in polysaccharides structure revealed by spectra were the most visible in the case of pectic polysaccharides. The WSP and DASP fraction pectins molecules length were shortened during tomato maturation and ripening. Whereas the ISP fraction spectra analysis showed that this fraction contained rhamnogalacturonan I, but also for red ripe was rich in pectic galactan comparing with ISP fraction from mature green. PMID:27577895

  12. Infrared Absorption Spectrum of Matrix-Isolated Phenanthrene

    NASA Astrophysics Data System (ADS)

    Zhang, Xu; Stanley P. Sander

    2016-10-01

    The far-to-mid Infrared absorption spectrum of phenanthrene (C14H10), one of the polycyclic aromatic hydrocarbons (PAHs), has been measured in an argon matrix at 5 K. Thirty two fundamental bands for phenanthrene have been observed; one of them is detected for the first time (v54 = 1398.0 cm-1) and eight of them are detected for the first time at temperatures below room temperature (v43 = 233.8 cm-1, v42 = 425.2 cm-1, v66 = 441.6 cm-1, v65 = 499.0 cm-1, v21 = 546.3 cm-1, v63 = 714.5 cm-1, v18 = 1033.7 cm-1 and v55 = 1362.5 cm-1). The relative intensities of these 32 bands have been measured; three ( v21, v18, v54) of which are measured for the first time and six ( v43, v42, v66, v65, v63, and v55) of which are measured for the first time at temperatures below room temperature. Our low temperature study of the vibrational bands for phenanthrene provides important information for the spectral analysis of the Composite Infrared Spectrometer (CIRS) aboard the Cassini Spacecraft.

  13. Isolation, purification, and partial characterization of Brucella abortus matrix protein.

    PubMed

    Moriyon, I; Berman, D T

    1983-01-01

    Peptidoglycan sacculi with peptidoglycan-associated proteins were prepared from cell envelopes of Brucella abortus by extraction with sodium dodecyl sulfate (SDS) at 50 degrees C. On extraction of these preparations with SDS at 100 degrees C, a protein was obtained whose removal from peptidoglycan was confirmed by electron microscopy. Incubation of the 50 degrees C SDS-extracted cell envelopes with 50 mM MgCl2 in SDS-2-beta-mercaptoethanol at 37 degrees C also extracted the protein, along with lipopolysaccharide. At temperatures below 60 degrees C, the protein did not bind SDS strongly and had an apparent molecular weight greater than 92,000 in SDS-polyacrylamide gel electrophoresis. At higher temperatures, SDS bound strongly, and the apparent molecular weight was 38,000. Urea at 5 M did not alter the electrophoretic mobility of this 38,000-molecular-weight form. Immunoelectrophoresis in detergents with antisera to cell envelopes, carbohydrate staining of SDS-polyacrylamide gels, and production of anti-lipopolysaccharide antibodies by mice immunized with the purified protein indicated that lipopolysaccharide was present in free and protein-bound forms. Sequential gel filtration in SDS-EDTA and SDS-NaCl removed most lipopolysaccharide. After further purification by preparative SDS-polyacrylamide gel electrophoresis, a gas-liquid chromatographic analysis showed residual lipid tightly associated with the protein. The results suggested that the interactions between matrix proteins and other outer membrane components are stronger in B. abortus than in Escherichia coli, which was used as a control throughout. PMID:6401696

  14. Isolation, purification, and partial characterization of Brucella abortus matrix protein.

    PubMed

    Moriyon, I; Berman, D T

    1983-01-01

    Peptidoglycan sacculi with peptidoglycan-associated proteins were prepared from cell envelopes of Brucella abortus by extraction with sodium dodecyl sulfate (SDS) at 50 degrees C. On extraction of these preparations with SDS at 100 degrees C, a protein was obtained whose removal from peptidoglycan was confirmed by electron microscopy. Incubation of the 50 degrees C SDS-extracted cell envelopes with 50 mM MgCl2 in SDS-2-beta-mercaptoethanol at 37 degrees C also extracted the protein, along with lipopolysaccharide. At temperatures below 60 degrees C, the protein did not bind SDS strongly and had an apparent molecular weight greater than 92,000 in SDS-polyacrylamide gel electrophoresis. At higher temperatures, SDS bound strongly, and the apparent molecular weight was 38,000. Urea at 5 M did not alter the electrophoretic mobility of this 38,000-molecular-weight form. Immunoelectrophoresis in detergents with antisera to cell envelopes, carbohydrate staining of SDS-polyacrylamide gels, and production of anti-lipopolysaccharide antibodies by mice immunized with the purified protein indicated that lipopolysaccharide was present in free and protein-bound forms. Sequential gel filtration in SDS-EDTA and SDS-NaCl removed most lipopolysaccharide. After further purification by preparative SDS-polyacrylamide gel electrophoresis, a gas-liquid chromatographic analysis showed residual lipid tightly associated with the protein. The results suggested that the interactions between matrix proteins and other outer membrane components are stronger in B. abortus than in Escherichia coli, which was used as a control throughout.

  15. Matrix Production, Pigment Synthesis, and Sporulation in a Marine Isolated Strain of Bacillus pumilus

    PubMed Central

    Di Luccia, Blanda; Riccio, Antonio; Vanacore, Adele; Baccigalupi, Loredana; Molinaro, Antonio; Ricca, Ezio

    2015-01-01

    The ability to produce an extracellular matrix and form multicellular communities is an adaptive behavior shared by many bacteria. In Bacillus subtilis, the model system for spore-forming bacteria, matrix production is one of the possible differentiation pathways that a cell can follow when vegetative growth is no longer feasible. While in B. subtilis the genetic system controlling matrix production has been studied in detail, it is still unclear whether other spore formers utilize similar mechanisms. We report that SF214, a pigmented strain of Bacillus pumilus isolated from the marine environment, can produce an extracellular matrix relying on orthologs of many of the genes known to be important for matrix synthesis in B. subtilis. We also report a characterization of the carbohydrates forming the extracellular matrix of strain SF214. The isolation and characterization of mutants altered in matrix synthesis, pigmentation, and spore formation suggest that in strain SF214 the three processes are strictly interconnected and regulated by a common molecular mechanism. PMID:26506360

  16. Spectroscopy of lithium atoms sublimated from isolation matrix of solid Ne.

    PubMed

    Sacramento, R L; Scudeller, L A; Lambo, R; Crivelli, P; Cesar, C L

    2011-10-01

    We have studied, via laser absorption spectroscopy, the velocity distribution of (7)Li atoms released from a solid neon matrix at cryogenic temperatures. The Li atoms are implanted into the Ne matrix by laser ablation of a solid Li precursor. A heat pulse is then applied to the sapphire substrate sublimating the matrix together with the isolated atoms at around 12 K. We find interesting differences in the velocity distribution of the released Li atoms from the model developed for our previous experiment with Cr [R. Lambo, C. C. Rodegheri, D. M. Silveira, and C. L. Cesar, Phys. Rev. A 76, 061401(R) (2007)]. This may be due to the sublimation regime, which is at much lower flux for the Li experiment than for the Cr experiment, as well as to the different collisional cross sections between those species to the Ne gas. We find a drift velocity compatible with Li being thermally sublimated at 11-13 K, while the velocity dispersion around this drift velocity is low, around 5-7 K. With a slow sublimation of the matrix we can determine the penetration depth of the laser ablated Li atoms into the Ne matrix, an important information that is not usually available in most matrix isolation spectroscopy setups. The present results with Li, together with the previous results with Cr suggest this to be a general technique for obtaining cryogenic atoms, for spectroscopic studies, as well as for trap loading. The release of the isolated atoms is also a useful tool to study and confirm details of the matrix isolated atoms which are masked or poorly understood in the solid.

  17. Production and characterization of para-hydrogen gas for matrix isolation infrared spectroscopy

    NASA Astrophysics Data System (ADS)

    Sundararajan, K.; Sankaran, K.; Ramanathan, N.; Gopi, R.

    2016-08-01

    Normal hydrogen (n-H2) has 3:1 ortho/para ratio and the production of enriched para-hydrogen (p-H2) from normal hydrogen is useful for many applications including matrix isolation experiments. In this paper, we describe the design, development and fabrication of the ortho-para converter that is capable of producing enriched p-H2. The p-H2 thus produced was probed using infrared and Raman techniques. Using infrared measurement, the thickness and the purity of the p-H2 matrix were determined. The purity of p-H2 was determined to be >99%. Matrix isolation infrared spectra of trimethylphosphate (TMP) and acetylene (C2H2) were studied in p-H2 and n-H2 matrices and the results were compared with the conventional inert matrices.

  18. Monitoring UVR induced damage in single cells and isolated nuclei using SR-FTIR microspectroscopy and 3D confocal Raman imaging.

    PubMed

    Lipiec, Ewelina; Bambery, Keith R; Heraud, Philip; Kwiatek, Wojciech M; McNaughton, Don; Tobin, Mark J; Vogel, Christian; Wood, Bayden R

    2014-09-01

    SR-FTIR in combination with Principal Component Analysis (PCA) was applied to investigate macromolecular changes in a population of melanocytes and their extracted nuclei induced by environmentally relevant fluxes of UVR (Ultraviolet Radiation). Living cells and isolated cellular nuclei were investigated post-irradiation for three different irradiation dosages (130, 1505, 15,052 Jm(-2) UVR, weighted) after either 24 or 48 hours of incubation. DNA conformational changes were observed in cells exposed to an artificial UVR solar-simulator source as evidenced by a shift in the DNA asymmetric phosphodiester vibration from 1236 cm(-1) to 1242 cm(-1) in the case of the exposed cells and from 1225 cm(-1) to 1242 cm(-1) for irradiated nuclei. PCA Scores plots revealed distinct clustering of spectra from irradiated cells and nuclei from non-irradiated controls in response to the range of applied UVR radiation doses. 3D Raman confocal imaging in combination with k-means cluster analysis was applied to study the effect of the UVR radiation exposure on cellular nuclei. Chemical changes associated with apoptosis were detected and included intra-nuclear lipid deposition along with chromatin condensation. The results reported here demonstrate the utility of SR-FTIR and Raman spectroscopy to probe in situ DNA damage in cell nuclei resulting from UVR exposure. These results are in agreement with the increasing body of evidence that lipid accumulation is a characteristic of aggressive cancer cells, and are involved in the production of membranes for rapid cell proliferation.

  19. Isolation and characterization of matrix associated region DNA fragments in rice (Oryza sativa L.).

    PubMed

    Nomura, K; Saito, W; Ono, K; Moriyama, H; Takahashi, S; Inoue, M; Masuda, K

    1997-09-01

    To investigate the interactions between chromosomal DNA and nuclear matrices in higher plants, matrix associated regions (MARs) of rice (Oryza sativa L.) DNAs were cloned. First, we prepared nuclear matrices from isolated nuclei by digesting them with EcoRI and then extracting with 2 M NaCl. About 6% of the total DNA remained in the nuclear matrices after this digestion and extraction. The residual DNA fragments in the nuclear matrices were cloned. Some of the cloned DNA fragments showed binding to certain nuclear proteins. One of the MAR fragments contained sequences related to known consensus motifs and a hairpin loop structure. A method is presented for isolation of matrix associated region (MAR) DNAs from plant cells.

  20. Matrix-assisted laser desorption and electrospray ionization mass spectrometry of carminic acid isolated from cochineal

    NASA Astrophysics Data System (ADS)

    Maier, Marta S.; Parera, Sara D.; Seldes, Alicia M.

    2004-04-01

    Carminic acid, isolated from cochineal, was analyzed by matrix-assisted laser desorption/ionization (MALDI) and electrospray mass spectrometry (ESI-MS). Application of both techniques to the analysis of carminic acid suspended in linseed oil and applied to a piece of canvas, demonstrated the ability of MALDI and ESI-MS to identify this organic dye in a mixture as those used in easel painting.

  1. Isolation of human mesenchymal stem cells and their cultivation on the porous bone matrix.

    PubMed

    Rodríguez-Fuentes, Nayeli; Reynoso-Ducoing, Olivia; Rodríguez-Hernández, Ana; Ambrosio-Hernández, Javier R; Piña-Barba, Maria C; Zepeda-Rodríguez, Armando; Cerbón-Cervantes, Marco A; Tapia-Ramírez, José; Alcantara-Quintana, Luz E

    2015-02-09

    Mesenchymal stem cells (MSCs) have a differentiation potential towards osteoblastic lineage when they are stimulated with soluble factors or specific biomaterials. This work presents a novel option for the delivery of MSCs from human amniotic membrane (AM-hMSCs) that employs bovine bone matrix Nukbone (NKB) as a scaffold. Thus, the application of MSCs in repair and tissue regeneration processes depends principally on the efficient implementation of the techniques for placing these cells in a host tissue. For this reason, the design of biomaterials and cellular scaffolds has gained importance in recent years because the topographical characteristics of the selected scaffold must ensure adhesion, proliferation and differentiation into the desired cell lineage in the microenvironment of the injured tissue. This option for the delivery of MSCs from human amniotic membrane (AM-hMSCs) employs bovine bone matrix as a cellular scaffold and is an efficient culture technique because the cells respond to the topographic characteristics of the bovine bone matrix Nukbone (NKB), i.e., spreading on the surface, macroporous covering and colonizing the depth of the biomaterial, after the cell isolation process. We present the procedure for isolating and culturing MSCs on a bovine matrix.

  2. Isolation of Human Mesenchymal Stem Cells and their Cultivation on the Porous Bone Matrix

    PubMed Central

    Rodríguez-Fuentes, Nayeli; Reynoso-Ducoing, Olivia; Rodríguez-Hernández, Ana; Ambrosio-Hernández, Javier R.; Piña-Barba, Maria C.; Zepeda-Rodríguez, Armando; Cerbón-Cervantes, Marco A.; Tapia-Ramírez, José; Alcantara-Quintana, Luz E.

    2015-01-01

    Mesenchymal stem cells (MSCs) have a differentiation potential towards osteoblastic lineage when they are stimulated with soluble factors or specific biomaterials. This work presents a novel option for the delivery of MSCs from human amniotic membrane (AM-hMSCs) that employs bovine bone matrix Nukbone (NKB) as a scaffold. Thus, the application of MSCs in repair and tissue regeneration processes depends principally on the efficient implementation of the techniques for placing these cells in a host tissue. For this reason, the design of biomaterials and cellular scaffolds has gained importance in recent years because the topographical characteristics of the selected scaffold must ensure adhesion, proliferation and differentiation into the desired cell lineage in the microenvironment of the injured tissue. This option for the delivery of MSCs from human amniotic membrane (AM-hMSCs) employs bovine bone matrix as a cellular scaffold and is an efficient culture technique because the cells respond to the topographic characteristics of the bovine bone matrix Nukbone (NKB), i.e., spreading on the surface, macroporous covering and colonizing the depth of the biomaterial, after the cell isolation process. We present the procedure for isolating and culturing MSCs on a bovine matrix. PMID:25742362

  3. Patch Size, Functional Isolation, Visibility and Matrix Permeability Influences Neotropical Primate Occurrence within Highly Fragmented Landscapes

    PubMed Central

    da Silva, Lucas Goulart; Ribeiro, Milton Cezar; Hasui, Érica; da Costa, Carla Aparecida; da Cunha, Rogério Grassetto Teixeira

    2015-01-01

    Forest fragmentation and habitat loss are among the major current extinction causes. Remaining fragments are mostly small, isolated and showing poor quality. Being primarily arboreal, Neotropical primates are generally sensitive to fragmentation effects. Furthermore, primates are involved in complex ecological process. Thus, landscape changes that negatively interfere with primate population dynamic affect the structure, composition, and ultimately the viability of the whole community. We evaluated if fragment size, isolation and visibility and matrix permeability are important for explaining the occurrence of three Neotropical primate species. Employing playback, we verified the presence of Callicebus nigrifrons, Callithrix aurita and Sapajus nigritus at 45 forest fragments around the municipality of Alfenas, Brazil. We classified the landscape and evaluated the metrics through predictive models of occurrence. We selected the best models through Akaike Selection Criterion. Aiming at validating our results, we applied the plausible models to another region (20 fragments at the neighboring municipality of Poço Fundo, Brazil). Twelve models were plausible, and three were validated, two for Sapajus nigritus (Area and Area+Visibility) and one for Callicebus nigrifrons (Area+Matrix). Our results reinforce the contribution of fragment size to maintain biodiversity within highly degraded habitats. At the same time, they stress the importance of including novel, biologically relevant metrics in landscape studies, such as visibility and matrix permeability, which can provide invaluable help for similar studies in the future and on conservation practices in the long run. PMID:25658108

  4. Conformations of propargyl alcohol and its interaction with acetylene: A matrix isolation infrared and DFT computations

    NASA Astrophysics Data System (ADS)

    Sundararajan, K.; Gopi, R.; Ramanathan, N.

    2016-10-01

    Conformations of propargyl alcohol (PA) were studied using matrix isolation infrared spectroscopy. DFT computations using 6-311++G(d,p) basis set on the PA molecule identified two minima; gauche (g-PA) and trans (t-PA). Comparison of infrared spectra of PA trapped in Ar, N2 and Xe matrices with computations showed the evidence of the ground state g-PA conformer. Four minima were optimized on the potential energy surface for the hydrogen-bonded interaction of g-PA and acetylene (C2H2), corresponding to complex A (Csbnd H⋯O), complex B (Osbnd H⋯π) and complex C and D (Csbnd H⋯π). The structure, energies and the vibrational wavenumbers were computed for these complexes at B3LYP/6-311++G (d,p) level of theory. The infrared spectra of the hydrogen-bonded complexes between C2H2 and g-PA were studied in Ar matrix. The infrared spectra recorded under matrix isolation conditions revealed the formation of two types of complexes A (Csbnd H⋯O) and B (Osbnd H⋯π). Formation of these complexes was evidenced from the shifts in the vibrational wavenumber of the modes involving the C2H2 and PA submolecules.

  5. Simultaneous Deposition of Mass Selected Anions and Cations: Improvements in Ion Delivery for Matrix Isolation Experiments

    NASA Astrophysics Data System (ADS)

    Goodrich, Michael E.; Moore, David T.

    2016-06-01

    A focus of the research in our group has been to develop improved methods for ion delivery in matrix isolation experiments. We have previously reported a method to co-deposit low energy, mass selected metal anions and a rare gas counter cation.a A modification allowing for mass selection of both the anion and cation will be discussed. Results from preliminary experiments of mass selected, low energy Cu- and SF5+ will also be highlighted. To our knowledge, these experiments are the first time two mass selected beams of ions have been simultaneously deposited into a cryogenic matrix. Co-deposition of the ions into an argon matrix doped with 0.02% CO at 20K resulted in the observation of bands assigned to SF5+ and anionic copper carbonyl complexes, Cu(CO)n- (n=1-3). Upon irradiation of the matrix with a narrow band, blue LED, the copper carbonyl complexes are converted to the neutral analogues, while the fate of the photodetached electrons can be directly tracked, as a decrease of the SF5+ band and a growth of the neutral SF5 band are observed. aLudwig, R. M.; Moore, D. T.; J. Chem. Phys. 139, 244202 (2013).

  6. Polyfluorides and Neat Fluorine as Host Material in Matrix-Isolation Experiments.

    PubMed

    Brosi, Felix; Vent-Schmidt, Thomas; Kieninger, Stefanie; Schlöder, Tobias; Beckers, Helmut; Riedel, Sebastian

    2015-11-01

    The use of neat fluorine in matrix isolation is reported, as well as the formation of polyfluoride monoanions under cryogenic conditions. Purification procedures and spectroscopic data of fluorine are described, and matrix shifts of selected molecules and impurities in solid fluorine are compared to those of common matrix gases (Ar, Kr, N2 , Ne). The reaction of neat fluorine and IR-laser ablated metal atoms to yield fluorides of chromium (CrF5 ), palladium (PdF2 ), gold (AuF5 ), and praseodymium (PrF4 ) has been investigated. The fluorides have been characterized in solid fluorine by IR spectroscopy at 5 K. Also the fluorination of Kr and the photo-dismutation of XeO4 have been studied by using IR spectroscopy in neat fluorine. Formation of the [F5 ](-) ion was obtained by IR-laser ablation of platinum in the presence of fluorine and proven in a Ne matrix at 5 K by two characteristic vibrational bands of [F5 ](-) at $\\tilde \

  7. Structural and spectroscopic study of a pectin isolated from citrus peel by using FTIR and FT-Raman spectra and DFT calculations

    NASA Astrophysics Data System (ADS)

    Bichara, Laura C.; Alvarez, Patricia E.; Fiori Bimbi, María V.; Vaca, Hugo; Gervasi, Claudio; Brandán, Silvia Antonia

    2016-05-01

    In this work, pectin isolated from citrus peel with a degree of esterification of 76% was characterized by Fourier Transform Infrared (FTIR) and Fourier Transform Raman (FT-Raman) spectroscopies. Structural studies were carried out taking into account their partial degree of esterification and considering the polygalacturonic acid chain as formed by two different subunits, one with both COOH and COOsbnd CH3 groups (Ac) and the other one as constituted by two subunits with two COOsbnd CH3 groups (Es). Their structural properties, harmonic frequencies, force fields and force constants in gas and aqueous solution phases were calculated by using the hybrid B3LYP/6-31G∗ method. Then, their complete vibrational analyses were performed by using the IR and Raman spectra accomplished with the scaled quantum mechanical (SQM) methodology. Reactivities and behaviors in both media were predicted for Ac and Es by using natural bond orbital (NBO), atoms in molecules (AIM), and frontier orbitals calculations. We report for first time the complete assignments of those two different units of polygalacturonic acid chain which are the 132 normal vibration modes of Ac and the 141 normal vibration modes of Es, combining the normal internal coordinates with the SQM methodology. In addition, three subunits were also studied. Reasonable correlations between the experimental and theoretical spectra were obtained. Thus, this work would allow the quick identification of pectin by using infrared and Raman spectroscopies and also provides new insight into the interactions that exist between subunits of a large pectin chain.

  8. Assignment of IR bands of isolated and protein-bound Peridinin in its fundamental and triplet state by static FTIR, time-resolved step-scan FTIR and DFT calculations

    NASA Astrophysics Data System (ADS)

    Mezzetti, Alberto; Kish, Elizabeth; Robert, Bruno; Spezia, Riccardo

    2015-06-01

    The vibrational properties of Peridinin in its fundamental state and in the excited triplet state have been investigated by DFT calculations and static and time-resolved FTIR spectroscopy. The infrared spectrum of Peridinin in its fundamental state has been explored in the whole 2000-600 cm-1 range, and interpreted in term of molecular vibrations. In particular, new infrared bands have been identified and assigned to specific molecular vibrations. 3Peridinin molecular vibrations have also been investigated by DFT calculations. In addition, putative IR bands belonging to Peridinin and 3Peridinin have been identified in the step-scan FTIR difference spectrum of the Peridinin-Chlorophyll a-Protein from Amphidinium carterae, where light induce formation of a triplet state localized on one or more Peridinins. The exact nature of the triplet state formed in Peridinin-Chlorophyll a-Protein from dinoflagellates, in particular the possible involvement in this triplet state of 3Chlorophyll a, has been largely debated in the last few years (see Carbonera et al., 2014 [3]); time-resolved differential FTIR experiments have played a key role in this debate. Identification of IR marker bands for the main molecule (Peridinin) implicated in this photophysical process is therefore particularly important and makes this study a significant step towards the full understanding of Peridinin-Chlorophyll-a-Proteins photophysics.

  9. Matrix isolation and spectroscopic characterization of perfluorinated ortho- and meta-benzyne.

    PubMed

    Wenk, H H; Sander, W

    2001-05-01

    The matrix isolation and spectroscopic characterization of two C6F4 isomers, the perfluorinated o-benzyne 4 and the m-benzyne 5, is reported. UV photolysis of tetrafluorophthalic anhydride 6 in solid argon at 10 K results in the formation of CO, CO2, and 1,2-didehydro-3,4,5,6-tetrafluorobenzene (4) in a clean reaction. On subsequent 350 nm irradiation 4 is carbonylated to give the cyclopropenone 7. 1,3-Didehydro-2,4,5,6-tetrafluorobenzene (5) was synthesized by UV irradiation of 1,3-diiodo-2,4,5,6-tetrafluorobenzene (8) via 2,3,4,6-tetrafluoro-5-iodophenylradical 9. Photolysis of 8 in solid neon at 3 K produces good yields of both radical 9 and benzyne 5, while in argon at 10 K no reaction is observed. Thus, the photochemistry in neon at extremely low temperature markedly differs from the photochemistry in argon. The formation of 5 from 8 via 9 is reversible, and annealing the neon matrix at 8 K leads back to the starting material 8. The benzynes 4 and 5 and the radical 9 were characterized by comparison of their matrix IR spectra with density functional theory (DFT) calculations.

  10. Infrared Spectrum and UV-Induced Photochemistry of Matrix-Isolated 5-Hydroxyquinoline.

    PubMed

    Kuş, Nihal; Sagdinc, Seda; Fausto, Rui

    2015-06-18

    The structure, infrared spectrum, and photochemistry of 5-hydroxyquinoline (5HQ) were studied by matrix isolation infrared spectroscopy, complemented by theoretical calculations performed at the DFT(B3LYP)/6-311++G(d,p) level of approximation. According to the calculations, the trans conformer of 5HQ (with the OH group pointing to the opposite direction of the pyridine ring of the molecule) is more stable than the cis form (by ∼8.8 kJ mol(-1)). The main factors determining the relative stability of the two conformers were rationalized through natural bond orbital (NBO) and charge density analyses. The compound was trapped in solid nitrogen at 10 K, and its infrared spectra registered and interpreted, showing the sole presence in the matrix of the more stable trans conformer. Broadband in situ UV irradiations (λ ≥ 288 nm and λ ≥ 235 nm) allowed for the observation of different chemical transformations, which started by excitation to the S1 state of 5HQ, followed by homolytic cleavage of the O-H bond, and subsequent reattachment of the H atom to the 5HQ radical to form quinolin-5(6H)-one and quinolin-5(8H)-one. The first of these two quinolinones was found to convert to open-ring isomeric ketenes, especially when irradiation was performed at higher energy, whereas the second is rather stable under the used experimental conditions. As a whole, the observed photochemistry of matrix-isolated 5HQ closely matches those previously reported for phenol and thiophenol. A detailed mechanistic interpretation for the observed photochemical processes is here proposed, which received support from time-dependent DFT calculations.

  11. I. Infrared Spectrum of Matrix Isolated Triplet Phenylnitrene. I. Photolysis of Matrix Isolated Quadricyclanone. III. Photolysis of Matrix Isolated 1,3,4,5,6,9-HEXADEUTERIO -7,8-DIAZATETRACYCLO 4.3.0.0(3,5).0(4,9) NON-7-EN-2-ONE

    NASA Astrophysics Data System (ADS)

    Hayes, James Clayton

    Photolysis (lambda = 334 nm) of matrix isolated phenyl azide (1) at 10 K generated triplet phenylnitrene (2) and 1-azacyclohepta-1,2,4,6-tetraene (15) in a ratio of 2:1 even at short (5 sec.) irradiation times. Under the same conditions, the first infrared spectrum of triplet phenylnitrene (2T) was obtained. Photolysis of matrix isolated quadricyclanone (58) at 10 K generated tropone (65) benzene (66) and ketene (67). No oxyallyl (31) was observed from the low temperature matrix isolation experiments. Matrix isolated 1,3,4,5,6,9-hexadeuterio-7,8-diazatetracyclo(4.3.0.0 ^{3,5}.0^ {4,9}) non-7-en-2-one (74) was irradiated in argon and nitrogen matrices to determine if the hexadeuterated photoproduct, 1,2,3,4,5,6-hexadeuteriobicyclo(2.2.1) heptan -7-one (73), would vibrationally cool more rapidly in the nitrogen matrix than in the argon matrix due to increased coupling of similar vibrational modes of 73 and the nitrogen matrix. Similar irradiations in frozen deuterated NMR solvents and analysis by low temperature ^1 H NMR were conducted. Evidence of increased vibrational coupling of similar vibrational modes by IR and NMR analysis was inconclusive.

  12. Simultaneous infrared and UV-visible absorption spectra of matrix-isolated carbon vapor

    NASA Technical Reports Server (NTRS)

    Kurtz, Joe; Huffman, Donald R.

    1989-01-01

    Carbon molecules were suggested as possible carriers of the diffuse interstellar bands. In particular, it was proposed that the 443 nm diffuse interstellar band is due to the same molecule which gives rise to the 447 nm absorption feature in argon matrix-isolated carbon vapor. If so, then an associated C-C stretching mode should be seen in the IR. By doing spectroscopy in both the IR and UV-visible regions on the same sample, the present work provides evidence for correlating UV-visible absorption features with those found in the IR. Early data indicates no correlation between the strongest IR feature (1997/cm) and the 447 nm band. Correlation with weaker IR features is being investigated.

  13. Vibrational spectrum of m-benzyne: a matrix isolation and computational study.

    PubMed

    Sander, Wolfram; Exner, Michael; Winkler, Michael; Balster, Andreas; Hjerpe, Angelica; Kraka, Elfi; Cremer, Dieter

    2002-11-01

    m-Benzyne (2) was generated in low-temperature matrices and IR spectroscopically characterized from four different precursors. To assign the IR absorptions, the perdeuterated derivative 2-d(4) was also investigated. By comparison with CCSD(T) calculations all vibrations between 200 and 2500 cm(-)(1) with a predicted relative intensity >2% could be assigned. All experimental and theoretical results are in accordance with a biradicaloid structure for 2, while there is no evidence for a bicyclic closed-shell structure. While benzyne 2 is stable under the conditions of matrix isolation at low temperature, flash vacuum pyrolysis at high temperatures or UV irradiation results in the rearrangement to cis-enediyne. A mechanism involving ring opening accompanied by hydrogen migration is proposed.

  14. The Infrared Spectrum of Matrix Isolated Aminoacetonitrile: A Precursor to the Amino Acid Glycine

    NASA Technical Reports Server (NTRS)

    Bernstein, Max P.; Bauschlicher, Charles W., Jr.; Sandford, Scott A.

    2003-01-01

    We present infrared (IR) spectral data from matrix isolation experiments and density functional theory calculations on the pre-biologically interesting molecule aminoacetonitrile, a precursor to glycine. We find that this nitrile has an unusually weak nitrile (C=N) stretch in the infrared, in contrast to expectations based on measurements and models of other nitriles under astrophysical conditions. The absence of an observable nitrile absorption feature in the infrared will make the IR search for this molecule considerably more difficult, and will raise estimates of upper limits on nitriles in interstellar and outer Solar System ices. This is also of relevance to assessing the formation routes of the amino acid glycine, since aminoacetonitrile is the putative precursor to glycine via the Strecker synthesis, the mechanism postulated to have produced the amino acids in meteorites.

  15. Investigation of Praseodymium Fluorides: A Combined Matrix-Isolation and Quantum-Chemical Study.

    PubMed

    Vent-Schmidt, Thomas; Riedel, Sebastian

    2015-12-01

    The chemistry of the lanthanides is mostly dominated by compounds in the oxidation state +III. Only few compounds of Ce, Pr, and Tb are known with the metal in the +IV oxidation state. Removal of the last f-electron on praseodymium +IV would lead to a closed-shell system with formal oxidation state V. In this work we investigated the stability of the PrF5 molecule by theory and matrix-isolation techniques through the reaction of laser-ablated praseodymium atoms with fluorine in excess of neon, argon, krypton, or neat fluorine. Besides the known PrF3 molecule, unreported IR bands for PrF4 could be observed, and there is evidence for the formation of PrF and PrF2 but not for the formation of PrF5.

  16. High-pressure matrix isolation of heterogeneous condensed phase chemical reactions under extreme conditions

    NASA Astrophysics Data System (ADS)

    Rice, Jane K.; Russell, T. P.

    1995-03-01

    A new technique which combines high-pressure and thermal-shock conditions with low-temperature matrix isolation in a gem anvil cell is presented. This serves to partially quench or arrest the reaction sequence of an energetic material. New chemical species are observed which indicate that intermediates are trapped in addition to final products. This combination of high pressure and low temperature helps elucidate the complicated reaction pathways in the deflagration to detonation regime. We have applied this technique to hexanitrohexaazaisowurtzitane (HNIW, chemical name: 2,4,6,8,10,12-hexanitro-2,4,6,8,10,12-hexaazatetracyclo[5.5.0.0 5,9.0 3,11]dodecane). Products are identified using infrared spectroscopy and comparisons are made to previously reported data taken under thermal, ambient pressure conditions.

  17. Infrared Spectroscopy of Matrix-Isolated Polycyclic Aromatic Nitrogen Heterocycles (PANHs)

    NASA Technical Reports Server (NTRS)

    Mattioda, A. L.; Hudgins, D. M.; Bauschlicher, C. W.; Allamandola, L. J.; Biemesderfer, C. D.; Rosi, M.

    2002-01-01

    The mid-infrared spectra of the nitrogen-containing heterocyclic polycyclic aromatic compounds 1-azabenz[a]-anthracene; 2-azabenz[a]anthracene; 1-azachrysene; 2-azachrysene; 4-azachrysene; 2-azapyrene, and 7,8 benzoquinoline in their neutral and cation forms were investigated. The spectra of these species isolated in an argon matrix have been measured. Band frequencies and intensities were tabulated and these data compared with spectra computed using density functional theory at the B3LYP level. The overall agreement between experiment and theory is quite good, in keeping with earlier results on homonuclear polycyclic aromatic hydrocarbons. The differences between the spectral properties of nitrogen bearing aromatics and non-substituted, neutral polycyclic aromatic hydrocarbons will be discussed.

  18. Genetic analysis of phosphoprotein and matrix protein of rabies viruses isolated in Brazil.

    PubMed

    Kobayashi, Yuki; Okuda, Hiromi; Nakamura, Kana; Sato, Go; Itou, Takuya; Carvalho, Adolorata A B; Silva, Marlon V; Mota, Carla S; Ito, Fumio H; Sakai, Takeo

    2007-11-01

    To investigate the genetic characteristics of phosphoprotein (P) and matrix protein (M) genes of variable rabies virus (RV) prevalent in Brazil, the authors genetically characterized the P and M genes from 30 Brazilian RV field isolates. Phylogenetic analysis based on the P and M genes revealed the presence of six RV variants that consisted primarily of three insectivorous bats, the vampire bat, dog and fox in Brazil. Specific amino acid substitutions corresponding to these phylogenetic lineages were observed, with Asp(42) and Glu(62) in the P protein found to be characteristic of Brazilian chiroptera- and carnivora-related RVs, respectively. Amino acid sequence motifs predicted to associate with a viral function in the P and M proteins were conserved among Brazilian RV variants. PMID:18057829

  19. Investigation of Praseodymium Fluorides: A Combined Matrix-Isolation and Quantum-Chemical Study.

    PubMed

    Vent-Schmidt, Thomas; Riedel, Sebastian

    2015-12-01

    The chemistry of the lanthanides is mostly dominated by compounds in the oxidation state +III. Only few compounds of Ce, Pr, and Tb are known with the metal in the +IV oxidation state. Removal of the last f-electron on praseodymium +IV would lead to a closed-shell system with formal oxidation state V. In this work we investigated the stability of the PrF5 molecule by theory and matrix-isolation techniques through the reaction of laser-ablated praseodymium atoms with fluorine in excess of neon, argon, krypton, or neat fluorine. Besides the known PrF3 molecule, unreported IR bands for PrF4 could be observed, and there is evidence for the formation of PrF and PrF2 but not for the formation of PrF5. PMID:26544761

  20. Matrix isolation infrared spectroscopic study of the vapor species over heated ReO{sub 3}

    SciTech Connect

    Almond, M.J.; Orrin, R.H.; Ogden, J.S.

    1996-02-01

    The vapor phase species over ReO{sub 3} heated in vacuo to approx 400C have been trapped in argon or nitrogen matrices at approx 12 K. The only species within such matrices detected by infrared spectroscopy is Re{sub 2}O{sub 7}. The bands of matrix-isolated Re{sub 2}O{sub 7} have been assigned by comparison with the spectrum of the gaseous compound. Most of the isolated Re{sub 2}O{sub 7} is shown to be in the monomeric form; thus, an infrared absorption at 916.5 cm{sup {minus}1} (N{sub 2} matrix), which had previously been assigned to an aggregate of Re{sub 2}O{sub 7} may, on the basis of annealing experiments, be attributed to the monomer. The solid remaining in the sample tube following heating of the ReO{sub 3} sample consists of ReO{sub 2} in both the monoclinic and orthorhombic crystal forms alongside some unreacted cubic ReO{sub 3} and a small amount of orthorhombic Re{sub 2}O{sub 7}. Thus, it is found that thermal decomposition of ReO{sub 3} in vacuo at 400 C follows the expected disproportionation route. The authors find no spectroscopic evidence for the existence of other species, such as ReO{sub 3} or HReO{sub 4}, in the vapor above heated ReO{sub 3}. This finding is in contrast to the results of earlier mass spectrometric studies that suggested that molecular ReO{sub 3} was present in the vapor together with Re{sub 2}O{sub 7}.

  1. Matrix Isolation Spectroscopy and Nuclear Spin Conversion of NH3 and ND3 in Solid Parahydrogen

    NASA Astrophysics Data System (ADS)

    Ruzi, Mahmut; Anderson, David T.

    2013-10-01

    We present matrix isolation infrared absorption spectra of NH3 and ND3 trapped in solid parahydrogen (pH2) at temperatures around 1.8 K. We used the relatively slow nuclear spin conversion (NSC) of NH3 and ND3 in freshly deposited pH2 samples as a tool to assign the sparse vibration-inversion-rotation (VIR) spectra of NH3 in the regions of the -2, -4, 2-4, -1, and -3 bands and ND3 in the regions of the -2, -4, -1, and -3 fundamentals. Partial assignments are also presented for various combination bands of NH3. Detailed analysis of the -2 bands of NH3 and ND3 indicates that both isotopomers are nearly free rotors; that the vibrational energy is blue-shifted by 1-2%; and that the rotational constants and inversion tunneling splitting are 91-94% and 67-75%, respectively, of the gas-phase values. The line shapes of the VIR absorptions are narrow (0.2-0.4 cm-1) for upper states that cannot rotationally relax and broad (>1 cm-1) for upper states that can rotationally relax. We report and assign a number of NH3-induced infrared absorption features of the pH2 host near 4150 cm-1, along with a cooperative transition that involves simultaneous vibrational excitation of a pH2 molecule and rotation-inversion excitation of NH3. The NSCs of NH3 and ND3 were found to follow first-order kinetics with rate constants at 1.8 K of k = 1.88(16) - 10-3 s-1 and k = 1.08(8) - 10-3 s-1, respectively. These measured rate constants are compared to previous measurements for NH3 in an Ar matrix and with the rate constants measured for other dopant molecules isolated in solid pH2.

  2. Analytic Confusion Matrix Bounds for Fault Detection and Isolation Using a Sum-of-Squared- Residuals Approach

    NASA Technical Reports Server (NTRS)

    Simon, Dan; Simon, Donald L.

    2009-01-01

    Given a system which can fail in 1 or n different ways, a fault detection and isolation (FDI) algorithm uses sensor data in order to determine which fault is the most likely to have occurred. The effectiveness of an FDI algorithm can be quantified by a confusion matrix, which i ndicates the probability that each fault is isolated given that each fault has occurred. Confusion matrices are often generated with simulation data, particularly for complex systems. In this paper we perform FDI using sums of squares of sensor residuals (SSRs). We assume that the sensor residuals are Gaussian, which gives the SSRs a chi-squared distribution. We then generate analytic lower and upper bounds on the confusion matrix elements. This allows for the generation of optimal sensor sets without numerical simulations. The confusion matrix bound s are verified with simulated aircraft engine data.

  3. Matrix isolation study of the photochemical reaction of cyclohexane, cyclohexene, and cyclopropane with ozone

    NASA Astrophysics Data System (ADS)

    Hoops, Michael D.; Ault, Bruce S.

    2009-07-01

    The matrix isolation technique, combined with infrared spectroscopy, has been used to characterize the products of the photochemical reactions of cyclohexane, cyclohexene, and cyclopropane with ozone. While initial twin jet deposition of the reagents led to no visible changes in the recorded spectra, strong product bands were noted following irradiation with light of λ > 200 nm. Irradiation of matrices containing ozone and cyclohexane led to O atom reactions with insertion into a C sbnd H bond and a C sbnd C bond to form cyclohexanol and oxacycloheptane, respectively. Irradiation of matrices containing ozone and cyclohexene led to a mixture of products formed through oxidation of the double bond, including cyclohexanone and cyclohexene oxide. Cyclopropane and ozone were codeposited into argon matrices followed by irradiation, leading to the formation of both cyclopropanal through insertion into a C sbnd H bond and aldehydes through ring-opening and oxidation. These conclusions were supported by isotopic labeling ( 18O), by comparison to authentic infrared spectra, and by B3LYP/6-311G++(d,2p) density functional calculations.

  4. Matrix isolation infrared spectra of hydrogen halide and halogen complexes with nitrosyl halides

    NASA Technical Reports Server (NTRS)

    Allamandola, Louis J.; Lucas, Donald; Pimentel, George C.

    1982-01-01

    Matrix isolation infrared spectra of nitrosyl halide (XNO) complexes with HX and X2 (X = Cl, Br) are presented. The relative frequency shifts of the HX mode are modest (ClNO H-Cl, delta-nu/nu = -0.045; BrNO H-Br, delta-nu/nu = -0.026), indicating weak hydrogen bonds 1-3 kcal/mol. These shifts are accompanied by significant shifts to higher frequencies in the XN-O stretching mode (CIN-O HCl, delta-nu/nu = +0.016; BrN-O HBr, delta-nu/nu = +0.011). Similar shifts were observed for the XN-O X2 complexes (ClN-O Cl2, delta-nu/nu = +0.009; BrN-O-Br2, delta-nu/nu = +0.013). In all four complexes, the X-NO stretching mode relative shift is opposite in sign and about 1.6 times that of the NO stretching mode. These four complexes are considered to be similar in structure and charge distribution. The XN-O frequency shift suggests that complex formation is accompanied by charge withdrawal from the NO bond ranging from about .04 to .07 electron charges. The HX and X2 molecules act as electron acceptors, drawing electrons out of the antibonding orbital of NO and strengthening the XN-O bond. The implications of the pattern of vibrational shifts concerning the structure of the complexes are discussed.

  5. Matrix metalloproteinases (MMPs) inhibitory effects of an octameric oligopeptide isolated from abalone Haliotis discus hannai.

    PubMed

    Nguyen, Van-Tinh; Qian, Zhong-Ji; Ryu, Bomi; Kim, Kil-Nam; Kim, Daekyung; Kim, Young-Mog; Jeon, You-Jin; Park, Won Sun; Choi, Il-Whan; Kim, Geun Hyung; Je, Jae-Young; Jung, Won-Kyo

    2013-11-01

    Abalone (Haliotis discus hannai) is a marine gastropod, and an important fishery and food industrial resource that is massively maricultured in Asia, Africa, Australia and America. However, its health benefits have rarely been studied for nutraceutical and pharmaceutical application. In this study, the purified abalone oligopeptide (AOP) with anti-matrix metalloproteinases (anti-MMPs) effects was isolated from the digests of abalone intestine using recycle HPLC with a JAI W253 column and an OHpak SB-803 HQ column. The AOP was identified as Ala-Glu-Leu-Pro-Ser-Leu-Pro-Gly (MW=782.4 Da) with a de novo peptide sequencing technique using a tandem mass spectrometer. The AOP exhibited a specific inhibitory effect against MMP-2/-9 activity and attenuated protein expression of p50 and p65 in the human fibrosarcoma (HT1080) cells, dose-dependently. The results presented illustrate that the AOP could inhibit MMP-2/-9 expression in HT1080 cells via the nuclear factor-kappaB (NF-κB)-mediated pathway. This data suggest that the AOP from H. discus hannai intestine may possess therapeutic and preventive potential for the treatment of MMPs-related disorders such as angiogenesis and cardiovascular diseases.

  6. Infrared spectroscopy of polycyclic aromatic hydrocarbon cations. 1: Matrix-isolated naphthalene and perdeuterated naphthalene

    NASA Technical Reports Server (NTRS)

    Hudgins, D. M.; Sandford, S. A.; Allamandola, Louis J.

    1994-01-01

    Ionized polycyclic aromatic hydrocarbons (PAHs) are thought to constitute an important component of the interstellar medium. Despite this fact, the infrared spectroscopic properties of ionized PAHs are almost unknown. The results we present here derive from our ongoing spectroscopic study of matrix isolated PAH ions and include the spectra of the naphthalene cation, C10H8(+), and its fully deuterated analog, C10D8(+), between 4000 and 200/cm. Ions are generated by in situ Lyman-alpha photoionization of the neutral precursor. Bands of the C10H8(+) ion are observed at 1525.7, 1518.8, 1400.9, 1218.0, 1216.9, 1214.9, 1023.2, and 758.7/cm. Positions and relative intensities of these bands agree well with those in the available literature. The 758.7/cm band has not previously been reported. C10D8(+) ion bands appear at 1466.2, 1463.8, 1379.4, 1373.8, 1077.3, 1075.4, and 1063.1/cm. Compared to the analogous modes in the neutral molecule, the intensities of the cation's CC modes are enhanced by an order of magnitude, while CH modes are depressed by this same factor. Integrated absorption intensities are calculated for the strongest bands of C10H8 and for the observed bands of C10H8(+). Absolute intensities derived for the naphthalene cation differ from earlier experimental results by a factor of approximately 50, and from theoretical predictions by a factor of approximately 300. Reasons for these discrepancies and from the astronomical implications of PAH cation spectra are discussed.

  7. Conformations of dimethyl carbonate and its complexes with water: A matrix isolation infrared and ab initio study

    NASA Astrophysics Data System (ADS)

    Kar, Bishnu Prasad; Ramanathan, N.; Sundararajan, K.; Viswanathan, K. S.

    2012-09-01

    Conformations of dimethyl carbonate (DMC) were studied using matrix isolation infrared spectroscopy. Infrared spectra of DMC trapped in inert gas matrixes, using an effusive source at 298 and 423 K, showed evidence of both the ground state (cis-cis), and higher energy (cis-trans) conformers. Experiments were also performed using a supersonic jet source to deposit the matrix, to look for conformational cooling in the expansion process. The structures and vibrational frequencies of these conformers were computed at the B3LYP/6-31++G** level of theory. Natural bond orbital analyses were performed to understand the role of the delocalization interactions in conformational preferences. Complexes of DMC with H2O were also studied. A 1:1 DMC-H2O complex was identified in the matrix isolation experiments, where the carbonyl oxygen of DMC served as the proton acceptor for the hydrogen bonded complex. This observation was corroborated by computations performed on the complex at the B3LYP/6-31++G** level. Our computations also indicated another minimum, corresponding to an alkoxy bonded DMC-H2O complex, which was less exothermic; however, this complex was not identified in our experiments. Atoms-in-molecules theory was also performed to understand the nature of the intermolecular interaction in the DMC-H2O complex.

  8. Differentiation of Aeromonas isolated from drinking water distribution systems using matrix-assisted laser desorption/ionization-mass spectrometry.

    PubMed

    Donohue, Maura J; Best, Jennifer M; Smallwood, Anthony W; Kostich, Mitchell; Rodgers, Mark; Shoemaker, Jody A

    2007-03-01

    The genus Aeromonas is one of several medically significant genera that have gained prominence due to their evolving taxonomy and controversial role in human diseases. In this study, matrix-assisted laser desorption/ionization-mass spectrometry (MALDI-MS) was used to analyze the whole cells of both reference strains and unknown Aeromonas isolates obtained from water distribution systems. A library of over 45 unique m/z signatures was created from 40 strains that are representative of the 17 recognized species of Aeromonas, as well as 3 reference strains from genus Vibrio and 2 reference strains from Plesiomonas shigelloides. The library was used to help speciate 52 isolates of Aeromonas. The environmental isolates were broken up into 2 blind studies. Group 1 contained isolates that had a recognizable phenotypic profile and group 2 contained isolates that had an atypical phenotypic profile. MALDI-MS analysis of the water isolates in group 1 matched the phenotypic identification in all cases. In group 2, the MALDI-MS-based determination confirmed the identity of 18 of the 27 isolates. These results demonstrate that MALDI-MS analysis can rapidly and accurately classify species of the genus Aeromonas, making it a powerful tool especially suited for environmental monitoring and detection of microbial hazards in drinking water.

  9. Infrared Matrix-Isolation Study of New Noble-Gas Compounds

    NASA Astrophysics Data System (ADS)

    Zhu, Cheng; Räsänen, Markku; Khriachtchev, Leonid

    2016-06-01

    We identify new noble-gas compounds in solid matrices using IR spectroscopy. The compounds under study belong to two types: HNgY and YNgY' where Ng is a noble-gas atom and Y and Y' are electronegative fragments. The experimental assignments are supported by ab initio calculations at the MP2(full) and CCSD(T) levels of theory with the def2-TZVPPD basis set. We have prepared and characterized two new HNgY compounds (noble-gas hydrides): HKrCCCl in a Kr matrix and HXeCCCl in a Xe matrix.I The synthesis of these compounds includes two steps: UV photolysis of HCCCl in a noble-gas matrix to form the H + CCCl fragments and annealing of the matrix to mobilize H atoms and to promote the H + Ng + CCCl = HNgCCCl reaction. An interesting observation in the experiments on HXeCCCl in a Xe matrix is the temperature-induced transformation of the three H-Xe stretching bands. This observation is explained by temperature-induced changes of local matrix morphology around the embedded HXeCCCl molecule. In these experiments, we have also obtained the IR spectrum of the CCCl radical, which is produced by photodecomposition of HCCCl. We have identified three new YNgY' compounds (fluorinated noble-gas cyanides): FKrCN in a Kr matrix and FXeCN and FXeNC in a Xe matrix.II These molecule are formed by photolysis of FCN in a noble-gas matrix due to locality of this process. The amount of these molecules increases upon thermal mobilization of the F atoms in the photolyzed matrix featuring the F + Ng + CN reaction.

  10. The Microbial Surface Components Recognizing Adhesive Matrix Molecules (MSCRAMMs) Genes among Clinical Isolates of Staphylococcus aureus from Hospitalized Children

    PubMed Central

    Ghasemian, Abdolmajid; Najar Peerayeh, Shahin; Bakhshi, Bita; Mirzaee, Mohsen

    2015-01-01

    Background: Isolates of Staphylococcus aureus express a myriad of adhesive surface proteins that play important role in colonization of the bacteria on nasal and skin surfaces, beginning the process of pathogenesis. The aim of this study was to screen several of the Microbial Surface Components Recognizing Adhesive Matrix Molecules (MSCRAMMs) genes among the isolate of S. aureus from hospitalized children. Methods: A total of 22 S. aureus isolates were collected from hospitalized children in Tehran from 2012 to 2013. Detection of the mecA and several adhesive surface proteins genes including clfA, B (encoding clumping factors A, B); fnbA, B (encoding finronectin binding proteins A, B); fib (encoding fibrinogen binding protein); eno (encoding laminin binding protein); cna (encoding collagen binding protein); ebps (encoding elastin binding protein) and bbp (encoding bone sialo-protein binding protein), was performed by PCR. Results: The clfAB genes were detected among all the isolates. The prevalence of fnbA, fnbB, fib, eno, cna, ebps and bbp was 63%, 6%, 50%, 59%, 82%, 63%, 9% and 0%, respectively. Conclusion: The high prevalence of these genes is important for future plans in vaccine designation. MRSA and MSSA isolates similarly can produce adhesive surface proteins for colonization. PMID:26351495

  11. Comparison of human mesenchymal stem cells isolated by explant culture method from entire umbilical cord and Wharton's jelly matrix.

    PubMed

    Hendijani, Fatemeh; Sadeghi-Aliabadi, Hojjat; Haghjooy Javanmard, Shaghayegh

    2014-12-01

    Adult stem cells are of particular importance for applications in regenerative medicine. Umbilical cord was established recently as an alternative source of mesenchymal stem cell (MSC) instead of bone marrow (BM) and is superior to BM and other adult tissues according to several MSC properties. Additionally, for the purpose of cell therapy in clinical scale, steps of cell isolation, expansion and culture required to be precisely adjusted in order to obtain the most cost-effective, least time-consuming, and least labor-intensive method. Therefore, in this study, we are going to compare two simple and cost-effective explant culture methods for isolation of MSCs from human umbilical cord. One of the methods isolates cells from entire cord and the other from Wharton's jelly matrix. Isolated cells then cultured in simple medium without addition of any growth factor. MSCs obtained via both methods display proper and similar characteristics according to morphology, population doubling time, post-thaw survival, surface antigenicity and differentiation into adipocytes, osteocytes, and chondrocytes. MSCs can easily be obtained from the entire cord and Wharton's jelly, and it seems that both tissues are appropriate sources of stem cells for potential use in regenerative medicine. However, from technical large-scale preview, MSC isolation from entire cord piece is less labor-intensive and time-consuming than from Wharton's jelly part of the cord. PMID:24532125

  12. A spectroscopic study of intermediates in the condensation of refractory smokes: Matrix isolation experiments SiO

    NASA Technical Reports Server (NTRS)

    Khanna, R. K.; Stranz, D. D.; Donn, D.

    1980-01-01

    The infrared and Raman spectra of N2 matrix isolated silicon oxides are investigated. The vibrational frequencies of SiO, Si2O2, and Si3O3 were identified and assigned on the basis of normal coordinate analyses. Heating the solid to 50 K (evaporating the matrix) leaves a residue whose infrared spectrum is identical to that of a smoke condensed at ambient temperatures. Further heating of the sample to 500 K leads to significant changes in the band shapes. Investigations of the infrared spectra at several stages of the diffusion process result in the proposal of a mechanism for the transition from molecular properties to those of the residue (bulk) material, which is characterized as Si2O3.

  13. FTIR gas chromatographic analysis of perfumes

    NASA Astrophysics Data System (ADS)

    Diederich, H.; Stout, Phillip J.; Hill, Stephen L.; Krishnan, K.

    1992-03-01

    Perfumes, natural or synthetic, are complex mixtures consisting of numerous components. Gas chromatography (GC) and gas chromatography-mass spectrometry (GC-MS) techniques have been extensively utilized for the analysis of perfumes and essential oils. A limited number of perfume samples have also been analyzed by FT-IR gas chromatographic (GC-FTIR) techniques. Most of the latter studies have been performed using the conventional light pipe (LP) based GC-FTIR systems. In recent years, cold-trapping (in a matrix or neat) GC-FTIR systems have become available. The cold-trapping systems are capable of sub-nanogram sensitivities. In this paper, comparison data between the LP and the neat cold-trapping GC- FTIR systems is presented. The neat cold-trapping interface is known as Tracer. The results of GC-FTIR analysis of some commercial perfumes is also presented. For comparison of LP and Tracer GC-FTIR systems, a reference (synthetic) mixture containing 16 major and numerous minor constituents was used. The components of the mixture are the compounds commonly encountered in commercial perfumes. The GC-FTIR spectra of the reference mixture was obtained under identical chromatographic conditions from an LP and a Tracer system. A comparison of the two sets of data thus generated do indeed show the enhanced sensitivity level of the Tracer system. The comparison also shows that some of the major components detected by the Tracer system were absent from the LP data. Closer examination reveals that these compounds undergo thermal decomposition on contact with the hot gold surface that is part of the LP system. GC-FTIR data were obtained for three commercial perfume samples. The major components of these samples could easily be identified by spectra search against a digitized spectral library created using the Tracer data from the reference mixture.

  14. An atomic beam of 6Li — 7Li for high resolution spectroscopy from matrix isolation sublimation

    NASA Astrophysics Data System (ADS)

    Oliveira, A. N.; Sacramento, R. L.; Silva, B. A.; Uhlmann, F. O.; Wolff, W.; Cesar, C. L.

    2016-07-01

    We propose the Matrix Isolation Sublimation (MlSu) technique for generating cold lithium atoms for the measurement of the 6Li - 7Li isotope shift in D1 and D2 transitions. The technique is capable of generating cold 6Li and 7Li beams at 4 K with forward velocity of 125 m/s. Using this beam we offer a distinguished source of lithium atoms for transitions measurements, adding a new possibility to make high resolution spectroscopy towards improving the experimental checks of the theory.

  15. On-line electrodialytic matrix isolation for chromatographic determination of organic acids in wine.

    PubMed

    Ohira, Shin-Ichi; Kuhara, Kenta; Shigetomi, Aki; Yamasaki, Takayuki; Kodama, Yuko; Dasgupta, Purnendu K; Toda, Kei

    2014-10-31

    Chromatographic determination of organic acids is widely performed, but the matrix often calls for lengthy and elaborate sample preparation prior to actual analysis. Matrix components, e.g., proteins, non-ionics, lipids etc. are typically removed by a combination of centrifugation/filtration and solid phase extraction (SPE) that may include the use of ion-exchange media. Here we report the quantitative electrodialytic transfer of organic acids from complex samples to ultrapure water in seconds using cellulose membranes modified with N,N-dimethylaminoethyl methacrylate, which essentially eliminates the negative ζ-potential of a regenerated cellulose membrane surface. The transfer characteristics of the ion transfer device (ITD) were evaluated with linear carboxylic acids. While the ion transfer efficiencies may be affected by the acid dissociation constants, in most cases it is possible to achieve quantitative transfer under optimized device residence time (solution flow rate) and the applied voltage. In addition, the transfer efficiency was unaffected by the wide natural variation of pH represented in real samples. The approach was applied to organic acids in various samples, including red wine, considered to represent an especially difficult matrix. While quantitative transfer of the organic acids (as judged by agreement with standard pretreatment procedures involving SPE) was achieved, transfer of other matrix components was <5%. The processed samples could then be chromatographically analyzed in a straightforward manner. We used ion exclusion chromatography with direct UV detection; in treated samples; there was a dramatic reduction of the large early peaks observed compared to only 0.45μm membrane filtered samples.

  16. On-line electrodialytic matrix isolation for chromatographic determination of organic acids in wine.

    PubMed

    Ohira, Shin-Ichi; Kuhara, Kenta; Shigetomi, Aki; Yamasaki, Takayuki; Kodama, Yuko; Dasgupta, Purnendu K; Toda, Kei

    2014-10-31

    Chromatographic determination of organic acids is widely performed, but the matrix often calls for lengthy and elaborate sample preparation prior to actual analysis. Matrix components, e.g., proteins, non-ionics, lipids etc. are typically removed by a combination of centrifugation/filtration and solid phase extraction (SPE) that may include the use of ion-exchange media. Here we report the quantitative electrodialytic transfer of organic acids from complex samples to ultrapure water in seconds using cellulose membranes modified with N,N-dimethylaminoethyl methacrylate, which essentially eliminates the negative ζ-potential of a regenerated cellulose membrane surface. The transfer characteristics of the ion transfer device (ITD) were evaluated with linear carboxylic acids. While the ion transfer efficiencies may be affected by the acid dissociation constants, in most cases it is possible to achieve quantitative transfer under optimized device residence time (solution flow rate) and the applied voltage. In addition, the transfer efficiency was unaffected by the wide natural variation of pH represented in real samples. The approach was applied to organic acids in various samples, including red wine, considered to represent an especially difficult matrix. While quantitative transfer of the organic acids (as judged by agreement with standard pretreatment procedures involving SPE) was achieved, transfer of other matrix components was <5%. The processed samples could then be chromatographically analyzed in a straightforward manner. We used ion exclusion chromatography with direct UV detection; in treated samples; there was a dramatic reduction of the large early peaks observed compared to only 0.45μm membrane filtered samples. PMID:25465003

  17. Differentiation of Raoultella ornithinolytica/planticola and Klebsiella oxytoca clinical isolates by matrix-assisted laser desorption/ionization-time of flight mass spectrometry.

    PubMed

    de Jong, Eefje; de Jong, Arjan S; Smidts-van den Berg, Nathalie; Rentenaar, Rob J

    2013-04-01

    Ninety-nine clinical isolates previously identified as Klebsiella oxytoca were evaluated using matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS). Eight isolates were identified as Raoultella spp., being 5 Raoultella spp. and 3 K. oxytoca, by 16S rRNA sequencing. These isolates were correctly identified by applying the 10% differential rule for the MALDI-TOF MS score values. This approach might be useful to discriminate Raoultella species from K. oxytoca.

  18. H-Bonding of Sulfuric Acid with Its Decomposition Products: An Infrared Matrix Isolation and Computational Study of the H2SO4·H2O·SO3 Complex.

    PubMed

    Rozenberg, Mark; Loewenschuss, Aharon; Nielsen, Claus J

    2016-05-26

    The FTIR matrix isolation spectra of H2SO4 vapors show a group of bands with synchronous growth of their relative intensities which is independent of the water species content of the matrix layer. Their frequency positions indicate that the species they represent is H-bonded and composed of all three components (H2SO4, H2O, and SO3) involved in the vapor decomposition equilibrium of the acid molecule. Structure, stabilization energies, and vibrational frequencies of several H-bonded complexes between these components were considered in B3LYP calculations employing Dunning's correlation-consistent aug-cc-pVTZ basis sets. Correlations between spectral shifts, bond lengths, and H-bond energies were also considered. The best fitting complex is a ring structured 1:1:1 H2SO4·H2O·SO3. The indications are that the complex is formed in the vapor phase and not after deposition. The atmospheric significance may be in its ability to serve as a H-bonding nucleation center even without the presence of additional contaminants. PMID:27135379

  19. H-Bonding of Sulfuric Acid with Its Decomposition Products: An Infrared Matrix Isolation and Computational Study of the H2SO4·H2O·SO3 Complex.

    PubMed

    Rozenberg, Mark; Loewenschuss, Aharon; Nielsen, Claus J

    2016-05-26

    The FTIR matrix isolation spectra of H2SO4 vapors show a group of bands with synchronous growth of their relative intensities which is independent of the water species content of the matrix layer. Their frequency positions indicate that the species they represent is H-bonded and composed of all three components (H2SO4, H2O, and SO3) involved in the vapor decomposition equilibrium of the acid molecule. Structure, stabilization energies, and vibrational frequencies of several H-bonded complexes between these components were considered in B3LYP calculations employing Dunning's correlation-consistent aug-cc-pVTZ basis sets. Correlations between spectral shifts, bond lengths, and H-bond energies were also considered. The best fitting complex is a ring structured 1:1:1 H2SO4·H2O·SO3. The indications are that the complex is formed in the vapor phase and not after deposition. The atmospheric significance may be in its ability to serve as a H-bonding nucleation center even without the presence of additional contaminants.

  20. Proton trapping and defect energetics in ice from FT-IR monitoring of photoinduced isotopic exchange of isolated D2O

    NASA Astrophysics Data System (ADS)

    Wooldridge, Paul J.; Devlin, J. Paul

    1988-03-01

    The photoexcitation of 2-naphthol as a trace impurity in ice results in the injection of excess protons into the ice network. These protons are immobile at temperatures <100 K but warming to ˜120 K generates a near steady-state concentration of mobile protons which decays slowly. This behavior confirms the existence of shallow proton traps in ice which, following Kunst and Warman, are presumed to be intrinsic and, most probably, Bjerrum L defects. The quantity of mobile protons at a given temperature, in a pseudoequilibrium with immobile protons bound to the L defects, is controlled by the temperature coefficients of (a) the pseudoequilibrium constant and (b) the L-defect concentration. Since both the L and D defects are immobile below ˜130 K, the L-defect concentration can be taken to be temperature independent. Consequently, the temperature dependence of the rate at which D2O molecules isolated in H2O cubic ice are converted to (HOD)2 units by mobile protons is a direct measure of the binding energy between the excess protons and the L defects. This binding energy has been estimated at 10.0 kcal/mol. At the completion of each kinetic experiment at T<126 K, the predominant deuterated species is (HOD)2. Such samples are ideal for observation of the ice L-defect activity which is thermally activated by warming to above 130 K. By following the rate of conversion of (HOD)2 to isolated HOD for the range 134 to 150 K, the activation energy for the L-defect formation and mobility has been determined to be 12.2 kcal for cubic ice. This is close to the value of 12.0 kcal previously determined for cubic ice from isotopic exchange rates, but is less than the accepted value for hexagonal ice of 13.1 kcal/mol. Further, the enthalpy change for ice self-ionization has been estimated as 16.8 kcal from a combination of the activation energies for proton transport (9.5 kcal) and L-defect formation (7.8 kcal) with the L-defect-proton binding energy of 10.0 kcal.

  1. Matrix-isolated infrared absorption spectrum of CH2BrOO radical

    NASA Astrophysics Data System (ADS)

    Zhang, Xu; Sander, Stanley P.; Cheng, Lan; Thimmakondu, Venkatesan S.; Stanton, John F.

    2016-07-01

    The bromomethylperoxy radical, CH2BrOO, has been generated in cryogenic matrices. Six fundamental bands for CH2BrOO have been observed in an argon matrix at 5 K. The experimental frequencies (cm-1) are: ν4 = 1274.3, ν5 = 1229.4, ν6 = 1086.7, ν7 = 961.8, ν8 = 879.9, and ν10 = 515.4, two of which are detected for the first time. Ab initio calculations have been performed employing coupled-cluster methods. The experimental frequencies are shown to be in good agreement with the computation as well as the four bands (ν4, ν6, ν7 and ν8) observed by Huang and Lee in the gas phase.

  2. Reactions of yttrium and scandium atoms with acetylene: a matrix isolation infrared spectroscopic and theoretical study.

    PubMed

    Teng, Yun-Lei; Xu, Qiang

    2010-09-01

    Laser-ablated yttrium and scandium metal atoms have been codeposited at 4 K with acetylene in excess argon. Products, Y(C(2)H(2)), HYCCH, HScCCH(-), and HScScCCH(-), have been formed in the present experiments and characterized using infrared spectroscopy on the basis of the results of the isotopic shifts, mixed isotopic splitting patterns, stepwise annealing, the change of reagent concentration and laser energy, and the comparison with theoretical predictions. Density functional theory calculations have been performed on these molecules. The agreement between the experimental and calculated vibrational frequencies, relative absorption intensities, and isotopic shifts supports the identification of these molecules from the matrix infrared spectra. Plausible reaction mechanisms have been proposed to account for the formation of these molecules.

  3. Reactions of group 14 metal atoms with acetylene: a matrix isolation infrared spectroscopic and theoretical study.

    PubMed

    Teng, Yun-Lei; Xu, Qiang

    2009-11-01

    Laser-ablated group 14 metal atoms have been codeposited at 4 K with acetylene in excess argon. Products, Ge(C2H2), HGeCCH, Sn(C2H2), Sn2CCH2, HSnCCH, and HPbCCH, have been formed in the present experiments and characterized using infrared spectroscopy on the basis of the results of the isotopic shifts, mixed isotopic splitting patterns, stepwise annealing, the change of reagent concentration and laser energy, and the comparison with theoretical predictions. Density functional theory calculations have been performed on these molecules. The agreement between the experimental and the calculated vibrational frequencies, relative absorption intensities, and isotopic shifts supports the identification of these molecules from the matrix infrared spectra. Plausible reaction mechanisms have been proposed to account for the formation of these molecules.

  4. Matrix-isolation and ab initio study of HKrCCCl and HXeCCCl

    SciTech Connect

    Zhu, Cheng; Räsänen, Markku; Khriachtchev, Leonid

    2015-12-28

    We report on two new noble-gas molecules, HKrCCCl and HXeCCCl, prepared in low-temperature Kr and Xe matrices. These molecules are made by UV photolysis of HCCCl in the matrices and subsequent thermal annealing. The HCCCl precursor is produced by microwave discharge of a mixture of a matrix gas with trichloroethylene (HClC=CCl{sub 2}). The assignments of the new noble-gas molecules are supported by deuteration experiments and quantum chemical calculations at the MP2(full) and CCSD(T) levels of theory with the def2-TZVPPD basis set. No evidence of ClXeCCH, which is computationally reliably stable, is found in the experiments. ClKrCCH as well as the Ar compounds HArCCCl and ClArCCH are not observed either, which is in agreement with the calculations.

  5. [Viscoelastic properties of isolated papillary muscle: contributions of connective tissue skeleton and intracellular matrix].

    PubMed

    Protsenko, Iu L; Kobelev, A V; Lukin, O N; Balakin, A A; Smoliuk, L T

    2009-07-01

    Peculiarities of viscoelastic behavior of rabbit papillary muscle in passive state are studied by transversal versus longitudinal deformation curves, stress-strain and hysteresis curves, and stress relaxation curves under ramp stretching. The papillary muscle was chosen because of mostly longitudinal orientation of fibers and its elongated shape, which both make it as an appropriate model for uniaxial tests. The problem of evaluation of connective tissue protein structures and intracellular matrix contribution into the properties under consideration is solved by using the maceration method to remove intracellular structures. The different contribution of intracellular and extracellular protein features into total properties of a papillary muscle leads to nonlinearity of myocardial viscoelastic properties, such as the increase of differential elastic module and relaxation time with deformation.

  6. Luminescence spectroscopy of matrix-isolated atomic manganese: site size and orbital occupancy dependence of crystal field splitting.

    PubMed

    Collier, Martin A; Byrne, Owen; Murray, Ciaran; McCaffrey, John G

    2010-04-28

    Narrow linewidth emission features observed in the near-UV following y (6)P state excitation of atomic manganese isolated in the solid rare gases are assigned to b (4)D and a (4)P states. These states arise from the 3d(5)4s(2) electronic configuration, identical to that of the (6)S ground state, and the origin of the narrow linewidths. Two thermally stable sites, labeled blue and red on the basis of their position in absorption spectra, are occupied by atomic Mn in Ar and Kr while a single site is present in Xe. The red site produces a single, narrow line emission for the b (4)D state at 329 nm. In contrast, a lineshape analysis of the complex blue site b (4)D state emission between 331 and 332 nm reveals the occurrence of three zero phonon lines (ZPLs). Millisecond emission decay curves recorded for these features are found to be complex, requiring double and triple exponential fit functions. The origins of the complex decays and multiple ZPLs are shown to arise from weak crystal field splitting (CFS) of the J=7/2 spin-orbit level of the b (4)D state of atomic Mn isolated in the blue site of the solid rare gases. Fields of cubic symmetry are capable of inducing splitting for J>3/2 so atoms isolated in both single vacancy and tetravacancy sites in the fcc lattices of the solid rare gases are prone to this effect. b (4)D state emission is also produced following y (6)P excitation for Mn atoms occupying the red sites in Ar and Kr. However, Mn atoms isolated in the larger tetravacancy sites have small matrix shifts and do not exhibit any CFS. The magnitudes of the weak CF splittings are shown to depend on both the excited state electronic configurations 3d(5)4s(2) b (4)D and 3d(6)4s(1) a (4)D states and the size of the matrix site occupied by atomic Mn.

  7. A Fibrin Matrix Promotes the Differentiation of EMSCs Isolated from Nasal Respiratory Mucosa to Myelinating Phenotypical Schwann-Like Cells

    PubMed Central

    Chen, Qian; Zhang, Zhijian; Liu, Jinbo; He, Qinghua; Zhou, Yuepeng; Shao, Genbao; Sun, Xianglan; Cao, Xudong; Gong, Aihua; Jiang, Ping

    2015-01-01

    Because Schwann cells perform the triple tasks of myelination, axon guidance and neurotrophin synthesis, they are candidates for cell transplantation that might cure some types of nervous-system degenerative diseases or injuries. However, Schwann cells are difficult to obtain. As another option, ectomesenchymal stem cells (EMSCs) can be easily harvested from the nasal respiratory mucosa. Whether fibrin, an important transplantation vehicle, can improve the differentiation of EMSCs into Schwann-like cells (SLCs) deserves further research. EMSCs were isolated from rat nasal respiratory mucosa and were purified using anti-CD133 magnetic cell sorting. The purified cells strongly expressed HNK-1, nestin, p75NTR, S-100, and vimentin. Using nuclear staining, the MTT assay and Western blotting analysis of the expression of cell-cycle markers, the proliferation rate of EMSCs on a fibrin matrix was found to be significantly higher than that of cells grown on a plastic surface but insignificantly lower than that of cells grown on fibronectin. Additionally, the EMSCs grown on the fibrin matrix expressed myelination-related molecules, including myelin basic protein (MBP), 2′,3′-cyclic nucleotide 3′-phosphodiesterase (CNPase) and galactocerebrosides (GalCer), more strongly than did those grown on fibronectin or a plastic surface. Furthermore, the EMSCs grown on the fibrin matrix synthesized more neurotrophins compared with those grown on fibronectin or a plastic surface. The expression level of integrin in EMSCs grown on fibrin was similar to that of cells grown on fibronectin but was higher than that of cells grown on a plastic surface. These results demonstrated that fibrin not only promoted EMSC proliferation but also the differentiation of EMSCs into the SLCs. Our findings suggested that fibrin has great promise as a cell transplantation vehicle for the treatment of some types of nervous system diseases or injuries. PMID:25666351

  8. A fibrin matrix promotes the differentiation of EMSCs isolated from nasal respiratory mucosa to myelinating phenotypical Schwann-like cells.

    PubMed

    Chen, Qian; Zhang, Zhijian; Liu, Jinbo; He, Qinghua; Zhou, Yuepeng; Shao, Genbao; Sun, Xianglan; Cao, Xudong; Gong, Aihua; Jiang, Ping

    2015-03-01

    Because Schwann cells perform the triple tasks of myelination, axon guidance and neurotrophin synthesis, they are candidates for cell transplantation that might cure some types of nervous-system degenerative diseases or injuries. However, Schwann cells are difficult to obtain. As another option, ectomesenchymal stem cells (EMSCs) can be easily harvested from the nasal respiratory mucosa. Whether fibrin, an important transplantation vehicle, can improve the differentiation of EMSCs into Schwann-like cells (SLCs) deserves further research. EMSCs were isolated from rat nasal respiratory mucosa and were purified using anti-CD133 magnetic cell sorting. The purified cells strongly expressed HNK-1, nestin, p75(NTR), S-100, and vimentin. Using nuclear staining, the MTT assay and Western blotting analysis of the expression of cell-cycle markers, the proliferation rate of EMSCs on a fibrin matrix was found to be significantly higher than that of cells grown on a plastic surface but insignificantly lower than that of cells grown on fibronectin. Additionally, the EMSCs grown on the fibrin matrix expressed myelination-related molecules, including myelin basic protein (MBP), 2',3'-cyclic nucleotide 3'-phosphodiesterase (CNPase) and galactocerebrosides (GalCer), more strongly than did those grown on fibronectin or a plastic surface. Furthermore, the EMSCs grown on the fibrin matrix synthesized more neurotrophins compared with those grown on fibronectin or a plastic surface. The expression level of integrin in EMSCs grown on fibrin was similar to that of cells grown on fibronectin but was higher than that of cells grown on a plastic surface. These results demonstrated that fibrin not only promoted EMSC proliferation but also the differentiation of EMSCs into the SLCs. Our findings suggested that fibrin has great promise as a cell transplantation vehicle for the treatment of some types of nervous system diseases or injuries.

  9. Matrix isolation investigation of the photochemical reaction of activator-substituted benzenes with CrCl 2O 2

    NASA Astrophysics Data System (ADS)

    Hoops, Michael D.; Ault, Bruce S.

    2008-10-01

    The matrix isolation technique, combined with infrared spectroscopy and theoretical calculations, has been used to characterize the products of the photochemical reactions of aniline, anisole, and N, N-dimethylaniline with CrCl 2O 2. While initial twin jet deposition of the reagents did not lead to product formation, new bands were noted following irradiation with light of λ > 300 nm. In the reactions of CrCl 2O 2 and aniline, irradiation led to HCl formation, very likely accompanied by CrClO 2(H)NC 6H 5 formation, and a mixture of isomers of CrCl 2O-aminocyclohexa-2,4-dienone via oxygen atom transfer. CrCl 2O 2 and aniline were also codeposited as cryogenic thin films, producing new bands. Irradiation of these films led to further growth of these bands. The same products were identified in the thin film studies as were observed in the argon matrix experiments. The irradiation of the matrices containing CrCl 2O 2 and anisole and N, N-dimethylaniline were shown to lead to oxygen atom transfer, forming complexes between the corresponding cyclic ketone derivatives and CrCl 2O. The identification of the complexes were supported by density functional calculations at the B3LYP/6-311G++(d,2p) level and isotopic labeling (in the case of aniline).

  10. Matrix Isolation Spectroscopy and Photochemistry of Triplet 1,3-DIMETHYLPROPYNYLIDENE (MeC3Me)

    NASA Astrophysics Data System (ADS)

    Knezz, Stephanie N.; Waltz, Terese A.; Haenni, Benjamin C.; Burrmann, Nicola J.; McMahon, Robert J.

    2015-06-01

    Acetylenic carbenes and conjugated carbon chain molecules of the HCnH family are relevant to the study of combustion and chemistry in the interstellar medium (ISM). Propynylidene (HC3H) has been thoroughly studied and its structure and photochemistry determined. Here, we produce triplet diradical 1,3-dimethylpropynylidene (MeC3Me) photochemically from a precursor diazo compound in a cryogenic matrix (N2 or Ar) at 10 K, and spectroscopic analysis is carried out. The infrared, electronic absorption, and electron paramagnetic resonance spectra were examined in light of the parent (HC3H) system to ascertain the effect of alkyl substituents on delocalized carbon chains of this type. Computational analysis, EPR, and infrared analysis indicate a triplet ground state with a quasilinear structure. Infrared experiments reveal photochemical reaction to penten-3-yne upon UV irradiation. Further experimental and computational results pertaining to the structure and photochemistry will be presented. Seburg, R. A.; Patterson, E. V.; McMahon, R. J., Structure of Triplet Propynylidene (HCCCH) as Probed by IR, UV/vis, and EPR Spectroscopy of Isotopomers. Journal of the American Chemical Society 2009, 131 (26), 9442-9455.

  11. Observation of Trans-Ethanol and Gauche-Ethanol Complexes with Benzene Using Matrix Isolation Infrared Spectroscopy

    NASA Astrophysics Data System (ADS)

    Amicangelo, Jay; Silbaugh, Matthew J.

    2016-06-01

    Ethanol can exist in two conformers, one in which the OH group is trans to the methyl group (trans-ethanol) and the other in which the OH group is gauche to the methyl group (gauche-ethanol). Matrix isolation infrared spectra of ethanol deposited in 20 K argon matrices display distinct infrared peaks that can be assigned to the trans-ethanol and gauche-ethanol conformers, particularly with the O-H stretching vibrations. Given this, matrix isolation experiments were performed in which ethanol (C_2H_5OH) and benzene (C_6H_6) were co-deposited in argon matrices at 20 K in order to determine if conformer specific ethanol complexes with benzene could be observed in the infrared spectra. New infrared peaks that can be attributed to the trans-ethanol and gauche-ethanol complexes with benzene have been observed near the O-H stretching vibrations of ethanol. The initial identification of the new infrared peaks as being due to the ethanol-benzene complexes was established by performing a concentration study (1:200 to 1:1600 S/M ratios), by comparing the co-deposition spectra with the spectra of the individual monomers, by matrix annealing experiments (35 K), and by performing experiments using isotopically labeled ethanol (C_2D_5OD) and benzene (C_6D_6). Quantum chemical calculations were also performed for the C_2H_5OH-C_6H_6 complexes using density functional theory (B3LYP) and ab initio (MP2) methods. Stable minima were found for the both the trans-ethanol and gauche-ethanol complexes with benzene at both levels of theory and were predicted to have similar interaction energies. Both complexes can be characterized as H-π complexes, in which the ethanol is above the benzene ring with the hydroxyl hydrogen interacting with the π cloud of the ring. The theoretical O-H stretching frequencies for the complexes were predicted to be shifted from the monomer frequencies and from each other and these results were used to make the conformer specific infrared peak assignments

  12. Matrix isolation infrared spectroscopic and theoretical study of 1,1,1-trifluoro-2-chloroethane (HCFC-133a)

    SciTech Connect

    Rodrigues, Gessenildo Pereira; Ventura, Elizete E-mail: rfausto@ci.uc.pt; Andrade do Monte, Silmar; Lucena, Juracy Régis; Reva, Igor; Fausto, Rui E-mail: rfausto@ci.uc.pt

    2013-11-28

    The molecular structure and infrared spectrum of the atmospheric pollutant 1,1,1-trifluoro-2-chloroethane (HCFC-133a; CF{sub 3}CH{sub 2}Cl) in the ground electronic state were characterized experimentally and theoretically. Excited state calculations (at the CASSCF, MR-CISD, and MR-CISD+Q levels) have also been performed in the range up to ∼9.8 eV. The theoretical calculations show the existence of one (staggered) conformer, which has been identified spectroscopically for the monomeric compound isolated in cryogenic (∼10 K) argon and xenon matrices. The observed infrared spectra of the matrix-isolated HCFC-133a were interpreted with the aid of MP2/aug-cc-pVTZ calculations and normal coordinate analysis, which allowed a detailed assignment of the observed spectra to be carried out, including identification of bands due to different isotopologues ({sup 35}Cl and {sup 37}Cl containing molecules). The calculated energies of the several excited states along with the values of oscillator strengths and previous results obtained for CFCs and HCFCs suggest that the previously reported photolyses of the title compound at 147 and 123.6 nm [T. Ichimura, A. W. Kirk, and E. Tschuikow-Roux, J. Phys. Chem. 81, 1153 (1977)] are likely to be initiated in the n-4s and n-4p Rydberg states, respectively.

  13. A Novel Compound Rasatiol Isolated from Raphanus sativus Has a Potential to Enhance Extracellular Matrix Synthesis in Dermal Fibroblasts

    PubMed Central

    Roh, Seok-Seon; Park, Seung-Bae; Park, Seong-Mo; Choi, Byoung Wook; Lee, Min-Ho; Hwang, Yul-Lye; Kim, Chang Hun; Jeong, Hyun-Ah; Kim, Chang Deok

    2013-01-01

    Background The fibrous proteins of extracellular matrix (ECM) produced by dermal fibroblast contributes to the maintenance of connective tissue integrity. Objective This study is carried out to identify the bioactive ingredient from natural products that enhances ECM production in dermal fibroblasts. Methods Bioassay-directed fractionation was used to isolate the active ingredient from natural extracts. The effects of rasatiol (isolated from Raphanus sativus) on ECM production in primary cultured human dermal fibroblasts was investigated by enzyme linked immunosorbent assay and western blot analysis. Results Rasatiol accelerated fibroblast growth in a dose-dependent manner and increased the production of type 1 collagen, fibronectin and elastin. Phosphorylation of p42/44 extracellular signal-regulated kinase, p38 mitogen-activated protein kinase, and Akt was remarkably increased by rasatiol, indicating that enhanced ECM production is linked to the activation of intracellular signaling cascades. Conclusion These results indicate that rasatiol stimulates the fibrous components of ECM production, and may be applied to the maintenance of skin texture. PMID:24003274

  14. Vibrational relaxation of matrix-isolated CH/sub 3/F and HCl

    SciTech Connect

    Young, L.

    1981-08-01

    Kinetic and spectroscopic studies have been performed on CH/sub 3/F and HCl as a function of host matrix and temperature. Temporally and spectrally resolved infrared fluorescence was used to monitor the populations of both the initially excited state and the lower lying levels which participate in the relaxation process. For CH/sub 3/F, relaxation from any of the levels near 3.5 ..mu.., i.e. the CH stretching fundamentals or bend overtones, occurs via rapid (< 5 ns) V ..-->.. V transfer to 2..nu../sub 3/ with subsequent relaxation of the ..nu../sub 3/ (CF stretch) manifold. Lifetimes of 2..nu../sub 3/ and ..nu../sub 3/ were determined through overtone, ..delta..V = 2, and fundamental fluorescence. These lifetimes show a dramatic dependence on host lattice, an increase of two orders of magnitude in going from Xe and Ar matrices. Lifetimes depend only weakly on temperature. The relaxation of 2..nu../sub 3/ and ..nu../sub 3/ is consistent with a model in which production of a highly rotationally excited guest via collisions with the repulsive wall of the host is the rate limiting step. For HCl, lifetimes of v = 1,2,3 have been determined. In all hosts, the relaxation is non-radiative. For a given vibrational state, v, the relaxation rate increases in the series k(Ar) < k(Kr) < k(Xe). The dependence of the relaxation rate; on v is superlinear in all matrices, the deviation from linearity increasng in the order Ar < Kr < Xe. The relaxation rates become more strongly temperature dependent with increasing vibrational excitation. The results are consistent with a mechanism in which complex formation introduces the anisotropy necessary to induce a near resonant V ..-->.. R transition in the rate limiting step.

  15. Matrix isolation study of the formation of methanol cluster structures in the spectral region of C-O and O-H stretch vibrations

    NASA Astrophysics Data System (ADS)

    Doroshenko, I. Yu.

    2011-07-01

    Infrared absorption spectra of methyl alcohol isolated in an argon matrix are recorded experimentally. The transformation of the structure of the spectral bands with rising matrix temperature is analyzed in the spectral region of the C-O and O-H stretch deformation vibrations (1000-1100 and 3000-3800 cm-1). The experimental data are interpreted using quantum-chemical modelling of an optimal spatial structure and of the vibrational spectra of different nano-sized methyl alcohol clusters. The structure of the clusters changes gradually as the temperature of the argon matrix is raised from 10 to 50 K.

  16. Comparison of Colony Hybridization to Phenotype Screening on Washed Sheep's Blood Agar for the Isolation of Shiga toxin Producing Escherichia coli from Complex Matrixes

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Purpose of study: Isolating Shiga toxin-producing Escherichia coli (STEC) from complex matrixes such as ground beef is a lengthy and laborious process. In our previous studies of STEC present in beef production, colony hybridization was used to identify suspect stx containing colonies for further c...

  17. Spectroscopic and computational studies of matrix-isolated iso-CHBr3: structure, properties, and photochemistry of iso-bromoform.

    PubMed

    George, Lisa; Kalume, Aimable; Esselman, Brian J; Wagner, James; McMahon, Robert J; Reid, Scott A

    2011-09-28

    Iso-polyhalomethanes are known reactive intermediates that play a pivotal role in the photochemistry of halomethanes in condensed phases. In this work, iso-bromoform (iso-CHBr(3)) and its deuterated isotopomer were characterized by matrix isolation infrared and UV/visible spectroscopy, supported by ab initio and density functional theory calculations, to further probe the structure, spectroscopy, and photochemistry of this important intermediate. Selected wavelength laser irradiation of CHBr(3) isolated in Ar or Ne matrices at ~5 K yielded iso-CHBr(3); the observed infrared and UV/visible absorptions are in excellent agreement with computational predictions, and the energies of various stationary points on the CHBr(3) potential energy surface were characterized computationally using high-level methods in combination with correlation consistent basis sets. These calculations show that, while the corresponding minima lie ~200 kJ/mol above the global CHBr(3) minimum, the isomer is bound by some 60 kJ/mol in the gas phase with respect to the CHBr(2) + Br asymptote. The photochemistry of iso-CHBr(3) was investigated by selected wavelength laser irradiation into the intense S(0) → S(3) transition, which resulted in back photoisomerization to CHBr(3). Intrinsic reaction coordinate calculations confirmed the existence of a first-order saddle point connecting the two isomers, which lies energetically below the threshold of the radical channel. Subsequently, natural bond orbital analysis and natural resonance theory were used to characterize the important resonance structures of the isomer and related stationary points, which demonstrate that the isomerization transition state represents a crossover from dominantly covalent to dominantly ionic bonding. In condensed phases, the ion-pair dominated isomerization transition state structure is preferentially stabilized, so that the barrier to isomerization is lowered.

  18. Matrix solid phase dispersion assisted enzymatic hydrolysis as a novel approach for cocaine and opiates isolation from human hair.

    PubMed

    Míguez-Framil, Martha; Cabarcos, Pamela; Tabernero, María Jesús; Bermejo, Ana María; Bermejo-Barrera, Pilar; Moreda-Piñeiro, Antonio

    2013-11-01

    The possibility of assisting enzymatic hydrolysis (EH) procedures by sample disruption mechanisms inherent to matrix solid phase dispersion (MSPD) has been explored in the current study. EH of hair specimens from poly-drug abusers was assisted by dispersing/blending the sample (0.05 g) with alumina (2.25 g) before loading the dissolved enzyme (6 mL of 1 mg mL(-1) Pronase E in 1.4 M/1.4 M Tris/HCl, pH 7.3) through the hair-alumina solid phase packaged inside a disposable MSPD syringe. The MSPD-EH method was developed, and it proved to offer quantitative results when isolating cocaine, benzoylecgonine (BZE), codeine, morphine and 6-monoacethylmorphine (6-MAM) from human hair samples. The procedure allows an on column clean-up/pre-concentration procedure of the isolated targets by attaching a previously conditioned Oasis HLB cartridge to the end of the MSPD syringe. The EH procedure of human hair with Pronase E can therefore be shortened to approximately 30 min. Within this time, sample blending/dispersion, MSPD syringe package, elution (EH when dissolved Pronase E is passing through the sample-dispersant bed), and extract clean-up and target pre-concentration stages are achieved. Gas chromatography-mass spectrometry (GC-MS) was used for determining each target after elution from the Oasis HLB cartridges with 2 mL of 2% (v/v) acetic acid in methanol, concentration by N2 stream evaporation, and dried extract derivatization with N-methyl-tert-butylsilyltrifluoroacetamide (BSTFA) and chlorotrimethylsilane (TMCS). The method was validated according to the guidance for bioanalytical method validation of the US Department of Health and Human Services, Food and Drug Administration. The simplicity of the proposed approach makes it a useful procedure for screening/quantifying drugs of abuse in hair specimens from poly-drug abusers.

  19. ATR-FTIR Spectroscopy Highlights the Problem of Distinguishing Between Exophiala dermatitidis and E. phaeomuriformis Using MALDI-TOF MS.

    PubMed

    Ergin, Çağrı; Gök, Yaşar; Bayğu, Yasemin; Gümral, Ramazan; Özhak-Baysan, Betil; Döğen, Aylin; Öğünç, Dilara; Ilkit, Macit; Seyedmousavi, Seyedmojtaba

    2016-02-01

    The present study compared two chemical-based methods, namely, matrix-assisted laser desorption/ionization-time-of-flight mass spectrometry (MALDI-TOF MS) and attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy, to understand the misidentification of Exophiala dermatitidis and Exophiala phaeomuriformis. The study utilized 44 E. dermatitidis and 26 E. phaeomuriformis strains, which were partially treated with strong acids and bases for further evaluation. MALDI-TOF MS and ATR-FTIR spectroscopy data of the two Exophiala species were compared. Data groupings were observed for the chromic acid- and nitric acid-treated species when the black yeast sources were categorized as creosoted-oak sleepers, concrete sleepers, or dishwasher isolates. The MALDI-TOF MS data for the metalloenzyme-containing regions were consistent with the ATR-FTIR spectroscopy data. These results indicated that environmental isolates might contain metals not found in human isolates and might interfere with chemical-based identification methods. Therefore, MALDI-TOF MS reference libraries should be created for clinical strains and should exclude petroleum-associated environmental isolates. PMID:26373644

  20. Matrix isolation infrared spectroscopic and theoretical studies on the reactions of niobium and tantalum mono- and dioxides with methane.

    PubMed

    Wang, Guanjun; Lai, Sixue; Chen, Mohua; Zhou, Mingfei

    2005-10-27

    The reactions of niobium and tantalum monoxides and dioxides with methane have been investigated using matrix isolation infrared spectroscopic and theoretical calculations. The niobium and tantalum oxide molecules were prepared by laser evaporation of Nb(2)O(5) and Ta(2)O(5) bulk targets. The niobium monoxide molecule interacted with methane to form the ONb(CH(4)) complex, which was predicted to have C(3)(v)() symmetry with the metal atom coordinated to three hydrogen atoms of the methane molecule. The ONb(CH(4)) complex rearranged to the CH(3)Nb(O)H isomer upon 300 nm < lambda < 580 nm irradiation. The analogous OTa(CH(4)) complex was not observed, but the CH(3)Ta(O)H molecule was produced upon UV irradiation. The niobium and tantalum dioxide molecules reacted with methane to form the O(2)Nb(CH(4)) and O(2)Ta(CH(4)) complexes with C(s)() symmetry, which underwent photochemical rearrangement to the CH(3)Nb(O)OH and CH(3)Ta(O)OH isomers upon ultraviolet irradiation.

  1. Experimental cell for molecular beam deposition and magnetic resonance studies of matrix isolated radicals at temperatures below 1 K

    SciTech Connect

    Sheludiakov, S. Ahokas, J.; Vainio, O.; Järvinen, J.; Zvezdov, D.; Vasiliev, S.; Khmelenko, V. V.; Mao, S.; Lee, D. M.

    2014-05-15

    We present the design and performance of an experimental cell constructed for matrix isolation studies of H and D atoms in solid H{sub 2}/D{sub 2} films, which are created by molecular beam deposition at temperatures below 1 K. The sample cell allows sensitive weighing of the films by a quartz microbalance (QM) and their studies by magnetic resonance techniques in a strong magnetic field of 4.6 T. We are able to regulate the deposition rate in the range from 0.01 to 10 molecular layers/s, and measure the thickness with ≈0.2 monolayer resolution. The upper QM electrode serves as a mirror for a 128 GHz Fabry-Perot resonator connected to an electron spin resonance (ESR) spectrometer. H and D atoms were created by RF discharge in situ in the sample cell, and characterized by ESR and electron-nuclear double resonance. From the magnetic resonance measurements we conclude that the films are smooth and provide homogeneous trapping conditions for embedded atoms. The current sample cell design also makes it possible to calibrate the ESR signal and estimate the average and local concentrations of H and D radicals in the film.

  2. Inbreeding avoidance, patch isolation and matrix permeability influence dispersal and settlement choices by male agile antechinus in a fragmented landscape.

    PubMed

    Banks, Sam C; Lindenmayer, David B

    2014-03-01

    Animal dispersal is highly non-random and has important implications for the dynamics of populations in fragmented habitat. We identified interpatch dispersal events from genetic tagging, parentage analyses and assignment tests and modelled the factors associated with apparent emigration and post-dispersal settlement choices by individual male agile antechinus (Antechinus agilis, a marsupial carnivore of south-east Australian forests). Emigration decisions were best modelled with on data patch isolation and inbreeding risk. The choice of dispersal destination by males was influenced by inbreeding risk, female abundance, patch size, patch quality and matrix permeability (variation in land cover). Males were less likely to settle in patches without highly unrelated females. Our findings highlight the importance of individual-level dispersal data for understanding how multiple processes drive non-randomness in dispersal in modified landscapes. Fragmented landscapes present novel environmental, demographic and genetic contexts in which dispersal decisions are made, so the major factors affecting dispersal decisions in fragmented habitat may differ considerably from unfragmented landscapes. We show that the spatial scale of genetic neighbourhoods can be large in fragmented habitat, such that dispersing males can potentially settle in the presence of genetically similar females after moving considerable distances, thereby necessitating both a choice to emigrate and a choice of where to settle to avoid inbreeding.

  3. Luminescence spectroscopy of matrix-isolated atomic manganese: Excitation of the ``forbidden'' a6DJ<-->a6S transitions

    NASA Astrophysics Data System (ADS)

    Collier, Martin A.; Ryan, Maryanne C.; McCaffrey, John G.

    2005-07-01

    Laser-induced excitation spectra recorded for the electric-quadrupole 3d64saDJ6←3d54s2aS5/26 transitions of atomic Mn, allow assignment of the red emission features, previously observed in Mn/RG (RG =Ar, Kr and Xe) matrices with resonance 3d54s4pzP5/26←3d54s2aS5/26 excitation, to the metastable aD9/26 state. Narrow excitation bands recorded for the red site in the Mn /Kr system allow identification of all five spin-orbit levels (J =1/2, 3/2, 5/2, 7/2 and 9/2) in the aD6 state. The coincidence of the lowest energy excitation band and the observed 585.75nm (17072cm-1) emission band of atomic Mn in Kr matrices, yielded a definitive assignment of this emission to a transition from the J =9/2 spin-orbit level. Temperature dependent emission scans lead to the identification of the zero phonon line for the aD9/26→aS5/26 transition at 585.75nm. The identified matrix-shift of +20cm-1 allows an assessment of the extent of the ground state stabilization in the red (2°) site of atomic Mn isolation in solid Kr. Emission produced with direct aD6 state excitation yielded both the 585.75 and 626nm features. The former band arises for Mn atoms occupying the red site—the latter from blue site occupancy in solid Kr. The excitation linewidths recorded for these two sites differ greatly, with the blue site yielding a broad featureless profile, in contrast to the narrow, structured features of the red site. The corresponding red site aDJ6↔aS5/26 transitions in Ar and Xe matrices are broader than in Kr—a difference considered to originate from the site sizes available in these hosts and the interatomic Mn •RG potentials. The millisecond decay times recorded for the red emission bands in the Mn/RG systems are all much shorter than the 3s value predicted for the gas phase aD9/26→aS5/26 transition. This enhancement allows optical pumping of the forbidden aDJ6↔aS6 transitions with low laser powers when atomic manganese is isolated in the solid state. However all the

  4. Does borazine-water behave like benzene-water? A matrix isolation infrared and ab initio study

    NASA Astrophysics Data System (ADS)

    Mishra, P.; Verma, K.; Bawari, D.; Viswanathan, K. S.

    2016-06-01

    Borazine is isoelectronic with benzene and is popularly referred to as inorganic benzene. The study of non-covalent interactions with borazine and comparison with its organic counterpart promises to show interesting similarities and differences. The motivation of the present study of the borazine-water interaction, for the first time, stems from such interesting possibilities. Hydrogen-bonded complexes of borazine and water were studied using matrix isolation infrared spectroscopy and quantum chemical calculations. Computations were performed at M06-2X and MP2 levels of theory using 6-311++G(d,p) and aug-cc-pVDZ basis sets. At both the levels of theory, the complex involving an N-H⋯O interaction, where the N-H of borazine serves as the proton donor to the oxygen of water was found to be the global minimum, in contrast to the benzene-water system, which showed an H-π interaction. The experimentally observed infrared spectra of the complexes corroborated well with our computations for the complex corresponding to the global minimum. In addition to the global minimum, our computations also located two local minima on the borazine-water potential energy surface. Of the two local minima, one corresponded to a structure where the water was the proton donor to the nitrogen of borazine, approaching the borazine ring from above the plane of the ring; a structure that resembled the global minimum in the benzene-water H-π complex. The second local minimum corresponded to an interaction of the oxygen of water with the boron of borazine, which can be termed as the boron bond. Clearly the borazine-water system presents a richer landscape than the benzene-water system.

  5. Infrared Spectroscopy of Matrix-Isolated Polycyclic Aromatic Compounds and their Ions. 6; Polycyclic Aromatic Nitrogen Heterocycles

    NASA Technical Reports Server (NTRS)

    Mattioda, A. L.; Hudgins, Douglas M.; Bauschlicher, C. W., Jr.; Rosi, M.; Allamandola, L. J.; DeVincenzi, D. (Technical Monitor)

    2002-01-01

    The matrix-isolation technique has been employed to measure the mid-infrared spectra of several polycyclic aromatic nitrogen heterocycles in both neutral and cationic forms. The species studied include: 7,8 benzoquinoline (C13H9N); 2-azapyrene (C15H9N); 1- and 2-azabenz(a)anthracene (C17H11N); and 1-, 2-, and 4-azachrysene (also C17H11N). The experimentally measured band frequencies and intensities for each molecule are tabulated and compared with their theoretically calculated values computed using density functional theory at the B3LYP/4-31G level. The overall agreement between experiment and theory is quite good, in keeping with previous investigations involving the parent aromatic hydrocarbons. Several interesting spectroscopic trends are found to accompany nitrogen substitution into the aromatic framework of these compounds. First, for the neutral species, the nitrogen atom produces a significant increase in the total integrated infrared intensity across the 1600 - 1100/cm region and plays an essential role in the molecular vibration that underlies an uncharacteristically intense, discrete feature that is observed near 1400/cm in the spectra of 7,8 benzoquinoline, 1-azabenz(a)anthracene, and 4-azachrysene. The origin of this enhanced infrared activity and the nature of the new 1400/cm vibrational mode are explored. Finally, in contrast to the parent hydrocarbon species, these aromatic nitrogen heterocycles possess a significant permanent dipole moment. Consequently, these dipole moments and the rotational constants are reported for these species in their neutral and ionized forms.

  6. Evaluation of the Bruker Biotyper Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry System for Identification of Blood Isolates of Vibrio Species

    PubMed Central

    Cheng, Wern-Cherng; Jan, I-Shiow; Chen, Jong-Min; Teng, Shih-Hua; Teng, Lee-Jene; Sheng, Wang-Huei; Ko, Wen-Chien

    2015-01-01

    Among 56 blood isolates of Vibrio species identified by sequencing analysis of 16S rRNA and rpoB genes, the Bruker Biotyper matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) system correctly identified all isolates of Vibrio vulnificus (n = 20), V. parahaemolyticus (n = 2), and V. fluvialis (n = 1) but none of the isolates of serogroup non-O1/O139 (non-serogroup O1, non-O139) V. cholerae (n = 33) to the species level. All of these serogroup non-O1/O139 V. cholerae isolates were correctly identified using the newly created MALDI-TOF MS database. PMID:25740773

  7. Advances in Identification of Clinical Yeast Isolates by Use of Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry

    PubMed Central

    Buchan, Blake W.

    2013-01-01

    Matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS)-based identification is being adopted by clinical laboratories for routine identification of microorganisms. To date, the majority of studies have focused on the performance and optimization of MALDI-TOF MS for the identification of bacterial isolates. We review recent literature describing the use of MALDI-TOF MS for the routine identification of a variety of yeasts and yeast-like isolates. Specific topics include the effect of optimized or streamlined extraction methods, modified scoring thresholds, expanded reference libraries, and the possibility of conducting antifungal susceptibility testing using MALDI-TOF MS. PMID:23426924

  8. Examining the full effects of landscape heterogeneity on spatial genetic variation: a multiple matrix regression approach for quantifying geographic and ecological isolation.

    PubMed

    Wang, Ian J

    2013-12-01

    Understanding the effects of landscape heterogeneity on spatial genetic variation is a primary goal of landscape genetics. Ecological and geographic variables can contribute to genetic structure through geographic isolation, in which geographic barriers and distances restrict gene flow, and ecological isolation, in which gene flow among populations inhabiting different environments is limited by selection against dispersers moving between them. Although methods have been developed to study geographic isolation in detail, ecological isolation has received much less attention, partly because disentangling the effects of these mechanisms is inherently difficult. Here, I describe a novel approach for quantifying the effects of geographic and ecological isolation using multiple matrix regression with randomization. I explored the parameter space over which this method is effective using a series of individual-based simulations and found that it accurately describes the effects of geographic and ecological isolation over a wide range of conditions. I also applied this method to a set of real-world datasets to show that ecological isolation is an often overlooked but important contributor to patterns of spatial genetic variation and to demonstrate how this analysis can provide new insights into how landscapes contribute to the evolution of genetic variation in nature.

  9. What is Different Between Borazine-Acetylene and Benzene-Acetylene a Matrix Isolation and Ab-Initio Study.

    NASA Astrophysics Data System (ADS)

    Verma, Kanupriya; Viswanathan, K. S.

    2016-06-01

    Borazine (B_3N_3H_6)-C_2H_2 system was studied experimentally, using matrix isolation infrared spectroscopy and supported by ab-initio computations. B_3N_3H_6, also referred to as inorganic benzene, presents an interesting comparison with C_6H_6. While C_6H_6 has a delocalized π system, B_3N_3H_6 has electron density centered on the nitrogen atoms, while the boron atoms are electron deficient. In addition, B_3N_3H_6 can also serve as a proton donor through N-H group. Similarly, C_2H_2 can act both as a proton donor, using the hydrogen attached to the sp carbon or as a proton acceptor at its π-cloud. At the MP2/aug-cc-pVDZ level of theory, C_6H_6-C_2H_2 system showed three minimaThe. global minimum was a structure where the C_2H_2 was the proton donor to the C_6H_6 π system. The next was a local minimum where the C_6H_6 was the proton donor to C_2H_2 and the third was a π stacked structure. B_3N_3H_6-C_2H_2 also shows three minima at the same level of theory mentioned above. One was a structure where C_2H_2 donates a proton to B_3N_3H_6, approaching it from above the plane of the ring, much like in C_6H_6-C_2H_2. A second near degenerate structure was also located where the C_2H_2 serves as a proton acceptor towards the N-H group of B_3N_3H_6. A similar structure in C_6H_6-C_2H_2 was a local minimum. While in the case of C_6H_6-C_2H_2, the global minimum was the only one observed in the experiments, in the case of B_3N_3H_6-C_2H_2, both near degenerate minima mentioned above were observed in the matrix. B_3N_3H_6-C_2H_2 therefore reveals similarities and differences from the C_6H_6-C_2H_2 system. A π-stacked local minimum was also computationally indicated in the B_3N_3H_6-C_2H_2 system, though it was not observed in our experiments. Our earlier work comparing B_3N_3H_6-H_2O to C_6H_6-H_2O also yielded a similar behavioral pattern. Details of the experimental data and computational results will be presented. References: 1. M. Majumder, B. K. Mishra, N

  10. Effects of Solid-Medium Type on Routine Identification of Bacterial Isolates by Use of Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry

    PubMed Central

    Anderson, Neil W.; Buchan, Blake W.; Riebe, Katherine M.; Parsons, Lauren N.; Gnacinski, Stacy

    2012-01-01

    Matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) is a rapid method for the identification of bacteria. Factors that may alter protein profiles, including growth conditions and presence of exogenous substances, could hinder identification. Bacterial isolates identified by conventional methods were grown on various media and identified using the MALDI Biotyper (Bruker Daltonics, Billerica, MA) using a direct smear method and an acid extraction method. Specimens included 23 Pseudomonas isolates grown on blood agar, Pseudocel (CET), and MacConkey agar (MAC); 20 Staphylococcus isolates grown on blood agar, colistin-nalidixic acid agar (CNA), and mannitol salt agar (MSA); and 25 enteric isolates grown on blood agar, xylose lysine deoxycholate agar (XLD), Hektoen enteric agar (HE), salmonella-shigella agar (SS), and MAC. For Pseudomonas spp., the identification rate to genus using the direct method was 83% from blood, 78% from MAC, and 94% from CET. For Staphylococcus isolates, the identification rate to genus using the direct method was 95% from blood, 75% from CNA, and 95% from MSA. For enteric isolates, the identification rate to genus using the direct method was 100% from blood, 100% from MAC, 100% from XLD, 92% from HE, and 87% from SS. Extraction enhanced identification rates. The direct method of MALDI-TOF analysis of bacteria from selective and differential media yields identifications of varied confidence. Notably, Staphylococci spp. from CNA exhibit low identification rates. Extraction enhances identification rates and is recommended for colonies from this medium. PMID:22162546

  11. Intramolecular CH⋯π and CH⋯O interactions in the conformational stability of benzyl methyl ether studied by matrix-isolation infrared spectroscopy and theoretical calculations

    NASA Astrophysics Data System (ADS)

    Shin-ya, Kei; Takahashi, Osamu; Katsumoto, Yukiteru; Ohno, Keiichi

    2007-02-01

    Contributions of the intramolecular CH⋯π and CH⋯O interactions to the molecular conformation of benzyl methyl ether (BME) have been investigated by matrix-isolation infrared (IR) spectroscopy combined with quantum chemical calculations. Comparative investigations have been carried out for propylbenzene. Quantum chemical calculations predict that there are two conformers for BME; for the ET conformer the methyl ether and the phenyl groups lie in the plane of the benzene ring, while for the AG conformer they are out of the plane. Comparison between the observed and calculated spectra for BME reveals that the ET and AG conformers coexist in an Ar matrix. By measuring matrix-isolation IR spectra of BME deposited at different gas temperatures, the enthalpy difference (Δ H (AG - ET)) between ET and AG conformers was determined to be -1.03 ± 0.06 kJ mol -1. The experimental and calculation results indicate that the AG conformer of BME is stabilized by the intramolecular CH⋯π and CH⋯O interactions.

  12. Photochemistry of the ozone-water complex in cryogenic neon, argon, and krypton matrixes.

    PubMed

    Tsuge, Masashi; Tsuji, Kazuhide; Kawai, Akio; Shibuya, Kazuhiko

    2013-12-12

    The photochemistry of ozone-water complexes and the wavelength dependence of the reactions were studied by matrix isolation FTIR spectrometry in neon, argon, and krypton matrixes. Hydrogen peroxide was formed upon the irradiation of UV light below 355 nm. Quantitative analyses of the reactant and product were performed to evaluate the matrix cage effect of the photoreaction. In argon and krypton matrixes, a bimolecular O((1)D) + H2O → H2O2 reaction was found to occur to form hydrogen peroxide, where the O((1)D) atom generated by the photolysis of ozone diffused in the cryogenic solids to encounter water. In a neon matrix, hydrogen peroxide was generated through intracage photoreaction of the ozone-water complex, indicating that a neon matrix medium is most appropriate to study the photochemistry of the ozone-water complex.

  13. Advances in handheld FT-IR instrumentation

    NASA Astrophysics Data System (ADS)

    Arnó, Josep; Cardillo, Len; Judge, Kevin; Frayer, Maxim; Frunzi, Michael; Hetherington, Paul; Levy, Dustin; Oberndorfer, Kyle; Perec, Walter; Sauer, Terry; Stein, John; Zuidema, Eric

    2012-06-01

    FT-IR spectroscopy is the technology of choice to identify solid and liquid phase unknown samples. The challenges of ConOps (Concepts of Operation) in emergency response and military field applications require a significant redesign of the stationary FT-IR bench-top instruments typically used in laboratories. Specifically, field portable units require high levels of resistance against mechanical shock and chemical attack, ease of use in restrictive gear, quick and easy interpretation of results, and reduced size. In the last 20 years, FT-IR instruments have been re-engineered to fit in small suitcases for field portable use and recently further miniaturized for handheld operation. This article introduces the advances resulting from a project designed to overcome the challenges associated with miniaturizing FT-IR instruments. The project team developed a disturbance-corrected permanently aligned cube corner interferometer for improved robustness and optimized opto-mechanical design to maximize optical throughput and signal-to-noise ratios. Thermal management and heat flow were thoroughly modeled and studied to isolate sensitive components from heat sources and provide the widest temperature operation range. Similarly, extensive research on mechanical designs and compensation techniques to protect against shock and vibration will be discussed. A user interface was carefully created for military and emergency response applications to provide actionable information in a visual, intuitive format. Similar to the HazMatID family of products, state-of-the-art algorithms were used to quickly identify the chemical composition of complex samples based on the spectral information. This article includes an overview of the design considerations, tests results, and performance validation of the mechanical ruggedness, spectral, and thermal performance.

  14. Non-covalent C-Cl…π interaction in acetylene-carbon tetrachloride adducts: Matrix isolation infrared and ab initio computational studies

    NASA Astrophysics Data System (ADS)

    Ramanathan, N.; Sundararajan, K.; Vidya, K.; Jemmis, Eluvathingal D.

    2016-03-01

    Non-covalent halogen-bonding interactions between π cloud of acetylene (C2H2) and chlorine atom of carbon tetrachloride (CCl4) have been investigated using matrix isolation infrared spectroscopy and quantum chemical computations. The structure and the energies of the 1:1 C2H2-CCl4 adducts were computed at the B3LYP, MP2 and M05-2X levels of theory using 6-311 ++G(d,p) basis set. The computations indicated two minima for the 1:1 C2H2-CCl4 adducts; with the C-Cl…π adduct being the global minimum, where π cloud of C2H2 is the electron donor. The second minimum corresponded to a C-H…Cl adduct, in which C2H2 is the proton donor. The interaction energies for the adducts A and B were found to be nearly identical. Experimentally, both C-Cl…π and C-H…Cl adducts were generated in Ar and N2 matrixes and characterized using infrared spectroscopy. This is the first report on halogen bonded adduct, stabilized through C-Cl…π interaction being identified at low temperatures using matrix isolation infrared spectroscopy. Atoms in Molecules (AIM) and Natural Bond Orbital (NBO) analyses were performed to support the experimental results. The structures of 2:1 ((C2H2)2-CCl4) and 1:2 (C2H2-(CCl4)2) multimers and their identification in the low temperature matrixes were also discussed.

  15. Matrix isolation infrared spectrum of the sulfuric acid-monohydrate complex: new assignments and resolution of the "missing H-Bonded v(OH) band" issue.

    PubMed

    Rozenberg, M; Loewenschuss, A

    2009-04-30

    The matrix isolation infrared spectra of "dry" and "wet" vapors of sulfuric acid have been investigated as trapped in solid argon matrices. The availability of a spectrum of trapped anhydrous acid vapor and its comparison with the spectra of trapped water containing vapors of the acid allowed the identification of the hydrogen-bonding shifted hydroxyl bands for both the acid and the water moieties of the monohydrated H(2)SO(4).H(2)O complex. The experimental results are compared to the various theoretically calculated wavenumber values of the acid and its monohydrated complex. The complex stabilization energies, as obtained from calculations and empirical correlations, are compared.

  16. Matrix isolation infrared and DFT study of the trimethyl phosphite-hydrogen chloride interaction: hydrogen bonding versus nucleophilic substitution.

    PubMed

    Ramanathan, N; Kar, Bishnu Prasad; Sundararajan, K; Viswanathan, K S

    2012-12-13

    Trimethyl phosphite (TMPhite) and hydrogen chloride (HCl), when separately codeposited in a N(2) matrix, yielded a hydrogen bonded adduct, which was evidenced by shifts in the vibrational frequencies of the TMPhite and HCl submolecules. The structure and energy of the adducts were computed at the B3LYP level using 6-31++G** and aug-cc-pVDZ basis sets. While our computations indicated four minima for the TMPhite-HCl adducts, only one adduct was experimentally identified in the matrix at low temperatures, which interestingly was not the structure corresponding to the global minimum, but was the structure corresponding to the first higher energy local minimum. The Onsager self-consistent reaction field model was used to explain this observation. In an attempt to prepare the hydrogen bonded adduct in the gas phase and then trap it in the matrix, TMPhite and HCl were premixed prior to deposition. However, in these experiments, no hydrogen bonded adduct was observed; on the contrary, TMPhite reacted with HCl to yield CH(3)Cl, following a nucleophilic substitution, a reaction that is apparently frustrated in the matrix.

  17. Inhibition of matrix metalloproteinase-1 and type-I procollagen expression by phenolic compounds isolated from the leaves of Quercus mongolica in ultraviolet-irradiated human fibroblast cells.

    PubMed

    Kim, Han Hyuk; Kim, Dong Hee; Oh, Myeong Hwan; Park, Kwang Jun; Heo, Jun Hyeok; Lee, Min Won

    2015-01-01

    The aim of this study was to investigate the effect of Quercus mongolica (QM) which induce anti-photoaging process of skin in vitro. Bioassay-guided isolation of 80 % Me2CO extract of the leaves of QM led to the isolation and identification of six known phenolic compounds: pedunculagin (1), (-)-epigallocatechin (2), (+)-catechin (3), quercetin 3-O-(6″-O-galloyl)-β-D-glucopyranoside (4), kaempferol-3-O-β-D-glucopyranoside-7-O-α-L-rhamnopyranoside (5) and kaempferol 3-O-(6″-galloyl)-β-D-glucopyranoside (6). The effects of compounds 1-6 on expression of matrix metalloproteinase-1 (MMP-1) and type-I procollagen were further evaluated. Among them, compound 1 showed potent inhibitory effect on MMP-1 and the increased type-I procollagen synthesis in ultraviolet B-induced human fibroblast. These results suggest that pedunculagin, an ellagitannin, is a potential candidate for the prevention and treatment of skin aging.

  18. Casein kinase II protein kinase is bound to lamina-matrix and phosphorylates lamin-like protein in isolated pea nuclei

    NASA Technical Reports Server (NTRS)

    Li, H.; Roux, S. J.

    1992-01-01

    A casein kinase II (CK II)-like protein kinase was identified and partially isolated from a purified envelope-matrix fraction of pea (Pisum sativum L.) nuclei. When [gamma-32P]ATP was directly added to the envelope-matrix preparation, the three most heavily labeled protein bands had molecular masses near 71, 48, and 46 kDa. Protein kinases were removed from the preparation by sequential extraction with Triton X-100, EGTA, 0.3 M NaCl, and a pH 10.5 buffer, but an active kinase still remained bound to the remaining lamina-matrix fraction after these treatments. This kinase had properties resembling CK II kinases previously characterized from animal and plant sources: it preferred casein as an artificial substrate, could use GTP as efficiently as ATP as the phosphoryl donor, was stimulated by spermine, was calcium independent, and had a catalytic subunit of 36 kDa. Some animal and plant CK II kinases have regulatory subunits near 29 kDa, and a lamina-matrix-bound protein of this molecular mass was recognized on immunoblot by anti-Drosophila CK II polyclonal antibodies. Also found associated with the envelope-matrix fraction of pea nuclei were p34cdc2-like and Ca(2+)-dependent protein kinases, but their properties could not account for the protein kinase activity bound to the lamina. The 71-kDa substrate of the CK II-like kinase was lamin A-like, both in its molecular mass and in its cross-reactivity with anti-intermediate filament antibodies. Lamin phosphorylation is considered a crucial early step in the entry of cells into mitosis, so lamina-bound CK II kinases may be important control points for cellular proliferation.

  19. Versatility of Biofilm Matrix Molecules in Staphylococcus epidermidis Clinical Isolates and Importance of Polysaccharide Intercellular Adhesin Expression during High Shear Stress

    PubMed Central

    Schaeffer, Carolyn R.; Hoang, Tra-My N.; Sudbeck, Craig M.; Alawi, Malik; Tolo, Isaiah E.; Robinson, D. Ashley; Horswill, Alexander R.; Rohde, Holger

    2016-01-01

    ABSTRACT Staphylococcus epidermidis is a leading cause of hospital-associated infections, including those of intravascular catheters, cerebrospinal fluid shunts, and orthopedic implants. Multiple biofilm matrix molecules with heterogeneous characteristics have been identified, including proteinaceous, polysaccharide, and nucleic acid factors. Two of the best-studied components in S. epidermidis include accumulation-associated protein (Aap) and polysaccharide intercellular adhesin (PIA), produced by the enzymatic products of the icaADBC operon. Biofilm composition varies by strain as well as environmental conditions, and strains producing PIA-mediated biofilms are more robust. Clinically, biofilm-mediated infections occur in a variety of anatomical sites with diverse physiological properties. To test the hypothesis that matrix composition exhibits niche specificity, biofilm-related genetic and physical properties were compared between S. epidermidis strains isolated from high-shear and low-shear environments. Among a collection of 105 clinical strains, significantly more isolates from high-shear environments carried the icaADBC operon than did those from low-shear settings (43.9% versus 22.9%, P < 0.05), while there was no significant difference in the presence of aap (77.2% versus 75.0%, P > 0.05). Additionally, a significantly greater number of high-shear isolates were capable of forming biofilm in vitro in a microtiter assay (82.5% versus 45.8%, P < 0.0001). However, even among high-shear clinical isolates, less than half contained the icaADBC locus; therefore, we selected for ica-negative variants with increased attachment to abiotic surfaces to examine PIA-independent biofilm mechanisms. Sequencing of selected variants identified substitutions capable of enhancing biofilm formation in multiple genes, further highlighting the heterogeneity of S. epidermidis biofilm molecules and mechanisms. IMPORTANCE Staphylococcus epidermidis is a leading cause of

  20. Electronic absorption spectroscopy of matrix-isolated polycyclic aromatic hydrocarbon cations. I - The naphthalene cation (C10H8/+/)

    NASA Technical Reports Server (NTRS)

    Salama, F.; Allamandola, L. J.

    1991-01-01

    The ultraviolet, visible, and near-infrared absorption spectra of naphthalene (C10H8) and its radical ion (C10H8/+/), formed by vacuum ultraviolet irradiation, were measured in argon and neon matrices at 4.2 K. The associated vibronic band systems and their spectroscopic assignments are discussed together with the physical and chemical conditions governing ion production in the solid phase. The absorption coefficients were calculated for the ion and found lower than previous values, presumably due to the low polarizability of the neon matrix.

  1. Intercalibration of FTIR and SIMS for Hydrogen Measurements in Garnets

    NASA Astrophysics Data System (ADS)

    Huang, Y.; Rossman, G.; Guan, Y.; Ma, C.

    2008-12-01

    The importance of understanding the hydrogen incorporated in nominally anhydrous minerals (NAMs) that influences their physical and chemical properties significantly is well accepted, however, quantitatively experimental constraints between hydrogen concentration and physical and chemical properties are only meaningful if hydrogen concentration can be accurately determined. Fourier Transform Infrared Spectroscopy (FTIR) may be the most powerful technique since it provides information about both bulk concentration and local bonding environments, while Secondary Ion Mass Spec-trometry (SIMS) has held promise as an ideal method for hydrogen analyses for its advantages of high spatial resolution and insensitivity to crystal orientation. Great efforts have been made to establish experimental standards for these two techniques since they have no rigorous self-calibration. We here present new Fourier Transform Infrared Spectroscopy (FTIR) and Secondary Ion Mass Spectrometry (SIMS) analyses of 1H in 11 natural garnets (grossular, spessartite and pyrope). This set of garnets extends to a wider range of H2O contents (~4 to 6790 wt. ppm H2O) than previous studies and can be more reliable if more garnets can be investigated. We routinely achieve a less than 5 ppm by weight H2O with high vacuum quality, the use of a Cs+ primary beam, and carefully prepared samples using a resin-free mounting technique (described in Aubaud C. et al., 2007. Intercalibration of FTIR and SIMS for hydrogen measurements in glasses and nominally anhydrous minerals. American Mineralogist, 92, 811-828). Although some scatter is observed, the straight line with a slope of 0.0722 defined by all garnets in a plot of (H)FTIR vs. (H+/Si+)SIMS* (SiO2)EMP suggests small matrix effects, while some previous efforts demonstrated the existence of such matrix effects. Discrepancies between FTIR and SIMS measurements can be partially distributed to the impurities, which have different hydrogen concentration as the

  2. Morphology and structure features of ZnAl{sub 2}O{sub 4} spinel nanoparticles prepared by matrix-isolation-assisted calcination

    SciTech Connect

    Du, Xuelian; Li, Liqiang; Zhang, Wenxing; Chen, Wencong; Cui, Yuting

    2015-01-15

    Graphical abstract: The substrate ZnO as the isolation medium is effective in preventing the sintering and agglomeration of ZnAl{sub 2}O{sub 4} nanoparticles, and it also prevents their contamination. High purity, well-dispersed, and single-crystal ZnAl{sub 2}O{sub 4} nanoparticles with 3.72 eV band gap were obtained. - Abstract: Well-dispersed ZnAl{sub 2}O{sub 4} spinel nanoparticles with an average crystalline size of 25.7 nm were synthesized successfully and easily by polymer-network and matrix-isolation-assisted calcination. The product microstructure and features were investigated by X-ray diffractometry, thermogravimetric and differential thermal analysis, Fourier transform-infrared spectroscopy, N{sub 2} adsorption–desorption isotherms, and energy dispersive X-ray spectra. The morphology and optical performance of the as-prepared ZnAl{sub 2}O{sub 4} nanoparticles were characterized by scanning electron microscope, transmission electron microscopy, and photoluminescence spectrometer. Experimental results indicate that excess ZnO acted as the isolation medium is effective in preventing the sintering and agglomeration of ZnAl{sub 2}O{sub 4} nanoparticles, and it also prevents their contamination. Then, high purity and well-dispersed ZnAl{sub 2}O{sub 4} nanoparticles with single-crystal structure were obtained.

  3. Degradation of extracellular matrix proteins (fibronectin, vitronectin and laminin) by serine-proteinases isolated from Lonomia achelous caterpillar hemolymph.

    PubMed

    Lucena, Sara; Guerrero, Belsy; Salazar, Ana M; Gil, Amparo; Arocha-Piñango, Carmen L

    2006-09-01

    Lonomia achelous is a caterpillar distributed in southern Venezuela and in northern Brazil that causes an acute hemorrhagic syndrome in people who have contact with its bristles. The effect of the crude hemolymph and its chromatographic fractions (FDII, Lonomin V and Lonomin V-2) on extracellular matrix proteins was studied. The chromatographic fractions show activities similar to plasmin and urokinase. In sodium dodecyl sulfate-polyacrylamide gel electrophoresis, both lonomins appear as a protein band of 25 kDa under reduced conditions. By exclusion chromatography, the molecular weights of Lonomin V and Lonomin V-2 were 26.5 and 24.5 kDa, respectively. Fibronectin, laminin and vitronectin were degraded by all venom components. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis, under reduced conditions, shows that lonomins degrade fibronectin in four main fragments of 116, 60, 50 and 30 kDa. Molecular exclusion chromatography in native conditions shows that the molecular masses of these fragments are > or = 300, 62 and 27 kDa. The proteolytic effect of lonomins was abolished by benzamidine/HCl, iodoacetic acid and aprotinin. The extracellular matrix protein degradation together with the fibrino(geno)lytic activity of hemolymph and its fractions could explain, in part, the hemorrhagic syndrome, and the wound dehiscence in persons who have had contact with the L. achelous caterpillar.

  4. Laser sputtering generation of B/sub 2/ for ESR matrix isolation studies: comparison with ab initio CI theoretical calculations

    SciTech Connect

    Knight, L.B. Jr.; Gregory, B.W.; Cobranchi, S.T.; Feller, D.; Davidson, E.R.

    1987-06-10

    The /sup 11/B/sub 2/ molecule has been trapped in neon and argon matrices at 5 +/- 1 K for ESR (electron spin resonance) investigations. Laser sputtering from solid boron was used to generate the B/sub 2/ molecule whose ground electronic state has been established experimentally for the first time to be /sup 3/..sigma../sub g//sup -/. The ESR nuclear hyperfine parameters for B/sub 2/ and B atoms have been compared with the results of ab initio CI theoretical calculations. Good agreement between theory and experiment is found for the dipolar component of the A tensor but not for the small and difficult to calculate isotropic hfs. Reasons that make the Fermi contact term especially difficult to calculate in this particular case are presented. The argon matrix ESR results yield the following magnetic parameters for /sup 11/B/sub 2/ in its ground electronic state: g/sub parallel/ = g/sub perpendicular/ = 2.0015 (4); A/sub parallel/ = +/- 11 (1) MHz and A/sub perpendicular/ = +/- 27.4 (3) MHz for /sup 11/B and the zero field parameter; and the D value is 3633 (3) MHz. As discussed, the most reasonable signs for the A values are A/sub parallel/ < O and A/sub perpendicular/ > 0. The neon matrix value of D was found to be 3840 (3) MHz and A/sub perpendicular/ in neon is +/- 26.6 (3) MHz.

  5. Photoacoustic FTIR spectroscopic study of undisturbed human cortical bone.

    PubMed

    Gu, Chunju; Katti, Dinesh R; Katti, Kalpana S

    2013-02-15

    Chemical pretreatment has been the prevailing sample preparation procedure for infrared (IR) spectroscopic studies on bone. However, experiments have indicated that chemical pretreatment can potentially affect the interactions between the components. Typically the IR techniques have involved transmission experiments. Here we report experimental studies using photoacoustic Fourier transform infrared spectroscopy (PA-FTIR). As a nondestructive technique, PA-FTIR can detect absorbance spectrum from a sample at controllable sampling depth and with little or no sample preparation. Additionally, the coupling inert gas, helium, which is utilized in the PA-FTIR system, can inhibit bacteria growth of bone by displacing oxygen. Therefore, we used this technique to study the undisturbed human cortical bone. It is found that photoacoustic mode (linear-scan, LS-PA-FTIR) can obtain basically similar spectra of bone as compared to the traditional transmission mode, but it seems more sensitive to amide III and ν(2) carbonate bands. The ν(3) phosphate band is indicative of detailed mineral structure and symmetry of native bone. The PA-FTIR depth profiling experiments on human cortical bone also indicate the influence of water on OH band and the cutting effects on amide I and mineral bands. Our results indicate that phosphate ion geometry appears less symmetric in its undisturbed state as detected by the PA-FTIR as compared to higher symmetry observed using transmission techniques on disturbed samples. Moreover, the PA-FTIR spectra indicate a band at 1747 cm(-1) possibly resulting from CO stretching of lipids, cholesterol esters, and triglycerides from the arteries. Comparison of the spectra in transverse and longitudinal cross-sections demonstrates that, the surface area of the longitudinal section bone appears to have more organic matrix exposed and with higher mineral stoichiometry.

  6. Photoacoustic FTIR spectroscopic study of undisturbed human cortical bone

    NASA Astrophysics Data System (ADS)

    Gu, Chunju; Katti, Dinesh R.; Katti, Kalpana S.

    2013-02-01

    Chemical pretreatment has been the prevailing sample preparation procedure for infrared (IR) spectroscopic studies on bone. However, experiments have indicated that chemical pretreatment can potentially affect the interactions between the components. Typically the IR techniques have involved transmission experiments. Here we report experimental studies using photoacoustic Fourier transform infrared spectroscopy (PA-FTIR). As a nondestructive technique, PA-FTIR can detect absorbance spectrum from a sample at controllable sampling depth and with little or no sample preparation. Additionally, the coupling inert gas, helium, which is utilized in the PA-FTIR system, can inhibit bacteria growth of bone by displacing oxygen. Therefore, we used this technique to study the undisturbed human cortical bone. It is found that photoacoustic mode (linear-scan, LS-PA-FTIR) can obtain basically similar spectra of bone as compared to the traditional transmission mode, but it seems more sensitive to amide III and ν2 carbonate bands. The ν3 phosphate band is indicative of detailed mineral structure and symmetry of native bone. The PA-FTIR depth profiling experiments on human cortical bone also indicate the influence of water on OH band and the cutting effects on amide I and mineral bands. Our results indicate that phosphate ion geometry appears less symmetric in its undisturbed state as detected by the PA-FTIR as compared to higher symmetry observed using transmission techniques on disturbed samples. Moreover, the PA-FTIR spectra indicate a band at 1747 cm-1 possibly resulting from Cdbnd O stretching of lipids, cholesterol esters, and triglycerides from the arteries. Comparison of the spectra in transverse and longitudinal cross-sections demonstrates that, the surface area of the longitudinal section bone appears to have more organic matrix exposed and with higher mineral stoichiometry.

  7. Synchronous fluorescence/matrix isolation method for trace organic analysis: Annual report, December 1, 1984--November 30, 1985

    SciTech Connect

    Pardue, H.L.

    1989-03-22

    While awaiting delivery of the replacement for the damaged image dissector camera (IDC), we have continued evaluation of combined liquid chromatographic and multiwavelength absorption spectrophotometric methods for the resolution of mixtures of polynuclear aromatic hydrocarbons (PAH's). Three papers describe our results with these methods for both identification and quantitation of PAH's in mixtures. The chromatogram of a four- component mixture separated into two two-component fractions (Chrysene + benz(a)anthracene(B(a)A) and benzo(e)pyrene(B(e)P) + benzo(b)fluoranthene(B(b)F)) is shown. Multiwavelength second- derivative spectra were used with matrix least-squares methods to resolve the two-component fractions of partially separated mixtures of known concentrations. The same data-processing approach was evaluated for the qualitative identification of PAH's in mixtures. 5 refs., 2 figs., 2 tabs.

  8. The influence of landscape matrix on isolated patch use by wide-ranging animals: conservation lessons for woodland caribou

    PubMed Central

    Lesmerises, Rémi; Ouellet, Jean-Pierre; Dussault, Claude; St-Laurent, Martin-Hugues

    2013-01-01

    For conservation purposes, it is important to design studies that explicitly quantify responses of focal species to different land management scenarios. Here, we propose an approach that combines the influence of landscape matrices with the intrinsic attributes of remaining habitat patches on the space use behavior of woodland caribou (Rangifer tarandus caribou), a threatened subspecies of Rangifer. We sought to link characteristics of forest remnants and their surrounding environment to caribou use (i.e., occurrence and intensity). We tracked 51 females using GPS telemetry north of the Saguenay River (Québec, Canada) between 2004 and 2010 and documented their use of mature forest remnants ranging between 30 and ∼170 000 ha in a highly managed landscape. Habitat proportion and anthropogenic feature density within incremental buffer zones (from 100 to 7500 m), together with intrinsic residual forest patch characteristics, were linked to caribou GPS location occurrence and density to establish the range of influence of the surrounding matrix. We found that patch size and composition influence caribou occurrence and intensity of use within a patch. Patch size had to reach approximately 270 km2 to attain 75% probability of use by caribou. We found that small patches (<100 km2) induced concentration of caribou activities that were shown to make them more vulnerable to predation and to act as ecological traps. Woodland caribou clearly need large residual forest patches, embedded in a relatively undisturbed matrix, to achieve low densities as an antipredator strategy. Our patch-based methodological approach, using GPS telemetry data, offers a new perspective of space use behavior of wide-ranging species inhabiting fragmented landscapes and allows us to highlight the impacts of large scale management. Furthermore, our study provides insights that might have important implications for effective caribou conservation and forest management. PMID:24101980

  9. The influence of landscape matrix on isolated patch use by wide-ranging animals: conservation lessons for woodland caribou.

    PubMed

    Lesmerises, Rémi; Ouellet, Jean-Pierre; Dussault, Claude; St-Laurent, Martin-Hugues

    2013-09-01

    For conservation purposes, it is important to design studies that explicitly quantify responses of focal species to different land management scenarios. Here, we propose an approach that combines the influence of landscape matrices with the intrinsic attributes of remaining habitat patches on the space use behavior of woodland caribou (Rangifer tarandus caribou), a threatened subspecies of Rangifer. We sought to link characteristics of forest remnants and their surrounding environment to caribou use (i.e., occurrence and intensity). We tracked 51 females using GPS telemetry north of the Saguenay River (Québec, Canada) between 2004 and 2010 and documented their use of mature forest remnants ranging between 30 and ∼170 000 ha in a highly managed landscape. Habitat proportion and anthropogenic feature density within incremental buffer zones (from 100 to 7500 m), together with intrinsic residual forest patch characteristics, were linked to caribou GPS location occurrence and density to establish the range of influence of the surrounding matrix. We found that patch size and composition influence caribou occurrence and intensity of use within a patch. Patch size had to reach approximately 270 km(2) to attain 75% probability of use by caribou. We found that small patches (<100 km(2)) induced concentration of caribou activities that were shown to make them more vulnerable to predation and to act as ecological traps. Woodland caribou clearly need large residual forest patches, embedded in a relatively undisturbed matrix, to achieve low densities as an antipredator strategy. Our patch-based methodological approach, using GPS telemetry data, offers a new perspective of space use behavior of wide-ranging species inhabiting fragmented landscapes and allows us to highlight the impacts of large scale management. Furthermore, our study provides insights that might have important implications for effective caribou conservation and forest management.

  10. Matrix isolation and theoretical investigation of the photochemical reaction of CrCl 2O 2 with benzenes substituted with electron withdrawing groups

    NASA Astrophysics Data System (ADS)

    Hoops, Michael D.; Ault, Bruce S.

    2007-04-01

    The matrix isolation technique, combined with infrared spectroscopy and theoretical calculations, has been used to characterize the products of the photochemical reactions of chlorobenzene, α,α,α-trifluorotoluene, benzonitrile, and nitrobenzene with CrCl 2O 2. While initial twin jet deposition of the reagents led to no visible changes in the recorded spectra, product bands were noted following irradiation with light of λ > 300 nm. The irradiation was shown to lead to oxygen atom transfer, forming complexes between the corresponding cyclic ketone derivatives and CrCl 2O. With benzonitrile, cyanophenol complexed to CrCl 2O was also observed. This latter result arises from C-H bond activation and oxygen atom insertion into a C-H bond. The identification of the complexes were further supported by density functional calculations at the B3LYP/6-311G++(d, 2p) level. Product distributions were rationalized by an analysis of the electron density distribution.

  11. Matrix isolation model studies on the radiation-induced transformations of small molecules of astrochemical and atmospheric interest

    NASA Astrophysics Data System (ADS)

    Feldman, Vladimir I.; Ryazantsev, Sergey V.; Saenko, Elizaveta V.; Kameneva, Svetlana V.; Shiryaeva, Ekaterina S.

    2016-07-01

    The radiation-induced transformations of small molecules at low temperatures play an important role in the interstellar, planetary and atmospheric chemistry. This work presents a review of our recent model studies on the radiation chemistry of relevant molecules in solid noble gas (Ng) matrices, including some preliminary new results. Among the triatomic molecules, water and carbon dioxide were studied in detail. The radiation-induced degradation of isolated H2O yields hydrogen atoms and OH radicals, while oxygen atoms are produced at higher doses. Isolated CO2 molecules are decomposed to yield CO and trapped oxygen atoms. Upon annealing the trapped O and H atoms are mobilized selectively at different temperatures and react with other trapped species. The formation of HCO and HOCO radicals was observed in the mixed H2O/CO2/Ng systems. Other studies were concerned with the radiation-induced degradation of simple organic molecules (methanol, formic acid) and chlorofluorocarbons (CFCl3, CF2Cl2). Preliminary results for methanol revealed deep dehydrogenation yielding HCO and CO, whereas CO2, CO and HOCO were detected as primary products for formic acid. In the case of chlorofluorocarbons, significance of ionic channels was demonstrated. The implications of the results for modeling the processes in astrochemical ices and atmosphere are discussed.

  12. Matrix Isolation IR Spectroscopy and Quantum Chemistry Study of 1:1 Π-HYDROGEN Bonded Complexes of Benzene with a Series of Fluorophenols

    NASA Astrophysics Data System (ADS)

    Banerjee, Pujarini; Chakraborty, Tapas

    2015-06-01

    O-H stretching infrared fundamentals (νb{OH}) of phenol and a series of fluorophenol monomers and their 1:1 complexes with benzene have been measured under a matrix isolation condition (8K). For the phenol-benzene complex the measured shift of νb{OH} is 78 wn and for 3, 4, 5-trifluorophenol it is 98 wn. Although the cold matrix isolation environment is very different from an aqueous medium, the measured spectral shifts display an interesting linear correlation with the aqueous phase acid dissociation constants (pKa) of the phenols. The spectral shifts predicted by quantum chemistry calculations at several levels of theory are consistent with the observed values. Correlations of the shifts are also found with respect to energetic, geometric and several other electronic structure parameters of the complexes. Partitioning of binding energies of the complexes into components following the Morokuma-Kitaura scheme shows that dispersion is the predominant component of attractive interaction, and electrostatics, polarization and charge-transfer terms also have contributions to overall binding stability. NBO analysis reveals that hyperconjugative charge-transfers from the filled π-orbitals of the hydrogen bond acceptor (benzene) to the anti-bonding σ*(O-H) orbital of the donors (phenols) display correlations which are fully consistent with the observed variations of spectral shifts. The analysis also shows that the O-H bond dipole moments of all the phenolic species are nearly the same, implying that local electrostatics has only a little effect at the site of hydrogen bonding.

  13. Simultaneous Counter-Ion Co-Deposition a Technique Enabling Matrix Isolation Spectroscopy Studies Using Low-Energy Beams of Mass-Selected Ions

    NASA Astrophysics Data System (ADS)

    Ludwig, Ryan M.; Moore, David T.

    2014-06-01

    Matrix isolation spectroscopy was first developed in Pimentel's group during the 1950's to facilitate spectroscopic studies of transient species. Cryogenic matrices of condensed rare gases provide an inert chemical environment with facile energy dissipation and are transparent at all wavelengths longer than vacuum UV, making them ideal for studying labile and reactive species such as radicals, weakly bound complexes, and ions. Since frozen rare gases are poor electrolytes, studies of ions require near-equal populations of anions and cations in order to stabilize the number densities required for spectroscopic experiments. Many techniques for generation of ions for using in matrix isolation studies satisfy this criterion intrinsically, however when ion beams generated in external sources are deposited, the counter-ions typically arise via secondary processes that are at best loosely controlled. It has long been recognized that it would be desirable to stabilize deposition of mass-selected ions generated in an external source using simultaneous co-deposition of a beam of counter-ions, however previous attempts to achieve this have been reported as unsuccessful. The Moore group at Lehigh has demonstrated successful experiments of this type, using mass-selected anions generated from a metal cluster source, co-deposited with a balanced current of cations generated in a separate electron ionization source. This talk will focus on the details of the technique, and present some results from proof-of-concept studies on anionic copper carbonyl complexes formed in argon matrices following co-deposition of Cu- with Ar+ or Kr+. Funding support from NSF CAREER Award CHE-0955637 is gratefully acknowledged. Whittle et al., J. Chem. Phys. 22, p.1943 (1954); Becker et al., J. Chem. Phys. 25, p.224 (1956). Godbout et al., J. Chem. Phys. 96, p.2892 (1996). Sabo et al., Appl. Spectrosc. 45, p. 535 (1991).

  14. Magnetic circular dichroism studies of matrix-isolated atoms: Excited state spin-orbit coupling constant reduction of copper in the noble gases

    NASA Astrophysics Data System (ADS)

    Vala, Martin; Zeringue, Kyle; ShakhsEmampour, Jalal; Rivoal, Jean-Claude; Pyzalski, Robert

    1984-03-01

    The absorption and magnetic circular dichroism spectra of the 2P←2S transition of matrix-isolated copper atoms have been measured in krypton and xenon matrices. A dramatic reversal in the MCD C term pattern is observed. From a spectral band moment analysis it is shown that: (1) noncubic lattice cage vibrational motions are more important than cubic ones in contributing to the observed bandwidths and (2) the Cu excited state spin-orbit coupling constant (λ) in krypton is reduced to 57% of its gas phase value, whereas in xenon it is reduced to -14% of its gas phase value. Calculations using the Moran model show that the excited state geometry of the metal/rare gas cage is distorted via the Jahn-Teller effect in opposite ways in krypton and xenon matrices. The negative sign of λ in xenon reveals a reversal in the order of the 2P state spin-orbit multiplets. Neither this reversal nor the reduction of λ in krypton can be accounted for by the Jahn-Teller effect. We attribute the spin-orbit constant reduction to the overlap of the Cu 4p orbital with the np of the rare gas matrix cage atoms. The calculated spin-orbit reduction factors (in Ar, Kr, and Xe) agree well with the experimental ones if a contracted Cu 4p orbital is used. In the same way the ground state g factor shift with matrix atom type, observed by Kasai and McLeod, is semiquantitatively accounted for by calculation of the overlaps between the Cu 4s orbital and the np orbitals of the rare gas cage atoms.

  15. Charge-Transfer Complexes and Photochemistry of Ozone with Ferrocene and n-Butylferrocene: A UV-vis Matrix-Isolation Study.

    PubMed

    Pinelo, Laura F; Kugel, Roger W; Ault, Bruce S

    2015-10-15

    The reactions of ozone with ferrocene (cp2Fe) and with n-butylferrocene (n-butyl cp2Fe) were studied using matrix isolation, UV-vis spectroscopy, and theoretical calculations. The codeposition of cp2Fe with O3 and of n-butyl cp2Fe with O3 into an argon matrix led to the production of 1:1 charge-transfer complexes with absorptions at 765 and 815 nm, respectively. These absorptions contribute to the green matrix color observed upon initial deposition. The charge-transfer complexes underwent photochemical reactions upon irradiation with red light (λ ≥ 600 nm). Theoretical UV-vis spectra of the charge-transfer complexes and photochemical products were calculated using TD-DFT at the B3LYP/6-311G++(d,2p) level of theory. The calculated UV-vis spectra were in good agreement with the experimental results. MO analysis of these long-wavelength transitions showed them to be n→ π* on the ozone subunit in the complex and indicated that the formation of the charge-transfer complex between ozone and cp2Fe or n-butyl cp2Fe affects how readily the π* orbital on O3 is populated when red light (λ ≥ 600 nm) is absorbed. 1:1 complexes of cp2Fe and n-butyl cp2Fe with O2 were also observed experimentally and calculated theoretically. These results support and enhance previous infrared studies of the mechanism of photooxidation of ferrocene by ozone, a reaction that has considerable significance for the formation of iron oxide thin films for a range of applications.

  16. Experimental evidence for blue-shifted hydrogen bonding in the fluoroform-hydrogen chloride complex: a matrix-isolation infrared and ab initio study.

    PubMed

    Gopi, R; Ramanathan, N; Sundararajan, K

    2014-07-24

    The 1:1 hydrogen-bonded complex of fluoroform and hydrogen chloride was studied using matrix-isolation infrared spectroscopy and ab initio computations. Using B3LYP and MP2 levels of theory with 6-311++G(d,p) and aug-cc-pVDZ basis sets, the structures of the complexes and their energies were computed. For the 1:1 CHF3-HCl complexes, ab initio computations showed two minima, one cyclic and the other acyclic. The cyclic complex was found to have C-H · · · Cl and C-F · · · H interactions, where CHF3 and HCl sub-molecules act as proton donor and proton acceptor, respectively. The second minimum corresponded to an acyclic complex stabilized only by the C-F · · · H interaction, in which CHF3 is the proton acceptor. Experimentally, we could trap the 1:1 CHF3-HCl cyclic complex in an argon matrix, where a blue-shift in the C-H stretching mode of the CHF3 sub-molecule was observed. To understand the nature of the interactions, Atoms in Molecules and Natural Bond Orbital analyses were carried out to unravel the reasons for blue-shifting of the C-H stretching frequency in these complexes.

  17. The effects of panduratin A isolated from Kaempferia pandurata on the expression of matrix metalloproteinase-1 and type-1 procollagen in human skin fibroblasts.

    PubMed

    Shim, Jae-Seok; Kwon, Yi-Young; Hwang, Jae-Kwan

    2008-02-01

    Exposure of ultraviolet (UV) light on the skin induces photoaging associated with up-regulated matrix metalloproteinase (MMP) activities and decreased collagen synthesis. We investigated the effects of panduratin A isolated from Kaempferia pandurata Roxb. on the expression of matrix metalloproteinase-1 (MMP-1) and type-1 procollagen in UV-irradiated human skin fibroblasts. Cultured human fibroblasts were irradiated with UV (20 mJ/cm (2)) and panduratin A was added into the medium of the fibroblast culture. The expressions of MMP-1 and type-1 procollagen levels were measured using Western blot analysis and RT-RCR. Panduratin A in the range of 0.001 - 0.1 microM significantly reduced the expression of MMP-1 and induced the expression of type-1 procollagen at the protein and mRNA gene levels. Panduratin A showed stronger activity than epigallocatechin 3- O-gallate (EGCG) known as a natural anti-aging agent. The results suggest that panduratin A can be a potential candidate for the prevention and treatment of skin aging brought about by UV.

  18. Experimental evidence for blue-shifted hydrogen bonding in the fluoroform-hydrogen chloride complex: a matrix-isolation infrared and ab initio study.

    PubMed

    Gopi, R; Ramanathan, N; Sundararajan, K

    2014-07-24

    The 1:1 hydrogen-bonded complex of fluoroform and hydrogen chloride was studied using matrix-isolation infrared spectroscopy and ab initio computations. Using B3LYP and MP2 levels of theory with 6-311++G(d,p) and aug-cc-pVDZ basis sets, the structures of the complexes and their energies were computed. For the 1:1 CHF3-HCl complexes, ab initio computations showed two minima, one cyclic and the other acyclic. The cyclic complex was found to have C-H · · · Cl and C-F · · · H interactions, where CHF3 and HCl sub-molecules act as proton donor and proton acceptor, respectively. The second minimum corresponded to an acyclic complex stabilized only by the C-F · · · H interaction, in which CHF3 is the proton acceptor. Experimentally, we could trap the 1:1 CHF3-HCl cyclic complex in an argon matrix, where a blue-shift in the C-H stretching mode of the CHF3 sub-molecule was observed. To understand the nature of the interactions, Atoms in Molecules and Natural Bond Orbital analyses were carried out to unravel the reasons for blue-shifting of the C-H stretching frequency in these complexes. PMID:24979667

  19. Infrared spectra and ultraviolet-tunable laser induced photochemistry of matrix-isolated phenol and phenol-d{sub 5}

    SciTech Connect

    Giuliano, Barbara Michela; Reva, Igor; Fausto, Rui; Lapinski, Leszek

    2012-01-14

    Monomers of phenol and its ring-perdeuterated isotopologue phenol-d{sub 5} were isolated in argon matrices at 15 K. The infrared (IR) spectra of these species were recorded and analyzed. In situ photochemical transformations of phenol and phenol-d{sub 5} were induced by tunable UV laser light. The photoproducts have been characterized by IR spectroscopy supported by theoretical calculations of the infrared spectra. The primary product photogenerated from phenol was shown to be the phenoxyl radical. The analysis of the progress of the observed phototransformations led to identification of 2,5-cyclohexadienone as one of the secondary photoproducts. Spectral indications of other secondary products, such as the Dewar isomer and the open-ring ketene, were also detected. Identification of the photoproducts provided a guide for the interpretation of the mechanisms of the observed photoreactions.

  20. [Isolation and in vitro translation of polysomes and the RNA matrix from gibberellic acid-treated etiolated dwarf pea shoots].

    PubMed

    Kilev, S N; Evtushenko, E V; Chekurov, V M; Mertvetsov, N P

    1983-08-01

    The effect of gibberellic acid (GA) on the size of polysomes (PS) and on the specific translation activity of epicotyl PS of two dwarf pea varieties was studied. It was shown that GA does not significantly alter the specific translation activity of PS and of mRNA isolated from dwarf pea epicotyl PS. Electrophoretic separation of the polypeptides synthesized in a cell-free protein-synthesizing system in PS of control and GA-treated shoots revealed no differences between them. Some minor qualitative and quantitative differences in the protein composition of the cytoplasm of control and hormone-treated shoots were found. Possible influence of GA on the composition of a definite class of mRNA and on posttranslational processing of plant proteins is discussed. PMID:6194827

  1. Compounds isolated from Ageratum houstonianum inhibit the activity of matrix metalloproteinases (MMP-2 and MMP-9): An oncoinformatics study

    PubMed Central

    Verma, Anupriya; Rizvi, Syed Mohd. Danish; Shaikh, Sibhghatulla; Ansari, Mohd. Afaque; Shakil, Shazi; Ghazal, Fauzia; Siddiqui, Mohd. Haris; Haneef, Mohd.; Rehman, Ajijur

    2014-01-01

    Background: In osteosarcoma tissue, both MMP-2 and MMP-9 are over expressed compared to their expression in non-affected stromal tissue. Hence, gelatinases are attractive targets for anti-osteosarcoma drugs. Objective: To study the inhibitory activity of compounds isolated from Ageratum houstonianum against MMP-2 and MMP-9 by in-silico approach. Material and Methods: We performed docking study using ‘Autodock 4.2’ between 1,2-benzenedicarboxylic acid-bis (2-ethylhexyl) ester; squalene; 3,5-bis (1,1-dimethylethyl) phenol; pentamethyl tetrahydro-5H-chromene; (1, 4-cyclohexylphenyl) ethanone and 6-vinyl-7-methoxy-2,2-dimethylchromene with MMP-2 and MMP-9. Results: Among all six compounds isolated from Ageratum houstonianum, (1, 4-cyclohexylphenyl) ethanone showed the maximum potential as a putative inhibitor of both MMP-2 and MMP-9 enzymes with reference to ΔG (−7.95 and −8.2 kcal/mol, respectively) and Ki (1.48 and 0.98 μM, respectively) values. Total intermolecular energy of docking for (1, 4-cyclohexylphenyl) ethanone-MMP catalytic domain-interaction was found to be −8.55 kcal/mol for MMP-2 and −9.21 kcal/mol for MMP-9. Conclusion: This study explores molecular interactions between human MMPs (MMP-2 and MMP-9) and six natural compounds. This study predicts that (1,4-cyclohexylphenyl) ethanone is a more efficient inhibitor of human MMP-2 and MMP-9 enzymes compared to the other natural compounds used in this study with reference to Ki and ΔG values. PMID:24695379

  2. Photoactivation of the Ni-SIr state to the Ni-SIa state in [NiFe] hydrogenase: FT-IR study on the light reactivity of the ready Ni-SIr state and as-isolated enzyme revisited.

    PubMed

    Tai, Hulin; Xu, Liyang; Inoue, Seiya; Nishikawa, Koji; Higuchi, Yoshiki; Hirota, Shun

    2016-08-10

    The Ni-SIr state of [NiFe] hydrogenase from Desulfovibrio vulgaris Miyazaki F was photoactivated to its Ni-SIa state by Ar(+) laser irradiation at 514.5 nm, whereas the Ni-SL state was light induced from a newly identified state, which was less active than any other identified state and existed in the "as-isolated" enzyme.

  3. Matrix-assisted laser desorption ionization-time of flight mass spectrometry based identification of Edwardsiella ictaluri isolated from Vietnamese striped catfish (Pangasius hypothalamus)

    PubMed Central

    Nhu, Truong Quynh; Park, Seong Bin; Kim, Si Won; Lee, Jung Seok; Im, Se Pyeong; Lazarte, Jassy Mary S.; Seo, Jong Pyo; Lee, Woo-Jai; Kim, Jae Sung

    2016-01-01

    Edwardsiella (E.) ictaluri is a major bacterial pathogen that affects commercially farmed striped catfish (Pangasius hypothalamus) in Vietnam. In a previous study, 19 strains of E. ictaluri collected from striped catfish were biochemically identified with an API-20E system. Here, the same 19 strains were used to assess the ability of matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS; applied using a MALDI Biotyper) to conduct rapid, easy and accurate identification of E. ictaluri. MALDI-TOF MS could directly detect the specific peptide patterns of cultured E. ictaluri colonies with high (> 2.0, indicating species-level identification) scores. MALDI Biotyper 3.0 software revealed that all of the strains examined in this study possessed highly similar peptide peak patterns. In addition, electrophoresis (SDS-PAGE) and subsequent immuno-blotting using a specific chicken antibody (IgY) against E. ictaluri revealed that the isolates had highly similar protein profiles and antigenic banding profiles. The results of this study suggest that E. ictaluri isolated from striped catfish in Vietnam have homologous protein compositions. This is important, because it indicates that MALDI-TOF MS analysis could potentially outperform the conventional methods of identifying E. ictaluri. PMID:26726022

  4. Chemical characterization of torbanites by transmission micro-FTIR spectroscopy: Origin and extent of compositional heterogeneities

    NASA Astrophysics Data System (ADS)

    Landais, Patrick; Rochdi, Aïcha; Largeau, Claude; Derenne, Sylvie

    1993-06-01

    Four Permian to Carboniferous torbanites of various geographical origins were examined by transmission micro-FTIR spectroscopy on doubly polished thin sections (10-25 μm). Several types of heterogeneities (different types of organic matrix; yellow and orange Botryococcus braunii colonies) were identified and chemically characterized. Important differences were noted between the organic constituents of the matrix and the algal bodies, regarding the intensity of OH, CO, and aromatic CC absorptions. The previous IR studies of torbanites on bulk samples therefore afforded substantially biased information on the composition of B. braunii fossil colonies, on their oil potential, and on the maturity of such kerogens. Micro-FTIR spectra indicate that the organic matrix corresponds neither to an extensive breaking up of colonies nor to humic substances. This matrix is highly heterogeneous; two types were identified in the Autun sample (chiefly corresponding to degraded algal and bacterial constituents, respectively). A precise characterization of the organic matrix was made difficult, however, in Pumpherston torbanite, due to intimate mixing with minerals. The co-occurrence of yellow and orange colonies, with contrasted micro-FTIR features, in Autun torbanite neither reflects radiolysis processes nor differences in maturation and/or source algae. A specific spatial relation was observed between these two types of algal bodies and the organo-mineral matrix, thus revealing differences in colony microenvironment after deposition. The orange colonies are likely derived, in agreement with their micro-FTIR spectra and their spatial correlation with the matrix, from sedimentological and/or matrix-catalysed diagenetic transformations of some yellow colonies. This first application of micro-FTIR to kerogens confirmed the utility of this nondestructive, in situ pin-point method. Although torbanites have been extensively studied, all the analytical methods so far used only

  5. Identification of Haemophilus influenzae Type b Isolates by Use of Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry

    PubMed Central

    Månsson, Viktor; Kostrzewa, Markus; Nilson, Bo; Riesbeck, Kristian

    2015-01-01

    Haemophilus influenzae type b (Hib) is, in contrast to non-type b H. influenzae, associated with severe invasive disease, such as meningitis and epiglottitis, in small children. To date, accurate H. influenzae capsule typing requires PCR, a time-consuming and cumbersome method. Matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) provides rapid bacterial diagnostics and is increasingly used in clinical microbiology laboratories. Here, MALDI-TOF MS was evaluated as a novel approach to separate Hib from other H. influenzae. PCR-verified Hib and non-Hib reference isolates were selected based on genetic and spectral characteristics. Mass spectra of reference isolates were acquired and used to generate different classification algorithms for Hib/non-Hib differentiation using both ClinProTools and the MALDI Biotyper software. A test series of mass spectra from 33 Hib and 77 non-Hib isolates, all characterized by PCR, was used to evaluate the algorithms. Several algorithms yielded good results, but the two best were a ClinProTools model based on 22 separating peaks and subtyping main spectra (MSPs) using MALDI Biotyper. The ClinProTools model had a sensitivity of 100% and a specificity of 99%, and the results were 98% reproducible using a different MALDI-TOF MS instrument. The Biotyper subtyping MSPs had a sensitivity of 97%, a specificity of 100%, and 93% reproducibility. Our results suggest that it is possible to use MALDI-TOF MS to differentiate Hib from other H. influenzae. This is a promising method for rapidly identifying Hib in unvaccinated populations and for the screening and surveillance of Hib carriage in vaccinated populations. PMID:25926500

  6. Photoactivation of the Ni-SIr state to the Ni-SIa state in [NiFe] hydrogenase: FT-IR study on the light reactivity of the ready Ni-SIr state and as-isolated enzyme revisited.

    PubMed

    Tai, Hulin; Xu, Liyang; Inoue, Seiya; Nishikawa, Koji; Higuchi, Yoshiki; Hirota, Shun

    2016-08-10

    The Ni-SIr state of [NiFe] hydrogenase from Desulfovibrio vulgaris Miyazaki F was photoactivated to its Ni-SIa state by Ar(+) laser irradiation at 514.5 nm, whereas the Ni-SL state was light induced from a newly identified state, which was less active than any other identified state and existed in the "as-isolated" enzyme. PMID:27456760

  7. Thermal decomposition of methyl 2-azidopropionate studied by UV photoelectron spectroscopy and matrix isolation IR spectroscopy: heterocyclic intermediate vs imine formation.

    PubMed

    Pinto, R M; Dias, A A; Costa, M L; Rodrigues, P; Barros, M T; Ogden, J S; Dyke, J M

    2011-08-01

    Methyl 2-azidopropionate (N(3)CH(3)CHCOOCH(3), M2AP) has been synthesized and characterized by different spectroscopic methods, and the thermal decomposition of this molecule has been investigated by matrix isolation infrared (IR) spectroscopy and ultraviolet photoelectron spectroscopy (UVPES). Computational methods have been employed in the spectral simulation of both UVPES and matrix IR spectra and in the rationalization of the thermal decomposition results. M2AP presents a HOMO vertical ionization energy (VIE) of 9.60 ± 0.03 eV and contributions from all four lowest-energy conformations of this molecule are detected in the gas phase. Its thermal decomposition starts at ca. 400 °C and is complete at ca. 650 °C, yielding N(2), CO, CO(2), CH(3)CN, and CH(3)OH as the final decomposition products. Methyl formate (MF) and CH(4) are also found during the pyrolysis process. Analysis of the potential energy surface of the decomposition of M2AP indicates that M2AP decomposes preferentially into the corresponding imine (M2IP), through a 1,2-H shift synchronous with the N(2) elimination (Type 1 mechanism), requiring an activation energy of 160.8 kJ/mol. The imine further decomposes via two competitive routes: one accounting for CO, CH(3)OH, and CH(3)CN (ΔE(G3) = 260.2 kJ/mol) and another leading to CO(2), CH(4), and CH(3)CN (ΔE(G3) = 268.6 kJ/mol). A heterocyclic intermediate (Type 2 mechanism)-4-Me-5-oxazolidone-can also be formed from M2AP via H transfer from the remote O-CH(3) group, together with the N(2) elimination (ΔE(G3) = 260.2 kJ/mol). Finally, a third pathway which accounts for the formation of MF through an M2AP isomer is envisioned.

  8. Conformers, infrared spectrum, UV-induced photochemistry, and near-IR-induced generation of two rare conformers of matrix-isolated phenylglycine

    SciTech Connect

    Borba, Ana Fausto, Rui; Gómez-Zavaglia, Andrea

    2014-10-21

    The conformational space of α-phenylglycine (PG) have been investigated theoretically at both the DFT/B3LYP/6-311++G(d,p) and MP2/6-311++G(d,p) levels of approximation. Seventeen different minima were found on the investigated potential energy surfaces, which are characterized by different dominant intramolecular interactions: type I conformers are stabilized by hydrogen bonds of the type N–H···O=C, type II by a strong O–H···N hydrogen bond, type III by weak N–H···O–H hydrogen bonds, and type IV by a C=O···H–C contact. The calculations indicate also that entropic effects are relevant in determining the equilibrium populations of the conformers of PG in the gas phase, in particular in the case of conformers of type II, where the strong intramolecular O–H···N hydrogen bond considerably diminishes entropy by reducing the conformational mobility of the molecule. In consonance with the relative energies of the conformers and barriers for conformational interconversion, only 3 conformers of PG were observed for the compound isolated in cryogenic Ar, Xe, and N{sub 2} matrices: the conformational ground state (ICa), and forms ICc and IITa. All other significantly populated conformers existing in the gas phase prior to deposition convert either to conformer ICa or to conformer ICc during matrix deposition. The experimental observation of ICc had never been achieved hitherto. Narrowband near-IR irradiation of the first overtone of νOH vibrational mode of ICa and ICc in nitrogen matrices (at 6910 and 6930 cm{sup −1}, respectively) led to selective generation of two additional conformers of high-energy, ITc and ITa, respectively, which were also observed experimentally for the first time. In addition, these experiments also provided the key information for the detailed vibrational characterization of the 3 conformers initially present in the matrices. On the other hand, UV irradiation (λ = 255 nm) of PG isolated in a xenon matrix revealed that

  9. Conformers, infrared spectrum, UV-induced photochemistry, and near-IR-induced generation of two rare conformers of matrix-isolated phenylglycine.

    PubMed

    Borba, Ana; Gómez-Zavaglia, Andrea; Fausto, Rui

    2014-10-21

    The conformational space of α-phenylglycine (PG) have been investigated theoretically at both the DFT/B3LYP/6-311++G(d,p) and MP2/6-311++G(d,p) levels of approximation. Seventeen different minima were found on the investigated potential energy surfaces, which are characterized by different dominant intramolecular interactions: type I conformers are stabilized by hydrogen bonds of the type N-H···O=C, type II by a strong O-H···N hydrogen bond, type III by weak N-H···O-H hydrogen bonds, and type IV by a C=O···H-C contact. The calculations indicate also that entropic effects are relevant in determining the equilibrium populations of the conformers of PG in the gas phase, in particular in the case of conformers of type II, where the strong intramolecular O-H···N hydrogen bond considerably diminishes entropy by reducing the conformational mobility of the molecule. In consonance with the relative energies of the conformers and barriers for conformational interconversion, only 3 conformers of PG were observed for the compound isolated in cryogenic Ar, Xe, and N2 matrices: the conformational ground state (ICa), and forms ICc and IITa. All other significantly populated conformers existing in the gas phase prior to deposition convert either to conformer ICa or to conformer ICc during matrix deposition. The experimental observation of ICc had never been achieved hitherto. Narrowband near-IR irradiation of the first overtone of νOH vibrational mode of ICa and ICc in nitrogen matrices (at 6910 and 6930 cm(-1), respectively) led to selective generation of two additional conformers of high-energy, ITc and ITa, respectively, which were also observed experimentally for the first time. In addition, these experiments also provided the key information for the detailed vibrational characterization of the 3 conformers initially present in the matrices. On the other hand, UV irradiation (λ = 255 nm) of PG isolated in a xenon matrix revealed that PG undergoes facile

  10. Characterization of Phytophthora infestans resistance to mefenoxam using FTIR spectroscopy.

    PubMed

    Pomerantz, A; Cohen, Y; Shufan, E; Ben-Naim, Y; Mordechai, S; Salman, A; Huleihel, M

    2014-12-01

    Phytophthora infestans (P. infestans) is the causal agent of late blight in potato and tomato. This pathogen devastated the potato crops in Ireland more than a century years ago and is still causing great losses worldwide. Although fungicides controlling P. infestans have been used successfully for almost 100 years, some isolates have developed resistance to most common fungicides. Identification and characterization of these resistant isolates is required for better control of the disease. Current methods that are based on microbiological and molecular techniques are both expensive and time consuming. Fourier Transform Infra-Red spectroscopy (FTIR) is an inexpensive and reagent-free technique that provides accurate results in only a few minutes. In this study the infrared absorption spectra of the sporangia of P. infestans were measured to evaluate the potential of FTIR spectroscopy in tandem with multivariate analysis in order to classify those sporangia into those that were resistant and those that were non-resistant to the phenylamide fungicide mefenoxam. Based on individual measurements, our results show that FTIR spectroscopy enables classification of P. infestans isolates into mefenoxam resistant and mefenoxam non-resistant types with specificity of 81.9% and sensitivity of 75.5%. Using average spectra per leaf, it was possible to improve the classification results to 88% sensitivity and 95% specificity.

  11. Spectroscopic and computational studies of matrix-isolated iso-CHBr{sub 3}: Structure, properties, and photochemistry of iso-bromoform

    SciTech Connect

    George, Lisa; Kalume, Aimable; Wagner, James; Reid, Scott A.; Esselman, Brian J.; McMahon, Robert J.

    2011-09-28

    Iso-polyhalomethanes are known reactive intermediates that play a pivotal role in the photochemistry of halomethanes in condensed phases. In this work, iso-bromoform (iso-CHBr{sub 3}) and its deuterated isotopomer were characterized by matrix isolation infrared and UV/visible spectroscopy, supported by ab initio and density functional theory calculations, to further probe the structure, spectroscopy, and photochemistry of this important intermediate. Selected wavelength laser irradiation of CHBr{sub 3} isolated in Ar or Ne matrices at {approx}5 K yielded iso-CHBr{sub 3}; the observed infrared and UV/visible absorptions are in excellent agreement with computational predictions, and the energies of various stationary points on the CHBr{sub 3} potential energy surface were characterized computationally using high-level methods in combination with correlation consistent basis sets. These calculations show that, while the corresponding minima lie {approx}200 kJ/mol above the global CHBr{sub 3} minimum, the isomer is bound by some 60 kJ/mol in the gas phase with respect to the CHBr{sub 2}+ Br asymptote. The photochemistry of iso-CHBr{sub 3} was investigated by selected wavelength laser irradiation into the intense S{sub 0}{yields} S{sub 3} transition, which resulted in back photoisomerization to CHBr{sub 3}. Intrinsic reaction coordinate calculations confirmed the existence of a first-order saddle point connecting the two isomers, which lies energetically below the threshold of the radical channel. Subsequently, natural bond orbital analysis and natural resonance theory were used to characterize the important resonance structures of the isomer and related stationary points, which demonstrate that the isomerization transition state represents a crossover from dominantly covalent to dominantly ionic bonding. In condensed phases, the ion-pair dominated isomerization transition state structure is preferentially stabilized, so that the barrier to isomerization is lowered.

  12. Matrix-isolation studies on the radiation-induced chemistry in H₂O/CO₂ systems: reactions of oxygen atoms and formation of HOCO radical.

    PubMed

    Ryazantsev, Sergey V; Feldman, Vladimir I

    2015-03-19

    The radiation-induced transformations occurring upon X-ray irradiation of solid CO2/H2O/Ng systems (Ng = Ar, Kr, Xe) at 8-10 K and subsequent annealing up to 45 K were studied by Fourier transform infrared spectroscopy. The infrared (IR) spectra of deposited matrices revealed the presence of isolated monomers, dimers, and intermolecular H2O···CO2 complexes. Irradiation resulted in effective decomposition of matrix-isolated carbon dioxide and water yielding CO molecules and OH radicals, respectively. Annealing of the irradiated samples led to formation of O3, HO2, and a number of xenon hydrides of HXeY type (in the case of xenon matrices). The formation of these species was used for monitoring of the postirradiation thermally induced chemical reactions involving O and H atoms generated by radiolysis. It was shown that the radiolysis of CO2 in noble-gas matrices produced high yields of stabilized oxygen atoms. In all cases, the temperatures at which O atoms become mobile and react are lower than those of H atoms. Dynamics and reactivity of oxygen atoms was found to be independent of the precursor nature. In addition, the formation of HOCO radicals was observed in all the noble-gas matrices at remarkably low temperatures. The IR spectra of HOCO and DOCO were first characterized in krypton and xenon matrices. It was concluded that the formation of HOCO was mainly due to the radiation-induced evolution of the weakly bound H2O···CO2 complexes. This result indicates the significance of weak intermolecular interactions in the radiation-induced chemical processes in inert low-temperature media.

  13. Microarray Identifies Extensive Downregulation of Noncollagen Extracellular Matrix and Profibrotic Growth Factor Genes in Chronic Isolated Mitral Regurgitation in the Dog

    PubMed Central

    Zheng, Junying; Chen, Yuanwen; Pat, Betty; Dell’Italia, Louis A; Tillson, Michael; Dillon, A Ray; Powell, Pamela; Shi, Ke; Shah, Neil; Denney, Thomas; Husain, Ahsan; Dell’Italia, Louis J

    2011-01-01

    Background The volume overload of isolated mitral regurgitation (MR) in the dog results in left ventricular (LV) dilatation and interstitial collagen loss. To better understand the mechanism of collagen loss we performed a gene array and overlaid regulated genes into Ingenuity Pathway Analysis (IPA). Methods and Results Gene arrays from LV tissue were compared in 4 dogs prior to and 4 months after MR. Cine-magnetic resonance-derived LV end-diastolic volume increased 2-fold (p=0.005) and LV ejection fraction increased from 41 to 53% (p < 0.001). LV interstitial collagen decreased 40% (p<0.05) compared to controls and replacement collagen was in short strands and in disarray. IPA identified Marfan’s syndrome, aneurysm formation, LV dilatation, and myocardial infarction, all of which have extracellular matrix (ECM) protein defects and/or degradation. MMP-1 and -9 mRNA increased 5- (p=0.01) and 10-fold (0.003), while collagen I did not change and collagen III mRNA increased 1.5-fold (p=0.02). However, noncollagen genes important in ECM structure were significantly downregulated, including decorin, fibulin 1, and fibrillin 1. Decorin mRNA downregulation correlated with LV dilatation (r= 0.83 p<0.05). In addition, connective tissue growth factor and plasminogen activator inhibitor were downregulated, along with multiple genes in TGF-β signaling pathway, resulting decreased LV TGF-β1 activity (p=0.03). Conclusions LV collagen loss in isolated, compensated MR is chiefly due to post-translational processing and degradation. The downregulation of multiple noncollagen genes important in global ECM structure, coupled with decreased expression of multiple profibrotic factors, explain the failure to replace interstitial collagen in the MR heart. PMID:19349319

  14. Matrix-isolation studies on the radiation-induced chemistry in H₂O/CO₂ systems: reactions of oxygen atoms and formation of HOCO radical.

    PubMed

    Ryazantsev, Sergey V; Feldman, Vladimir I

    2015-03-19

    The radiation-induced transformations occurring upon X-ray irradiation of solid CO2/H2O/Ng systems (Ng = Ar, Kr, Xe) at 8-10 K and subsequent annealing up to 45 K were studied by Fourier transform infrared spectroscopy. The infrared (IR) spectra of deposited matrices revealed the presence of isolated monomers, dimers, and intermolecular H2O···CO2 complexes. Irradiation resulted in effective decomposition of matrix-isolated carbon dioxide and water yielding CO molecules and OH radicals, respectively. Annealing of the irradiated samples led to formation of O3, HO2, and a number of xenon hydrides of HXeY type (in the case of xenon matrices). The formation of these species was used for monitoring of the postirradiation thermally induced chemical reactions involving O and H atoms generated by radiolysis. It was shown that the radiolysis of CO2 in noble-gas matrices produced high yields of stabilized oxygen atoms. In all cases, the temperatures at which O atoms become mobile and react are lower than those of H atoms. Dynamics and reactivity of oxygen atoms was found to be independent of the precursor nature. In addition, the formation of HOCO radicals was observed in all the noble-gas matrices at remarkably low temperatures. The IR spectra of HOCO and DOCO were first characterized in krypton and xenon matrices. It was concluded that the formation of HOCO was mainly due to the radiation-induced evolution of the weakly bound H2O···CO2 complexes. This result indicates the significance of weak intermolecular interactions in the radiation-induced chemical processes in inert low-temperature media. PMID:25469518

  15. Experimental matrix isolation study and quantum-mechanics-based normal-coordinate analysis of the anharmonic infrared spectrum of picolinic acid N-oxide.

    PubMed

    Szczepaniak, Krystyna; Person, Willis B; Hadzi, Dusan

    2005-08-01

    This work is, according to our knowledge, the first experimental matrix isolation study of a molecular system with a very short and strong intramolecular OH...O hydrogen bond. It also includes a satisfying interpretation of its entire infrared spectrum. The interpretation relies on the calculation at the DFT/B3LYP/6-31G(d,p) level of the harmonic spectrum and of the anharmonic relaxed potential energy for the stretching motion of the hydrogen-bonded proton, used with our recently modified quantum-mechanics-based normal-coordinate analysis. An important observation about the anharmonic spectrum obtained from this procedure is that the OH stretch coordinate contributes to several normal modes, mixing extensively with other in-plane internal coordinates, in particular OH-bending and C=O-stretching. The two intense normal modes with the largest contributions from the OH-stretching coordinate to the potential energy distribution and to the intensity are located near 1700 and 1500 cm(-1). A calculated anharmonic spectrum obtained from this procedure agrees with the experimental spectrum (frequencies and intensity distribution), within the limits of the estimated uncertainties for the calculation and experiment, allowing the interpretation of the latter. The agreement for the frequencies is about 1-3%. The anharmonic spectrum calculated using the anharmonic keyword in Gaussian 03w is not in satisfactory agreement with experiment insofar as the OH-stretching mode is concerned.

  16. Effects of macelignan isolated from Myristica fragrans (Nutmeg) on expression of matrix metalloproteinase-1 and type I procollagen in UVB-irradiated human skin fibroblasts.

    PubMed

    Lee, Kyung-Eun; Mun, Sukyeong; Pyun, Hee-Bong; Kim, Myung-Suk; Hwang, Jae-Kwan

    2012-01-01

    Exposure to ultraviolet (UV) light causes premature skin aging that is associated with upregulated matrix metalloproteinases (MMPs) and decreased collagen synthesis. Macelignan, a natural lignan compound isolated from Myristica fragrans HOUTT. (nutmeg), has been reported to possess antioxidant and antiinflammatory activities. This study assessed the effects of macelignan on photoaging and investigated its mechanisms of action in UV-irradiated human skin fibroblasts (Hs68) by reverse transcription-polymerase chain reaction, Western blot analysis, 2',7'-dichlorofluorescein diacetate assay, and enzyme-linked immunosorbent assay. Our results show that macelignan attenuated UV-induced MMP-1 expression by suppressing phosphorylation of mitogen-activated protein kinases (MAPKs) induced by reactive oxygen species. Macelignan also increased type I procollagen expression and secretion through transforming growth factor β (TGF-β)/Smad signaling. These findings indicate that macelignan regulates the expression of MMP-1 and type I procollagen in UV-irradiated human skin fibroblasts by modulating MAPK and TGF-β/Smad signaling, suggesting its potential as an efficacious antiphotoaging agent.

  17. Infrared Spectroscopy of Matrix-Isolated Polycyclic Aromatic Compounds and Their Ions. 7; Phenazine, a Dual Substituted Polycyclic Aromatic Nitrogen Heterocycle

    NASA Technical Reports Server (NTRS)

    Mattioda, A. L.; Hudgins, D. M.; Bauschlicher, C. W., Jr.; Allamandola, L. J.

    2004-01-01

    The matrix-isolation technique has been employed to measure the mid-infrared spectra of phenazine (C12H8N2), a dual substituted Polycyclic Aromatic Nitrogen Heterocycle (PANH), in the neutral, cationic and anionic forms. The experimentally measured band frequencies and intensities are tabulated and compared with their calculated values as well as those of the non-substituted parent molecule, anthracene. The theoretical band positions and intensities were calculated using both the 3-31 G as well as the larger 6-3lG* Basis Sets. A comparison of the results can be found in the tables. The spectroscopic properties of phenazine and its cation are similar to those observed in mono-substituted PANHs, with one exception. The presence of a second nitrogen atom results in an additional enhancement of the cation's total integrated intensity, for the 1500-1000 cm(sup -1) (6.7 to 10 micron) region, over that observed for a mono-substituted PANH cation. The significance of this enhancement and the astrobiological implications of these results are discussed.

  18. Blue-shift of the C-H stretching vibration in CHF3-H2O complex: Matrix isolation infrared spectroscopy and ab initio computations

    NASA Astrophysics Data System (ADS)

    Gopi, R.; Ramanathan, N.; Sundararajan, K.

    2016-09-01

    As a result of hydrogen bonding in CHF3-H2O complex, ab initio computations exhibited a blue shift in the C-H stretching region of CHF3 sub-molecule. In this work, we have investigated whether the blue-shifting in CHF3-H2O complex can be experimentally discerned using matrix isolation infrared spectroscopy. The 1:1 CHF3-H2O complex was therefore trapped and studied in argon and neon matrices. Experimentally a blue shift of 20.3 and 32.3 cm-1 in the C-H stretching region of CHF3 sub-molecule for the CHF3-H2O complex was observed in argon and neon matrices. The structure of the complex and the energies were computed at MP2 level of theory using a 6-311++G(d,p) and aug-cc-pVDZ basis sets. Computations indicated only one minimum corresponded to a C-H⋯O interaction between the hydrogen of fluoroform and oxygen of water. AIM and NBO analyses were performed to understand the reasons for blue-shifting of the C-H stretching wavenumber in the complex.

  19. The Identification of Complex Organic Molecules in the Interstellar Medium: Using Lasers and Matrix Isolation Spectroscopy to Simulate the Interstellar Environment

    NASA Technical Reports Server (NTRS)

    Stone, Bradley M.

    1998-01-01

    The Astrochemistry Group at NASA Ames Research Center is interested in the identification of large organic molecules in the interstellar medium Many smaller organic species (e.g. hydrocarbons, alcohols, etc.) have been previously identified by their radiofrequency signature due to molecular rotations. However, this becomes increasingly difficult to observe as the size of the molecule increases. Our group in interested in the identification of the carriers of the Diffuse Interstellar Bands (absorption features observed throughout the visible and near-infrared in the spectra of stars, due to species in the interstellar medium). Polycyclic Aromatic Hydrocarbons (PAHs) and related molecules are thought to be good candidates for these carriers. Laboratory experiments am performed at Ames to simulate the interstellar environment, and to compare spectra obtained from molecules in the laboratory to those derived astronomically. We are also interested in PAHs with respect to their possible connection to the UIR (Unidentified infrared) and ERE (Extended Red Emission) bands - emission features found to emanate from particular regions of our galaxy (e.g. Orion nebula, Red Rectangle, etc.). An old, "tried and proven spectroscopic technique, matrix isolation spectroscopy creates molecular conditions ideal for performing laboratory astrophysics.

  20. EPR spectrum of the Y@C82 metallofullerene isolated in solid argon matrix: hyperfine structure from EPR spectroscopy and relativistic DFT calculations.

    PubMed

    Misochko, Eugenii Ya; Akimov, Alexander V; Belov, Vasilii A; Tyurin, Daniil A; Bubnov, Vyacheslav P; Kareev, Ivan E; Yagubskii, Eduard B

    2010-08-21

    The EPR spectrum of the Y@C(82) molecules isolated in solid argon matrix was recorded for the first time at a temperature of 5 K. The isotropic hyperfine coupling constant (hfcc) A(iso) = 0.12 +/- 0.02 mT on the nucleus (89)Y as derived from the EPR spectrum is found in more than two times greater than that obtained in previous EPR measurements in liquid solutions. Comparison of the measured hfcc on a metal atom with that predicted by density-functional theory calculations (PBE/L22) indicate that relativistic method provides good agreement between experiment in solid argon and theory. Analysis of the DFT calculated dipole-dipole hf-interaction tensor and electron spin distribution in the endometallofullerenes with encaged group 3 metal atoms Sc, Y and La has been performed. It shows that spin density on the scandium atom represents the Sc d(yz) orbital lying in the symmetry plane of the C(2v) fullerene isomer and interacting with two carbon atoms located in the para-position on the fullerene hexagon. In contrast, the configuration of electron spin density on the heavier atoms, Y and La, is associated with the hybridized orbital formed by interaction of the metal d(yz) and p(y) electronic orbitals.

  1. Chemical characterization of torbanites by transmission micro-FTIR spectroscopy: Origin and extent of compositional heterogeneities

    SciTech Connect

    Landais, P.; Rochdi, A. ); Largeau, C.; Derenne, S. )

    1993-06-01

    Four Permian to Carboniferous torbanites of various geographical origins were examined by transmission micro-FTIR spectroscopy on doubly polished thin sections (10--25 [mu]m). Several types of heterogeneities (different types of organic matrix; yellow and orange Botryococcus braunii colonies) were identified and chemically characterized. Important differences were noted between the organic constituents of the matrix and the algal bodies, regarding the intensity of OH, C[double bond]O, and aromatic C[double bond]C absorptions. The previous IR studies of torbanites on bulk samples therefore afforded substantially biased information on the composition of B. braunii fossil colonies, on their oil potential, and on the maturity of such kerogens. Micro-FTIR spectra indicate that the organic matrix corresponds neither to an extensive breaking up of colonies nor to humic substances. This matrix is highly heterogeneous; two types were identified in the Autun sample (chiefly corresponding to degraded algal and bacterial constituents, respectively). A precise characterization of the organic matrix was made difficult, however, in Pumpherston torbanite, due to intimate mixing with minerals. The co-occurrence of yellow and orange colonies, with contrasted micro-FTIR features, in Autun torbanite neither reflects radiolysis processes nor differences in maturation and/or source algae. A specific spatial relation was observed between these two types of algal bodies and the organo-mineral matrix, thus revealing differences in colony microenvironment after deposition. The orange colonies are likely derived, in agreement with their micro-FTIR spectra and their spatial correlation with the matrix, from sedimentological and/or matrix-catalyzed diagenetic transformations of some yellow colonies. This first application of micro-FTIR to kerogens confirmed the utility of this nondestructive, in situ pin-point method. 69 refs., 9 figs., 4 tabs.

  2. Surface inspection using FTIR spectroscopy

    NASA Technical Reports Server (NTRS)

    Powell, G. L.; Smyrl, N. R.; Williams, D. M.; Meyers, H. M., III; Barber, T. E.; Marrero-Rivera, M.

    1995-01-01

    The use of reflectance Fourier transform infrared (FTIR) spectroscopy as a tool for surface inspection is described. Laboratory instruments and portable instruments can support remote sensing probes that can map chemical contaminants on surfaces with detection limits under the best of conditions in the sub-nanometer range, i.e.. near absolute cleanliness, excellent performance in the sub-micrometer range, and useful performance for films tens of microns thick. Examples of discovering and quantifying contamination such as mineral oils and greases, vegetable oils, and silicone oils on aluminum foil, galvanized sheet steel, smooth aluminum tubing, and sandblasted 7075 aluminum alloy and D6AC steel. The ability to map in time and space the distribution of oil stains on metals is demonstrated. Techniques associated with quantitatively applying oils to metals, subsequently verifying the application, and non-linear relationships between reflectance and the quantity oil are described.

  3. Influence of the crystal field stabilization energy of metal(II) ions on the structural distortion of matrix-isolated SO 42- guest ions in selenate matrices

    NASA Astrophysics Data System (ADS)

    Stoilova, Donka

    2004-08-01

    Infrared spectra of metal(II) selenate hydrates (MeSeO 4· nH 2O and Na 2Me(SeO 4) 2·2H 2O; n=6, 5, 4, 1; Me=Mg, Mn, Co, Ni, Cu, Zn, Cd) containing matrix-isolated SO 42- guest ions are reported and discussed with respect to the SO stretching modes ν3 and ν1. An adequate measure for the SO 42- guest ion distortion is the site group splitting Δ νas (Δ νab and Δ νac in the case of a doublet and a triplet for ν3, respectively; a, being the highest wavenumbered component of ν3) and Δ νmax (the difference between the highest and the lowest wavenumbered SO stretching modes). It has been shown that the SO 42- guest ion distortion depends on both the number of the sulfate oxygen atoms involved in coordinative bonds with the metal(II) ions and the electronic configuration of the metal(II) ions, i.e. their crystal field stabilization energy (CFSE) additionally to the site symmetry and the local potential at the lattice site of the host lattice. The SO 42- guest ions matrix-isolated in MeSeO 4·H 2O (Me=Mn, Co, Zn) and in Na 2Me(SeO 4) 2·2H 2O (Me=Mn, Cu, Cd) exhibit three bands corresponding to the ν3 modes as deduced from the site group analysis and Δ νab≅Δ νbc. When SO 42- guest ions are incorporated in the triclinic Na 2Me(SeO 4) 2·2H 2O host lattices (Me=Co, Ni, Zn) the ν3 stretching region resembles a higher local symmetry of the SO 42- guest ions (an approximate (A 1⊕E) splitting) than the crystallographic one (i.e. Δ νab>Δ νbc instead of Δ νab≅Δ νbc) and, hence, the ratio Δ νab/Δ νbc has to be taken into account (the higher value of the ratio Δ νab/Δ νbc, the weaker is the distortion of the SO 42- guest ions). The SO 42- guest ions incorporated in MeSeO 4· nH 2O ( n=6, 5, 4) exhibit a higher local symmetry of the guest ions than that deduced from the site group analysis (D 2d for the SO 42- guest ions in MeSeO 4·5H 2O, MeSeO 4·4H 2O and in the monoclinic MeSeO 4·6H 2O host lattices and close to T d in the tetragonal

  4. Isolation and characterization of a proteinaceous subnuclear fraction composed of nuclear matrix, peripheral lamina, and nuclear pore complexes from embryos of Drosophila melanogaster.

    PubMed

    Fisher, P A; Berrios, M; Blobel, G

    1982-03-01

    Morphologically intact nuclei have been prepared from embryos of Drosophila melanogaster by a simple and rapid procedure. These nuclei have been further treated with high concentrations of DNase I and RNase A followed by sequential extraction with 2% Triton X-100 and 1 M NaCl to produce a structurally and biochemically distinct preparation designated Drosophila subnuclear fraction I (DSNF-I). As seen by phase-contrast microscopy, DSNF-I is composed of material which closely resembles unfractionated nuclei; residual internal nuclear structures including nucleolar remnants are clearly visible. By transmission electron microscopy, nuclear lamina, pore complexes, and a nuclear matrix are similarly identified. Biochemically, DSNF-I is composed almost entirely of protein (greater than 93%). SDS PAGE analysis reveals several major polypeptides; species at 174,000, 74,000, and 42,000 predominate. A polypeptide coincident with the Coomassie Blue-stainable 174-kdalton band has been shown by a novel technique of lectin affinity labeling to be a glycoprotein; a glycoprotein of similar or identical molecular weight has been found to be a component of nuclear envelope fractions isolated from the livers of rats, guinea pigs, opossums, and chickens. Antisera against several of the polypeptides in DSNF-I have been obtained from rabbits, and all of them show only little or no cross-reactivity with Drosophila cytoplasmic fractions. Initial results of immunocytochemical studies, while failing to positively localize either the 174- or 16-kdalton polypeptides, demonstrate a nuclear localization of the 74-kdalton antigen in all of several interphase cell types obtained from both Drosophila embryos and third-instar larvae. PMID:6177701

  5. Human umbilical cord matrix-derived stem cells exert trophic effects on β-cell survival in diabetic rats and isolated islets.

    PubMed

    Zhou, Yunting; Hu, Qi; Chen, Fuyi; Zhang, Juan; Guo, Jincheng; Wang, Hongwu; Gu, Jiang; Ma, Lian; Ho, Guyu

    2015-12-01

    Human umbilical cord matrix-derived stem cells (uMSCs), owing to their cellular and procurement advantages compared with mesenchymal stem cells derived from other tissue sources, are in clinical trials to treat type 1 (T1D) and type 2 diabetes (T2D). However, the therapeutic basis remains to be fully understood. The immunomodulatory property of uMSCs could explain the use in treating T1D; however, the mere immune modulation might not be sufficient to support the use in T2D. We thus tested whether uMSCs could exert direct trophic effects on β-cells. Infusion of uMSCs into chemically induced diabetic rats prevented hyperglycemic progression with a parallel preservation of islet size and cellularity, demonstrating the protective effect of uMSCs on β-cells. Mechanistic analyses revealed that uMSCs engrafted long-term in the injured pancreas and the engraftment markedly activated the pancreatic PI3K pathway and its downstream anti-apoptotic machinery. The pro-survival pathway activation was associated with the expression and secretion of β-cell growth factors by uMSCs, among which insulin-like growth factor 1 (IGF1) was highly abundant. To establish the causal relationship between the uMSC-secreted factors and β-cell survival, isolated rat islets were co-cultured with uMSCs in the transwell system. Co-culturing improved the islet viability and insulin secretion. Furthermore, reduction of uMSC-secreted IGF1 via siRNA knockdown diminished the protective effects on islets in the co-culture. Thus, our data support a model whereby uMSCs exert trophic effects on islets by secreting β-cell growth factors such as IGF1. The study reveals a novel therapeutic role of uMSCs and suggests that multiple mechanisms are employed by uMSCs to treat diabetes.

  6. Does a hydrogen bonded complex with dual contacts show synergism? A matrix isolation infrared and ab-initio study of propargyl alcohol-water complex

    NASA Astrophysics Data System (ADS)

    Saini, Jyoti; Viswanathan, K. S.

    2016-08-01

    When hydrogen bonded complexes are formed with more than one contact, the question arises if these multiple contacts operate synergistically. Propargyl alcohol-H2O complex presents a good case study to address this question, which is discussed in this work. Complexes of propargyl alcohol (PA) and H2O were studied experimentally using matrix isolation infrared spectroscopy, which was supported by quantum chemical computations performed at the M06-2X and MP2 level of theories, using 6-311++G (d,p) and aug-cc-pVDZ basis sets. A 1:1 PA-H2O complex was identified in the experiments and corroborated by our computations, where the PA was in the gauche conformation. This complex, which was a global minimum, showed dual interactions, one of which was an n-σ interaction between the O-H group of PA and the O of H2O, while the second was a H···​π contact between the O-H group of H2O and the π system of PA. We explored if the two interactions in the 1:1 complex exhibited synergism. We finally argue that the two interactions showed antagonism rather than synergism. Our computations indicated three other local minima for the 1:1 complexes; though these local minima were not identified in our experiments. Atoms-in-molecules and energy decomposition analysis executed through LMO-EDA were also performed to understand the nature of intermolecular interactions in the PA-H2O complexes. We have also revisited the problem of conformations of PA, with a view to understanding the reasons for gauche conformational preferences in PA.

  7. H-π Beats n-σ in PHENYLACETYLENE-HCl Hydrogen Bonded Heterodimer: a Matrix Isolation Infrared and AB Initio Study

    NASA Astrophysics Data System (ADS)

    Karir, Ginny; Viswanathan, K. S.

    2016-06-01

    Hydrogen bonded complexes of phenylacetylene (PhAc) and HCl were studied using matrix isolation infrared spectroscopy and ab initio computations. An H…π complex was observed in our experiments, which was indicated to be the global minimum by our computations. In this complex, HCl serves as the proton donor to the acetylenic π cloud of PhAc. Computations also located two other minima on the PhAc-HCl potential surface. One was an H…π complex where the proton of HCl interacts with the π cloud of the phenyl ring, which was nearly isoenergetic with the global minimum. The other was an n-σ complex, where the acetylenic hydrogen in PhAc interacted with the chlorine of HCl. The phenylacetylene-HCl system was theoretically investigated, employing MP2 and M06-2X methods, with 6-311++G(d,p) and aug/cc-pVDZ basis sets. AIM, EDA and NBO analysis were also performed to explore the nature, physical origin and the strength of the noncovalent interactions. Experiments with phenylacetylene deuterated at the acetylenic hydrogen (PhAcD) were also performed, to confirm the above observation, through the isotopic effect. This work is part of a study of the hydrogen bonded interactions of phenylacetylene with various precursors, which provide an interesting interaction landscape ranging from a strong n-σ to a strong H-π interaction. As it turns out, HCl is at one end of this range, displaying a strong H-π interaction. While this presentation will give the details of the phenylacetylene-HCl complex, it will also summarize the landscape mentioned above, putting the present study in perspective. GK acknowledges fellowship from MHRD, India. Authors thank IISER, Mohali for facilities.

  8. Application of FTIR spectroscopy to the characterization of archeological wood.

    PubMed

    Traoré, Mohamed; Kaal, Joeri; Martínez Cortizas, Antonio

    2016-01-15

    Two archeological wood samples were studied by attenuated total reflectance Fourier transform infrared (FTIR-ATR) spectroscopy. They originate from a shipwreck in Ribadeo Bay in the northwest of Spain and from a beam wood of an old nave of the Cathedral of Segovia in the central Spain. Principal component analysis was applied to the transposed data matrix (samples as columns and spectral bands as rows) of 43 recorded spectra (18 in the shipwreck and 25 in the beam wood). The results showed differences between the two samples, with a larger proportion of carbohydrates and smaller proportion of lignin in the beam than in the shipwreck wood. Within the beam wood, lignin content was significantly lower in the recent than the old tree rings (P=0.005). These variations can be attributed to species differences between the two woods (oak and pine respectively), with a mixture of guaiacyl and syringyl in hardwood lignin, whereas softwood lignin consists almost exclusively of guaiacyl moieties. The influence of environmental conditions on the FTIR fingerprint was probably reflected by enhanced oxidation of lignin in aerated conditions (beam wood) and hydrolysis of carbohydrates in submerged-anoxic conditions (shipwreck wood). Molecular characterization by analytical pyrolysis of selected samples from each wood type confirmed the interpretation of the mechanisms behind the variability in wood composition obtained by the FTIR-ATR.

  9. Application of FTIR spectroscopy to the characterization of archeological wood

    NASA Astrophysics Data System (ADS)

    Traoré, Mohamed; Kaal, Joeri; Martínez Cortizas, Antonio

    2016-01-01

    Two archeological wood samples were studied by attenuated total reflectance Fourier transform infrared (FTIR-ATR) spectroscopy. They originate from a shipwreck in Ribadeo Bay in the northwest of Spain and from a beam wood of an old nave of the Cathedral of Segovia in the central Spain. Principal component analysis was applied to the transposed data matrix (samples as columns and spectral bands as rows) of 43 recorded spectra (18 in the shipwreck and 25 in the beam wood). The results showed differences between the two samples, with a larger proportion of carbohydrates and smaller proportion of lignin in the beam than in the shipwreck wood. Within the beam wood, lignin content was significantly lower in the recent than the old tree rings (P = 0.005). These variations can be attributed to species differences between the two woods (oak and pine respectively), with a mixture of guaiacyl and syringyl in hardwood lignin, whereas softwood lignin consists almost exclusively of guaiacyl moieties. The influence of environmental conditions on the FTIR fingerprint was probably reflected by enhanced oxidation of lignin in aerated conditions (beam wood) and hydrolysis of carbohydrates in submerged-anoxic conditions (shipwreck wood). Molecular characterization by analytical pyrolysis of selected samples from each wood type confirmed the interpretation of the mechanisms behind the variability in wood composition obtained by the FTIR-ATR.

  10. Identification of Serine Conformers by Matrix-Isolation IR Spectroscopy Aided by Near-Infrared Laser-Induced Conformational Change, 2D Correlation Analysis, and Quantum Mechanical Anharmonic Computations.

    PubMed

    Najbauer, Eszter E; Bazsó, Gábor; Apóstolo, Rui; Fausto, Rui; Biczysko, Malgorzata; Barone, Vincenzo; Tarczay, György

    2015-08-20

    The conformers of α-serine were investigated by matrix-isolation IR spectroscopy combined with NIR laser irradiation. This method, aided by 2D correlation analysis, enabled unambiguously grouping the spectral lines to individual conformers. On the basis of comparison of at least nine experimentally observed vibrational transitions of each conformer with empirically scaled (SQM) and anharmonic (GVPT2) computed IR spectra, six conformers were identified. In addition, the presence of at least one more conformer in Ar matrix was proved, and a short-lived conformer with a half-life of (3.7 ± 0.5) × 10(3) s in N2 matrix was generated by NIR irradiation. The analysis of the NIR laser-induced conversions revealed that the excitation of the stretching overtone of both the side chain and the carboxylic OH groups can effectively promote conformational changes, but remarkably different paths were observed for the two kinds of excitations. PMID:26201050

  11. FT-IR Microspectroscopy of Rat Ear Cartilage

    PubMed Central

    Vidal, Benedicto de Campos; Mello, Maria Luiza S.

    2016-01-01

    Rat ear cartilage was studied using Fourier transform-infrared (FT-IR) microspectroscopy to expand the current knowledge which has been established for relatively more complex cartilage types. Comparison of the FT-IR spectra of the ear cartilage extracellular matrix (ECM) with published data on articular cartilage, collagen II and 4-chondroitin-sulfate standards, as well as of collagen type I-containing dermal collagen bundles (CBs) with collagen type II, was performed. Ear cartilage ECM glycosaminoglycans (GAGs) were revealed histochemically and as a reduction in ECM FT-IR spectral band heights (1140–820 cm-1) after testicular hyaluronidase digestion. Although ear cartilage is less complex than articular cartilage, it contains ECM components with a macromolecular orientation as revealed using polarization microscopy. Collagen type II and GAGs, which play a structural role in the stereo-arrangement of the ear cartilage, contribute to its FT-IR spectrum. Similar to articular cartilage, ear cartilage showed that proteoglycans add a contribution to the collagen amide I spectral region, a finding that does not recommend this region for collagen type II quantification purposes. In contrast to articular cartilage, the symmetric stretching vibration of –SO3- groups at 1064 cm-1 appeared under-represented in the FT-IR spectral profile of ear cartilage. Because the band corresponding to the asymmetric stretching vibration of –SO3- groups (1236–1225 cm-1) overlapped with that of amide III bands, it is not recommended for evaluation of the –SO3- contribution to the FT-IR spectrum of the ear cartilage ECM. Instead, a peak (or shoulder) at 1027–1016 cm-1 could be better considered for this intent. Amide I/amide II ratios as calculated here and data from the literature suggest that protein complexes of the ear cartilage ECM are arranged with a lower helical conformation compared to pure collagen II. The present results could motivate further studies on this tissue

  12. FT-IR Microspectroscopy of Rat Ear Cartilage.

    PubMed

    Vidal, Benedicto de Campos; Mello, Maria Luiza S

    2016-01-01

    Rat ear cartilage was studied using Fourier transform-infrared (FT-IR) microspectroscopy to expand the current knowledge which has been established for relatively more complex cartilage types. Comparison of the FT-IR spectra of the ear cartilage extracellular matrix (ECM) with published data on articular cartilage, collagen II and 4-chondroitin-sulfate standards, as well as of collagen type I-containing dermal collagen bundles (CBs) with collagen type II, was performed. Ear cartilage ECM glycosaminoglycans (GAGs) were revealed histochemically and as a reduction in ECM FT-IR spectral band heights (1140-820 cm-1) after testicular hyaluronidase digestion. Although ear cartilage is less complex than articular cartilage, it contains ECM components with a macromolecular orientation as revealed using polarization microscopy. Collagen type II and GAGs, which play a structural role in the stereo-arrangement of the ear cartilage, contribute to its FT-IR spectrum. Similar to articular cartilage, ear cartilage showed that proteoglycans add a contribution to the collagen amide I spectral region, a finding that does not recommend this region for collagen type II quantification purposes. In contrast to articular cartilage, the symmetric stretching vibration of -SO3- groups at 1064 cm-1 appeared under-represented in the FT-IR spectral profile of ear cartilage. Because the band corresponding to the asymmetric stretching vibration of -SO3- groups (1236-1225 cm-1) overlapped with that of amide III bands, it is not recommended for evaluation of the -SO3- contribution to the FT-IR spectrum of the ear cartilage ECM. Instead, a peak (or shoulder) at 1027-1016 cm-1 could be better considered for this intent. Amide I/amide II ratios as calculated here and data from the literature suggest that protein complexes of the ear cartilage ECM are arranged with a lower helical conformation compared to pure collagen II. The present results could motivate further studies on this tissue under

  13. Conformational composition and population analysis of β-alanine isolated in solid parahydrogen

    NASA Astrophysics Data System (ADS)

    Angel Wong, Y. T.; Toh, Shin Y.; Djuricanin, Pavle; Momose, Takamasa

    2015-04-01

    The conformational composition and the change in conformational ratio induced by UV irradiation of β-alanine have been investigated using solid parahydrogen FT-IR matrix isolation spectroscopy for the first time. In order to assign the observed spectra, the vibrational wavenumbers and intensities of the eleven lowest energy β-alanine conformers were calculated at the B3LYP/aug-cc-pVTZ level of theory. In-situ UV photo-irradiation of β-alanine in solid parahydrogen was used to assist the spectral assignment. Out of the eleven lowest energy conformers, conformers I, II, III, IV, and VII were identified in the solid parahydrogen matrix, with conformer III observed in a matrix environment for the first time. Argon matrix FT-IR spectra of β-alanine were also recorded for comparison and only four conformers, conformers I, II, IV and VII, were found, as reported previously. Conformational changes to higher energy structures were observed when β-alanine was irradiated with UV radiation. These changes were more pronounced in parahydrogen matrices than in argon matrices, indicating the usefulness of solid parahydrogen matrix isolation spectroscopy for the conformational study of amino acids.

  14. Understanding Why Researchers Should Use Synchrotron-Enhanced FTIR Instead of Traditional FTIR

    NASA Astrophysics Data System (ADS)

    Stem, Michelle R.

    2008-07-01

    A synchrotron-enhanced Fourier transform infrared (SR-FTIR) specializes in combining the tremendous power, brightness, intensity, focusability, and tunability of the photons radiated by a synchrotron with FTIR ability to research the vibrational properties of the lighter elements (i.e., C, N, O, etc.). Infrared (IR) wavelengths correspond to the sizes of molecular bonds having these lighter elements, and only species for which IR photons alter the molecule's dipole moment are detectable and considered to be IR responsive. SR-FTIR excels over traditional FTIR at examining the detailed properties of IR-responsive molecules. Further, SR-FTIR has superior signal-to-noise ratios, brightness, and ability to conduct long-duration scans without altering sample properties. A SR-FTIR scan can reveal exacting molecular details, unrivaled by traditional FTIR. IR-responsive species best analyzed by SR-FTIR can include trace elements, chemical structures, biological specimens, chemical reactions (pump-probe), small or dilute specimens, and molecular matrices. A SR-FTIR is especially likely to give results that have greater precision than traditional FTIR for submonolayers, polymers, semiconductors, superconductors, and environmental samples. Increasingly, the SR-FTIR is used by forensics researchers to examine potential evidentiary materials, such as drugs, paints, fibers, explosives, polymers, inks, documents, blood, and soil.

  15. Infrared study of the vibrational behavior of CrO 42- guest ions matrix-isolated in metal (II) sulfates (Me=Ca, Sr, Ba, Pb)

    NASA Astrophysics Data System (ADS)

    Stoilova, D.; Georgiev, M.; Marinova, D.

    2005-03-01

    Infrared spectra of matrix-isolated CrO 42- guest ions in host sulfate matrices - CaSO 4·2H 2O, SrSO 4, BaSO 4 and PbSO 4 are reported and discussed with respect to the Cr-O stretching and O-Cr-O bending modes. An adequate measure for the CrO 42- guest ion distortion is the site group splitting Δ νas and Δ νmax (the difference between the highest and the lowest wavenumbered components of the stretching and bending modes). When the smaller SO 42- ions are replaced by the larger CrO 42- ions the mean frequencies of the asymmetric stretching and bending modes ( ν and ν) as well as the frequencies of ν1 of the CrO 42- guest ions are shifted to higher wavenumbers as compared to those in the respective neat chromates due to the larger repulsion potential at the host lattice sites (smaller values of the unit-cell volumes of the neat sulfates than those of the neat chromates). The CrO 42- guest ions exhibit three bands corresponding to the ν3 modes as deduced from the site group analysis ( C2 site symmetry in CaSO 4·2H 2O and Cs site symmetry in SrSO 4, BaSO 4 and PbSO 4). However, the bending modes ν4 and ν2 of the CrO 42- guest ions in SrSO 4, BaSO 4 and PbSO 4 show an effectively higher local symmetry than the 'rigorous' crystallographic one (two bands for ν4 and one band for ν2 instead of a triplet and a doublet expected, respectively). Such different apparent site symmetries observed in various spectral regions may be attributed to the different influence of energetic and geometrical distortions of the polyatomic entities at particular site on various modes.

  16. Evaluation of the Bruker Biotyper Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry System for Identification of Clinical and Environmental Isolates of Burkholderia pseudomallei

    PubMed Central

    Wang, He; Chen, Ya-Lei; Teng, Shih-Hua; Xu, Zhi-Peng; Xu, Ying-Chun; Hsueh, Po-Ren

    2016-01-01

    Burkholderia pseudomallei is not represented in the current version of Bruker Biotyper matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) system. A total of 66 isolates of B. pseudomallei, including 30 clinical isolates collected from National Taiwan University Hospital (NTUH, n = 27) and Peking Union Medical College Hospital (PUMCH, n = 3), and 36 isolates of genetically confirmed strains, including 13 from clinical samples and 23 from environmental samples, collected from southern Taiwan were included in this study. All these isolates were identified by partial 16S rDNA gene sequencing analysis and the Bruker Biotyper MALDI-TOF MS system. Among the 30 isolates initially identified as B. pseudomallei by conventional identification methods, one was identified as B. cepacia complex (NTUH) and three were identified as B. putida (PUMCH) by partial 16S rDNA gene sequencing analysis and Bruker Biotyper MALDI-TOF MS system. The Bruker Biotyper MALDI-TOF MS system misidentified 62 genetically confirmed B. pseudomallei isolates as B. thailandensis or Burkholderia species (score values, 1.803–2.063) when the currently available database (DB 5627) was used. However, using a newly created MALDI-TOF MS database (including B. pseudomallei NTUH-3 strain), all isolates were correctly identified as B. pseudomallei (score values >2.000, 100%). An additional 60 isolates of genetically confirmed B. cepacia complex and B. putida were also evaluated by the Bruker Biotyper MALDI-TOF MS system using the newly created database and none of these isolates were identified as B. pseudomallei. MALDI-TOF MS is a versatile and robust tool for the rapid identification of B. pseudomallei using the enhanced database. PMID:27092108

  17. Identification of Clinical Streptococcus pneumoniae Isolates among other Alpha and Nonhemolytic Streptococci by Use of the Vitek MS Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry System

    PubMed Central

    Segonds, Christine; Prere, Marie-Françoise; Marty, Nicole; Oswald, Eric

    2013-01-01

    Discrimination between Streptococcus pneumoniae and its close relatives of the viridans group is a common difficulty in matrix-assisted laser desorption ionization–time of flight (MALDI-TOF) mass spectrometry-based identification. In the present study, the performances of the Vitek MS MALDI-TOF mass spectrometry system were assessed using 334 pneumococci, 166 other S. mitis group streptococci, 184 non-S. mitis group streptococci, and 19 related alpha- and nonhemolytic aerobic Gram-positive catalase-negative coccal isolates. Pneumococci had been identified by means of optochin susceptibility and bile solubility or serotyping, and other isolates mainly by use of RapidID32 Strep strips. In case of discordant or low-discrimination results, genotypic methods were used. The sensitivity of the Vitek MS for the identification of S. pneumoniae was 99.1%, since only three bile-insoluble isolates were misidentified as Streptococcus mitis/Streptococcus oralis. Conversely, two optochin-resistant pneumococci were correctly identified (specificity, 100%). Three Streptococcus pseudopneumoniae isolates were also correctly identified. Among nonpneumococcal isolates, 90.8% (n = 335) were correctly identified to the species or subspecies level and 2.4% (n = 9) at the group level. For the remaining 25 isolates, the Vitek MS proposed a bacterial species included in the list of possible species suggested by genotypic methods, except for 4 isolates which were not identified due to the absence of the species in the database. According to our study, the Vitek MS displays performance similar to that of the optochin susceptibility test for routine identification of pneumococcal isolates. Moreover, the Vitek MS is efficient for the identification of other viridans group streptococci and related isolates, provided that the species are included in the database. PMID:23576536

  18. Role of Water in Chromosome Spreading and Swelling Induced by Acetic Acid Treatment: A Ftir Spectroscopy Study

    PubMed Central

    Ami, D.; Di Segni, M.; Forcella, M.; Meraviglia, V.; Baccarin, M.; Doglia, S.M.; Terzoli, G.

    2014-01-01

    The so called chromosome preparation is a procedure consisting of three strictly connected stages that enables to obtain chromosomes of quality suitable for cytogenetic analysis. Interestingly, experimental evidence strongly suggested that chromosome spreading and swelling (key processes that allow their counting and detailed structural analysis) are induced in the last fixative-evaporation stage by the interaction, mediated by acetic acid, between water from the environmental humidity, and the cytoplasmic matrix and the chromatin. However, since a considerable variation in the quality of chromosome preparations is observed, strongly depending on the environmental conditions in which the procedure takes place, a better comprehension of the mechanisms underlying chromosome preparation is required. To this aim, here we analysed intact lymphocytes before and at each stage of the chromosome preparation protocol by Fourier transform infrared (FTIR) spectroscopy, a technique widely used for the study not only of isolated biomolecules, but also of complex biological systems, such as whole cells. Interestingly, we found that the chromosome preparation protocol induces significant structural changes of cell proteins and DNA, in particular due to the interaction with acetic acid. Moreover, noteworthy, through the monitoring of changes in the water combination band between 2300 and 1800 cm–1, we provided evidence at molecular level of the crucial role of the bound water to the cytoplasmic matrix and to the chromatin in determining the chromosome spreading and swelling. Our FTIR results, therefore, underline the need to perform the last fixative-evaporation stage in standardized and optimized temperature and relative humidity conditions, thus providing chromosomes of high quality for the cytogenetic analysis that would lead in this way to more reliable results. PMID:24705001

  19. A neon-matrix isolation study of the reaction of non-energetic H-atoms with CO molecules at 3 K.

    PubMed

    Pirim, C; Krim, L

    2011-11-21

    The efficiency of HCO formation stemming from non-energetic H-atoms and CO molecules is highlighted both in the condensed phase and within a neon matrix environment, which is half-way between the condensed-phase and gas-phase. Our experiments demonstrated that HCO production within the neon-matrix needed very little or no activation energy. The efficiency of HCO formation depended only on the capability of H-atoms to diffuse in the solid and to subsequently encounter CO molecules. The novelty of the presented matrix experiment sheds light on the debated question of whether activation energy is required in order to produce HCO, because of the use of non-energetic ground state H-atoms within the neon-matrix.

  20. Surface Contamination by FTIR-PAS

    NASA Astrophysics Data System (ADS)

    Davis, Dennis M.; Hoffland, Lynn D.

    1985-12-01

    Fourier Transform Infrared Photoacoustic Spectroscopy (FTIR-PAS) is used to study the contamination of alkyd painted panels by liquids and solids. These alkyd painted panels are stainless steel panels coated with primer and an alkyd resin based paint which the Army uses for its vehicles. Portions of these panels were contaminated by dimethyl methyl phosphonate, tri-(2-ethylhexyl) phosphate, and triphenyl phosphate. The panels were then studied using FTIR-PAS, and the spectra identified.

  1. Analyses of black fungi by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS): species-level identification of clinical isolates of Exophiala dermatitidis.

    PubMed

    Kondori, Nahid; Erhard, Marcel; Welinder-Olsson, Christina; Groenewald, Marizeth; Verkley, Gerard; Moore, Edward R B

    2015-01-01

    Conventional mycological identifications based on the recognition of morphological characteristics can be problematic. A relatively new methodology applicable for the identification of microorganisms is based on the exploitation of taxon- specific mass patterns recorded from abundant cell proteins directly from whole-cell preparations, using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). This study reports the application of MALDI-TOF MS for the differentiation and identifications of black yeasts, isolated from the respiratory tracts of patients with cystic fibrosis (CF). Initial phenotypic and DNA sequence-based analyses identified these isolates to be Exophiala dermatitidis. The type strains of E. dermatitidis (CBS 207.35(T)) and other species of Exophiala were included in the MALDI-TOF MS analyses to establish the references for comparing the mass spectra of the clinical isolates of Exophiala. MALDI-TOF MS analyses exhibited extremely close relationships among the clinical isolates and with the spectra generated from the type strain of E. dermatitidis. The relationships observed between the E. dermatitidis strains from the MALDI-TOF MS profiling analyses were supported by DNA sequence-based analyses of the rRNA ITS1 and ITS2 regions. These data demonstrated the applicability of MALDI-TOF MS as a reliable, rapid and cost-effective method for the identification of isolates of E. dermatitidis and other clinically relevant fungi and yeasts that typically are difficult to identify by conventional methods. PMID:25790495

  2. Anethole-Water a Combined Jet, Matrix, and Computational Study

    NASA Astrophysics Data System (ADS)

    Newby, Josh; Nesheiwat, Jackleen

    2016-06-01

    Anethole [(E)-1-methoxy-4-(1-propenyl)benzene] is a natural product molecule that is commonly recognized as the flavor component of anise, fennel, and licorice. Previously, we reported the jet-cooled, laser-induced fluorescence (LIF) and single vibronic level fluorescence (SVLF) spectra of anethole. In this work, several weak bands were observed and were tentatively assigned as van der Waals clusters of anethole with water. We have since confirmed this assignment and have conducted a more detailed study to determine the geometry of these clusters. Results from LIF, SVLF, and matrix isolation FTIR spectroscopy, as well as computational results will be presented in this talk. J. Phys. Chem. A, 2013, 117 (48), 12831-12841 Newly built system at Hobart and William Smith Colleges

  3. Electronic Absorption Spectra of Neutral Perylene (C20H12), Terrylene (C30H16), and Quaterrylene (C40H20) and their Positive and Negative Ions: Ne Matrix-Isolation Spectroscopy and Time Dependent Density Functional Theory Calculations

    NASA Technical Reports Server (NTRS)

    Halasinski, Thomas M.; Weisman, Jennifer L.; Lee, Timothy J.; Salama, Farid; Head-Gordon, Martin; Kwak, Dochan (Technical Monitor)

    2002-01-01

    We present a full experimental and theoretical study of an interesting series of polycyclic aromatic hydrocarbons, the oligorylenes. The absorption spectra of perylene, terrylene and quaterrylene in neutral, cationic and anionic charge states are obtained by matrix-isolation spectroscopy in Ne. The experimental spectra are dominated by a bright state that red shifts with growing molecular size. Excitation energies and state symmetry assignments are supported by calculations using time dependent density functional theory methods. These calculations also provide new insight into the observed trends in oscillator strength and excitation energy for the bright states: the oscillator strength per unit mass of carbon increases along the series.

  4. Understanding Why Researchers Should Use Synchrotron-Enhanced FTIR Instead of Traditional FTIR

    ERIC Educational Resources Information Center

    Stem, Michelle R.

    2008-01-01

    A synchrotron-enhanced Fourier transform infrared (SR-FTIR) specializes in combining the tremendous power, brightness, intensity, focusability, and tunability of the photons radiated by a synchrotron with FTIR ability to research the vibrational properties of the lighter elements (i.e., C, N, O, etc.). Infrared (IR) wavelengths correspond to the…

  5. DIFFERENTIATION OF AEROMONAS ISOLATES OBTAINED FROM DRINKING WATER DISTRIBUTION SYSTEM USING MATRIX-ASSISTED LASER DESCRIPTION/IONIZATION-MASS SPECTROMETRY (MALDI-MS)

    EPA Science Inventory

    The genus Aeromonas is one of several medically significant genera that have gained prominence due to their evolving taxonomy and controversial role in human diseases. In this study, matrix-assisted laser desorption/ionization-mass spectrometry (MALDI-MS) was used to analyze the...

  6. THE USE OF MATRIX-ASSISTED LASER DESORPTION/IONIZATION-MASS SPECTROMETRY FOR THE IDENTIFICATION OF AEROMONAS ISOLATES OBTAINED FROM WATER DISTRIBUTION SYSTEMS

    EPA Science Inventory

    Matrix-assisted laser desorption/ionization-mass spectrometry (MALDI-MS) has long been established as a tool by which microorganisms can be characterized and identified. EPA is investigating the potential of using this technology as a way to rapidly identify Aeromonas species fo...

  7. Development of a Rapid and Accurate Identification Method for Citrobacter Species Isolated from Pork Products Using a Matrix-Assisted Laser-Desorption Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF MS).

    PubMed

    Kwak, Hye-Lim; Han, Sun-Kyung; Park, Sunghoon; Park, Si Hong; Shim, Jae-Yong; Oh, Mihwa; Ricke, Steven C; Kim, Hae-Yeong

    2015-09-01

    Previous detection methods for Citrobacter are considered time consuming and laborious. In this study, we have developed a rapid and accurate detection method for Citrobacter species in pork products, using matrix-assisted laser desorption ionization time-of-flight (MALDI-TOF) mass spectrometry (MS). A total of 35 Citrobacter strains were isolated from 30 pork products and identified by both MALDI-TOF MS and 16S rRNA gene sequencing approaches. All isolates were identified to the species level by the MALDI-TOF MS, while 16S rRNA gene sequencing results could not discriminate them clearly. These results confirmed that MALDI-TOF MS is a more accurate and rapid detection method for the identification of Citrobacter species.

  8. FT-IR analysis of phosphorylated protein

    NASA Astrophysics Data System (ADS)

    Ishii, Katsunori; Yoshihashi, Sachiko S.; Chihara, Kunihiro; Awazu, Kunio

    2004-09-01

    Phosphorylation and dephosphorylation, which are the most remarkable posttranslational modifications, are considered to be important chemical reactions that control the activation of proteins. We examine the phosphorylation analysis method by measuring the infrared absorption peak of phosphate group that observed at about 1070cm-1 (9.4μm) with Fourier Transform Infrared Spectrometer (FT-IR). This study indicates that it is possible to identify a phosphorylation by measuring the infrared absorption peak of phosphate group observed at about 1070 cm-1 with FT-IR method. As long as target peptides have the same amino acid sequence, it is possible to identify the phosphorylated sites (threonine, serine and tyrosine).

  9. Evidence of genotypic diversity among Candida auris isolates by multilocus sequence typing, matrix-assisted laser desorption ionization time-of-flight mass spectrometry and amplified fragment length polymorphism.

    PubMed

    Prakash, A; Sharma, C; Singh, A; Kumar Singh, P; Kumar, A; Hagen, F; Govender, N P; Colombo, A L; Meis, J F; Chowdhary, A

    2016-03-01

    Candida auris is a multidrug-resistant nosocomial bloodstream pathogen that has been reported from Asian countries and South Africa. Herein, we studied the population structure and genetic relatedness among 104 global C. auris isolates from India, South Africa and Brazil using multilocus sequence typing (MLST), amplified fragment length polymorphism (AFLP) fingerprinting and matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS). RPB1, RPB2 and internal transcribed spacer (ITS) and D1/D2 regions of the ribosomal DNA were sequenced for MLST. Further, genetic variation and proteomic assessment was carried out using AFLP and MALDI-TOF MS, respectively. Both MLST and AFLP typing clearly demarcated two major clusters comprising Indian and Brazilian isolates. However, the South African isolates were randomly distributed, suggesting different genotypes. MALDI-TOF MS spectral profiling also revealed evidence of geographical clustering but did not correlate fully with the genotyping methods. Notably, overall the population structure of C. auris showed evidence of geographical clustering by all the three techniques analysed. Antifungal susceptibility testing by the CLSI microbroth dilution method revealed that fluconazole had limited activity against 87% of isolates (MIC90, 64 mg/L). Also, MIC90 of AMB was 4 mg/L. Candida auris is emerging as an important yeast pathogen globally and requires reproducible laboratory methods for identification and typing. Evaluation of MALDI-TOF MS as a typing method for this yeast is warranted.

  10. Analyzing FTIR spectra using high sensitivity compare function of FTIR software for 2-pack epoxy paints

    NASA Astrophysics Data System (ADS)

    Saaid, Farish Irfal; Chan, Chin Han; Ong, Max Chong Hup; Winie, Tan; Harun, Mohamad Kamal

    2015-08-01

    The existing problem of oil and gas companies faced for on-site jobs of polymeric coatings on steel pipelines is that the quality of polymeric coatings varies from job to job for the same product brand from the same supplier or paint manufacturer. This can be due to the inherent problem of the reformulation of polymeric coatings or in other words adulterated polymeric coatings are supplied, where the quality of the coatings deviates from the submitted specifications for prequalification and tender purpose. Major oil and gas companies in Malaysia are calling for Coating Fingerprinting Certificate for the supply of polymeric coatings from local paint manufactures as quality assurance requirement of the coatings supplied. This will reduce the possibility of failures of the polymeric coatings, which lead to the corrosion of steel pipelines resulting in leakage of crude oil and gas to the environment. In this case, Fourier-transform infrared (FTIR) is a simple and reliable tool for coating fingerprinting. In this study, we conclude that, revelation of possible components of the 2-pack epoxy paints by carrying out extensive FTIR libraries search on FTIR spectra seems to be extremely challenging. Estimation of correlation of the sample spectrum to that of the reference spectrum using Compare function from one FTIR manufacturer, even the FTIR spectra are collected by different FTIR spectrometers from different FTIR manufacturers, can be made. The results of the correlation are reproducible.

  11. Detecting Hydrogen Atoms in Solid Parahydrogen Using FTIR Spectroscopy

    NASA Astrophysics Data System (ADS)

    Anderson, David T.; Ruzi, Mahmut

    2012-06-01

    Our group is currently studying the 193.3 nm photochemistry of a number of precursor molecules isolated in solid parahydrogen (pH_2) using high-resolution FTIR spectroscopy. In photochemical studies of formic acid and ammonia, right after the photolysis laser is turned off, we observe metastable satellite peaks in close proximity to the strong rovibrational transition out of the ground state of the respective monomer photoproducts H_2O and NH_3. In both cases, there are two satellite peaks near the R(0) monomer transition. We have assigned these satellite features to H-H_2O and H-NH_3 radical clusters that form via reactions of the photoproduct with the pH_2 host. We will present IR spectroscopic studies of these two H-atom cluster systems that we hope to use in future photochemical studies to measure the concentration of H-atoms in our sample using FTIR spectroscopy. K. A. Kufeld, W. R. Wonderly, L. O. Paulson, S. C. Kettwich, and D. T. Anderson, J. Phys. Chem. Lett. 3, 342-347 (2012).

  12. Hydration induced material transfer in membranes of osmotic pump tablets measured by synchrotron radiation based FTIR.

    PubMed

    Wu, Li; Yin, Xianzhen; Guo, Zhen; Tong, Yajun; Feng, Jing; York, Peter; Xiao, Tiqiao; Chen, Min; Gu, Jingkai; Zhang, Jiwen

    2016-03-10

    Osmotic pump tablets are reliable oral controlled drug delivery systems based on their semipermeable membrane coating. This research used synchrotron radiation-based Fourier transform infrared (SR-FTIR) microspectroscopy and imaging to investigate the hydration induced material transfer in the membranes of osmotic pump tablets. SR-FTIR was applied to record and map the chemical information of a micro-region of the membranes, composed of cellulose acetate (CA, as the water insoluble matrix) and polyethylene glycol (PEG, as the soluble pore forming agent and plasticizing agent). The microstructure and chemical change of membranes hydrated for 0, 5, 10 and 30min were measured using SR-FTIR, combined with scanning electronic microscopy and atom force microscopy. The SR-FTIR microspectroscopy results indicated that there was a major change at the absorption range of 2700-3100cm(-1) in the membranes after different periods of hydration time. The absorption bands at 2870-2880cm(-1) and 2950-2960cm(-1) were assigned to represent CA and PEG, respectively. The chemical group signal distribution illustrated by the ratio of PEG to CA demonstrated that the trigger of drug release in the preliminary stage was due to the rapid transfer of PEG into liquid medium with a sharp decrease of PEG in the membranes. The SR-FTIR mapping results have demonstrated the hydration induced material transfer in the membranes of osmotic pump tablets and enabled reassessment of the drug release mechanism of membrane controlled osmotic pump systems. PMID:26802550

  13. Hydration induced material transfer in membranes of osmotic pump tablets measured by synchrotron radiation based FTIR.

    PubMed

    Wu, Li; Yin, Xianzhen; Guo, Zhen; Tong, Yajun; Feng, Jing; York, Peter; Xiao, Tiqiao; Chen, Min; Gu, Jingkai; Zhang, Jiwen

    2016-03-10

    Osmotic pump tablets are reliable oral controlled drug delivery systems based on their semipermeable membrane coating. This research used synchrotron radiation-based Fourier transform infrared (SR-FTIR) microspectroscopy and imaging to investigate the hydration induced material transfer in the membranes of osmotic pump tablets. SR-FTIR was applied to record and map the chemical information of a micro-region of the membranes, composed of cellulose acetate (CA, as the water insoluble matrix) and polyethylene glycol (PEG, as the soluble pore forming agent and plasticizing agent). The microstructure and chemical change of membranes hydrated for 0, 5, 10 and 30min were measured using SR-FTIR, combined with scanning electronic microscopy and atom force microscopy. The SR-FTIR microspectroscopy results indicated that there was a major change at the absorption range of 2700-3100cm(-1) in the membranes after different periods of hydration time. The absorption bands at 2870-2880cm(-1) and 2950-2960cm(-1) were assigned to represent CA and PEG, respectively. The chemical group signal distribution illustrated by the ratio of PEG to CA demonstrated that the trigger of drug release in the preliminary stage was due to the rapid transfer of PEG into liquid medium with a sharp decrease of PEG in the membranes. The SR-FTIR mapping results have demonstrated the hydration induced material transfer in the membranes of osmotic pump tablets and enabled reassessment of the drug release mechanism of membrane controlled osmotic pump systems.

  14. GHB: Forensic examination of a dangerous recreational drug by FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Kindig, J. P.; Ellis, L. E.; Brueggemeyer, T. W.; Satzger, R. D.

    1998-06-01

    Gamma-hydroxybutyric acid (GHB) is an illegal drug that has been abused for its intoxicating effects. However, GHB can also produce harmful physiological effects ranging from mild (nausea, drowsiness) to severe (coma, death). Because GHB is often produced by clandestine manufacture, its concentration, purity, and final form can be variable. Therefore, the analysis of suspected GHB samples using FTIR spectroscopy requires a variety of sample preparations and accessories, based on the sample matrix.

  15. Surface characterization of Kevlar fibers by FT-IR spectroscopy

    SciTech Connect

    Chatzi, E.G.

    1987-01-01

    The Kevlar-49 aramid fiber offers considerable potential for utilization in high-performance composite materials. However, it has poor adhesion to the polymer matrix resin. In order to improve the adhesion the surface of the fiber was characterized by using two nondestructive Fourier transform infrared (FT-IR) techniques. It was shown that the polymer chains in the skin are oriented parallel to the surface, while in the core they are almost radially oriented. This orientation as well as the fact that the functional groups are intermolecularly hydrogen-bonded might limit their availability for reacting with the polymer matrix. The author also characterized the water absorbed in both the skin and the core of the fiber and found the existence of three types of water: (a) weakly hydrogen-bonded between one NH and one carbonyl group, (b) between two carbonyl groups and (c) liquid-like water clustered in microvoids and other sites inside the fibers. It was also found that 30% of the NH groups of the Kevlar-49 fiber are accessible for deuterium exchange. These groups on one hand are available for reactions that would improve the adhesion, but on the other hand can hydrogen-bond with water, which would be detrimental for the mechanical properties of the composite.

  16. Comparison of phenotypic methods and matrix-assisted laser desorption ionisation time-of-flight mass spectrometry for the identification of aero-tolerant Actinomyces spp. isolated from soft-tissue infections.

    PubMed

    Ng, L S Y; Sim, J H C; Eng, L C; Menon, S; Tan, T Y

    2012-08-01

    Aero-tolerant Actinomyces spp. are an under-recognised cause of cutaneous infections, in part because identification using conventional phenotypic methods is difficult and may be inaccurate. Matrix-assisted laser desorption ionisation time-of-flight mass spectrometry (MALDI-TOF MS) is a promising new technique for bacterial identification, but with limited data on the identification of aero-tolerant Actinomyces spp. This study evaluated the accuracy of a phenotypic biochemical kit, MALDI-TOF MS and genotypic identification methods for the identification of this problematic group of organisms. Thirty aero-tolerant Actinomyces spp. were isolated from soft-tissue infections over a 2-year period. Species identification was performed by 16 s rRNA sequencing and genotypic results were compared with results obtained by API Coryne and MALDI-TOF MS. There was poor agreement between API Coryne and genotypic identification, with only 33% of isolates correctly identified to the species level. MALDI-TOF MS correctly identified 97% of isolates to the species level, with 33% of identifications achieved with high confidence scores. MALDI-TOF MS is a promising new tool for the identification of aero-tolerant Actinomyces spp., but improvement of the database is required in order to increase the confidence level of identification.

  17. Isolation and characterization of a novel acidic matrix protein hic22 from the nacreous layer of the freshwater mussel, Hyriopsis cumingii.

    PubMed

    Liu, X J; Jin, C; Wu, L M; Dong, S J; Zeng, S M; Li, J L

    2016-01-01

    Matrix proteins that either weakly acidic or unusually highly acidic have important roles in shell biomineralization. In this study, we have identified and characterized hic22, a weakly acidic matrix protein, from the nacreous layer of Hyriopsis cumingii. Total protein was extracted from the nacre using 5 M EDTA and hic22 was purified using a DEAE-sepharose column. The N-terminal amino acid sequence of hic22 was determined and the complete cDNA encoding hic22 was cloned and sequenced by rapid amplification of cDNA ends-polymerase chain reaction. Finally, the localization and distribution of hic22 was determined by in situ hybridization. Our results revealed that hic22 encodes a 22-kDa protein composed of 185 amino acids. Tissue expression analysis and in situ hybridization indicated that hic22 is expressed in the dorsal epithelial cells of the mantle pallial; moreover, significant expression levels of hic22 were observed after the early formation of the pearl sac (days 19-77), implying that hic22 may play an important role in biomineralization of the nacreous layer. PMID:27525898

  18. Matrix-assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF MS) and Bayesian phylogenetic analysis to characterize Candida clinical isolates.

    PubMed

    Angeletti, Silvia; Lo Presti, Alessandra; Cella, Eleonora; Dicuonzo, Giordano; Crea, Francesca; Palazzotti, Bernardetta; Dedej, Etleva; Ciccozzi, Massimo; De Florio, Lucia

    2015-12-01

    Clinical Candida isolates from two different hospitals in Rome were identified and clustered by MALDI-TOF MS system and their origin and evolution estimated by Bayesian phylogenetic analysis. The different species of Candida were correctly identified and clustered separately, confirming the ability of these techniques to discriminate between different Candida species. Focusing MALDI-TOF analysis on a single Candida species, Candida albicans and Candida parapsilosis strains clustered differently for hospital setting as well as for period of isolation than Candida glabrata and Candida tropicalis isolates. The evolutionary rates of C. albicans and C. parapsilosis (1.93×10(-2) and 1.17×10(-2)substitutions/site/year, respectively) were in agreement with a higher rate of mutation of these species, even in a narrow period, than what was observed in C. glabrata and C. tropicalis strains (6.99×10(-4) and 7.52×10(-3)substitutions/site/year, respectively). C. albicans resulted as the species with the highest between and within clades genetic distance values in agreement with the temporal-related clustering found by MALDI-TOF and the high evolutionary rate 1.93×10(-2)substitutions/site/year.

  19. ATR FTIR Mapping of Leather Fiber Panels

    NASA Astrophysics Data System (ADS)

    Tondi, G.; Grünewald, T.; Petutschnigg, A.; Schnabel, T.

    2015-01-01

    Leather fiber panels are very promising materials for many applications, not only for the easy availability of the constituents but also for their outstanding fi re-retardant properties. These innovative composite panels can be an excellent material for building insulation, and in recent times, the interest of industries in this composite board has considerably arisen. For this reason the discrimination of the components in the leather fiber panels is becoming fundamental in order to ensure their homogeneous properties. A method to characterize the surface of these materials is then required. An ATR FTIR mapping system for the leather fiber panels has been performed with a Perkin-Elmer microscope coupled with a Frontier FTIR spectrometer. The system has successfully allowed transforming the optical image to a chemical one. This technique can be considered as a right tool for routine controls of the surface quality, especially when the leather shavings cannot be optically distinguished.

  20. FTIR analysis of bentonite in moulding sands

    NASA Astrophysics Data System (ADS)

    Paluszkiewicz, C.; Holtzer, M.; Bobrowski, A.

    2008-05-01

    Bentonite is used in a wide range of applications. One of them is the foundry industry. The aim of this study was to investigate modification of moulding sands by dust which is generated during foundry process. Recycling of this dust is very important from ecological point of view. The samples of moulding sands were examined by Fourier Transform Infrared spectroscopy (FTIR). Analysis of the bands due to the Si-O stretching vibrations allows to reveal the changes of active bentonite and silica sand, i.e. the main components of the moulding sands. FTIR results are compared with technological properties of the materials studied. Scanning electron microscopy (SEM) and X-ray diffraction (XRD) methods have been used as the complementary measurement.

  1. EDAX versus FTIR in mixed stones.

    PubMed

    Fazil Marickar, Y M; Lekshmi, P R; Varma, Luxmi; Koshy, Peter

    2009-10-01

    Mixed stones form a significant number of all urinary stones. Accurate analysis of individual areas of stones is fraught with uncertainties. Scanning electron microscopy with elemental distribution analysis (SEM-EDAX) is a very important tool in assessing stone composition. The objective of this paper is to project the role of the combination of Fourier transform infrared (FTIR) spectroscopy and SEM-EDAX combination in achieving a total understanding of mixed stone morphology. Ten mixed urinary stones were washed and dried and the composition recognized by analysis of FTIR spectra by comparing with the spectra of pure components. Spectra for different layers were obtained. Then the stone samples were further studied by SEM-EDAX analysis. The findings of FTIR were correlated with SEM-EDAX and detailed data generated. Using SEM-EDAX, the spatial distribution of major and trace elements were studied to understand their initiation and formation. As much as 80% of the stones studied were mixtures of calcium oxalate monohydrate (whewellite) and calcium phosphate (hydroxyapatite) in various proportions. Quantitative evaluation of components was achieved through FTIR and SEM-EDAX analysis. It was possible to get an idea about the spatial distribution of molecules using SEM analysis. The composition of different areas was identified using EDAX. Analyzing with EDAX, it was possible to obtain the percentage of different elements present in a single sample. The study concludes that the most common mixed stone encountered in the study is a mixture of calcium oxalate monohydrate and calcium phosphate in a definite proportion. The combination identified not only the molecular species present in the calculus, but also the crystalline forms within chemical constituents. Using EDAX, the amount of calcium, phosphorus, oxygen and carbon present in the stone sample could be well understood.

  2. The electronic structure of VO in its ground and electronically excited states: A combined matrix isolation and quantum chemical (MRCI) study

    SciTech Connect

    Hübner, Olaf; Hornung, Julius; Himmel, Hans-Jörg

    2015-07-14

    The electronic ground and excited states of the vanadium monoxide (VO) molecule were studied in detail. Electronic absorption spectra for the molecule isolated in Ne matrices complement the previous gas-phase spectra. A thorough quantum chemical (multi-reference configuration interaction) study essentially confirms the assignment and characterization of the electronic excitations observed for VO in the gas-phase and in Ne matrices and allows the clarification of open issues. It provides a complete overview over the electronically excited states up to about 3 eV of this archetypical compound.

  3. Isolation, proliferation, cytogenetic, and molecular characterization and in vitro differentiation potency of canine stem cells from foetal adnexa: a comparative study of amniotic fluid, amnion, and umbilical cord matrix.

    PubMed

    Filioli Uranio, M; Valentini, L; Lange-Consiglio, A; Caira, M; Guaricci, A C; L'Abbate, A; Catacchio, C R; Ventura, M; Cremonesi, F; Dell'Aquila, M E

    2011-05-01

    The possibility to isolate canine mesenchymal stem cells (MSCs) from foetal adnexa is interesting since several canine genetic disorders are reported to resemble similar dysfunctions in humans. In this study, we successfully isolated, cytogenetically and molecularly characterized, and followed the differentiation potency of canine MSCs from foetal adnexa, such as amniotic fluid (AF), amniotic membrane (AM), and umbilical cord matrix (UCM). In the three types of cell lines, the morphology of proliferating cells typically appeared fibroblast-like, and the population doubling time (DT) significantly increased with passage number. For AF- and AM-MSCs, cell viability did not change with passages. In UCM-MSCs, cell viability remained at approximately constant levels up to P6 and significantly decreased from P7 (P < 0.05). Amnion and UCM-MSCs expressed embryonic and MSC markers, such as Oct-4 CD44, CD184, and CD29, whereas AF-MSCs expressed Oct-4, CD44. Expression of the hematopoietic markers CD34 and CD45 was not found. Dog leucocyte antigens (DLA-DRA1 and DLA-79) were expressed only in AF-MSCs at P1. Isolated cells of the three cell lines at P3 showed multipotent capacity, and differentiated in vitro into neurocyte, adipocyte, osteocyte, and chondrocyte, as demonstrated by specific stains and expression of molecular markers. Cells at P4 showed normal chromosomal number, structure, and telomerase activity. These results demonstrate that, in dog, MSCs can be successfully isolated from foetal adnexa and grown in vitro. Their proven stemness and chromosomal stability indicated that MSCs could be used as a model to study stem cell biology and have an application in therapeutic programs. PMID:21491540

  4. Isolation, proliferation, cytogenetic, and molecular characterization and in vitro differentiation potency of canine stem cells from foetal adnexa: a comparative study of amniotic fluid, amnion, and umbilical cord matrix.

    PubMed

    Filioli Uranio, M; Valentini, L; Lange-Consiglio, A; Caira, M; Guaricci, A C; L'Abbate, A; Catacchio, C R; Ventura, M; Cremonesi, F; Dell'Aquila, M E

    2011-05-01

    The possibility to isolate canine mesenchymal stem cells (MSCs) from foetal adnexa is interesting since several canine genetic disorders are reported to resemble similar dysfunctions in humans. In this study, we successfully isolated, cytogenetically and molecularly characterized, and followed the differentiation potency of canine MSCs from foetal adnexa, such as amniotic fluid (AF), amniotic membrane (AM), and umbilical cord matrix (UCM). In the three types of cell lines, the morphology of proliferating cells typically appeared fibroblast-like, and the population doubling time (DT) significantly increased with passage number. For AF- and AM-MSCs, cell viability did not change with passages. In UCM-MSCs, cell viability remained at approximately constant levels up to P6 and significantly decreased from P7 (P < 0.05). Amnion and UCM-MSCs expressed embryonic and MSC markers, such as Oct-4 CD44, CD184, and CD29, whereas AF-MSCs expressed Oct-4, CD44. Expression of the hematopoietic markers CD34 and CD45 was not found. Dog leucocyte antigens (DLA-DRA1 and DLA-79) were expressed only in AF-MSCs at P1. Isolated cells of the three cell lines at P3 showed multipotent capacity, and differentiated in vitro into neurocyte, adipocyte, osteocyte, and chondrocyte, as demonstrated by specific stains and expression of molecular markers. Cells at P4 showed normal chromosomal number, structure, and telomerase activity. These results demonstrate that, in dog, MSCs can be successfully isolated from foetal adnexa and grown in vitro. Their proven stemness and chromosomal stability indicated that MSCs could be used as a model to study stem cell biology and have an application in therapeutic programs.

  5. Matrix superpotentials

    NASA Astrophysics Data System (ADS)

    Nikitin, Anatoly G.; Karadzhov, Yuri

    2011-07-01

    We present a collection of matrix-valued shape invariant potentials which give rise to new exactly solvable problems of SUSY quantum mechanics. It includes all irreducible matrix superpotentials of the generic form W=kQ+\\frac{1}{k} R+P, where k is a variable parameter, Q is the unit matrix multiplied by a real-valued function of independent variable x, and P and R are the Hermitian matrices depending on x. In particular, we recover the Pron'ko-Stroganov 'matrix Coulomb potential' and all known scalar shape invariant potentials of SUSY quantum mechanics. In addition, five new shape invariant potentials are presented. Three of them admit a dual shape invariance, i.e. the related Hamiltonians can be factorized using two non-equivalent superpotentials. We find discrete spectrum and eigenvectors for the corresponding Schrödinger equations and prove that these eigenvectors are normalizable.

  6. Ease-of-use protocol for the rapid detection of third-generation cephalosporin resistance in Enterobacteriaceae isolated from blood cultures using matrix-assisted laser desorption ionization-time-of-flight mass spectrometry.

    PubMed

    Foschi, C; Compri, M; Smirnova, V; Denicolò, A; Nardini, P; Tamburini, M V; Lombardo, D; Landini, M P; Ambretti, S

    2016-06-01

    An ease-of-use protocol for the identification of resistance against third-generation cephalosporins in Enterobacteriaceae isolated from blood culture bottles was evaluated using matrix-assisted laser desorption ionization-time-of-flight mass spectrometry. A cefotaxime hydrolysis assay from chocolate agar subcultures using antibiotic discs and without inoculum standardization was developed for routine work flow, with minimal hands-on time. This assay showed good performance in distinguishing between cefotaxime-susceptible and cefotaxime-resistant strains, with excellent results for Escherichia coli (sensitivity 94.7%, specificity 100%). However, cefotaxime resistance was not detected reliably in Enterobacteriaceae expressing AmpC genes or carbapenemase-producing Klebsiella pneumoniae. PMID:27105753

  7. The effect of hydrogen bonding on torsional dynamics: A combined far-infrared jet and matrix isolation study of methanol dimer

    SciTech Connect

    Kollipost, F.; Heger, M.; Suhm, M. A.; Andersen, J.; Mahler, D. W.; Wugt Larsen, R.; Heimdal, J.

    2014-11-07

    The effect of strong intermolecular hydrogen bonding on torsional degrees of freedom is investigated by far-infrared absorption spectroscopy for different methanol dimer isotopologues isolated in supersonic jet expansions or embedded in inert neon matrices at low temperatures. For the vacuum-isolated and Ne-embedded methanol dimer, the hydrogen bond OH librational mode of the donor subunit is finally observed at ∼560 cm{sup −1}, blue-shifted by more than 300 cm{sup −1} relative to the OH torsional fundamental of the free methanol monomer. The OH torsional mode of the acceptor embedded in neon is observed at ∼286 cm{sup −1}. The experimental findings are held against harmonic predictions from local coupled-cluster methods with single and double excitations and a perturbative treatment of triple excitations [LCCSD(T)] and anharmonic. VPT2 corrections at canonical MP2 and density functional theory (DFT) levels in order to quantify the contribution of vibrational anharmonicity for this important class of intermolecular hydrogen bond vibrational motion.

  8. The effect of hydrogen bonding on torsional dynamics: a combined far-infrared jet and matrix isolation study of methanol dimer.

    PubMed

    Kollipost, F; Andersen, J; Mahler, D W; Heimdal, J; Heger, M; Suhm, M A; Wugt Larsen, R

    2014-11-01

    The effect of strong intermolecular hydrogen bonding on torsional degrees of freedom is investigated by far-infrared absorption spectroscopy for different methanol dimer isotopologues isolated in supersonic jet expansions or embedded in inert neon matrices at low temperatures. For the vacuum-isolated and Ne-embedded methanol dimer, the hydrogen bond OH librational mode of the donor subunit is finally observed at ~560 cm(-1), blue-shifted by more than 300 cm(-1) relative to the OH torsional fundamental of the free methanol monomer. The OH torsional mode of the acceptor embedded in neon is observed at ~286 cm(-1). The experimental findings are held against harmonic predictions from local coupled-cluster methods with single and double excitations and a perturbative treatment of triple excitations [LCCSD(T)] and anharmonic. VPT2 corrections at canonical MP2 and density functional theory (DFT) levels in order to quantify the contribution of vibrational anharmonicity for this important class of intermolecular hydrogen bond vibrational motion. PMID:25381521

  9. FTIR MONITORING OF THE VENTILATION AIR OF CRITICAL BUILDINGS

    EPA Science Inventory

    Fourier transform infrared (FTIR) spectroscopy has been used for detailed analysis of environmental and industrial process samples for many years. FTIR spectrometers have the capability of measuring multiple compounds simultaneously, thus providing an advantage over most other me...

  10. Investigation of intervertebral disc degeneration using multivariate FTIR spectroscopic imaging.

    PubMed

    Mader, Kerstin T; Peeters, Mirte; Detiger, Suzanne E L; Helder, Marco N; Smit, Theo H; Le Maitre, Christine L; Sammon, Chris

    2016-06-23

    Traditionally tissue samples are analysed using protein or enzyme specific stains on serial sections to build up a picture of the distribution of components contained within them. In this study we investigated the potential of multivariate curve resolution-alternating least squares (MCR-ALS) to deconvolute 2nd derivative spectra of Fourier transform infrared (FTIR) microscopic images measured in transflectance mode of goat and human paraffin embedded intervertebral disc (IVD) tissue sections, to see if this methodology can provide analogous information to that provided by immunohistochemical stains and bioassays but from a single section. MCR-ALS analysis of non-degenerate and enzymatically in vivo degenerated goat IVDs reveals five matrix components displaying distribution maps matching histological stains for collagen, elastin and proteoglycan (PG), as well as immunohistochemical stains for collagen type I and II. Interestingly, two components exhibiting characteristic spectral and distribution profiles of proteoglycans were found, and relative component/tissue maps of these components (labelled PG1 and PG2) showed distinct distributions in non-degenerate versus mildly degenerate goat samples. MCR-ALS analysis of human IVD sections resulted in comparable spectral profiles to those observed in the goat samples, highlighting the inter species transferability of the presented methodology. Multivariate FTIR image analysis of a set of 43 goat IVD sections allowed the extraction of semi-quantitative information from component/tissue gradients taken across the IVD width of collagen type I, collagen type II, PG1 and PG2. Regional component/tissue parameters were calculated and significant correlations were found between histological grades of degeneration and PG parameters (PG1: p = 0.0003, PG2: p < 0.0001); glycosaminoglycan (GAG) content and PGs (PG1: p = 0.0055, PG2: p = 0.0001); and MRI T2* measurements and PGs (PG1: p = 0.0021, PG2: p < 0.0001). Additionally

  11. Selective solid-phase isolation of methionine-containing peptides and subsequent matrix-assisted laser desorption/ionisation mass spectrometric detection of methionine- and of methionine-sulfoxide-containing peptides.

    PubMed

    Grunert, Tom; Pock, Katharina; Buchacher, Andrea; Allmaier, Günter

    2003-01-01

    Methionine residues and the oxidised forms in proteins are becoming more and more important in view of their biological function. In particular, methionine sulfoxide seems to have a regulatory function. This paper presents a fast strategy for simultaneous determination of methionine- and methionine-sulfoxide-containing peptides, involving application of methionine-specific solid-phase reagent chemistry combined with matrix-assisted laser desorption/ionisation mass spectrometry (MALDI-MS). In the first step, methionine-containing peptides are covalently bound as sulfonium salts to glass beads, whereas methionine-sulfoxide-containing peptides and other methionine-free peptides are not bound and are washed out. The wash solution is used for MALDI-MS analysis to determine the molecular masses of these peptides and to perform, if necessary, seamless post-source decay (PSD) fragment ion analysis. Methionine-sulfoxide-containing peptides can be identified due to the characteristic metastable loss of methanesulfenic acid from the protonated molecules. In the second step, the bound peptides are cleaved from the matrix of the beads by addition of 2-mercaptoethanol at pH 8.5-8.8. The resulting peptides, mainly methionine-containing peptides, are analysed in a straightforward manner by MALDI-MS and seamless PSD. The strategy allows the fast identification of methionine- and methionine-sulfoxide-containing peptides even in complex tryptic digests, as demonstrated here for the glycoprotein antithrombin. These results show that sometimes methionine-containing tryptic peptides are not detected due to steric restrictions (e.g. glycosylation near the methionine residue) on the binding reaction, and that, on the other hand, some methionine-free peptides can be quite strongly bound non-covalently to the matrix of the beads. The latter observation indicates the necessity of seamless PSD fragment ion analysis for unambiguous identification. Furthermore, there are indications that

  12. An improved method of measuring tropospheric NO2, NO3, HO2, and RO2 by Matrix Isolation and Electronic Spin Resonance (MIESR)

    NASA Technical Reports Server (NTRS)

    1994-01-01

    The MIESR method consists of two steps (1) collection of the radicals present in the ambient air at 77K in a polycrystalline D2O matrix and (2) identification and quantification of the different radicals in the laboratory by Electron Spin Resonance spectroscopy. In step (1), the sampling efficiency for sampling NO2 and RO2 was determined to be greater than or equal to 95 percent, with a measured accuracy of plus or minus 5 percent. In step (2), after collection, the samples are maintained at 77 K and spectra are recorded in the laboratory using a standard 9.5 GHz ESR system (Varian E-line). About 50 individual scans of each spectrum are recorded and digitally averaged in order to improve the signal-to-noise ratio. The ESR-spectra are analyzed with a recently developed numerical procedure which was demonstrated to allow speciation of NO2, NO3, HO2, CH3C(O)O2, and the sum of the alkylperoxy radicals. The detection limit is 5ppt for HO2, RO2, and NO2 and 3ppt for NO3 due to its narrower ESR-linewidth.

  13. A simple but accurate potential for the naphthalene-argon complex: applications to collisional energy transfer and matrix isolated IR spectroscopy.

    PubMed

    Calvo, F; Falvo, Cyril; Parneix, Pascal

    2013-01-21

    An explicit polarizable potential for the naphthalene-argon complex has been derived assuming only atomic contributions, aiming at large scale simulations of naphthalene under argon environment. The potential was parametrized from dedicated quantum chemical calculations at the CCSD(T) level, and satisfactorily reproduces available structural and energetic properties. Combining this potential with a tight-binding model for naphthalene, collisional energy transfer is studied by means of dedicated molecular dynamics simulations, nuclear quantum effects being accounted for in the path-integral framework. Except at low target temperature, nuclear quantum effects do not alter the average energies transferred by the collision or the collision duration. However, the distribution of energy transferred is much broader in the quantum case due to the significant zero-point energy and the higher density of states. Using an ab initio potential for the Ar-Ar interaction, the IR absorption spectrum of naphthalene solvated by argon clusters or an entire Ar matrix is computed via classical and centroid molecular dynamics. The classical spectra exhibit variations with growing argon environment that are absent from quantum spectra. This is interpreted by the greater fluxional character experienced by the argon atoms due to vibrational delocalization.

  14. Characterization of mannitol in Curvularia protuberata hyphae by FTIR and Raman spectromicroscopy

    USGS Publications Warehouse

    Rodriguez, Russell J.; Isenor, Merrill; Kaminsky, Susan G.W.; Redman, S.; Gough, Kathleen M.

    2010-01-01

    FTIR and Raman spectromicroscopy were used to characterize the composition of Curvularia protuberata hyphae, and to compare a strain isolated from plants inhabiting geothermal soils with a non-geothermal isolate. Thermal IR source images of hyphae have been acquired with a 64 × 64 element focal plane array detector; single point IR spectra have been obtained with synchrotron source light. In some C. protuberata hyphae, we have discovered the spectral signature of crystalline mannitol, a fungal polyol with complex protective roles. With FTIR-FPA imaging, we have determined that the protein content in cells remains fairly constant throughout the length of a hypha, whereas the mannitol is found at discrete, irregular locations. This is the first direct observation of mannitol in intact fungal hyphae. Since the concentration of mannitol in cells varies with respect to position and is not present in all hyphae, this discovery may be related to habitat adaptation, fungal structure and growth stages.

  15. Characterization of mannitol in Curvularia protuberata hyphae by FTIR and Raman spectromicroscopy

    USGS Publications Warehouse

    Isenor, M.; Kaminskyj, S.G.W.; Rodriguez, R.J.; Redman, R.S.; Gough, K.M.

    2010-01-01

    FTIR and Raman spectromicroscopy were used to characterize the composition of Curvularia protuberata hyphae, and to compare a strain isolated from plants inhabiting geothermal soils with a non-geothermal isolate. Thermal IR source images of hyphae have been acquired with a 64 ?? 64 element focal plane array detector; single point IR spectra have been obtained with synchrotron source light. In some C. protuberata hyphae, we have discovered the spectral signature of crystalline mannitol, a fungal polyol with complex protective roles. With FTIR-FPA imaging, we have determined that the protein content in cells remains fairly constant throughout the length of a hypha, whereas the mannitol is found at discrete, irregular locations. This is the first direct observation of mannitol in intact fungal hyphae. Since the concentration of mannitol in cells varies with respect to position and is not present in all hyphae, this discovery may be related to habitat adaptation, fungal structure and growth stages. ?? 2010 The Royal Society of Chemistry.

  16. Characterization of mannitol in Curvularia protuberata hyphae by FTIR and Raman spectromicroscopy.

    PubMed

    Isenor, Merrill; Kaminskyj, Susan G W; Rodriguez, Russell J; Redman, Regina S; Gough, Kathleen M

    2010-12-01

    FTIR and Raman spectromicroscopy were used to characterize the composition of Curvularia protuberata hyphae, and to compare a strain isolated from plants inhabiting geothermal soils with a non-geothermal isolate. Thermal IR source images of hyphae have been acquired with a 64 × 64 element focal plane array detector; single point IR spectra have been obtained with synchrotron source light. In some C. protuberata hyphae, we have discovered the spectral signature of crystalline mannitol, a fungal polyol with complex protective roles. With FTIR-FPA imaging, we have determined that the protein content in cells remains fairly constant throughout the length of a hypha, whereas the mannitol is found at discrete, irregular locations. This is the first direct observation of mannitol in intact fungal hyphae. Since the concentration of mannitol in cells varies with respect to position and is not present in all hyphae, this discovery may be related to habitat adaptation, fungal structure and growth stages.

  17. Species-Level Identification of Actinomyces Isolates Causing Invasive Infections: Multiyear Comparison of Vitek MS (Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry) to Partial Sequencing of the 16S rRNA Gene.

    PubMed

    Lynch, T; Gregson, D; Church, D L

    2016-03-01

    Actinomyces species are uncommon but important causes of invasive infections. The ability of our regional clinical microbiology laboratory to report species-level identification of Actinomyces relied on molecular identification by partial sequencing of the 16S ribosomal gene prior to the implementation of the Vitek MS (matrix-assisted laser desorption ionization-time of flight mass spectrometry [MALDI-TOF MS]) system. We compared the use of the Vitek MS to that of 16S rRNA gene sequencing for reliable species-level identification of invasive infections caused by Actinomyces spp. because limited data had been published for this important genera. A total of 115 cases of Actinomyces spp., either alone or as part of a polymicrobial infection, were diagnosed between 2011 and 2014. Actinomyces spp. were considered the principal pathogen in bloodstream infections (n = 17, 15%), in skin and soft tissue abscesses (n = 25, 22%), and in pulmonary (n = 26, 23%), bone (n = 27, 23%), intraabdominal (n = 16, 14%), and central nervous system (n = 4, 3%) infections. Compared to sequencing and identification from the SmartGene Integrated Database Network System (IDNS), Vitek MS identified 47/115 (41%) isolates to the correct species and 10 (9%) isolates to the correct genus. However, the Vitek MS was unable to provide identification for 43 (37%) isolates while 15 (13%) had discordant results. Phylogenetic analyses of the 16S rRNA sequences demonstrate high diversity in recovered Actinomyces spp. and provide additional information to compare/confirm discordant identifications between MALDI-TOF and 16S rRNA gene sequences. This study highlights the diversity of clinically relevant Actinomyces spp. and provides an important typing comparison. Based on our analysis, 16S rRNA gene sequencing should be used to rapidly identify Actinomyces spp. until MALDI-TOF databases are optimized.

  18. Micro FT-IR Characterization Of Human Lung Tumor Cells

    NASA Astrophysics Data System (ADS)

    Benedetti, Enzo; Teodori, L.; Vergamini, Piergiorgio; Trinca, M. L.; Mauro, F.; Salvati, F.; Spremolla, Giuliano

    1989-12-01

    FT-IR spectroscopy has opened up a new approach to the analytical study of cell transformation. Investigations carried out in normal and leukemic lymphocytes have evidenced an increase in DNA with respect to proteic components in neoplastic cells.(1) The evaluation of the ratio of the integrated areas(A) of the bands at 1080 cm-1 (mainly DNA) and at 1540 cm-1 (proteic components) has allowed us to establish a parameter which indicates, for values above 1.5, the neoplastic nature of cells. Recently, this approach has been applied to the study of human lung tumor cells. Several monocellular suspension procedures of the tissue fragment (mechanical and/or chemical) were tested to obtain reproducible and reliable spectra able to differentiate clearly between normal and patological cells. Chemical treatment (EDTA, Pepsin, Collagenase, etc.) produced additional bands in the spectra of the cells causing distortion of the profiles of some absorptions, and as a result, mechanical treatment was preferred. The normal and neoplastic cells homogeneously distributed by cytospin preparation on BaF2 windows were examined by means of FT-IR microscopy. An examination of several microareas of each sample yielded reproducible spectra, with values of the A 1080 cm-1 / A 1540 cm-1 parameter within a very narrow range for each sample, even if certain differences still remained among the different cases, in good agreement with the results obtained for leukemic cells.(1) The value of this parameter was found to be lower for cells isolated from the normal area of lung, than in the case of those corresponding to the tumoral area, meaning that an increase occurs in DNA with respect to the proteic components. These insights, which provide a basis to obtain indications at the molecular level, can open up new possibilities in clinical practice, in order to obtain diagnosis confirmation, to detect early stages of disease and to offer additional indications in cases of dubious interpretation.

  19. FTIR analysis of Smoky Mountain aerosol

    SciTech Connect

    Blando, J.D.; Porcja, R.J.; Li, T.H.; Lioy, P.; Turpin, B.J.

    1996-12-31

    As part of the Southeastern Aerosol and Visibility Study in the Smoky Mountains (July 15-August 25, 1995), we collected samples on ZnSe discs in a Hering Low Pressure Impactor (LPI) from 7am-7pm daily. Impactor size cuts were 2.0, 1.0, 0.50, 0.26, 0.12, 0.05 um. Samples, blanks, and polystyrene standards were analyzed in a Mattson Research Series 100 FTIR Spectroscope. After initial, non-destructive analysis, a subset of samples were gently rinsed with hexane, acetone, and water in succession and analyzed by FTIR after each rinse. Sulfate and carbonyl were consistently observed in sub-micron particles, and commonly detected with soil dust in the 1-2 um size fraction. Carbonyl is associated with secondary organic aerosol formation. Aliphatics in the Smoky Mountain aerosol were most prevalent in the 1-2 um size fraction, suggesting a primary biogenic origin (e.g., plant waxes and organic acids). This contrasts with aliphatic size distributions in Los Angeles aerosols, which peaked below 0.12 um, and were attributed to automotive emissions.

  20. ScanSpec: an imaging FTIR spectrometer

    NASA Astrophysics Data System (ADS)

    Nelsson, Claes; Lundberg, Frans; Nilsson, Paer; Berglund, Mattias

    2000-07-01

    The demand for hyperspectral imagers for research has increased in order to match the performance of new sensors for military applications. These work in several spectral bands and targets and backgrounds need to be characterized both spatially and spectrally to enable efficient signature analysis. Another task for a hyperspectral research imager is to acquire hyperspectral data to be able to study new hyperspectral signal processing techniques to detect, classify, and identify targets. This paper describes how a hyperspectral IR imager was developed based on an FTIR spectrometer at the Defence Research Establishment (FOA) in Linkoping, Sweden. The system, called ScanSpec, consists of a fast FTIR spectrometer from Bomem (MR254), an image-scanning mirror device with controlling electronics, and software for data collection and image forming. The spectrometer itself has not been modified. The paper also contains a performance evaluation with NESR NEDT, and MRTD analysis. Finally, some examples of hyperspectral results from field trials are presented: maritime background and remote gas detection.

  1. Automated Chemical Quality Control Using FTIR

    NASA Astrophysics Data System (ADS)

    Sprouse, James F.

    1989-12-01

    Automated chemical quality control of raw materials as they enter the manufacturing plant has been achieved using Fourier Transform infrared Spectroscopy (FTIR), an appropriate sampling method, and analysis software which controls the FTIR and performs automated data analysis. An infrared spectrum of a raw material is measured, then compared with that of a premeasured reference material in order to detect a contaminated, or out-of-specification, raw material before it enters the manufacturing process. Automated data analysis is achieved using a three tiered search algorithm which combines results from a high resolution (16 bit) Euclidean Distance search with those from both a forward and reverse peak search in order to detect a contaminated raw material. Spectral comparisons are made with a small user-generated reference library of in-spec raw materials. The quality control criteria will be presented, along with an application example, based on: (a) sampling technology; (b) IR spectrum measurement; (c) Data Analysis; (d) Data and Information Management; and (e) Results Reporting.

  2. FTIR study of primate color visual pigments

    PubMed Central

    Katayama, Kota; Kandori, Hideki

    2015-01-01

    How do we distinguish colors? Humans possess three color pigments; red-, green-, and blue-sensitive proteins, which have maximum absorbance (λmax) at 560, 530, and 420 nm, respectively, and contribute to normal human trichromatic vision (RGB). Each color pigments consists of a different opsin protein bound to a common chromophore molecule, 11-cis-retinal, whereas different chromophore-protein interactions allow preferential absorption of different colors. However, detailed experimental structural data to explain the molecular basis of spectral tuning of color pigments are lacking, mainly because of the difficulty in sample preparation. We thus started structural studies of primate color visual pigments using low-temperature Fourier-transform infrared (FTIR) spectroscopy, which needs only 0.3 mg protein for a single measurement. Here we report the first structural data of monkey red- (MR) and green- (MG) sensitive pigments, in which the information about the protein, retinal chromophore, and internal water molecules is contained. Molecular mechanism of color discrimination between red and green pigments will be discussed based on the structural data by FTIR spectroscopy. PMID:27493516

  3. FTIR study of primate color visual pigments.

    PubMed

    Katayama, Kota; Kandori, Hideki

    2015-01-01

    How do we distinguish colors? Humans possess three color pigments; red-, green-, and blue-sensitive proteins, which have maximum absorbance (λmax) at 560, 530, and 420 nm, respectively, and contribute to normal human trichromatic vision (RGB). Each color pigments consists of a different opsin protein bound to a common chromophore molecule, 11-cis-retinal, whereas different chromophore-protein interactions allow preferential absorption of different colors. However, detailed experimental structural data to explain the molecular basis of spectral tuning of color pigments are lacking, mainly because of the difficulty in sample preparation. We thus started structural studies of primate color visual pigments using low-temperature Fourier-transform infrared (FTIR) spectroscopy, which needs only 0.3 mg protein for a single measurement. Here we report the first structural data of monkey red- (MR) and green- (MG) sensitive pigments, in which the information about the protein, retinal chromophore, and internal water molecules is contained. Molecular mechanism of color discrimination between red and green pigments will be discussed based on the structural data by FTIR spectroscopy.

  4. Sync Matrix

    2004-12-31

    Sync Matrix provides a graphic display of the relationships among all of the response activities of each jurisdiction. This is accomplished through software that organizes and displays the activities by jurisdiction, function, and time for easy review and analysis. The software can also integrate the displays of multiple jurisdictions to allow examination of the total response.

  5. Nano-FTIR for Geochemical Sample Analysis

    NASA Astrophysics Data System (ADS)

    Dominguez, G.; McCleod, A.; Gainsforth, Z.; Keilmann, F.; Westphal, A.; Thiemens, M. H.; Basov, D.

    2014-12-01

    Infrared (IR) spectroscopy is considered by many to be the "gold standard" for chemical identification, providing a direct connection between chemical compounds found in the laboratory and those found in natural samples including remote astrophysical environments. However, a well known limitation of using conventional IR spectroscopy is its spatial resolution determined by the wavelength of IR photons. Thus, while other techniques such as XANES and micro-Raman are capable of limited functional group mapping at tens to hundreds of nanometers, their use is limited by accessibility (the need for synchrotron beamlines) or the need for intense irradiation conditions (Raman) that can lead to sample alteration. These limitations and the wealth of information that can be extracted from detailed studies of unique micron-sized samples brought back by recent sample return missions such as NASA's Stardust mission, have motivated the development of a novel infrared mapping technique that is capable of mapping the chemical functional properties of geochemical samples with submicron resolutions. Here we describe our nano-FTIR imaging and analysis technique that allows us to bypass diffraction limited sample imaging in the infrared. Here we show, for the first time, that 1) the combination of an atomic-force microscope (AFM) and laser can be used to obtain the FTIR-equivalent spectra on spatial scales that are much smaller than the wavelength of IR radiation used 2) this technique responds to subtle shifts in cation concentrations as evidenced by changes in the frequencies of phonons at sub-micron scales 3) this technique can be used to identify regions of crystalline and semi-crystalline materials as demonstrated in our analysis of a cometary dust grain Iris. This work has clear implications for interpretations of astronomical observations and adds a new technique for the non-destructive characterization of terrestrial and extraterrestrial samples.

  6. Vibrational spectrum and structure of CoO6: a model compound for molecular oxygen reversible binding on cobalt oxides and salts; a combined IR matrix isolation and theoretical study.

    PubMed

    Marzouk, Asma; Danset, Delphine; Zhou, Ming Fei; Gong, Yu; Alikhani, Mohammad E; Manceron, Laurent

    2011-08-18

    The formation and structure of a novel species, a disuperoxo-cobalt dioxide complex (CoO(6)), has been investigated using matrix isolation in solid neon and argon, coupled to infrared spectroscopy and by quantum chemical methods. It is found that CoO(6) can be formed by successive complexation of cobalt dioxide by molecular oxygen without activation energy by diffusion of ground state O(2) molecules at 9K in the dark. The IR data on one combination and seven fundamentals, isotopic effects, and quantum chemical calculations are both consistent with an asymmetrical structure with two slightly nonequivalent oxygen ligands complexing a cobalt dioxide subunit. Evidence for other, metastable states is also presented, but the data are not complete. The electronic structure and formation pathway of this unique, formally +VI oxidation state, complex has been investigated using several functionals of current DFT within the broken-symmetry unrestricted formalism. It has been shown that the M06L pure local functional well reproduce the experimental observations. The ground electronic state is predicted to be an open shell (2)A'' doublet with the quartet states above by more than 9 kcal/mol and the sextet lying even higher in energy. The ground state has a strong and complex multireference character that hinders the use of more precise multireference approaches and requires caution in the methodology to be used. The geometrical, energetic, and vibrational properties have been computed.

  7. Yersinia enterocolitica in Diagnostic Fecal Samples from European Dogs and Cats: Identification by Fourier Transform Infrared Spectroscopy and Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry

    PubMed Central

    Stamm, Ivonne; Hailer, Mandy; Depner, Barbara; Kopp, Peter A.

    2013-01-01

    Yersinia enterocolitica is the main cause of yersiniosis in Europe, one of the five main bacterial gastrointestinal diseases of humans. Beside pigs, companion animals, especially dogs and cats, were repeatedly discussed in the past as a possible source of pathogenic Y. enterocolitica. To investigate the presence and types of Y. enterocolitica in companion animals, a total of 4,325 diagnostic fecal samples from dogs and 2,624 samples from cats were tested. The isolates obtained were differentiated by using matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) and Fourier transform infrared spectroscopy (FT-IR). Isolated Y. enterocolitica strains were bioserotyped. The detection of the ail gene by PCR and confirmation by FT-IR were used as a pathogenicity marker. Y. enterocolitica strains were isolated from 198 (4.6%) of the dog and 8 (0.3%) of the cat fecal samples investigated. One hundred seventy-nine isolates from dogs were analyzed in detail. The virulence factor Ail was detected in 91.6% of isolates. Isolates of biotype 4 (54.7%) and, to a lesser extent, biotypes 2 (23.5%), 3 (11.2%), and 5 (2.2%) were detected. The remaining 8.4% of strains belonged to the ail-negative biotype 1A. All 7 isolates from cats that were investigated in detail were ail positive. These results indicate that companion animals could be a relevant reservoir for a broad range of presumptively human-pathogenic Y. enterocolitica types. MALDI-TOF MS and FT-IR proved to be valuable methods for the rapid identification of Y. enterocolitica, especially in regard to the large number of samples that were investigated in a short time frame. PMID:23284028

  8. Structural determination of protein-based polymer blends with a promising tool: combination of FTIR and STXM spectroscopic imaging.

    PubMed

    Ling, Shengjie; Qi, Zeming; Watts, Benjamin; Shao, Zhengzhong; Chen, Xin

    2014-05-01

    Fourier transform infrared (FTIR) and scanning transmission X-ray microscopy (STXM) spectroscopic imaging techniques are introduced to determine the structure of protein-based polymer blends, using the silk fibroin/polyethylene oxide (SF/PEO) blend as a model material. We demonstrate that FTIR and STXM imaging techniques provide complementary chemical sensitivities, resolution ranges and sample thickness requirements that can enable a greater understanding of SF/PEO blend films. From the FTIR images, we find that SF shows random coil and/or helical conformation in the SF-rich domains, and β-sheet conformation in the PEO-rich matrix. In the meantime, the SF content in SF-rich domains is 74 ± 4%, and 38 ± 6% in the PEO-rich matrix from the STXM images. These findings support and give further evidence to the conclusions of the previous studies on SF/PEO blends in the literature. Our results strongly suggest that FTIR and STXM imaging techniques are two promising complementary approaches for the study of phase behaviour and molecular conformation in protein-based polymer blend materials.

  9. FTIR microspectroscopic characterization of Spitz nevi

    NASA Astrophysics Data System (ADS)

    Giorgini, Elisabetta; Tosi, Giorgio; Conti, Carla; Staibano, Stefania; Ilardi, Gennaro; Sabbatini, Simona

    2015-04-01

    In the last 10 years, few efforts have been carried out to apply vibrational spectroscopy in the study of dermal pathologies in order to characterize the most relevant spectral markers for distinguishing benign from cancerous lesions. Spitz nevi are a special group of benign melanocytic lesions, characterized by spindled and/or epithelioid nevomelanocytes, with peculiar clinical, dermoscopic and histopathological features. The "atypical forms" of Spitz nevi are among the commonest problems of differential diagnosis with the so-called "spitzoid melanomas". The clinical and histological criteria for discriminating these two entities are very subtle and often still quite subjective, and, in a significant percentage of cases, can lead to diagnostic pitfalls and inadequate therapies. Therefore, it is noteworthy to outline that the diagnosis of melanocytic lesions still represents a challenging problem and a continue matter of discussion. We exploited FTIR microspectroscopy to study the different kinds of spitzoid melanocytes, in order to define the most relevant spectral markers of each specimen and to achieve objective information on "borderline" histologically atypical lesions. In particular, the spectroscopic investigation was carried out on melanocytes deriving from normal skin (as a normal control), malignant melanoma and Spitz nevi. The presence of the characteristic bands of melanin was investigated, too.

  10. [FTIR spectroscopic studies of facial prosthetic adhesives].

    PubMed

    Kang, Biao; Yang, Qing-fang; Liang, Jian-feng; Zhao, Yi-min

    2008-10-01

    According to the composition of the traditional facial prosthetic adhesives, most of adhesives can be classified into two categories: acrylic polymer-based adhesive and silicone-based adhesive. In previous studies, measurements of various mechanical bond strengths were carried out, whereas the functional groups of the adhesives were evaluated seldom during the adhesion. In the present study the analysis of two facial prosthetic adhesives (Epithane and Secure Adhesive) was carried out by using infrared spectroscopy. Two adhesives in the form of fluid or semisolid were submitted to FTIR spectroscopy, respectively. The results showed that water and ammonia residue volatilized during the solidification of Epithane, and absorption peak reduction of carbonyl was due to the volatilization of acetate vinyl from Secure Adhesive. Similar silicone functional groups both in the silicone-based adhesive and in silicone elastomer could be the key to higher bond strength between silicone elastomer and skin with silicone-based adhesive. The position, shape of main absorption peaks of three adhesives didn't change, which showing that their main chemicals and basic structures didn't change during solidification. PMID:19123392

  11. Profiling cocaine by ATR-FTIR.

    PubMed

    Marcelo, M C A; Mariotti, K C; Ferrão, M F; Ortiz, R S

    2015-01-01

    In this article, five hundred and thirteen cocaine seizures of the State of Rio Grande do Sul (Brazil) were analyzed by Fourier transform infrared spectroscopy (FT-IR) in the fingerprint region (1800-650 cm(-1)) to profiling and evaluate the pharmaceutical products used as adulterants. Hierarchical cluster analysis (HCA) and principal component analysis (PCA) were used to identify patterns among the samples whereas partial least square discriminant analysis (PLS-DA) and support vector machines discriminant analysis (SVM-DA) were used to classification the cocaine between base and salt. Spectra of standard solid mixtures of cocaine (salt and base), phenacetin, lidocaine and caffeine were used associated with PCA to predict qualitatively the profile of cocaine seizure. In HCA and PCA, salt and base group were formed correctly. Accordingly with predicted profile of the salt samples, they were majority adulterated with caffeine and lidocaine whereas base cocaine was adulterated only with phenacetin. In the discrimant analysis, all methods have classified the cocaine samples correctly with sensitivity and specificity equal to one between salt and base.

  12. ADAPTING FTIR MEASUREMENT TECHNOLOGY TO HOMELAND SECURITY APPLICATIONS

    EPA Science Inventory

    Open-path Fourier transform infrared (OP-FTIR) sensors have numerous advantages for measuring chemical plumes over wide areas compared to point detection sensors. Extractive FTIR sensors have been used for industrial stack monitoring and are attractive for building ventilation sy...

  13. Determination of the interaction using FTIR within the composite gel polymer electrolyte

    NASA Astrophysics Data System (ADS)

    Huang, Yun; Ma, Xiaoyan; Wang, Xu; Liang, Xiao

    2013-01-01

    In the previous research, the gel polymer electrolyte (GPE) which consisted of poly(methyl methacrylate) (PMMA) matrix, propylene carbonate (PC), LiClO4 and OREC (Rectorite modified with dodecyl benzyl dimethyl ammonium chloride), achieved satisfactory properties. In the paper, the interaction between components was quantitatively determined. Characterization of interaction of Cdbnd O in PC and PMMA with Li+ and OH group on OREC surface has been thoroughly examined using FTIR, respectively. The quantitative analysis of FTIR shows that the absorptivity coefficient a of PMMA/LiClO4, PC/LiClO4, PC/OREC and PMMA/OREC is 0.902, 0.113, 0.430 and 0.753, respectively, which means that the Li+ or OH bonded Cdbnd O is more sensitive than the free Cdbnd O in FTIR spectra. The limit value of bonded Cdbnd O equivalent fraction of PMMA/LiClO4, PC/LiClO4, PC/OREC and PMMA/OREC is 17%, 94%, 57% and 20%, respectively, which implies that all the interaction within the components is reversible and the intensity of interaction is ordered as PC/LiClO4, PC/OREC, PMMA/OREC and PMMA/LiClO4.

  14. Universal method for protein immobilization on chemically functionalized germanium investigated by ATR-FTIR difference spectroscopy.

    PubMed

    Schartner, Jonas; Güldenhaupt, Jörn; Mei, Bastian; Rögner, Matthias; Muhler, Martin; Gerwert, Klaus; Kötting, Carsten

    2013-03-13

    Attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy allows a detailed analysis of surface attached molecules, including their secondary structure, orientation, and interaction with small molecules in the case of proteins. Here, we present a universal immobilization technique on germanium for all oligo-histidine-tagged proteins. For this purpose, new triethoxysilane derivates were developed: we synthesized a linker-silane with a succinimidyl ester as amine-reactive headgroup and a matrix-silane with an unreactive ethylene glycol group. A new methodology for the attachment of triethoxysilanes on germanium was established, and the surface was characterized by ATR-FTIR and X-ray photoelectron spectroscopy. In the next step, the succinimidyl ester was reacted with aminonitrilotriacetic acid. Subsequently, Ni(2+) was coordinated to form Ni-nitrilotriacetic acid for His-tag binding. The capability of the functionalized surface was demonstrated by experiments using the small GTPase Ras and photosystem I (PS I). The native binding of the proteins was proven by difference spectroscopy, which probes protein function. The function of Ras as molecular switch was demonstrated by a beryllium trifluoride anion titration assay, which allows observation of the "on" and "off" switching of Ras at atomic resolution. Furthermore, the activity of immobilized PS I was proven by light-induced difference spectroscopy. Subsequent treatment with imidazole removes attached proteins, enabling repeated binding. This universal technique allows specific attachment of His-tagged proteins and a detailed study of their function at the atomic level using FTIR difference spectroscopy.

  15. ATR-FTIR microscopy in mapping mode for the study of verdigris and its secondary products

    NASA Astrophysics Data System (ADS)

    Prati, S.; Bonacini, I.; Sciutto, G.; Genty-Vincent, A.; Cotte, M.; Eveno, M.; Menu, M.; Mazzeo, R.

    2016-01-01

    To study degradation processes occurring on painting materials, the use of high-resolution micro-analytical techniques is highly requested since it provides a detailed identification and localisation of both the original and deteriorated ingredients. Among the various pigments recently studied, the characterisation of verdigris has received a major interest. This pigment has not a unique chemical formula, but its composition depends on the recipe employed for its manufacturing. Moreover, verdigris paints are not stable and are subject to a colour change from blue-green to green, which occurs in the first few months after the application. In this paper, we focused our attention on the use of ATR-FTIR mapping as a useful method to identify verdigris secondary products and pathways. Several mock-ups and real samples have been analysed, and the correlation among the detected compounds and their spatial location, obtained by the application of ATR-FTIR microscopy in mapping mode, allowed formulating some hypotheses on the degradation pattern of verdigris, which may feed the discussion on the transformation and stability of this pigment. From an analytical point of view, we showed how FTIR mapping approaches may be extremely useful both for the identification of compounds in complex matrix in which single spectra may limit the exhaustive characterisations due to bands overlapping and for the study of degradation pathways by taking into consideration the relative distribution of degradation products.

  16. Characterization and decolorization applicability of xerogel matrix immobilized manganese peroxidase produced from Trametes versicolor IBL-04.

    PubMed

    Iqbal, Hafiz Muhammad Nasir; Asgher, Muhammad

    2013-05-01

    A novel manganese peroxidase (MnP) isolated from solid state culture of Trametes versicolor IBL-04 was immobilized using xerogel matrix composed of trimethoxysilane (TMOS) and propyltetramethoxysilane (PTMS). FTIR spectroscopy confirmed the successful entrapment of MnP into the xerogel matrix. An immobilization efficiency of 92.2% was achieved with a purified active fraction containing 2 mg/mL MnP. After 24 h incubation at varying pH and temperatures, the immobilized MnP retained 82 and 75% activity at pH 4 and 80°C, respectively. Xerogel matrix immobilization enhanced the catalytic efficiency of entrapped MnP. Metal ions including Cu2+, Mn2+ and Fe2+ stimulated enzyme activity while cysteine, EDTA and Ag+ inhibited the activity. MnP preserved 82% of its initial activity during oxidation of MnSO4 in 10 consecutive cycles, demonstrating the reusability of xerogel entrapped MnP. The immobilized MnP could be stored for up to 75 days at 4°C without significant activity loss. To explore the industrial applicability of MnP, the immobilized MnP was tested for decolorization of textile industry effluent in a Packed Bed Reactor System (PBRS). After five consecutive cycles, 98.8% decolorization of effluent was achieved within 5 h. The kinetic properties, storage stability and reusability of entrapped MnP from T. versicolor IBL-04 reflect its prospects as biocatalyst for bioremediation and other industrial applications.

  17. Prepreg cure monitoring using diffuse reflectance-FTIR. [Fourier Transform Infrared Technique

    NASA Technical Reports Server (NTRS)

    Young, P. R.; Chang, A. C.

    1984-01-01

    An in situ diffuse reflectance-Fourier transform infrared technique was developed to determine infrared spectra of graphite fiber prepregs as they were being cured. A bismaleimide, an epoxy, and addition polyimide matrix resin prepregs were studied. An experimental polyimide adhesive was also examined. Samples were positioned on a small heater at the focal point of diffuse reflectance optics and programmed at 15 F/min while FTIR spectra were being scanned, averaged, and stored. An analysis of the resulting spectra provided basic insights into changes in matrix resin molecular structure which accompanied reactions such as imidization and crosslinking. An endo-exothermal isomerization involving reactive end-caps was confirmed for the addition polyimide prepregs. The results of this study contribute to a fundamental understanding of the processing of composites and adhesives. Such understanding will promote the development of more efficient cure cycles.

  18. Analysis of Allergenic Pollen by FTIR Microspectroscopy.

    PubMed

    Zimmerman, B; Tafintseva, V; Bağcıoğlu, M; Høegh Berdahl, M; Kohler, A

    2016-01-01

    Fourier transform infrared (FTIR) spectroscopy is a powerful tool for the identification and characterization of pollen and spores. However, interpretation and multivariate analysis of infrared microscopy spectra of single pollen grains are hampered by Mie-type scattering. In this paper, we introduce a novel sampling setup for infrared microspectroscopy of pollens preventing strong Mie-type scattering. Pollen samples were embedded in a soft paraffin layer between two sheets of polyethylene foils without any further sample pretreatment. Single-grain infrared spectra of 13 different pollen samples, belonging to 11 species, were obtained and analyzed by the new approach and classified by sparse partial least-squares regression (PLSR). For the classification, chemical and physical information were separated by extended multiplicative signal correction and used together to build a classification model. A training set of 260 spectra and an independent test set of 130 spectra were used. Robust sparse classification models allowing the biochemical interpretation of the classification were obtained by the sparse PLSR, because only a subset of variables was retained for the analysis. With accuracy values of 95% and 98%, for the independent test set and full cross-validation respectively, the method is outperforming the previously published studies on development of an automated pollen analysis. Since the method is compatible with standard air-samplers, it can be employed with minimal modification in regular aerobiology studies. When compared with optical microscopy, which is the benchmark method in pollen analysis, the infrared microspectroscopy method offers better taxonomic resolution, as well as faster, more economical, and bias-free measurement.

  19. FTIR spectroscopic studies of lipid dynamics in phytosphingosine ceramide models of the stratum corneum lipid matrix.

    PubMed

    Rerek, Mark E; Van Wyck, Dina; Mendelsohn, Richard; Moore, David J

    2005-03-01

    IR spectroscopic studies are reported for N-stearyl-D-erythro-phytosphingosine (Cer NP) and N-stearyl-2-hydroxy-D-erythro-phytosphingosine (Cer AP) in a hydrated model of the skin lipid barrier comprised of equimolar mixtures of each ceramide with cholesterol and d(35)-stearic acid. Examination of the methylene stretching, rocking and bending modes reveal some rotational freedom and hexagonal packing in both the ceramide and stearic acid chains. Analysis of the acid carbonyl stretch and the ceramide Amide I modes show both shift to higher frequencies, indicating weaker hydrogen bonding, in the mixed systems compared to the pure materials. For both systems, the fatty acid chain disordering temperatures are significantly increased from those of the pure acids. The observed behaviors of these phytosphingosine ceramide systems are fundamentally different from the previously reported analogous sphingosine ceramide systems. The implications of these observations for lipid organization in the stratum corneum are briefly discussed.

  20. UV-induced isomerization of β-alanine isolated in argon matrices

    NASA Astrophysics Data System (ADS)

    Stepanian, Stepan G.; Ivanov, Alexander Yu.; Smyrnova, Daryna A.; Adamowicz, Ludwik

    2012-10-01

    We have employed low-temperature matrix-isolation FTIR spectroscopy, the density functional theory and ab initio calculations at the MP2 and CCSD(T) levels of theory to determine the conformational composition of the simplest β-amino acid, β-alanine. UV irradiation and thermal annealing of the samples together with the FTIR spectra of deuterated β-alanine were used to separate bands of different conformers. A detailed study of the potential energy surface of β-alanine obtained at the MP2/aug-cc-pVDZ level of theory reveals twenty β-alanine conformers, but only five of them may exist in matrices due to their sufficiently high relative stabilities and low energy barriers separating them from each other. An analysis of the FTIR spectra allows us to confirm the presence of four β-alanine conformers in argon matrices with certainty. Two of them, conformers I and II, have an Nsbnd H⋯O intramolecular H-bond, the third, conformer V, has an N⋯Hsbnd O H-bond, and the fourth, conformer IV, has no intramolecular H-bonds. The relative populations of the conformers determined using the relative Gibbs free energies calculated at the CCSD(T)/CBS level of theory at 420 K are 48.1%, 23.7%, 16.8% and 3.2% for the conformers I, II, IV, and V, respectively. Some trace amount of conformer VII was also detected.

  1. Comparing FTIR and RAPD techniques in the typing of C. albicans in a clinical set-up

    NASA Astrophysics Data System (ADS)

    Sandt, Christophe L.; Sockalingum, Ganesh D.; Toubas, Dominique; Aubert, Dominique; Lepan, Herve; Lepouse, Claire; Jaussaud, Maryse; Leon, Alain; Pinon, Jean-Michel; Manfait, Michel

    2002-03-01

    Candida albicans is an opportunistic pathogen, generally though to be of endogenous origin, with however reported outbreaks. Epidemilogy of C. albicans has been studied so far by genotypic methods mainly, including the classical RAPD analysis. Albeit powerful, genotypic techniques are expensive, time consuming and complex to implement. FTIR spectroscopy is simple, rapid, inexpensive and an increasingly used technique for the identification of microorganisms. As a phenotypic method, it provides rapid whole cells 'fingerprinting' using few consumables and can detect very subtle differences between strains of the same species. In this study, C. albicans strains isolated from 50 patients from six hospital units were collected and studied by FTIR spectroscopy and RAPD-PCR. Discrimination of strains was computed using classification algorithms on selected features of the spectral data. Results from 10 patients, for whom iterative sampling was possible, are presented and discussed. Emphasis was laid on the reproducibility of dat for strain-level identification. FTIR analysis shows that (a) the C. albicans spectra were different from one patient to another, (b) seven patients exhibit each a homogeneous group while three patients display each two groups of strains. RAPD-PCR and FTIR analyses correlate quite well showing that FTIR spectroscopy could be a potential epidemiological tool in the control of nosocomial fungal infections.

  2. Rapid habitability assessment of Mars samples by pyrolysis-FTIR

    NASA Astrophysics Data System (ADS)

    Gordon, Peter R.; Sephton, Mark A.

    2016-02-01

    Pyrolysis Fourier transform infrared spectroscopy (pyrolysis FTIR) is a potential sample selection method for Mars Sample Return missions. FTIR spectroscopy can be performed on solid and liquid samples but also on gases following preliminary thermal extraction, pyrolysis or gasification steps. The detection of hydrocarbon and non-hydrocarbon gases can reveal information on sample mineralogy and past habitability of the environment in which the sample was created. The absorption of IR radiation at specific wavenumbers by organic functional groups can indicate the presence and type of any organic matter present. Here we assess the utility of pyrolysis-FTIR to release water, carbon dioxide, sulfur dioxide and organic matter from Mars relevant materials to enable a rapid habitability assessment of target rocks for sample return. For our assessment a range of minerals were analyzed by attenuated total reflectance FTIR. Subsequently, the mineral samples were subjected to single step pyrolysis and multi step pyrolysis and the products characterised by gas phase FTIR. Data from both single step and multi step pyrolysis-FTIR provide the ability to identify minerals that reflect habitable environments through their water and carbon dioxide responses. Multi step pyrolysis-FTIR can be used to gain more detailed information on the sources of the liberated water and carbon dioxide owing to the characteristic decomposition temperatures of different mineral phases. Habitation can be suggested when pyrolysis-FTIR indicates the presence of organic matter within the sample. Pyrolysis-FTIR, therefore, represents an effective method to assess whether Mars Sample Return target rocks represent habitable conditions and potential records of habitation and can play an important role in sample triage operations.

  3. Adsorption of boric acid trimethyl ester on silica surface studied by FT-IR spectroscopy

    NASA Astrophysics Data System (ADS)

    Liu, Jianke; Ying, Pinliang; Xin, Qin; Li, Can

    1998-04-01

    Adsorption of boric acid trimethyl ester (BATE) on high-surface-area silica has been studied by FT-IR spectroscopy. It is found that surface hydroxyls remaining after outgassing at high temperatures act as weak basic sites for BATE adsorption. Coordinate interaction of BATE with isolated hydroxyls dominates the adsorption and induces two splitting B-O vibrational bands at 1375 and 1345 cm -1. In addition, a small amount of BATE reacts with hydrogen-bonded hydroxyls and strained oxygen generated after high-temperature dehydroxylation.

  4. Identification and differentiation of food-related bacteria: A comparison of FTIR spectroscopy and MALDI-TOF mass spectrometry.

    PubMed

    Wenning, Mareike; Breitenwieser, Franziska; Konrad, Regina; Huber, Ingrid; Busch, Ulrich; Scherer, Siegfried

    2014-08-01

    The food industry requires easy, accurate, and cost-effective techniques for microbial identification to ensure safe products and identify microbial contaminations. In this work, FTIR spectroscopy and MALDI-TOF mass spectrometry were assessed for their suitability and applicability for routine microbial diagnostics of food-related microorganisms by analyzing their robustness according to changes in incubation time and medium, identification accuracy and their ability to differentiate isolates down to the strain level. Changes in the protocol lead to a significantly impaired performance of FTIR spectroscopy, whereas they had only little effects on MALDI-TOF MS. Identification accuracy was tested using 174 food-related bacteria (93 species) from an in-house strain collection and 40 fresh isolates from routine food analyses. For MALDI-TOF MS, weaknesses in the identification of bacilli and pseudomonads were observed; FTIR spectroscopy had most difficulties in identifying pseudomonads and enterobacteria. In general, MALDI-TOF MS obtained better results (52-85% correct at species level), since the analysis of mainly ribosomal proteins is more robust and seems to be more reliable. FTIR spectroscopy suffers from the fact that it generates a whole-cell fingerprint and intraspecies diversity may lead to overlapping species borders which complicates identification. In the present study values between 56% and 67% correct species identification were obtained. On the opposite, this high sensitivity offers the opportunity of typing below the species level which was not possible using MALDI-TOF MS. Using fresh isolates from routine diagnostics, both techniques performed well with 88% (MALDI-TOF) and 75% (FTIR) correct identifications at species level, respectively. PMID:24878140

  5. FT-IR microscopic mappings of early mineralization in chick limb bud mesenchymal cell cultures

    NASA Technical Reports Server (NTRS)

    Boskey, A. L.; Camacho, N. P.; Mendelsohn, R.; Doty, S. B.; Binderman, I.

    1992-01-01

    Chick limb bud mesenchymal cells differentiate into chondrocytes and form a cartilaginous matrix in culture. In this study, the mineral formed in different areas within cultures supplemented with 4 mM inorganic phosphate, or 2.5, 5.0, and 10 mM beta-glycerophosphate (beta GP), was characterized by Fourier-transform infrared (FT-IR) microscopy. The relative mineral-to-matrix ratios, and distribution of crystal sizes at specific locations throughout the matrix were measured from day 14 to day 30. The only mineral phase detected was a poorly crystalline apatite. Cultures receiving 4 mM inorganic phosphate had smaller crystals which were less randomly distributed around the cartilage nodules than those in the beta GP-treated cultures. beta GP-induced mineral consisted of larger, more perfect apatite crystals. In cultures receiving 5 or 10 mM beta GP, the relative mineral-to-matrix ratios (calculated from the integrated intensities of the phosphate and amide I bands, respectively) were higher than in the cultures with 4 mM inorganic phosphate or in the in vivo calcified chick cartilage.

  6. Identification of Trueperella pyogenes Isolated from Bovine Mastitis by Fourier Transform Infrared Spectroscopy

    PubMed Central

    Nagib, Samy; Rau, Jörg; Sammra, Osama; Lämmler, Christoph; Schlez, Karen; Zschöck, Michael; Prenger-Berninghoff, Ellen; Klein, Guenter; Abdulmawjood, Amir

    2014-01-01

    The present study was designed to investigate the potential of Fourier transform infrared (FT-IR) spectroscopy to identify Trueperella (T.) pyogenes isolated from bovine clinical mastitis. FT-IR spectroscopy was applied to 57 isolates obtained from 55 cows in a period from 2009 to 2012. Prior to FT-IR spectroscopy these isolates were identified by phenotypic and genotypic properties, also including the determination of seven potential virulence factor encoding genes. The FT-IR analysis revealed a reliable identification of all 57 isolates as T. pyogenes and a clear separation of this species from the other species of genus Trueperella and from species of genus Arcanobacterium and Actinomyces. The results showed that all 57 isolates were assigned to the correct species indicating that FT-IR spectroscopy could also be efficiently used for identification of this bacterial pathogen. PMID:25133407

  7. A study of Ganoderma lucidum spores by FTIR microspectroscopy

    NASA Astrophysics Data System (ADS)

    Wang, Xin; Chen, Xianliang; Qi, Zeming; Liu, Xingcun; Li, Weizu; Wang, Shengyi

    2012-06-01

    In order to obtain unique information of Ganoderma lucidum spores, FTIR microspectroscopy was used to study G. lucidum spores from Anhui Province (A), Liaoning Province (B) and Shangdong Province (C) of China. IR micro-spectra were acquired with high-resolution and well-reproducibility. The IR spectra of G. lucidum spores from different areas were similar and mainly made up of the absorption bands of polysaccharide, sterols, proteins, fatty acids, etc. The results of curve fitting indicated the protein secondary structures were dissimilar among the above G. lucidum spores. To identify G. lucidum spores from different areas, the H1078/H1640 value might be a potentially useful factor, furthermore FTIR microspectroscopy could realize this identification efficiently with the help of hierarchical cluster analysis. The result indicates FTIR microspectroscopy is an efficient tool for identification of G. lucidum spores from different areas. The result also suggests FTIR microspectroscopy is a potentially useful tool for the study of TCM.

  8. FTIR and XRD study of PMMA/PCTFE blend films

    SciTech Connect

    Tripathi, S. Shripathi, T.; Tripathi, J.; Agrawal, A.; Sharma, A.

    2014-04-24

    The results are reported on solution cast PMMA-PCTFE blend films characterized using x-ray diffraction and FTIR. The nanocrystalline nature of PMMA is still seen in the blends, however, the bond modifications are clearly observed. The addition of PCTFE results in the modification in structural properties, as reflected in the XRD and FTIR spectra showing modifications in bonding as a function of PCTFE percentage.

  9. Correlating Flammability of Materials with FTIR Analysis Test Results

    NASA Technical Reports Server (NTRS)

    Moore, Robin; Whitfield, Steve

    2003-01-01

    The purpose of this experiment was to correlate flammability data with FTIR test results. Kydex 100 is a blend of chlorinated polyvinyl chloride and polymethylmethacrylate, with some filler materials. Samples supplied were 0.125 in. thick. 10 samples were taken from a sheet of Kydex and analyzed for flammability and by FTIR spectroscopy. This material was utilized as a round robin sample for flammability testing. The flammability test results were found to vary across the same sheet.

  10. [Remote passive sensing of aeroengine exhausts using FTIR system].

    PubMed

    Xia, Qing; Zuo, Hong-Fu; Li, Shao-Cheng; Wen, Zhen-Hua; Li, Yao-Hua

    2009-03-01

    The traditional method of measuring the aeroengine exhausts is intrusive gas sampling analysis techniques. The disadvantages of the techniques include complex system, difficult operation, high costs and potential danger because of back-pressure effects. The non-intrusive methods have the potential to overcome these problems. So the remote FTIR passive sensing is applied to monitor aeroengine exhausts and determine the concentration of the exhausts gases of aeroengines. The principle of FTIR remote passive sensing is discussed. The model algorithm for the calibration of FTIR system, the radiance power distribution and gas concentration are introduced. TENSOR27 FTIR-system was used to measure the spectra of infrared radiation emitted by the hot gases of exhausts in a test rig. The emission spectra of exhausts were obtained under different thrusts. By analyzing the spectra, the concentrations of CO2, CO and NO concentration were calculated under 4 thrusts. Researches on the determination of concentration of the exhausts gases of aeroengines by using the remote FTIR sensing are still in early stage in the domestic aeronautics field. The results of the spectra and concentration in the aeroengine test are published for the first time. It is shown that the remote FTIR passive sensing techniques have a great future in monitoring the hot gas of the aeroengines exhausts.

  11. [Quantitative Detection of Chinese Cabbage Clubroot Based on FTIR Spectroscopy].

    PubMed

    Wang, Wei-ping; Chai, A-li; Shi, Yan-xia; Xie, Xue-wen; Li, Bao-ju

    2015-05-01

    Clubroot, caused by Plasmodiophora brassicae, is considered the most devastating soilborne disease in Brassica crops. It has emerged as a serious disease threatening the cruciferous crop production industry in China. Nowadays, the detection techniques for P. brassicae are laborious, time-consuming and low sensitivity. Rapid and effective detection methods are needed. The objective of this study is to develop a Fourier transform infrared spectrometer (FTIR) technique for detection of P. brassicae effectively and accurately. FTIR and Real-time PCR techniques were applied in quantitative detection of P. brassicae. Chinese cabbages were inoculated with P. brassicae. By analyzing the FTIR spectra of P. brassicae, infected clubroots and healthy roots, three specific bands 1 105, 1 145 and 1 228 cm-1 were selected. According to the correlation between the peak areas at these sensitive bands and Real-time PCR Ct value, quantitative evaluation model of P. brassicae was established based on FTIR y=34. 17 +12. 24x - 9. 81x2 - 6. 05x3, r=0. 98 (p<0. 05). To validate accuracy of the model, 10 clubroot samples were selected randomly from field, and detected by FTIR spectrum model, the results showed that the average error is 1. 60%. This demonstrated that the FTIR technology is an available one for the quantitative detection of P. brassicae in clubroot, and it provides a new method for quantitative and quickly detection of Chinese cabbage clubroot.

  12. Spectroscopic characterization of dissolved organic matter isolated from rainwater.

    PubMed

    Santos, Patrícia S M; Otero, Marta; Duarte, Regina M B O; Duarte, Armando C

    2009-02-01

    Rainwater is a matrix containing extremely low concentrations (in the range of muM C) of dissolved organic carbon (DOC) and for its characterization, an efficient extraction procedure is essential. A recently developed procedure based on adsorption onto XAD-8 and XAD-4 resins in series was used in this work for the extraction and isolation of rainwater dissolved organic matter (DOM). Prior to the isolation and fractionation of DOM, and to obtain sufficient mass for the spectroscopic analyses, individual rainwater samples were batched together according to similar meteorological conditions on a total of three composed samples. The results of the isolation procedure indicated that the resin tandem procedure is not applicable for rainwater DOM since the XAD-4 resin caused samples contamination. On the other hand, the XAD-8 resin allowed DOM recoveries of 39.9-50.5% of the DOC of the original combined samples. This recovered organic fraction was characterized by UV-visible, molecular fluorescence, FTIR-ATR and 1H NMR spectroscopies. The chemical characterization of the rainwater DOM showed that the three samples consist mostly of hydroxylated and carboxylic acids with a predominantly aliphatic character, containing a minor component of aromatic structures. The obtained results suggest that the DOM in rainwater, and consequently in the precursor atmospheric particles, may have a secondary origin via the oxidation of volatile organic compounds from different origins.

  13. A rapid Fourier-transform infrared (FTIR) spectroscopic method for direct quantification of paracetamol content in solid pharmaceutical formulations

    NASA Astrophysics Data System (ADS)

    Mallah, Muhammad Ali; Sherazi, Syed Tufail Hussain; Bhanger, Muhammad Iqbal; Mahesar, Sarfaraz Ahmed; Bajeer, Muhammad Ashraf

    2015-04-01

    A transmission FTIR spectroscopic method was developed for direct, inexpensive and fast quantification of paracetamol content in solid pharmaceutical formulations. In this method paracetamol content is directly analyzed without solvent extraction. KBr pellets were formulated for the acquisition of FTIR spectra in transmission mode. Two chemometric models: simple Beer's law and partial least squares employed over the spectral region of 1800-1000 cm-1 for quantification of paracetamol content had a regression coefficient of (R2) of 0.999. The limits of detection and quantification using FTIR spectroscopy were 0.005 mg g-1 and 0.018 mg g-1, respectively. Study for interference was also done to check effect of the excipients. There was no significant interference from the sample matrix. The results obviously showed the sensitivity of transmission FTIR spectroscopic method for pharmaceutical analysis. This method is green in the sense that it does not require large volumes of hazardous solvents or long run times and avoids prior sample preparation.

  14. FTIR Analysis of Alkali Activated Slag and Fly Ash Using Deconvolution Techniques

    NASA Astrophysics Data System (ADS)

    Madavarapu, Sateesh Babu

    The studies on aluminosilicate materials to replace traditional construction materials such as ordinary Portland cement (OPC) to reduce the effects caused has been an important research area for the past decades. Many properties like strength have already been studied and the primary focus is to learn about the reaction mechanism and the effect of the parameters on the formed products. The aim of this research was to explore the structural changes and reaction product analysis of geopolymers (Slag & Fly Ash) using Fourier transform infrared spectroscopy (FTIR) and deconvolution techniques. Spectroscopic techniques give valuable information at a molecular level but not all methods are economic and simple. To understand the mechanisms of alkali activated aluminosilicate materials, attenuated total reflectance (ATR) FTIR has been used where the effect of the parameters on the reaction products have been analyzed. To analyze complex systems like geopolymers using FTIR, deconvolution techniques help to obtain the properties of a particular peak attributed to a certain molecular vibration. Time and temperature dependent analysis were done on slag pastes to understand the polymerization of reactive silica in the system with time and temperature variance. For time dependent analysis slag has been activated with sodium and potassium silicates using two different `n'values and three different silica modulus [Ms- (SiO2 /M2 O)] values. The temperature dependent analysis was done by curing the samples at 60°C and 80°C. Similarly fly ash has been studied by activating with alkali hydroxides and alkali silicates. Under the same curing conditions the fly ash samples were evaluated to analyze the effects of added silicates for alkali activation. The peak shifts in the FTIR explains the changes in the structural nature of the matrix and can be identified using the deconvolution technique. A strong correlation is found between the concentrations of silicate monomer in the

  15. [FT-IR spectroscopic analysis in monitoring of hydroxyl stretching vibrations in plant hydrogels].

    PubMed

    Pielesz, Anna; Biniaś, Dorota; Wieczorek, Joanna

    2011-01-01

    In recent years, some bioactive hydrogels isolated from natural sources have attracted much attention in the field of biochemistry and pharmacology. This article attempts to review the current structural and conformational characterization of some importantly bioactive hydrogels isolated from following plant: Symphytum officinale, Thymus pulegioides, Trigonella foenum-graecum L., Tussilago farfara L., Hyssopus officinalis, Althaea officinalis L., Equisetum arvense L. Linum usitatissimum L. and Fucus vesiculosus L. Hydrogels are cross-linked three-dimensional polysaccharide macromolecular networks that contain a large fraction of water within their structure. FT-IR spectroscopic analysis showed a strong band at 3500-3100 cm(-1) attributed to hydroxyl (the intermolecular and the intramolecular hydrogen bonds) stretching vibrations changes.

  16. [FT-IR spectroscopic analysis in monitoring of hydroxyl stretching vibrations in plant hydrogels].

    PubMed

    Pielesz, Anna; Biniaś, Dorota; Wieczorek, Joanna

    2011-01-01

    In recent years, some bioactive hydrogels isolated from natural sources have attracted much attention in the field of biochemistry and pharmacology. This article attempts to review the current structural and conformational characterization of some importantly bioactive hydrogels isolated from following plant: Symphytum officinale, Thymus pulegioides, Trigonella foenum-graecum L., Tussilago farfara L., Hyssopus officinalis, Althaea officinalis L., Equisetum arvense L. Linum usitatissimum L. and Fucus vesiculosus L. Hydrogels are cross-linked three-dimensional polysaccharide macromolecular networks that contain a large fraction of water within their structure. FT-IR spectroscopic analysis showed a strong band at 3500-3100 cm(-1) attributed to hydroxyl (the intermolecular and the intramolecular hydrogen bonds) stretching vibrations changes. PMID:22332324

  17. Hybrid matrix fiber composites

    DOEpatents

    Deteresa, Steven J.; Lyon, Richard E.; Groves, Scott E.

    2003-07-15

    Hybrid matrix fiber composites having enhanced compressive performance as well as enhanced stiffness, toughness and durability suitable for compression-critical applications. The methods for producing the fiber composites using matrix hybridization. The hybrid matrix fiber composites include two chemically or physically bonded matrix materials, whereas the first matrix materials are used to impregnate multi-filament fibers formed into ribbons and the second matrix material is placed around and between the fiber ribbons that are impregnated with the first matrix material and both matrix materials are cured and solidified.

  18. Isolation of calcium-phosphate crystals of bone by non-aqueous methods at low temperature.

    PubMed

    Kim, H M; Rey, C; Glimcher, M J

    1995-10-01

    We have developed low temperature nonaqueous solution methods as well as low power plasma ashing for the degradation of the organic matrix of bone power which have permitted us to obtain bone crystals essentially free of organic matrix constituents without any significant change in their composition, overall structure, or internal short-range order. We have also been able to disperse the crystals, which has made it possible to examine the isolated crystals by X-ray diffraction and resolution-enhanced Fourier transform infrared (FTIR) spectroscopy and isolated single crystals by high resolution transmission electron microscopy (TEM) and electron diffraction. TEM of isolated single crystals of fish, chicken, mouse and bovine bone have clearly demonstrated that the crystals are very thin plates. No rod or needle-like crystals were observed in any of the bone samples in the four species studied including the earliest crystals deposited. Although there were variations in the size distribution of the crystals in the different species studied, in general the average crystal dimensions were very similar.

  19. Historical perspective and modern applications of Attenuated Total Reflectance-Fourier Transform Infrared Spectroscopy (ATR-FTIR).

    PubMed

    Blum, Marc-Michael; John, Harald

    2012-01-01

    Vibrational spectroscopy has a long history as an important spectroscopic method in chemical and pharmaceutical analysis. Instrumentation for infrared (IR) spectroscopy was revolutionized by the introduction of Fourier Transform Infrared (FTIR) spectrometers. In addition, easier sampling combined with better sample-to-sample reproducibility and user-to-user spectral variation became available with attenuated total reflectance (ATR) probes and their application for in situ IR spectroscopy. These innovations allow many new applications in chemical and pharmaceutical analysis, such as the use of IR spectroscopy in Process Analytical Chemistry (PAC), the quantitation of drugs in complex matrix formulations, the analysis of protein binding and function and in combination with IR microscopy to the emergence of IR imaging technologies. The use of ATR-FTIR instruments in forensics and first response to 'white powder' incidents is also discussed. A short overview is given in this perspective article with the aim to renew and intensify interest in IR spectroscopy.

  20. Polarized ATR-FTIR spectroscopy of the membrane-embedded domains of the particulate methane monooxygenase.

    PubMed

    Vinchurkar, Madhuri S; Chen, Kelvin H-C; Yu, Steve S-F; Kuo, Shan-Jen; Chiu, Hui-Chi; Chien, Shu-Hua; Chan, Sunney I

    2004-10-26

    The particulate methane monooxygenase (pMMO) of Methylococcus capsulatus (Bath) is an integral membrane protein that catalyzes the conversion of methane to methanol. To gain some insight into the structure-reactivity pattern of this protein, we have applied attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy to investigate the secondary structure of the pMMO. The results showed that ca. 60% of the amino acid residues were structured as alpha-helices. About 80% of the peptide residues were estimated to be protected from the amide (1)H/(2)H exchange during a 21 h exposure to (2)H(2)O. In addition, a significant portion of the protein was shown to be sequestered within the bilayer membrane, protected from trypsin proteolysis. The ATR-FTIR difference spectrum between the intact and the proteolyzed pMMO-enriched membranes revealed absorption peaks only in the spectral regions characteristic for unordered and beta-structures. These observations were corroborated by amino acid sequence analysis of the pMMO subunits using the program TransMembrane topology with a Hidden Markov Model: 15 putative transmembrane alpha-helices were predicted. Finally, an attempt was also made to model the three-dimensional folding of the protein subunits from the sequence using the Protein Fold Recognition Server based on the 3D Position Specific Scoring Matrix Method. The C-terminal solvent-exposed sequence (N255-M414) of the pMMO 45 kDa subunit was shown to match the beta-sheet structure of the multidomain cupredoxins. We conclude on the basis of this ATR-FTIR study that pMMO is an alpha-helical bundle with ca. 15 transmembrane alpha-helices embedded in the bilayer membrane, together with a water-exposed domain comprised mostly of beta-sheet structures similar to the cupredoxins.

  1. Biofunctionalized magnetic nanoparticle integrated mid-infrared pathogen sensor for food matrixes.

    PubMed

    Ravindranath, Sandeep P; Mauer, Lisa J; Deb-Roy, Chitrita; Irudayaraj, Joseph

    2009-04-15

    Magnetic nanoparticles functionalized with anti-Escherichia coli O157:H7 or anti-Salmonella typhimurium antibodies that can specifically bind to their target organisms were used to isolate E. coli O157:H7 and S. typhimurium separately from a cocktail of bacteria and from food matrixes. The pathogens were then detected using label-free IR fingerprinting. The binding and detection protocol was first validated using a benchtop FT-IR spectrometer and then applied to a portable mid-IR spectrometer to enable this approach as a point-of-detection technology. Highly selective detection was achieved in less than 30 min at both species (E. coli O157:H7 vs S. typhimurium ) and strain (E. coli O157:H7 vs E. coli K12) levels in complex food matrixes (2% milk, spinach extract) with a detection limit of 10(4)-10(5) CFU/mL. The combined approach of functionalized magnetic nanoparticles and IR spectroscopy imparts specificity through spectroscopic fingerprinting and selectivity through species-specific antibodies with an in-built sample extraction step and could be applied in the field for on-site food-borne pathogen monitoring.

  2. BASIC Matrix Operations.

    ERIC Educational Resources Information Center

    Digital Equipment Corp., Maynard, MA.

    The curriculum materials and computer programs in this booklet introduce the idea of a matrix. They go on to discuss matrix operations of addition, subtraction, multiplication by a scalar, and matrix multiplication. The last section covers several contemporary applications of matrix multiplication, including problems of communication…

  3. FTIR spectro-imaging of collagen scaffold formation during glioma tumor development.

    PubMed

    Noreen, Razia; Chien, Chia-Chi; Chen, Hsiang-Hsin; Bobroff, Vladimir; Moenner, Michel; Javerzat, Sophie; Hwu, Yeukuang; Petibois, Cyril

    2013-11-01

    Evidence has recently emerged that solid and diffuse tumors produce a specific extracellular matrix (ECM) for division and diffusion, also developing a specific interface with microvasculature. This ECM is mainly composed of collagens and their scaffolding appears to drive tumor growth. Although collagens are not easily analyzable by UV-fluorescence means, FTIR imaging has appeared as a valuable tool to characterize collagen contents in tissues, specially the brain, where ECM is normally devoid of collagen proteins. Here, we used FTIR imaging to characterize collagen content changes in growing glioma tumors. We could determine that C6-derived solid tumors presented high content of triple helix after 8-11 days of growth (typical of collagen fibrils formation; 8/8 tumor samples; 91 % of total variance), and further turned to larger α-helix (days 12-15; 9/10 of tumors; 94 % of variance) and β-turns (day 18-21; 7/8 tumors; 97 % of variance) contents, which suggest the incorporation of non-fibrillar collagen types in ECM, a sign of more and more organized collagen scaffold along tumor progression. The growth of tumors was also associated to the level of collagen produced (P < 0.05). This study thus confirms that collagen scaffolding is a major event accompanying the angiogenic shift and faster tumor growth in solid glioma phenotypes. PMID:24068168

  4. Are isolated wetlands isolated?

    USGS Publications Warehouse

    Smith, Loren M.; Euliss, Ned H.; Haukos, David A.

    2011-01-01

    While federal regulations during the past 10 years have treated isolated wetlands as unconnected to aquatic resources protected by the Clean Water Act, they provide critical ecosystem services to society that extend well beyond their wetland boundaries. The authors offer well-documented examples from the scientific literature on some of the ecosystem services provided by isolated wetlands to society and other ecosystems.

  5. Orientation of the nanocrystallites in AlN thin film determined by FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Antonova, K.; Szekeres, A.; Duta, L.; Stan, GE; Mihailescu, N.; Mihailescu, IN

    2016-02-01

    Aluminum Nitride (AlN) films were deposited at 450°C in nitrogen ambient at a pressure of 0.1 Pa and at a laser incident fluence of ∼3 J/cm2 and pulse repetition rate of 40 Hz. Grazing Incidence X-ray Diffraction patterns evidenced the presence of nanocrystallites in the amorphous AlN matrix. In the FTIR spectra the characteristic Reststrahlen band of AlN crystal with a hexagonal lattice is observed but it is quite broadened (950-550 cm-1). The angular dependence of the reflectance spectra in p-polarised incidence radiation demonstrates the sensitivity of the A1LO phonon mode of the AlN nanocrystallites to their orientation toward the normal to the substrate surface. With decrease of the incidence beam angle the intensity of the A1LO phonon mode diminishes and softening of the resonance frequency occurs.

  6. Extractive FTIR technology - applications in combustion source measurements

    SciTech Connect

    LaCosse, J.P.; Shareef, G.S.; McCarthy, J.M.

    1996-12-31

    In response to the 1990 Clean Air Act requirements, the Gas Research Institute (GRI) is investigating emissions from industry equipment including glycol dehydrators, internal combustion caginess boilers, beaten, and incinerators. To characterize emissions from internal combustion engines reliably and accurately, GRI developed and validated a method based on extractive Fourier Transform Infrared (FM) technology. This paper will describe the FTIR test protocol approved by U.S. Environmental Protection Agency (EPA), including a brief discussion on external combustion source FTIR measurement experience. In addition, the approach used in reference spectra development and die associated challenges will be described. 3 refs., 3 figs., 2 tabs.

  7. The quantitative analysis of OH in vesuvianite: a polarized FTIR and SIMS study

    NASA Astrophysics Data System (ADS)

    Bellatreccia, Fabio; della Ventura, Giancarlo; Ottolini, Luisa; Libowitzky, Eugen; Beran, Anton

    2005-05-01

    A well-characterized suite of vesuvianite samples from the volcanic ejecta (skarn or syenites) from Latium (Italy) was studied by single-crystal, polarized radiation, Fourier-transform infrared (FTIR) spectroscopy and secondary-ion mass-spectrometry (SIMS). OH-stretching FTIR spectra consist of a rather well-defined triplet of broad bands at higher-frequency (3,700 3,300 cm-1) and a very broad composite absorption below 3,300 cm-1. Measurements with E//c or E⊥c show that all bands are strongly polarized with maximum absorption for E//c. They are in agreement with previous band assignments (Groat et al. Can Mineral 33:609, 1995) to the two O(11) H(1) and O(10) H(2) groups in the structure. Pleochroic measurements with changing direction of the E vector of the incident radiation show that the orientation of the O(11) H(1) dipole is OH∧c~35°, in excellent agreement with the neutron data of Lager et al. (Can Mineral 37:763, 1999). A SIMS-based calibration curve at ~10% rel. accuracy has been worked out and used as reference for the quantitative analysis of H2O in vesuvianite by FTIR. Based on previous SIMS results for silicate minerals (Ottolini and Hawthorne in J Anal At Spectrom 16:1266, 2001; Ottolini et al. in Am Mineral 87:1477, 2002) the SiO2 and FeO content of the matrix were assumed as the major factors to be considered at a first approximation in the selection of the standards for H. The lack of vesuvianite standards for quantitative SIMS analysis of H2O has been here overcome by selecting low-silica elbaite crystals (Ottolini et al. in Am Mineral 87:1477, 2002). The resulting integrated molar absorption FTIR coefficient for vesuvianite is ɛi=100.000±2.000 l mol-1 cm-2. SIMS data for Li, B, F, Sr, Y, Be, Ba REE, U and Th are also provided in the paper.

  8. A matrix lower bound

    SciTech Connect

    Grcar, Joseph F.

    2002-02-04

    A matrix lower bound is defined that generalizes ideas apparently due to S. Banach and J. von Neumann. The matrix lower bound has a natural interpretation in functional analysis, and it satisfies many of the properties that von Neumann stated for it in a restricted case. Applications for the matrix lower bound are demonstrated in several areas. In linear algebra, the matrix lower bound of a full rank matrix equals the distance to the set of rank-deficient matrices. In numerical analysis, the ratio of the matrix norm to the matrix lower bound is a condition number for all consistent systems of linear equations. In optimization theory, the matrix lower bound suggests an identity for a class of min-max problems. In real analysis, a recursive construction that depends on the matrix lower bound shows that the level sets of continuously differential functions lie asymptotically near those of their tangents.

  9. FT-IR spectroscopy characterization of schwannoma: a case study

    NASA Astrophysics Data System (ADS)

    Ferreira, Isabelle; Neto, Lazaro P. M.; das Chagas, Maurilio José; Carvalho, Luís. Felipe C. S.; dos Santos, Laurita; Ribas, Marcelo; Loddi, Vinicius; Martin, Airton A.

    2016-03-01

    Schwannoma are rare benign neural neoplasia. The clinical diagnosis could be improved if novel optical techniques are performed. Among these techniques, FT-IR is one of the currently techniques which has been applied for samples discrimination using biochemical information with minimum sample preparation. In this work, we report a case of a schwannoma in the cervical region. A histological examination described a benign process. An immunohistochemically examination demonstrated positivity to anti-S100 protein antibody, indicating a diagnosis of schwannoma. The aim of this analysis was to characterize FT-IR spectrum of the neoplastic and normal tissue in the fingerprint (1000-1800 cm-1) and high wavenumber region (2800-3600 cm-1). The IR spectra were collect from tumor tissue and normal nerve samples by a FT-IR spectrophotometer (Spotlight Perkin Elmer 400, USA) with 64 scans, and resolution of 4 cm-1. A total of twenty spectra were recorded (10 from schwannoma and 10 from nerve). Multivariate Analysis was used to classify the data. Through average and standard deviation analysis we observed that the main spectral change occurs at ≍1600 cm-1 (amide I) and ≍1400 cm-1 (amide III) in the fingerprint region, and in CH2/CH3 protein-lipids and OH-water vibrations for the high wavenumber region. In conclusion, FT-IR could be used as a technique for schwannoma analysis helping to establish specific diagnostic.

  10. FTIR Laboratory in Support of the PV Program

    SciTech Connect

    Keyes, B. M.; Gedvilas, L. M.; Bhattacharya, R.; Xu, Y.; Li, X.; Wang, Q.

    2005-01-01

    The Fourier Transform Infrared Spectroscopy (FTIR) Laboratory supports the Solar Energy Technologies Program through the measurement and characterization of solar energy-related materials and devices. The FTIR technique is a fast, accurate, and reliable method for studying molecular structure and composition. This ability to identify atomic species and their bonding environment is a powerful combination that finds use in many research and development efforts. A brief overview of the technical approach used is contained in Section 2 of this report. Because of its versatility and accessibility, the FTIR Laboratory is a valuable contributor to the Solar Energy Technologies Program. The laboratory provides support for, and collaborates with, several in-house programs as well as our industry and university partners. By the end of FY 2004, the FTIR Laboratory performed over 1100 measurements on PV-related materials. These contributions resulted in conference and workshop presentations and several peer-reviewed publications. A brief summary of a few of these efforts is contained in Section 3 of this report.

  11. Far infrared Spectroscopy with FTIR Beam Line of MIRRORCLE 20

    SciTech Connect

    Miura, Nobuhiro; Moon, Ahsa; Nishikawa, Kishi; Kitagawa, Toshimichi; Hiraiwa, Nobuhiko; Yamada, Hironari

    2007-01-19

    A beam line for far infrared spectroscopy using Fourier Transform Infrared Spectrometer (FTIR) has been developed as a facility of tabletop synchrotron MIRRORCLE 20 in Ritsumeikan University and has been utilized to study liquid structure through analysis of intermolecular vibration in aqueous solutions. We report recent developments in the system and the examples of measured spectra.

  12. Measurement uncertainty of lactase-containing tablets analyzed with FTIR.

    PubMed

    Paakkunainen, Maaret; Kohonen, Jarno; Reinikainen, Satu-Pia

    2014-01-01

    Uncertainty is one of the most critical aspects in determination of measurement reliability. In order to ensure accurate measurements, results need to be traceable and uncertainty measurable. In this study, homogeneity of FTIR samples is determined with a combination of variographic and multivariate approach. An approach for estimation of uncertainty within individual sample, as well as, within repeated samples is introduced. FTIR samples containing two commercial pharmaceutical lactase products (LactaNON and Lactrase) are applied as an example of the procedure. The results showed that the approach is suitable for the purpose. The sample pellets were quite homogeneous, since the total uncertainty of each pellet varied between 1.5% and 2.5%. The heterogeneity within a tablet strip was found to be dominant, as 15-20 tablets has to be analyzed in order to achieve <5.0% expanded uncertainty level. Uncertainty arising from the FTIR instrument was <1.0%. The uncertainty estimates are computed directly from FTIR spectra without any concentration information of the analyte.

  13. Low-cost OP-FTIR spectrometer for workplace monitoring

    NASA Astrophysics Data System (ADS)

    Rentz, Julia H.; Engel, James R.; Carlson, David L.; Mansur, David J.; Vaillancourt, Robert M.; Genetti, George J.; Griffiths, Peter R.; Yang, Husheng

    2004-03-01

    OPTRA has developed a low-cost, extremely compact, rugged open-path Fourier transform infrared (OP-FTIR) spectrometer for workplace air quality monitoring. This research was funded under a United States Air Force ABIR Phase II contract. The goal of the program has been to identify and alleviate all aspects of currently available OP-FTIR systems which result in high-cost and complex user requirements. This low-resolution ssytem (Δσ = 8 cm-1) employs an uncooled DLATGS detector and a novel encoder-based reference metrology. Other design economies include a plastic injection-molded retroreflector array to return the open-path beam. This effort has included the development of a set of algorithms based on artificial neural networks (ANNs) and partial least squares (PLS) by the University of Idaho; these algorithms are specifically tailored to low-resolution systems applied to multi-component analysis of large, organic molecules characterized by broad infrared resonance bands. The algorithms, coupled with our OP-FTIR, are designed to autonomously identify and quantify a list of 105 common industrial organic molecules in the presence of varying humidity levels. Our system includes two PCI boards which host all OP-FTIR processing and servo electronics; the boards reside in a small suit-case PC along with a user-friendly Graphical User Interface.

  14. [Effects of pulsed electric fields and heat treatments on SPI structure analyzed by FTIR].

    PubMed

    Liu, Yan-yan; Zeng, Xin-an; Chen, Xiao-dong

    2010-09-01

    The effects of pulsed electric field (PEF) under 50 kV x cm(-1) as well as heat treatments on the secondary structure of soy protein isolate (SPI) were investigated by Fourier transform infrared (FTIR) method in the present paper. A set of self-designed and made PEF equipment was used. It was demonstrated from the FTIR spectra that the PEF treatment under 50 kV x cm(-1) had induced the increase in hydrogen bonds amidst in the intermolecule and intramolecule of SPI, and the increase in C--O--O bonds stretch vibration and the P==O or P--O--C stretch vibration, which is positive relative to the increase in the time of PEF treatment. It was shown that after PEF treatment, the ratio of alpha-helix and beta-sheet structure in SPI was decreased by 5.9% and 0.7%, respectively. On the other hand, the ratio of beta-turn and side chain vibration structure was obviously increased by 7.5% and 9.6% at the treatment time of 1600 ps, respectively. Comparatively the effect of heat treatments with 90 degrees C for 30 min on the C--O--O bonds stretch vibration and the P==O or P--O--C stretch vibration is more evident, but the effect of which on the secondary structure of SPI is less. So it is concluded that the effect mechanism of PEF and HT on SPI structure is significantly different.

  15. Application of Fourier Transform Infrared (FTIR) Spectroscopy for Rapid Detection of Fumonisin B2 in Raisins.

    PubMed

    Heperkan, Dilek; Gökmen, Ece

    2016-07-01

    The aim of this study was to investigate the potential use of FTIR spectroscopy as a rapid screening method to detect fumonisin produced by Aspergillus niger. A. niger spore suspensions isolated from raisins were inoculated in Petri dishes prepared with sultana raisin or black raisin extracts containing agar and malt extract agar (MEA). After 9 days of incubation at 25°C, fumonisin B2 (FB2) production on each agar plate was determined by subjecting the agar plugs to IR spectroscopy. The presence of amino group (at 1636-1639 cm(-1)) was especially indicative of fumonisin production in MEA and the raisin extracts containing agar. The results were confirmed by HPLC analysis of the agar sample extracts after immunoaffinity column cleanup. It was determined that A. niger produced more FB2 in sultana raisins than in MEA, with no FB2 being produced in black raisin extract agar. This study demonstrated that proper sample preparation procedure followed by FTIR analysis is a useful technique for identifying toxigenic molds and their mycotoxin production in agricultural commodities. PMID:27455931

  16. Prion structure investigated in situ, ex vivo, and in vitro by FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Kneipp, Janina; Miller, Lisa M.; Spassov, Sashko; Sokolowski, Fabian; Lasch, Peter; Beekes, Michael; Naumann, Dieter

    2004-07-01

    Syrian hamster nervous tissue was investigated by FTIR microspectroscopy with conventional and synchrotron infrared light sources. Various tissue structures from the cerebellum and medulla oblongata of scrapie-infected and control hamsters were investigated at a spatial resolution of 50 μm. Single neurons in dorsal root ganglia of scrapie-infected hamsters were analyzed by raster scan mapping at 6 μm spatial resolution. These measurements enabled us to (i) scrutinize structural differences between infected and non-infected tissue and (ii) analyze for the first time the distribution of different protein structures in situ within single nerve cells. Single nerve cells exhibited areas of increased β-sheet content, which co-localized consistently with accumulations of the pathological prion protein (PrPSc). Spectral data were also obtained from purified, partly proteinase K digested PrPSc isolated from scrapie-infected nervous tissue of hamsters to elucidate similarities/dissimilarities between prion structure in situ and ex vivo. A further comparison is drawn to the recombinant Syrian hamster prion protein SHaPrP90-232, whose in vitro transition from the predominantly a-helical isoform to β-sheet rich oligomeric structures was also investigated by FTIR spectroscopy.

  17. Study of Kerogen Maturity using Transmission Fourier Transform Infrared Spectroscopy (FTIR)

    NASA Astrophysics Data System (ADS)

    Dang, S. T.

    2014-12-01

    Maturity of kerogen in shale governs the productivity and generation hydrocarbon type. There are generally two accepted methods to measure kerogen maturity; one is the measurement of vitrinite reflectance, %Ro, and another is the measurement of Tmax through pyrolysis. However, each of these techniques has its own limits; vitrinite reflectance measurement cannot be applied to marine shale and pre-Silurian shales, which lack plant materials. Furthermore, %Ro, requires the isolation and identification of vitrinite macerals and statistical measurements of at least 50 macerals. Tmax measurement is questionable for mature and post-mature samples. In addition, there are questions involving the effects of solvents on Tmax determinations. Fourier Transmission Infrared Spectroscopy, FTIR, can be applied for both qualitative and quantitative assessment on organics maturity in shale. The technique does not require separating organic matter or identifying macerals. A CH2/CH3 index, RCH, calculated from FTIR spectra is more objective than other measurements. The index increases with maturity (both natural maturation and synthetic maturation through hydrous and dry pyrolysis). The new maturity index RCH can be calibrated to vitrinite reflectance which allows the definition of the following values for levels of maturity: 1) immature—RCH > 1.6±0.2; 2) oil window-- 1.6±0.2 < RCH > 1.3±0.3; 3) wet gas window--1.3±0.3 < RCH> 1.13±0.05; and 4) dry gas window RCH < 1.13±0.05.

  18. Insufficient Discriminatory Power of Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry Dendrograms to Determine the Clonality of Multi-Drug-Resistant Acinetobacter baumannii Isolates from an Intensive Care Unit

    PubMed Central

    Rim, John Hoon; Hong, Sung Kuk; Park, Yongjung; Kim, MyungSook; D'Souza, Roshan; Park, Eun Suk; Yong, Dongeun; Lee, Kyungwon

    2015-01-01

    While pulsed-field gel electrophoresis (PFGE) is recognized as the gold standard method for clonality analysis, MALDI-TOF MS has recently been spotlighted as an alternative tool for species identification. Herein, we compared the dendrograms of multi-drug-resistant (MDR) Acinetobacter baumannii isolates by using MALDI-TOF MS with those by using PFGE. We used direct colony and protein extraction methods for MALDI-TOF MS dendrograms. The isolates with identical PFGE patterns were grouped into different branches in MALDI-TOF MS dendrograms. Among the isolates that were classified as very close isolates in MALDI-TOF MS dendrogram, PFGE band patterns visually showed complete differences. We numeralized similarity among isolates by measuring distance levels. The Spearman rank correlation coefficient values were 0.449 and 0.297 between MALDI-TOF MS dendrogram using direct colony and protein extraction method versus PFGE, respectively. This study is the first paper focusing solely on the dendrogram function of MALDI-TOF MS compared with PFGE. Although MALDI-TOF MS is a promising tool to identify species in a rapid manner, our results showed that MALDI-TOF MS dendrograms could not substitute PFGE for MDR Acinetobacter baumannii clonality analysis. PMID:26101775

  19. Preparation of on-plate immobilized metal ion affinity chromatography platform via dopamine chemistry for highly selective isolation of phosphopeptides with matrix assisted laser desorption/ionization mass spectrometry analysis.

    PubMed

    Shi, Chenyi; Lin, Qinrui; Deng, Chunhui

    2015-04-01

    In this study, a novel on-plate IMAC technique was developed for highly selective enrichment and isolation of phosphopeptides with high-throughput MALDI-TOF-MS analysis. At first, a MALDI plate was coated with polydopamine (PDA), and then Ti(4+) was immobilized on the PDA-coated plate. The obtained IMAC plate was successfully applied to the highly selective enrichment and isolation of phosphopeptides in protein digests and human serum. Because of no loss of samples, the on-plate IMAC platform exhibits excellent selectivity and sensitivity in the selective enrichment and isolation of phosphopeptides, which provides a potential technique for high selectivity in the detection of low-abundance phosphopeptides in biological samples.

  20. Preparation of on-plate immobilized metal ion affinity chromatography platform via dopamine chemistry for highly selective isolation of phosphopeptides with matrix assisted laser desorption/ionization mass spectrometry analysis.

    PubMed

    Shi, Chenyi; Lin, Qinrui; Deng, Chunhui

    2015-04-01

    In this study, a novel on-plate IMAC technique was developed for highly selective enrichment and isolation of phosphopeptides with high-throughput MALDI-TOF-MS analysis. At first, a MALDI plate was coated with polydopamine (PDA), and then Ti(4+) was immobilized on the PDA-coated plate. The obtained IMAC plate was successfully applied to the highly selective enrichment and isolation of phosphopeptides in protein digests and human serum. Because of no loss of samples, the on-plate IMAC platform exhibits excellent selectivity and sensitivity in the selective enrichment and isolation of phosphopeptides, which provides a potential technique for high selectivity in the detection of low-abundance phosphopeptides in biological samples. PMID:25640129

  1. Carbonate fuel cell matrix

    DOEpatents

    Farooque, Mohammad; Yuh, Chao-Yi

    1996-01-01

    A carbonate fuel cell matrix comprising support particles and crack attenuator particles which are made platelet in shape to increase the resistance of the matrix to through cracking. Also disclosed is a matrix having porous crack attenuator particles and a matrix whose crack attenuator particles have a thermal coefficient of expansion which is significantly different from that of the support particles, and a method of making platelet-shaped crack attenuator particles.

  2. Carbonate fuel cell matrix

    DOEpatents

    Farooque, M.; Yuh, C.Y.

    1996-12-03

    A carbonate fuel cell matrix is described comprising support particles and crack attenuator particles which are made platelet in shape to increase the resistance of the matrix to through cracking. Also disclosed is a matrix having porous crack attenuator particles and a matrix whose crack attenuator particles have a thermal coefficient of expansion which is significantly different from that of the support particles, and a method of making platelet-shaped crack attenuator particles. 8 figs.

  3. Matrix differentiation formulas

    NASA Technical Reports Server (NTRS)

    Usikov, D. A.; Tkhabisimov, D. K.

    1983-01-01

    A compact differentiation technique (without using indexes) is developed for scalar functions that depend on complex matrix arguments which are combined by operations of complex conjugation, transposition, addition, multiplication, matrix inversion and taking the direct product. The differentiation apparatus is developed in order to simplify the solution of extremum problems of scalar functions of matrix arguments.

  4. Matrix with Prescribed Eigenvectors

    ERIC Educational Resources Information Center

    Ahmad, Faiz

    2011-01-01

    It is a routine matter for undergraduates to find eigenvalues and eigenvectors of a given matrix. But the converse problem of finding a matrix with prescribed eigenvalues and eigenvectors is rarely discussed in elementary texts on linear algebra. This problem is related to the "spectral" decomposition of a matrix and has important technical…

  5. FT-IR study of the Chara corallina cell wall under deformation.

    PubMed

    Toole, Geraldine A; Kacuráková, Marta; Smith, Andrew C; Waldron, Keith W; Wilson, Reginald H

    2004-02-25

    Fourier-transform infrared (FT-IR) microspectroscopy was used to investigate both the chemical composition of, and the effects of an applied strain on, the structure of the Chara corallina cell wall. The inner layers of the cell wall are known to have a transverse cellulose orientation with a gradient through the thickness to longitudinal orientation in the older layers. In both the native state and following the removal of various biopolymers by a sequential extraction infrared dichroism was used to examine the orientation of different biopolymers in cell-wall samples subjected to longitudinal strain. In the Chara system, cellulose microfibrils were found to be aligned predominantly transverse to the long axis of the cell and became orientated increasingly transversely as longitudinal strain increased. Simultaneously, the pectic polysaccharide matrix underwent molecular orientation parallel to the direction of strain. Following extraction in CDTA, microfibrils were orientated transversely to the strain direction, and again the degree of transverse orientation increased with increasing strain. However, the pectic polysaccharides of the matrix were not detected in the dichroic difference spectra. After a full sequential extraction, the cellulose microfibrils, now with greatly reduced crystallinity, were detected in a longitudinal direction and they became orientated increasingly parallel to the direction of strain as it increased.

  6. Influence of DMPS on the water retention capacity of electroporated stratum corneum: ATR-FTIR study.

    PubMed

    Sckolnick, Maria; Hui, Sek-Wen; Sen, Arindam

    2008-02-28

    Anionic lipids like phosphatidylserine are known to significantly enhance electroporation mediated transepidermal transport of polar solutes of molecular weights up to 10kDa. The underlying mechanism of the effect of anionic lipids on transdermal transport is not fully understood. The main barrier to transdermal transport lies within the intercellular lipid matrix (ILM) of the stratum corneum (SC) and our previous studies indicate that dimyristoyl phosphatidylserine (DMPS) can perturb the packing of this lipid matrix. Here we report on our investigation on water retention in the SC following electroporation in the presence and the absence of DMPS. The water content in the outer most layers of the SC of full thickness porcine skin was determined using ATR-FTIR-spectroscopy. The results show that in the presence of DMPS, the SC remains in a state of enhanced hydration for longer periods after electroporation. This increase in water retention in the SC by DMPS is likely to play an important role in trans-epidermal transport, since improved hydration of the skin barrier can be expected to increase the partitioning of polar solutes and possibly the permeability.

  7. Ubiquitination of specific mitochondrial matrix proteins.

    PubMed

    Lehmann, Gilad; Ziv, Tamar; Braten, Ori; Admon, Arie; Udasin, Ronald G; Ciechanover, Aaron

    2016-06-17

    Several protein quality control systems in bacteria and/or mitochondrial matrix from lower eukaryotes are absent in higher eukaryotes. These are transfer-messenger RNA (tmRNA), The N-end rule ATP-dependent protease ClpAP, and two more ATP-dependent proteases, HslUV and ClpXP (in yeast). The lost proteases resemble the 26S proteasome and the role of tmRNA and the N-end rule in eukaryotic cytosol is performed by the ubiquitin proteasome system (UPS). Therefore, we hypothesized that the UPS might have substituted these systems - at least partially - in the mitochondrial matrix of higher eukaryotes. Using three independent experimental approaches, we demonstrated the presence of ubiquitinated proteins in the matrix of isolated yeast mitochondria. First, we show that isolated mitochondria contain ubiquitin (Ub) conjugates, which remained intact after trypsin digestion. Second, we demonstrate that the mitochondrial soluble fraction contains Ub-conjugates, several of which were identified by mass spectrometry and are localized to the matrix. Third, using immunoaffinity enrichment by specific antibodies recognizing digested ubiquitinated peptides, we identified a group of Ub-modified matrix proteins. The modification was further substantiated by separation on SDS-PAGE and immunoblots. Last, we attempted to identify the ubiquitin ligase(s) involved, and identified Dma1p as a trypsin-resistant protein in our mitochondrial preparations. Taken together, these data suggest a yet undefined role for the UPS in regulation of the mitochondrial matrix proteins. PMID:27157140

  8. Ubiquitination of specific mitochondrial matrix proteins.

    PubMed

    Lehmann, Gilad; Ziv, Tamar; Braten, Ori; Admon, Arie; Udasin, Ronald G; Ciechanover, Aaron

    2016-06-17

    Several protein quality control systems in bacteria and/or mitochondrial matrix from lower eukaryotes are absent in higher eukaryotes. These are transfer-messenger RNA (tmRNA), The N-end rule ATP-dependent protease ClpAP, and two more ATP-dependent proteases, HslUV and ClpXP (in yeast). The lost proteases resemble the 26S proteasome and the role of tmRNA and the N-end rule in eukaryotic cytosol is performed by the ubiquitin proteasome system (UPS). Therefore, we hypothesized that the UPS might have substituted these systems - at least partially - in the mitochondrial matrix of higher eukaryotes. Using three independent experimental approaches, we demonstrated the presence of ubiquitinated proteins in the matrix of isolated yeast mitochondria. First, we show that isolated mitochondria contain ubiquitin (Ub) conjugates, which remained intact after trypsin digestion. Second, we demonstrate that the mitochondrial soluble fraction contains Ub-conjugates, several of which were identified by mass spectrometry and are localized to the matrix. Third, using immunoaffinity enrichment by specific antibodies recognizing digested ubiquitinated peptides, we identified a group of Ub-modified matrix proteins. The modification was further substantiated by separation on SDS-PAGE and immunoblots. Last, we attempted to identify the ubiquitin ligase(s) involved, and identified Dma1p as a trypsin-resistant protein in our mitochondrial preparations. Taken together, these data suggest a yet undefined role for the UPS in regulation of the mitochondrial matrix proteins.

  9. FT-IR spectroscopy of lipoproteins—A comparative study

    NASA Astrophysics Data System (ADS)

    Krilov, Dubravka; Balarin, Maja; Kosović, Marin; Gamulin, Ozren; Brnjas-Kraljević, Jasminka

    2009-08-01

    FT-IR spectra, in the frequency region 4000-600 cm -1, of four major lipoprotein classes: very low density lipoprotein (VLDL), low density lipoprotein (LDL) and two subclasses of high density lipoproteins (HDL 2 and HDL 3) were analyzed to obtain their detailed spectral characterization. Information about the protein domain of particle was obtained from the analysis of amide I band. The procedure of decomposition and curve fitting of this band confirms the data already known about the secondary structure of two different apolipoproteins: apo A-I in HDL 2 and HDL 3 and apo B-100 in LDL and VLDL. For information about the lipid composition and packing of the particular lipoprotein the well expressed lipid bands in the spectra were analyzed. Characterization of spectral details in the FT-IR spectrum of natural lipoprotein is necessary to study the influence of external compounds on its structure.

  10. Comparative studies on cervical and colonic malignancies using FTIR microspectroscopy

    NASA Astrophysics Data System (ADS)

    Mordechai, Shaul; Mark, Shlomo; Podshyvalov, A.; Kantarovich, Keren; Bernshtain, Y.; Salman, Ahmad; Erukhimovitch, Vitaly; Guterman, Hugo; Goldstein, Jed; Argov, Shmuel; Jagannathan, R.

    2003-07-01

    IR spectroscopy provides a new diagnostic tool due to its sensitivity to molecular composition and structure in cells, which accompany transformation from healthy to diseased state. The IR spectrum of a sample is, therefore, a biochemical fingerprint. It has been found that the most significant changes occur in the mid-IR spectral range 3-25 mm. Encouraging results have been reported in the literature on various types of cancers, such as human breast, lung, colon, cervical, and leukemia using FT-IR microspectroscopy. Much progress has also been made by several groups on IR spectral maps and IR imaging with good agreement between the data and the histopathological information. In an attempt to characterize healthy and diseased tissues, infrared microspectroscopy of cervical and colon human tissues was studied using an infrared microscopy. The comparative qualitative and quantitative changes detected using FTIR microspectroscopy are discussed.

  11. Synchrotron-based FTIR spectromicroscopy: Cytotoxicity and heating considerations

    SciTech Connect

    Holman, Hoi-Ying N.; Martin, Michael C.; McKinney, Wayne R.

    2002-12-13

    Synchrotron radiation-based Fourier transform infrared (SR-FTIR) spectromicroscopy is a newly emerging bioanalytical and imaging tool. This unique technique provides mid-infrared (IR) spectra, hence chemical information, with high signal-to-noise at spatial resolutions as fine as 3 to 10 microns. Thus it enables researchers to locate, identify, and track specific chemical events within an individual living mammalian cell. Mid-IR photons are too low in energy (0.05 - 0.5 eV) to either break bonds or to cause ionization. In this review, we show that the synchrotron IR beam has no detectable effects on the short- and long-term viability, reproductive integrity, cell-cycle progression, and mitochondrial metabolism in living human cells, and produces only minimal sample heating (< 0.5 degrees C). These studies have established an important foundation for SR-FTIR spectromicroscopy in biological and biomedical research.

  12. Site-directed isotope labelling and FTIR spectroscopy of bacteriorhodopsin.

    PubMed

    Sonar, S; Lee, C P; Coleman, M; Patel, N; Liu, X; Marti, T; Khorana, H G; RajBhandary, U L; Rothschild, K J

    1994-08-01

    Insight into integral membrane proteins function is presently limited by the difficulty of producing three-dimensional crystals. In addition, X-ray structures of proteins normally do not provide information about the protonation state and structural changes of individual residues. We report here the first use of site-directed isotope labelling and Fourier transform infrared (FTIR) difference spectroscopy to detect structural changes at the level of single residues in an integral membrane protein. Two site-directed isotope labeled (SDIL) tyrosine analogues of bacteriorhodopsin were produced which exhibit normal activity. FTIR spectroscopy shows that out of 11 tyrosines, only Tyr 185 is structurally active during the early photocycle and may be part of a proton wire.

  13. Applications of FT-IR spectrophotometry in cancer diagnostics.

    PubMed

    Bunaciu, Andrei A; Hoang, Vu Dang; Aboul-Enein, Hassan Y

    2015-01-01

    This review provides a brief background to the application of infrared spectroscopy, including Fourier transform-infrared spectroscopy, in biological fluids. It is not meant to be complete or exhaustive but to provide the reader with sufficient background for selected applications in cancer diagnostics. Fourier transform-infrared spectroscopy (FT-IR) is a fast and nondestructive analytical method. The infrared spectrum of a mixture serves as the basis to quantitate its constituents, and a number of common clinical chemistry tests have proven to be feasible using this approach. This review focuses on biomedical FT-IR applications, published in the period 2009-2013, used for early detection of cancer through qualitative and quantitative analysis.

  14. FT-IR microscopy imaging on oral cavity tumours, II

    NASA Astrophysics Data System (ADS)

    Conti, C.; Giorgini, E.; Pieramici, T.; Rubini, C.; Tosi, G.

    2005-06-01

    Changes in the biochemistry of oral cavity tissues have been studied by FT-IR microscopy. Various aspects of squamous cell carcinomas of cheek mucosa, of tongue, of gingiva, and of the floor of the mouth have been analyzed through FT-IR imaging with the aim to relate spectral patterns with histopathological results. In particular, changes in frequency and intensity of proteins, connective and nucleic acids vibrational modes as well as the visualization of biochemical single wavenumber or band ratio images allowed a quali- and quantitative evaluation of the changes in the proliferating activity from displastic to neoplastic states. 'Supervised' and 'unsupervised' procedures of data handling afforded a satisfactory degree of accordance between spectroscopic and histological findings.

  15. TATP stand-off detection with open path: FTIR techniques

    NASA Astrophysics Data System (ADS)

    Fischer, C.; Pohl, T.; Weber, K.; Vogel, A.; van Haren, G.; Schweikert, W.

    2012-10-01

    TATP is a very easy to synthesize [9], sensitive, high explosive [10] and high volatile explosive [1, 3, 7] with great absorption in the IR Spectra [4, 5, 6]. In this project we detect TATP gas traces with open path FTIR - techniques. The first project phase was to construct and build a heatable multi-reflection cell with adjustable optical path length and a heatable intake to evaporate solid TATP samples. In this cell reference TATP - spectra were collected under controlled conditions with a Bruker FTIR system (Typ OPAG 33). The next step was to find out how the TATP gas will be diluted in the ambient air and validate some physical properties which are described inconsistently in literature e.g. evaporation rates. We constructed a special double - T shaped chamber with stabile air conditions. In this chamber the dispersion kinetics of the TATP vapour could be tested. It turned out that the TATP vapours has the tendency to drop down. Therefore the highest TATP - concentrations were measured below the TATP sample. During the investigation for this study it turned out, that some materials scrub the TATP- vapour out of the air, e.g. Metals, fabric, leather. In the second phase of the project successful open path FTIR- measurements were taken in ambient air and will be continued with different system configurations of the OPAG 33 to lower the detection limits. Also successful measurements were taken in indoor ambient air with a Hyper spectral camera (passive FTIR with array sensor) to detect TATP in solid and gaseous phase. This technique allows detecting TATP and identifying the TATP source. The poster shows some selected results of the continued research.

  16. Nanocrystal doped matrixes

    SciTech Connect

    Parce, J. Wallace; Bernatis, Paul; Dubrow, Robert; Freeman, William P.; Gamoras, Joel; Kan, Shihai; Meisel, Andreas; Qian, Baixin; Whiteford, Jeffery A.; Ziebarth, Jonathan

    2010-01-12

    Matrixes doped with semiconductor nanocrystals are provided. In certain embodiments, the semiconductor nanocrystals have a size and composition such that they absorb or emit light at particular wavelengths. The nanocrystals can comprise ligands that allow for mixing with various matrix materials, including polymers, such that a minimal portion of light is scattered by the matrixes. The matrixes of the present invention can also be utilized in refractive index matching applications. In other embodiments, semiconductor nanocrystals are embedded within matrixes to form a nanocrystal density gradient, thereby creating an effective refractive index gradient. The matrixes of the present invention can also be used as filters and antireflective coatings on optical devices and as down-converting layers. Processes for producing matrixes comprising semiconductor nanocrystals are also provided. Nanostructures having high quantum efficiency, small size, and/or a narrow size distribution are also described, as are methods of producing indium phosphide nanostructures and core-shell nanostructures with Group II-VI shells.

  17. Phenotypic Expression in Wheat Revealed Using FT-IR Microspectroscopy

    SciTech Connect

    Brewer, L.; Wetzel, D

    2009-01-01

    Wheat selected for cultivation through the centuries has a glume that is 'soft' instead of 'tough' as naturally occurring. In production, this is desirable because it enables mechanical threshing with efficient separation of kernel from the head of each stalk without damaging the kernel. FT-IR microspectroscopy provides chemically based, objective assessment of genetic expression by measuring the extent of genetic expression. In the Microbeam Molecular Spectroscopy Laboratory, Manhattan, KS, an imaging FT-IR microspectrometer with a detector array focused on the image plane was used to obtain spectral data from dissected glume specimens of nine tough and eleven soft wheat cultivars in a rectangular mapping pattern. With cellulose as the substrate, the extent of lignification is measurable from the ratio of the lignin (1508 cm{sup -1}) baseline adjusted band area to the representative cellulosic (1370 cm{sup -1}) band area. A distinction between soft and tough glumes is obtained in numerical terms. Using a band ratio minimizes variation due to thickness differences. While analyzing mapped sections of glume, care is taken to avoid tabulation of spectral data from vascular bundles. Inclusion of these data would to avoid tabulation of spectral data from vascular bundles. Inclusion of these data would bias the analysis toward the composition of highly lignified vascular bundles. Spatially resolved focal plane array FT-IR microspectroscopy reveals the extent of glume lignification that is coincident with the toughness trait. This enables breeders to rank the degree of lignin expression and discriminate between soft and tough breeding results.

  18. Characterization and identification of microorganisms by FT-IR microspectrometry

    NASA Astrophysics Data System (ADS)

    Ngo-Thi, N. A.; Kirschner, C.; Naumann, D.

    2003-12-01

    We report on a novel FT-IR approach for microbial characterization/identification based on a light microscope coupled to an infrared spectrometer which offers the possibility to acquire IR-spectra of microcolonies containing only few hundred cells. Microcolony samples suitable for FT-IR microspectroscopic measurements were obtained by a replica technique with a stamping device that transfers spatially accurate cells of microcolonies growing on solid culture plates to a special, IR-transparent or reflecting stamping plate. High quality spectra could be recorded either by applying the transmission/absorbance or the reflectance/absorbance mode of the infrared microscope. Signal to noise ratios higher than 1000 were obtained for microcolonies as small as 40 μm in diameter. Reproducibility levels were established that allowed species and strain identification. The differentiation and classification capacity of the FT-IR microscopic technique was tested for different selected microorganisms. Cluster and factor analysis methods were used to evaluate the complex spectral data. Excellent discrimination between bacteria and yeasts, and at the same time Gram-negative and Gram-positive bacterial strains was obtained. Twenty-two selected strains of different species within the genus Staphylococcus were repetitively measured and could be grouped into correct species cluster. Moreover, the results indicated that the method allows also identifications at the subspecies level. Additionally, the new approach allowed spectral mapping analysis of single colonies which provided spatially resolved characterization of growth heterogeneity within complex microbial populations such as colonies.

  19. Collagen types analysis and differentiation by FTIR spectroscopy.

    PubMed

    Belbachir, Karima; Noreen, Razia; Gouspillou, Gilles; Petibois, Cyril

    2009-10-01

    Abnormal formation and organization of collagen network is commonly observed in many organ pathologies, but analytical techniques able to reveal the collagen biodistribution are still lacking. In this study, Fourier-transform infrared (FTIR) spectroscopy has been used to analyze type I, III, IV, V, and VI collagens, the most important compounds of connective tissues. A robust classification of 30 FTIR spectra per collagen type could be obtained by using a combination of four spectral intervals [nu(C=O) absorption of amide I (1,700-1,600 cm(-1)), delta(CH(2)), and delta(CH(3)) absorptions (1,480-1,350 cm(-1)), nu(C-N), and delta(N-H) absorptions of amide III (1,300-1,180 cm(-1)), and nu(C-O) and nu(C-O-C) absorptions of carbohydrate moieties (1,100-1,005 cm(-1))]. Then, a submolecular justification of this classification model was sought using a curve fitting analysis of the four spectral intervals. Results demonstrated that every spectral interval used for the classification contained highly discriminant absorption bands between all collagen types (multivariate analysis of variance, p < 0.01; Dunnett's T3 post hoc test, p < 0.05). All conditions seem thus joined to make FTIR spectroscopy and imaging major tools for implementing innovative methods in the field of molecular histology, which would be very helpful for the diagnosis of a wide range of pathologies.

  20. Study on biodegradation process of lignin by FTIR and DSC.

    PubMed

    Liu, Yang; Hu, Tianjue; Wu, Zhengping; Zeng, Guangming; Huang, Danlian; Shen, Ying; He, Xiaoxiao; Lai, Mingyong; He, Yibin

    2014-12-01

    The biodegradation process of lignin by Penicillium simplicissimum was studied to reveal the lignin biodegradation mechanisms. The biodegradation products of lignin were detected using Fourier transform infrared spectroscopy (FTIR), UV-Vis spectrophotometer, different scanning calorimeter (DSC), and stereoscopic microscope. The analysis of FTIR spectrum showed the cleavage of various ether linkages (1,365 and 1,110 cm(-1)), oxidation, and demethylation (2,847 cm(-1)) by comparing the different peak values in the corresponding curve of each sample. Moreover, the differences (Tm and ΔHm values) between the DSC curves indirectly verified the FTIR analysis of biodegradation process. In addition, the effects of adding hydrogen peroxide (H2O2) to lignin biodegradation process were analyzed, which indicated that H2O2 could accelerate the secretion of the MnP and LiP and improve the enzymes activity. What is more, lignin peroxidase and manganese peroxidase catalyzed the lignin degradation effectively only when H2O2 was presented.

  1. Photoacoustic FTIR spectroscopic study of undisturbed nacre from red abalone

    NASA Astrophysics Data System (ADS)

    Verma, Devendra; Katti, Kalpana; Katti, Dinesh

    2006-07-01

    In this work, photoacoustic Fourier transform infrared (PA-FTIR) spectroscopy has been utilized to study interfacial interactions of undisturbed nacre and nacre powder from red abalone shell. The spectra of both undisturbed nacre and nacre powder showed characteristic bands of aragonite and proteins. Although nacre powder and undisturbed nacre are chemically identical, PA-FTIR spectrum of undisturbed nacre is found to be significantly different from that of nacre powder. A broad and strong band is observed at around 1485 cm -1 in nacre powder. The intensity of this band is notably reduced in undisturbed nacre. This result is explained on the basis of interfacial interactions between aragonite platelets and acidic proteins. It is also observed that band at around 1788 cm -1 originates from three overlapping bands 1797, 1787 and 1778 cm -1. The band at around 1787 cm -1 is assigned to C dbnd O stretching of carboxylate groups of acidic proteins. The other two bands at 1797 and 1778 cm -1, originate from aragonite and have been assigned to combination bands, ν 3 + ν 4a and ν 3 + ν 4b, respectively. For the study of stratification in undisturbed nacre, PA-FTIR spectra have been collected in step scan mode. The variation in spectra with depth can be attributed to changes in conformation of proteins as well as interfacial interactions.

  2. FT-IR Method for the Quantification of Isoflavonol Glycosides in Nutritional Supplements of Soy (Glycine max (L.) MERR.).

    PubMed

    Mulsow, Katharina; Eidenschink, Juliane; Melzig, Matthias F

    2015-01-01

    Due to increasing health consciousness, a lot of food supplements are sold and used. Dietary supplements of Glycine max (L.) MERR. are used as an alternative treatment for menopausal complaints such as hot flashes. Thereby, the effective soy compounds are the isoflavones daidzin, genistin, and glycitin. However, only the total soy extract content of the nutritional supplements is indicated. The aim of this study is to introduce a fast, efficient, and economic Fourier transformation infrared (FT-IR) spectroscopy method to quantify the active ingredients in the complex matrix of soy-based supplements. Five different nutritional supplements of Glycine max (L.) MERR. were purchased from a German pharmacy and were extracted with 80% aqueous methanol. A high-performance liquid chromatography (HPLC) method was used for the separation. The samples were concentrated and measured with infrared spectroscopy. An FT-IR method was established to quantify the active ingredients in the complex matrix of soy-based nutritional supplements. The partial least-squares algorithm was used to develop the method, which enabled the estimation of the content of particular isoflavones (daidzin R(2) = 0.86, glycitin R(2) = 0.94, genistin R(2) = 0.96) and the quantification of the total isoflavone content (R(2) = 0.92) despite peak overlap in the infrared (IR) spectra. The method for the quantification of the isoflavonol glycosides is precise with the standard error of prediction being 13.54%.

  3. Integrable matrix theory: Level statistics

    NASA Astrophysics Data System (ADS)

    Scaramazza, Jasen A.; Shastry, B. Sriram; Yuzbashyan, Emil A.

    2016-09-01

    We study level statistics in ensembles of integrable N ×N matrices linear in a real parameter x . The matrix H (x ) is considered integrable if it has a prescribed number n >1 of linearly independent commuting partners Hi(x ) (integrals of motion) "]Hi(x ) ,Hj(x ) ]">H (x ) ,Hi(x ) =0 , for all x . In a recent work [Phys. Rev. E 93, 052114 (2016), 10.1103/PhysRevE.93.052114], we developed a basis-independent construction of H (x ) for any n from which we derived the probability density function, thereby determining how to choose a typical integrable matrix from the ensemble. Here, we find that typical integrable matrices have Poisson statistics in the N →∞ limit provided n scales at least as logN ; otherwise, they exhibit level repulsion. Exceptions to the Poisson case occur at isolated coupling values x =x0 or when correlations are introduced between typically independent matrix parameters. However, level statistics cross over to Poisson at O (N-0.5) deviations from these exceptions, indicating that non-Poissonian statistics characterize only subsets of measure zero in the parameter space. Furthermore, we present strong numerical evidence that ensembles of integrable matrices are stationary and ergodic with respect to nearest-neighbor level statistics.

  4. Comparative evaluation of two matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) systems, Vitek MS and Microflex LT, for the identification of Gram-positive cocci routinely isolated in clinical microbiology laboratories.

    PubMed

    Lee, Miae; Chung, Hae-Sun; Moon, Hee-Won; Lee, Sun Hwa; Lee, Kyungwon

    2015-06-01

    We evaluated the performance of two MALDI-TOF MS systems for the identification of clinically important Gram-positive cocci. Vitek MS and Microflex LT correctly identified 97.2% and 94.7%, respectively. Both systems offer reliable and rapid identification of clinically important Gram-positive cocci isolated in clinical laboratories, including staphylococci, streptococci, and enterococci. Expanding the databases, especially of coagulase-negative staphylococci and viridans streptococci, would enhance performance.

  5. Fourier Transform Infrared Spectroscopy: Part II. Advantages of FT-IR.

    ERIC Educational Resources Information Center

    Perkins, W. D.

    1987-01-01

    This is Part II in a series on Fourier transform infrared spectroscopy (FT-IR). Described are various advantages of FT-IR spectroscopy including energy advantages, wavenumber accuracy, constant resolution, polarization effects, and stepping at grating changes. (RH)

  6. Biofilm Matrix Proteins

    PubMed Central

    Fong, Jiunn N. C.; Yildiz, Fitnat H.

    2015-01-01

    Proteinaceous components of the biofilm matrix include secreted extracellular proteins, cell surface adhesins and protein subunits of cell appendages such as flagella and pili. Biofilm matrix proteins play diverse roles in biofilm formation and dissolution. They are involved in attaching cells to surfaces, stabilizing the biofilm matrix via interactions with exopolysaccharide and nucleic acid components, developing three-dimensional biofilm architectures, and dissolving biofilm matrix via enzymatic degradation of polysaccharides, proteins, and nucleic acids. In this chapter, we will review functions of matrix proteins in a selected set of microorganisms, studies of the matrix proteomes of Vibrio cholerae and Pseudomonas aeruginosa, and roles of outer membrane vesicles and of nucleoid-binding proteins in biofilm formation. PMID:26104709

  7. Automatic switching matrix

    DOEpatents

    Schlecht, Martin F.; Kassakian, John G.; Caloggero, Anthony J.; Rhodes, Bruce; Otten, David; Rasmussen, Neil

    1982-01-01

    An automatic switching matrix that includes an apertured matrix board containing a matrix of wires that can be interconnected at each aperture. Each aperture has associated therewith a conductive pin which, when fully inserted into the associated aperture, effects electrical connection between the wires within that particular aperture. Means is provided for automatically inserting the pins in a determined pattern and for removing all the pins to permit other interconnecting patterns.

  8. Mixed matrix membrane development.

    PubMed

    Kulprathipanja, Santi

    2003-03-01

    Two types of mixed matrix membranes were developed by UOP in the late 1980s. The first type includes adsorbent polymers, such as silicalite-cellulose acetate (CA), NaX-CA, and AgX-CA mixed matrix membranes. The silicalite-CA has a CO(2)/H(2) selectivity of 5.15 +/- 2.2. In contrast, the CA membrane has a CO(2)/H(2) selectivity of 0.77 +/- 0.06. The second type of mixed matrix membrane is PEG-silicone rubber. The PEG-silicone rubber mixed matrix membrane has high selectivity for polar gases, such as SO(2), NH(3), and H(2)S.

  9. FTIR instrumentation to monitor vapors from Shuttle tile waterproofing materials

    NASA Technical Reports Server (NTRS)

    Mattson, C. B.; Schwindt, C. J.

    1995-01-01

    The Space Shuttle Thermal Protection System (TPS) tiles and blankets are waterproofed using DimethylEthoxySilane (DMEX) in the Orbiter Processing Facilities (OPF). DMES has a Threshold Limit Value (TLV) for exposure of personnel to vapor concentration in air of 0.5 ppm. The OPF high bay cannot be opened for normal work after a waterproofing operation until the DMES concentration is verified by measurement to be below the TLV. On several occasions the high bay has been kept closed for up to 8 hours following waterproofing operations due to high DMES measurements. In addition, the Miran 203 and Miran 1 BX infrared analyzers calibrated at different wavelengths gave different readings under the same conditions. There was reason to believe that some of the high DMES concentration readings were caused by interference form water and ethanol vapors. The Toxic Vapor Detection Laboratory (TVDL) was asked to test the existing DMES instruments and identify the best qualified instrument. In addition the TVDL was requested to develop instrumentation to ensure the OPF high bay could be opened safely as soon as possible after a waterproofing operation. A Fourier Transform Infrared (FTIR) spectrophotometer instrument developed for an earlier project was reprogrammed to measure DMES vapor along with ethanol, water, and several common solvent vapors. The FTIR was then used to perform a series of laboratory and field tests to evaluate the performance of the single wavelength IR instruments in use. The results demonstrated that the single wavelength IR instruments did respond to ethanol and water vapors, more or less depending on the analytical IR wavelength selected. The FTIR was able to separate the responses to DMES, water and ethanol, and give consistent readings for the DMES vapor concentration. The FTIR was then deployed to the OPF to monitor real waterproofing operations. The FTIR was also used to measure the time for DMES to evaporate from TPS tile under a range of humidity

  10. FTIR instrumentation to monitor vapors from Shuttle tile waterproofing materials

    NASA Astrophysics Data System (ADS)

    Mattson, C. B.; Schwindt, C. J.

    1995-11-01

    The Space Shuttle Thermal Protection System (TPS) tiles and blankets are waterproofed using DimethylEthoxySilane (DMEX) in the Orbiter Processing Facilities (OPF). DMES has a Threshold Limit Value (TLV) for exposure of personnel to vapor concentration in air of 0.5 ppm. The OPF high bay cannot be opened for normal work after a waterproofing operation until the DMES concentration is verified by measurement to be below the TLV. On several occasions the high bay has been kept closed for up to 8 hours following waterproofing operations due to high DMES measurements. In addition, the Miran 203 and Miran 1 BX infrared analyzers calibrated at different wavelengths gave different readings under the same conditions. There was reason to believe that some of the high DMES concentration readings were caused by interference form water and ethanol vapors. The Toxic Vapor Detection Laboratory (TVDL) was asked to test the existing DMES instruments and identify the best qualified instrument. In addition the TVDL was requested to develop instrumentation to ensure the OPF high bay could be opened safely as soon as possible after a waterproofing operation. A Fourier Transform Infrared (FTIR) spectrophotometer instrument developed for an earlier project was reprogrammed to measure DMES vapor along with ethanol, water, and several common solvent vapors. The FTIR was then used to perform a series of laboratory and field tests to evaluate the performance of the single wavelength IR instruments in use. The results demonstrated that the single wavelength IR instruments did respond to ethanol and water vapors, more or less depending on the analytical IR wavelength selected. The FTIR was able to separate the responses to DMES, water and ethanol, and give consistent readings for the DMES vapor concentration. The FTIR was then deployed to the OPF to monitor real waterproofing operations. The FTIR was also used to measure the time for DMES to evaporate from TPS tile under a range of humidity

  11. Ultrasound stimulated release of mimosa medicine from cellulose hydrogel matrix.

    PubMed

    Jiang, Huixin; Tovar-Carrillo, Karla; Kobayashi, Takaomi

    2016-09-01

    Ultrasound (US) drug release system using cellulose based hydrogel films was developed as triggered to mimosa. Here, the mimosa, a fascinating drug to cure injured skin, was employed as the loading drug in cellulose hydrogel films prepared with phase inversion method. The mimosa hydrogels were fabricated from dimethylacetamide (DMAc)/LiCl solution in the presence of mimosa, when the solution was exposed to ethanol vapor. The US triggered release of the mimosa from the hydrogel matrix was carried out under following conditions of US powers (0-30W) and frequencies (23, 43 and 96kHz) for different mimosa hydrogel matrix from 0.5wt% to 2wt% cellulose solution. To release the drug by US trigger from the matrix, the better medicine release was observed in the matrix prepared from the 0.5wt% cellulose solution when the 43kHz US was exposed to the aqueous solution with the hydrogel matrix. The release efficiency increased with the increase of the US power from 5 to 30W at 43kHz. Viscoelasticity of the hydrogel matrix showed that the hydrogel became somewhat rigid after the US exposure. FT-IR analysis of the mimosa hydrogel matrixes showed that during the US exposure, hydrogen bonds in the structure of mimosa-water and mimosa-cellulose were broken. This suggested that the enhancement of the mimosa release was caused by the US exposure.

  12. Differentiation of Leishmania species by FT-IR spectroscopy

    NASA Astrophysics Data System (ADS)

    Aguiar, Josafá C.; Mittmann, Josane; Ferreira, Isabelle; Ferreira-Strixino, Juliana; Raniero, Leandro

    2015-05-01

    Leishmaniasis is a parasitic infectious disease caused by protozoa that belong to the genus Leishmania. It is transmitted by the bite of an infected female Sand fly. The disease is endemic in 88 countries Desjeux (2001) [1] (16 developed countries and 72 developing countries) on four continents. In Brazil, epidemiological data show the disease is present in all Brazilian regions, with the highest incidences in the North and Northeast. There are several methods used to diagnose leishmaniasis, but these procedures have many limitations, are time consuming, have low sensitivity, and are expensive. In this context, Fourier Transform Infrared Spectroscopy (FT-IR) analysis has the potential to provide rapid results and may be adapted for a clinical test with high sensitivity and specificity. In this work, FT-IR was used as a tool to investigate the promastigotes of Leishmaniaamazonensis, Leishmaniachagasi, and Leishmaniamajor species. The spectra were analyzed by cluster analysis and deconvolution procedure base on spectra second derivatives. Results: cluster analysis found four specific regions that are able to identify the Leishmania species. The dendrogram representation clearly indicates the heterogeneity among Leishmania species. The band deconvolution done by the curve fitting in these regions quantitatively differentiated the polysaccharides, amide III, phospholipids, proteins, and nucleic acids. L. chagasi and L. major showed a greater biochemistry similarity and have three bands that were not registered in L. amazonensis. The L. amazonensis presented three specific bands that were not recorded in the other two species. It is evident that the FT-IR method is an indispensable tool to discriminate these parasites. The high sensitivity and specificity of this technique opens up the possibilities for further studies about characterization of other microorganisms.

  13. The Role Of FT-IR In The Identification Of Domoic Acid, A New Shellfish Toxin

    NASA Astrophysics Data System (ADS)

    Falk, Michael

    1989-12-01

    A brief but serious outbreak of poisoning by mussels occurred in Canada in December 1987. In a round-the-clock effort, the toxin that caused this outbreak was isolated in our laboratory and identified as domoic acid, a naturally-occurring substance that had not previously been reported to cause human poisoning. The identification of the toxin was achieved by the concerted use of spectroscopic methods, among them micro-FT-IR spectroscopy. The use of the FT-IR microscope allowed high-quality infrared spectra to be obtained on sub-microgram quantities of the early isolates of the toxin. The microscopic method had an additional advantage in that it enabled us to carry out a rough but rapid separation of the compound of interest from admixtures of unrelated substances by recording the spectra of a gradually dried out drop of solution on a microscope plate. Following the positive identification of the toxin as domoic acid, a detailed spectroscopic study was made of this important molecule in its several isomeric forms.

  14. Quantitative analysis of nitrocellulose and pulp in gunpowder by using thermogravimetric analysis/FTIR

    NASA Astrophysics Data System (ADS)

    Johnson, David J.; Compton, David A.

    1989-12-01

    Thermogravimetric Analysis (TGA) has routinely been used to quantitatively determine the presence of a specific component within a material by direct measurement from the weight loss profile. This technique works well when it is known that the detected weight loss was caused only by that component. If more than one material evolves during a single weight loss it is impossible to quantify the contribution of each individual component by using stand-alone TGA. However by coupling an FT-IR to the TGA one may assign evolved gases to a detected weight loss and potentially isolate each iny dividual material. Although a number of gases may evolve during one weight loss, the judicious selection of "Specific Gas Profiles" may allow the experimentalist to isolate each gas. The SGP is a measure of IR absorbance within specific frequency regions as a function of time. Through the use of standards, integration of theseprofiles allows the operator to quantitate the various components in an unknownp. Data from this research will show that nitrocellulose andpulp content in gun powder samples may be measured using the TGA/FT-IR technique.

  15. Control of separation and quantitative analysis by GC-FTIR

    NASA Astrophysics Data System (ADS)

    Semmoud, A.; Huvenne, Jean P.; Legrand, P.

    1992-03-01

    Software for 3-D representations of the 'Absorbance-Wavenumber-Retention time' is used to control the quality of the GC separation. Spectral information given by the FTIR detection allows the user to be sure that a chromatographic peak is 'pure.' The analysis of peppermint essential oil is presented as an example. This assurance is absolutely required for quantitative applications. In these conditions, we have worked out a quantitative analysis of caffeine. Correlation coefficients between integrated absorbance measurements and concentration of caffeine are discussed at two steps of the data treatment.

  16. Spaceborne Hybrid-FPGA System for Processing FTIR Data

    NASA Technical Reports Server (NTRS)

    Bekker, Dmitriy; Blavier, Jean-Francois L.; Pingree, Paula J.; Lukowiak, Marcin; Shaaban, Muhammad

    2008-01-01

    Progress has been made in a continuing effort to develop a spaceborne computer system for processing readout data from a Fourier-transform infrared (FTIR) spectrometer to reduce the volume of data transmitted to Earth. The approach followed in this effort, oriented toward reducing design time and reducing the size and weight of the spectrometer electronics, has been to exploit the versatility of recently developed hybrid field-programmable gate arrays (FPGAs) to run diverse software on embedded processors while also taking advantage of the reconfigurable hardware resources of the FPGAs.

  17. FTIR spectrometer with solid-state drive system

    DOEpatents

    Rajic, Slobodan; Seals, Roland D.; Egert, Charles M.

    1999-01-01

    An FTIR spectrometer (10) and method using a solid-state drive system with thermally responsive members (27) that are subject to expansion upon heating and to contraction upon cooling. Such members (27) are assembled in the device (10) so as to move an angled, reflective surface (22) a small distance. The sample light beam (13) is received at a detector (24) along with a reference light beam (13) and there it is combined into a resulting signal. This allows the "interference" between the two beams to occur for spectral analysis by a processor (29).

  18. TG-FTIR characterization of flame retardant polyurethane foams materials

    NASA Astrophysics Data System (ADS)

    Liu, W.; Tang, Y.; Li, F.; Ge, X. G.; Zhang, Z. J.

    2016-07-01

    Dimethyl methylphosphonate (DMMP) and trichloroethyl phosphtate (TCEP) have been used to enhance the flame retardancy of polyurethane foams materials (PUF). Flame retardancy and thermal degradation of PUF samples have been investigated by the LOI tests and thermal analysis. The results indicate that the excellent flame retardancy can be achieved due to the presence of the flame retardant system containing DMMP and TCEP. TG-FTIR reveals that the addition of DMMP/TCEP can not only improve the thermal stability of PUF samples but can also affect the gaseous phase at high temperature.

  19. Problem in analyzing cystine stones using FTIR spectroscopy.

    PubMed

    Fazil Marickar, Y M; Lekshmi, P R; Varma, Luxmi; Koshy, Peter

    2009-10-01

    Cystine stones are produced by an inherited disorder of the transport of amino acid cystine that results in excess of cystine in the urine (cystinuria). Cystine calculi in urinary tract present a significant problem in patients. We have recorded that cystine calculi are very uncommon in our region. Cystine crystals are unusually identified in the urinary deposits. The problem of recognizing cystine by FTIR as a component in mixture of stones is significant. The problem is compounded by the similarity of wavelengths of cystine with that of whewellite and uric acid. The objective of this paper is to elucidate the problems of identifying cystine in stone analysis and identifying a solution to get over this deficiency. Out of 1,300 urinary stones analysed by ordinary wet chemical methods and infrared spectroscopy, 30 stone samples, which were reported to have cystine peaks in significant numbers, were selected. These samples were powdered, mixed with potassium bromide, pelletized and taken up for FTIR analysis. The wavelength patterns were scrutinized by comparing with the peaks obtained by the reference standards of cystine. Spectra were also obtained from pure cystine. Comparison of spectra with those of whewellite and uric acid was performed. Then the samples were taken for Scanning electron microscopy with elemental distribution analysis X-ray (SEM-EDAX). The samples were made conductive by gold sputtering and were fed into JEOL JSM 35 C SEM machine. Morphology was recorded by taking photographs. Further elemental distribution analysis (EDAX) was carried out to identify the elemental composition. Of the 30 samples taken up for FTIR analysis, all showed spectra identifiable with the reference peaks for cystine. However, when these peaks were compared with those of whewellite and uric acid, all the stone samples showed duplication of peaks for whewellite and uric acid and whewellite. The pure cystine spectra showed identifiable peaks are in the range of 3026, 1618

  20. D1(2B2g)→D0(2Au) fluorescence from the matrix-isolated perylene cation following laser excitation into the D5(2B3g) and D2(2B3g) electronic states

    NASA Astrophysics Data System (ADS)

    Chillier, Xavier D. F.; Stone, Bradley M.; Joblin, Christine; Salama, Farid; Allamandola, Louis J.

    2002-04-01

    Fluorescence spectra of the perylene cation, isolated in an argon matrix and pumped by direct laser excitation via the D2(2B3g)←D0(2Au) and D5(2B3g)←D0(2Au) transitions, are presented. Direct excitation into the D5 or D2 states is followed by rapid nonradiative relaxation to D1 that, in turn, relaxes radiatively. Excitation spectroscopy across the D2(2B3g)←D0(2Au) transition near 731 nm shows that site splitting plays little or no role in determining the spectral substructure in the ion spectra. Tentative assignments for ground state vibrational frequencies are made by a comparison of spectral intervals with calculated normal mode frequencies, with the strongest IR bands leading to the most intense vibronic bands.

  1. Transgene integration: use of matrix attachment regions.

    PubMed

    Allen, George C; Spiker, Steven; Thompson, William F

    2005-01-01

    Matrix attachment regions (MARs) are operationally defined as DNA elements that bind specifically to the nuclear matrix in vitro. When MARs are positioned at the 5'- and 3'-ends of a transgene higher more predictable expression of the transgene results. MARs are increasingly being applied to prevent unwanted transgene silencing, which is especially common when direct DNA transformation methods are used. This chapter describes methods for the isolation of MARs and the subsequent methods allowing the investigator to incorporate MARS into transformation strategies that can both improve transformation frequency and result in predictable, stable expression of the transgenic trait.

  2. Transgene integration: use of matrix attachment regions.

    PubMed

    Allen, George C; Spiker, Steven; Thompson, William F

    2005-01-01

    Matrix attachment regions (MARs) are operationally defined as DNA elements that bind specifically to the nuclear matrix in vitro. When MARs are positioned at the 5'- and 3'-ends of a transgene higher more predictable expression of the transgene results. MARs are increasingly being applied to prevent unwanted transgene silencing, which is especially common when direct DNA transformation methods are used. This chapter describes methods for the isolation of MARs and the subsequent methods allowing the investigator to incorporate MARS into transformation strategies that can both improve transformation frequency and result in predictable, stable expression of the transgenic trait. PMID:15310930

  3. A new look at the nuclear matrix.

    PubMed

    Hancock, R

    2000-07-01

    The concept of the nuclear matrix, a karyoskeletal structure that serves as a support for the genome and its activities, has stimulated many studies of the association of nuclear components and functions with this structure. However, certain experimental findings are not consistent with the existence of the nuclear matrix in vivo, including our inability to visualise a corresponding structure in intact cells, the demonstrated mobility in vivo of chromatin and messenger ribonucleoprotein particles, which are claimed to be bound to the nuclear matrix, the paradoxical extractability from nuclei in low ionic strength buffers of enzymes that are found in the 2 M NaCl-insoluble matrix, and the extractability, in conditions which reproduce the intranuclear milieu, of regions of DNA (matrix or scaffold attachment regions, MAR/SARs) postulated to be bound to the nuclear matrix in vivo. This review considers the nuclear matrix model in the light of sometimes overlooked evidence that each step in its isolation may cause nuclear components to bind to it by new liaisons that do not exist in vivo. This is illustrated by experiments where nuclear-targeted green fluorescent protein is found in the nuclear matrix, and raises the possibility that MAR/SARs actually bind to DNA-binding proteins or multiprotein complexes, including replicational, transcriptional and processing machinery, and topoisomerases that are incorporated into the nuclear matrix during its preparation. Considering that the nuclear lamina forms a rigid exoskeleton, the necessity for internal skeletal structures is raised; the major roles that macromolecular crowding, phase partitioning, and charge effects are likely to play in organisation of the intranuclear space may provide new models for the compartmentalisation of proteins and functions into different nuclear domains and of chromosomes into territories. PMID:10968250

  4. A new look at the nuclear matrix.

    PubMed

    Hancock, R

    2000-07-01

    The concept of the nuclear matrix, a karyoskeletal structure that serves as a support for the genome and its activities, has stimulated many studies of the association of nuclear components and functions with this structure. However, certain experimental findings are not consistent with the existence of the nuclear matrix in vivo, including our inability to visualise a corresponding structure in intact cells, the demonstrated mobility in vivo of chromatin and messenger ribonucleoprotein particles, which are claimed to be bound to the nuclear matrix, the paradoxical extractability from nuclei in low ionic strength buffers of enzymes that are found in the 2 M NaCl-insoluble matrix, and the extractability, in conditions which reproduce the intranuclear milieu, of regions of DNA (matrix or scaffold attachment regions, MAR/SARs) postulated to be bound to the nuclear matrix in vivo. This review considers the nuclear matrix model in the light of sometimes overlooked evidence that each step in its isolation may cause nuclear components to bind to it by new liaisons that do not exist in vivo. This is illustrated by experiments where nuclear-targeted green fluorescent protein is found in the nuclear matrix, and raises the possibility that MAR/SARs actually bind to DNA-binding proteins or multiprotein complexes, including replicational, transcriptional and processing machinery, and topoisomerases that are incorporated into the nuclear matrix during its preparation. Considering that the nuclear lamina forms a rigid exoskeleton, the necessity for internal skeletal structures is raised; the major roles that macromolecular crowding, phase partitioning, and charge effects are likely to play in organisation of the intranuclear space may provide new models for the compartmentalisation of proteins and functions into different nuclear domains and of chromosomes into territories.

  5. Landscape matrix mediates occupancy dynamics of Neotropical avian insectivores

    USGS Publications Warehouse

    Kennedy, Christina M.; Campbell Grant, Evan H.; Neel, Maile C.; Fagan, William F.; Marpa, Peter P.

    2011-01-01

    In addition to patch-level attributes (i.e., area and isolation), the nature of land cover between habitat patches (the matrix) may drive colonization and extinction dynamics in fragmented landscapes. Despite a long-standing recognition of matrix effects in fragmented systems, an understanding of the relative impacts of different types of land cover on patterns and dynamics of species occurrence remains limited. We employed multi-season occupancy models to determine the relative influence of patch area, patch isolation, within-patch vegetation structure, and landscape matrix on occupancy dynamics of nine Neotropical nsectivorous birds in 99 forest patches embedded in four matrix types (agriculture, suburban evelopment, bauxite mining, and forest) in central Jamaica. We found that within-patch vegetation structure and the matrix type between patches were more important than patch area and patch isolation in determining local colonization and local extinction probabilities, and that the effects of patch area, isolation, and vegetation structure on occupancy dynamics tended to be matrix and species dependent. Across the avian community, the landscape matrix influenced local extinction more than local colonization, indicating that extinction processes, rather than movement, likely drive interspecific differences in occupancy dynamics. These findings lend crucial empirical support to the hypothesis that species occupancy dynamics in fragmented systems may depend greatly upon the landscape context.

  6. Abalone water-soluble matrix for self-healing biomineralization of tooth defects.

    PubMed

    Wen, Zhenliang; Chen, Jingdi; Wang, Hailiang; Zhong, Shengnan; Hu, Yimin; Wang, Zhili; Zhang, Qiqing

    2016-10-01

    Enamel cannot heal by itself if damaged. Hydroxyapatite (HAP) is main component of human enamel. Formation of enamel-like materials for healing enamel defects remains a challenge. In this paper, we successfully isolated the abalone water-soluble matrix (AWSM) with 1.53wt% the abalone water-soluble protein (AWSPro) and 2.04wt% the abalone water-soluble polysaccharide (AWSPs) from abandoned abalone shell, and self-healing biomineralization of tooth defects was successfully achieved in vitro. Based on X-ray diffraction (XRD), Fourier transform infrared spectroscopy (FTIR), hot field emission scanning electron microscopy (HFESEM) and energy dispersive spectrometer (EDS) analysis, the results showed that the AWSM can efficiently induce remineralization of HAP. The enamel-like HAP was successfully achieved onto etched enamel's surface due to the presence of the AWSM. Moreover, the remineralized effect of eroded enamel was growing with the increase of the AWSM. This study provides a solution to the resource waste and environmental pollution caused by abandoned abalone shell, and we provides a new method for self-healing remineralization of enamel defects by AWSM and develops a novel dental material for potential clinical dentistry application.

  7. Abalone water-soluble matrix for self-healing biomineralization of tooth defects.

    PubMed

    Wen, Zhenliang; Chen, Jingdi; Wang, Hailiang; Zhong, Shengnan; Hu, Yimin; Wang, Zhili; Zhang, Qiqing

    2016-10-01

    Enamel cannot heal by itself if damaged. Hydroxyapatite (HAP) is main component of human enamel. Formation of enamel-like materials for healing enamel defects remains a challenge. In this paper, we successfully isolated the abalone water-soluble matrix (AWSM) with 1.53wt% the abalone water-soluble protein (AWSPro) and 2.04wt% the abalone water-soluble polysaccharide (AWSPs) from abandoned abalone shell, and self-healing biomineralization of tooth defects was successfully achieved in vitro. Based on X-ray diffraction (XRD), Fourier transform infrared spectroscopy (FTIR), hot field emission scanning electron microscopy (HFESEM) and energy dispersive spectrometer (EDS) analysis, the results showed that the AWSM can efficiently induce remineralization of HAP. The enamel-like HAP was successfully achieved onto etched enamel's surface due to the presence of the AWSM. Moreover, the remineralized effect of eroded enamel was growing with the increase of the AWSM. This study provides a solution to the resource waste and environmental pollution caused by abandoned abalone shell, and we provides a new method for self-healing remineralization of enamel defects by AWSM and develops a novel dental material for potential clinical dentistry application. PMID:27287112

  8. Grassmann matrix quantum mechanics

    DOE PAGES

    Anninos, Dionysios; Denef, Frederik; Monten, Ruben

    2016-04-21

    We explore quantum mechanical theories whose fundamental degrees of freedom are rectangular matrices with Grassmann valued matrix elements. We study particular models where the low energy sector can be described in terms of a bosonic Hermitian matrix quantum mechanics. We describe the classical curved phase space that emerges in the low energy sector. The phase space lives on a compact Kähler manifold parameterized by a complex matrix, of the type discovered some time ago by Berezin. The emergence of a semiclassical bosonic matrix quantum mechanics at low energies requires that the original Grassmann matrices be in the long rectangular limit.more » In conclusion, we discuss possible holographic interpretations of such matrix models which, by construction, are endowed with a finite dimensional Hilbert space.« less

  9. Elastase Deficiency Phenotype of Pseudomonas aeruginosa Canine Otitis Externa Isolates

    PubMed Central

    Petermann, Shana R.; Doetkott, Curt; Rust, Lynn

    2001-01-01

    Pseudomonas aeruginosa veterinary isolates were assayed for elastase and total matrix protease activity. The elastase activity of canine ear isolates was much less than that of strain PAO1 and that of all other veterinary isolates (P < 0.0001). The results indicate that canine ear isolates have a distinct elastase phenotype. PMID:11329471

  10. Infrared matrix isolation studies of hydrogen bonds involving C-H bonds: CF 3H, (CF 2H) 2O and CF 3OCF 2H with selected bases

    NASA Astrophysics Data System (ADS)

    Jeng, Mei-Lee H.; Ault, Bruce S.

    1991-06-01

    Hydrogen bonded complexes of fluoroform and fluoromethylethers with halide anions and amines have been isolated at 15 K in argon matrices and characterized by IR spectroscopy. The observed red shifts of the CH stretching mode were significantly less than for analogous alkyne complexes. For a given alkane, the magnitude of shifts for complexes with the halide anions were greater than complexes with neutral amines, consistent with the greater basicity of the halide anions. The perturbed and shifted CH bending mode and its overtone were also observed, as well as perturbations to the CF stretching and bending modes. The spectral evidence tentatively suggests a monodentate hydrogen bond for the (CF 2H) 2O•F - complex, rather than the bidentate structure inferred from ion cyclotron resonance data.

  11. FTIR Spectroscopy Applied in Remazol Blue Dye Oxidation by Laccases

    NASA Astrophysics Data System (ADS)

    Juárez-Hernández, J.; Zavala-Soto, M. E.; Bibbins-Martínez, M.; Delgado-Macuil, R.; Díaz-Godinez, G.; Rojas-López, M.

    2008-04-01

    We have used FTIR with attenuated total reflectance (ATR) technique to analyze the decolourization process of Remazol Blue dye (RB19) caused by the oxidative activity of laccase enzyme. It is known that laccases catalyze the oxidation of a large range of phenolic compounds and aromatic amines carrying out one-electron oxidations, although also radicals could be formed which undergo subsequent nonenzymatic reactions. The enzyme laccase is a copper-containing polyphenol oxidase (EC 1.10.3.2) which has been tested as a potential alternative in detoxification of environmental pollutants such as dyes present in wastewaters generated for the textile industry. In order to ensure degradation or avoid formation of toxic compounds it is important to establish the mechanism by which laccase oxidizes dyes. In this research individual ATR-FTIR spectra have been recorded for several reaction times between 0 to 236 hours, and the temporal dependence of the reaction was analyzed through the relative diminution of the intensity of the infrared band at 1127 cm-1 (associated to C-N vibration), with respect to the intensity of the band at 1104 cm-1 (associated to S = O) from sulphoxide group. Decolourization process of this dye by laccase could be attributed to its accessibility on the secondary amino group, which is a potential point of attack of laccases, abstracting the hydrogen atom. This decolourization process of remazol blue dye by laccase enzyme might in a future replace the traditionally high chemical, energy and water consuming textile operations.

  12. FTIR and EDXRF investigations of salt tolerant soybean mutants

    NASA Astrophysics Data System (ADS)

    Akyuz, Sevim; Akyuz, Tanil; Celik, Ozge; Atak, Cimen

    2013-07-01

    Molecular structure and elemental composition of soybean (Glycine max L. Merr.) seeds of S04-05 (Ustun-1) variety together with its salt tolerant mutants were investigated by Fourier transform infrared (FTIR) and energy dispersive X-ray fluorescence (EDXRF) spectrometry. Salt tolerant soybean mutants were in vivo and in vitro selected from the M2 generation of gamma irradiated S04-05 soybean variety. Examination of the secondary structure of proteins revealed the presence of some alterations in soybean mutants in comparison to those of the control groups. The difference IR spectra indicated that salt tolerant mutants (M2) have less protein but more lipid contents. Chemometric treatment of the FTIR data was performed and principle component analysis (PCA) revealed clear difference between control group of seeds and mutants. EDXRF analysis showed that salt tolerant mutants considerably contained more chlorine, copper and zinc elements when compared to the control group, although most of the trace elements concentrations were not significantly altered.

  13. FTIR characterization of atmospheric fluctuations along slant paths

    NASA Astrophysics Data System (ADS)

    Martin, C. A.; Brown, D. M.; Thomas, M. E.; Strong, S.; Lohr, Michele B.

    2014-05-01

    Sensor system noise needs to be characterized to determine the limits of detecting a feature from an observed source. For passive infrared spectral sensors, the noise is characterized in terms of the noise equivalent spectral radiance, NESR. The total NESR (NESRtotal) has two components, the internal NESR of the instrument (NESRinstr) and the external NESR of the path being viewed by the sensor (NESRpath). In the case of an FTIR instrument, the NESRinstr is measured by viewing a stable blackbody at close range thereby removing the effects of the path on the spectrally dependent noise. The standard deviation of the sine transform of the interferogram is then computed to estimate NESRinstr. In our application, however, the NESRpath is our signal, and it is measured by viewing an atmospheric scene and removing the effect due to the instrument. A histogram of the spectrally dependent noise spectrum is then computed. The full-width of this histogram is taken at the 1/e2 points and is driven by temperature and species concentration fluctuations along the path. Both of these effects can dominate over the instrument noise. In the following, we compare preliminary values of path spectral fluctuations determined from a ground-based FTIR for a selected slant path to measured values of the refractive index structure constant (Cn2) along the same path.

  14. FT-IR method to determine Dill's C parameter for DNQ/novolac resists with e-beam and i-line exposure

    NASA Astrophysics Data System (ADS)

    Fedynyshyn, Theodore H.; Doran, Scott P.; Mack, Chris A.

    1999-06-01

    Typically, the Dill ABC parameters for optical resist are determined by coating a resist on a nonreflecting substrate and then measuring the change in the intensity of transmitted light at the wavelength of interest as a function of incident energy. Resists absorbance may not be selective in isolating and measuring only the photoactive species, and in some cases changes in absorbance can not be directly correlated to changes in the concentration of the photoactive species. FTIR spectroscopy can directly measure changes in the photoactive species by isolating and measuring absorbance peaks unique to the photoactive species by isolating and measuring absorbance peaks unique to the photoactive species. FTIR, employed in reflectance mode, is not constrained to transparent substrates, but can instead be used with silicon wafers or chrome coated quartz plates. The ability to use these substrates, but can instead be used with silicon wafers or chrome coated quartz plates. The ability to use these substrates is important when determining Dill's C parameter under e-beam exposure where the degree of back-scattered electrons is dependent on the underlying substrate, and the use of quartz is prohibited due to charging considerations. Dill's C parameter is determined for a variety of commercial i-line resist under both e-beam and i-line exposure. The ProABC software, a lithography simulator that extracts ABC parameters through a best fit of model to data, is employed to extract Dill's C parameter. This software has been specially modified to allow FTIR absorbance input.

  15. Effect of carboxymethylation on rheological and drug release characteristics of locust bean gum matrix tablets.

    PubMed

    Chakravorty, Amrita; Barman, Gouranga; Mukherjee, Sudipta; Sa, Biswanath

    2016-06-25

    This study was undertaken to investigate correlation between the carboxymethylation-induced rheological changes and drug release characteristics of locust bean gum (LBG) matrix tablets. LBG was derivatized to carboxymethyl LBG (CMLBG) and characterized by (13)C NMR, FTIR and elemental analyses. Rheological studies revealed that LBG, in contact with water, produced a strong elastic gel which swelled less due to lower penetration of water resulting in slower drug release. On the other hand, CMLBG formed a viscous polymer solution through which higher influx of water resulted in rapid swelling of the matrix and faster drug release. Although the release from a particular matrix was dependent on drugs' solubilities, CMLBG matrix tablet produced faster release of all the drugs than LBG matrix tablets. In conclusion, rheological study appeared to be an useful tool to predict release of drugs from polysaccharide matrix tablets.

  16. Effect of carboxymethylation on rheological and drug release characteristics of locust bean gum matrix tablets.

    PubMed

    Chakravorty, Amrita; Barman, Gouranga; Mukherjee, Sudipta; Sa, Biswanath

    2016-06-25

    This study was undertaken to investigate correlation between the carboxymethylation-induced rheological changes and drug release characteristics of locust bean gum (LBG) matrix tablets. LBG was derivatized to carboxymethyl LBG (CMLBG) and characterized by (13)C NMR, FTIR and elemental analyses. Rheological studies revealed that LBG, in contact with water, produced a strong elastic gel which swelled less due to lower penetration of water resulting in slower drug release. On the other hand, CMLBG formed a viscous polymer solution through which higher influx of water resulted in rapid swelling of the matrix and faster drug release. Although the release from a particular matrix was dependent on drugs' solubilities, CMLBG matrix tablet produced faster release of all the drugs than LBG matrix tablets. In conclusion, rheological study appeared to be an useful tool to predict release of drugs from polysaccharide matrix tablets. PMID:27083792

  17. Preparation of monomeric and polymeric β-cyclodextrin functionalized monoliths for rapid isolation and purification of puerarin from Radix puerariae.

    PubMed

    Lv, Yongqin; Hughes, Timothy C; Hao, Xiaojuan; Mei, Danping; Tan, Tianwei

    2011-08-01

    Monomeric and epichlorohydrin polymerized β-CD functionalized monoliths were prepared for the rapid isolation and purification of the isoflavonoid puerarin, a well-known traditional Chinese drug, from a crude extract of Radix puerariae (root of the plant Pueraria lobata). Two copolymers poly(isocyanatoethyl methacrylate-co-methyl methacrylate-co-ethylene dimethacrylate) (poly(IEM-co-MMA-co-EDMA)) and poly(glycidyl methacrylate-co-EDMA) (poly(GMA-co-EDMA)) were developed as facile, highly reactive and versatile monolithic matrix. SEM characterization demonstrated that the modified monoliths had homogenous porous structure and morphology. The success of the chemical modification of the monolithic matrix was confirmed by Fourier transform infrared spectroscopy (FTIR), differential scanning calorimetry (DSC), solid-state (13) C NMR and elemental analysis. It was demonstrated that polymeric β-CD modified monoliths had better separation and selectivity for puerarin, recovering puerarin with a purity of 96% (m%) and a yield of 93% (m%). Compared with poly(glycidyl methacrylate-co-EDMA), poly(isocyanatoethyl methacrylate-co-methyl methacrylate-co-EDMA) monolithic matrix had higher reactivity, which significantly improved the β-CD ligand density and thus the selectivity of the monoliths. Puerarin with a purity of 96% (m%) and with a yield of 89% (m%) was recovered on the monolith.

  18. Condensed-phase effects on the structural properties of FCH2CN-BF3 and ClCH2CN-BF3: a matrix-isolation and computational study.

    PubMed

    Buchberger, Amanda R; Danforth, Samuel J; Bloomgren, Kaitlin M; Rohde, John A; Smith, Elizabeth L; Gardener, Colin C A; Phillips, James A

    2013-10-01

    We have measured several IR bands of FCH2CN-BF3 and ClCH2CN-BF3 in solid nitrogen, argon, and neon. These bands include the B-F asymmetric stretch (νBF(a)), the B-F symmetric stretch (νBF(s)), the BF3 symmetric deformation or "umbrella" mode (δBF(s)), and the CN stretch (νCN). For both complexes, the frequencies of these modes shift across the various media, particularly the B-F asymmetric stretching band, and thus they indicate that the inert gas matrix environments significantly alter the structural properties of FCH2CN-BF3 and ClCH2CN-BF3. Furthermore, the frequencies shift in a manner that parallels the dielectric constant of these media, which suggests a progressive contraction of the B-N distances in these systems and also that it parallels the ability of the medium to stabilize the increase in polarity that accompanies the bond contraction. We have also mapped the B-N distance potentials for FCH2CN-BF3 and ClCH2CN-BF3 using several density functional and post-Hartree-Fock methods, all of which reveal a flat, shelflike region that extends from the gas-phase minimum (near 2.4 Å) toward the inner wall (to about 1.7 Å). Furthermore, we were able to rationalize the medium effects on the structure by constructing hybrid bond potentials composed of the electrostatic component of the solvation free energy and the gas-phase electronic energy. These curves indicate that the solvation energies are greatest at short B-N distances (at which the complex is more polar), and ultimately, the potential minima shift inward as the dielectric constant of the medium increases.

  19. FT-IR study for hydroxyapatite/collagen nanocomposite cross-linked by glutaraldehyde.

    PubMed

    Chang, Myung Chul; Tanaka, Junzo

    2002-12-01

    FT-IR analysis was performed for the hydroxyapatite (HAp)/collagen (COL) nanocomposite cross-linked by glutaraldehyde (GA). The amide bands I, II and III from COL matrix, and phosphate and carbonate bands from HAp were identified. The amide B band arising from C-H stretching mode showed a sensitive conformation by the degree of cross-linking. The amide I band showed a complicate conformational change by the degree of cross-linking. The characteristic amide I band at 1685 cm(-1), which is known as an aging parameter in the biological bone, did not show a monotonous tendency by the degree of cross-linking. The relative contents of the organics in the cross-linked HAp/COL nanocomposite were evaluated as an integration ratio between the amide I band at 1600-1700 cm(-1) and PO(4)(3-) band at 900-1200 cm(-1). The increase of the organics content by the cross-linking is enabled by the further organization of Ca(2+) ions of HAp crystals in HAp/COL nanocomposite. The complicate conformational behavior in the amide I, II and III bands seems to be affected by the cross-linking induced directional arrangement of HAp/COL nanocomposite fibrils.

  20. Experimental (FTIR and FT-Raman) and theoretical investigation of some pyridine-dicarboxylic acids

    NASA Astrophysics Data System (ADS)

    Laxman Naik, J.; Venkatram Reddy, B.; Prabavathi, N.

    2015-11-01

    The FTIR and FT-Raman spectra of 2,3-pyridine-dicarboxylic acid (23PDA); 2,4-pyridine-dicarboxylic acid (24PDA); and 3,4-pyridine-dicarboxylic acid (34PDA) were recorded in the range 4000-450 cm-1 and 4000-50 cm-1, respectively. The optimized geometries and vibrational frequencies along with intensities were computed using DFT employing B3LYP functional with 6-311++G(d,p) basis set. The rms error between observed and calculated frequencies was 11.76, 12.79 and 9.8 cm-1 for 23PDA, 24PDA and 34PDA, respectively. A 74-parameter modified valence force field was evaluated by solving inverse vibrational problem using Wilson's GF matrix method and 99 experimental frequencies of the three molecules were used to refine the force constants in overlay least-squares technique. The average error between observed and computed frequencies was found to be 9.21 cm-1. PED and eigen vectors calculated in the process were used to make unambiguous vibrational assignments. The values of dipole moment, polarizability and hyperpolarizability were computed to determine the NLO behaviour of these molecules. The HOMO and LUMO energies and thermodynamic parameters were also evaluated.

  1. Hybrid matrix amplifier

    DOEpatents

    Martens, J.S.; Hietala, V.M.; Plut, T.A.

    1995-01-03

    The present invention comprises a novel matrix amplifier. The matrix amplifier includes an active superconducting power divider (ASPD) having N output ports; N distributed amplifiers each operatively connected to one of the N output ports of the ASPD; and a power combiner having N input ports each operatively connected to one of the N distributed amplifiers. The distributed amplifier can included M stages of amplification by cascading superconducting active devices. The power combiner can include N active elements. The resulting (N[times]M) matrix amplifier can produce signals of high output power, large bandwidth, and low noise. 6 figures.

  2. Hybrid matrix amplifier

    DOEpatents

    Martens, Jon S.; Hietala, Vincent M.; Plut, Thomas A.

    1995-01-01

    The present invention comprises a novel matrix amplifier. The matrix amplifier includes an active superconducting power divider (ASPD) having N output ports; N distributed amplifiers each operatively connected to one of the N output ports of the ASPD; and a power combiner having N input ports each operatively connected to one of the N distributed amplifiers. The distributed amplifier can included M stages of amplification by cascading superconducting active devices. The power combiner can include N active elements. The resulting (N.times.M) matrix amplifier can produce signals of high output power, large bandwidth, and low noise.

  3. Mueller matrix differential decomposition.

    PubMed

    Ortega-Quijano, Noé; Arce-Diego, José Luis

    2011-05-15

    We present a Mueller matrix decomposition based on the differential formulation of the Mueller calculus. The differential Mueller matrix is obtained from the macroscopic matrix through an eigenanalysis. It is subsequently resolved into the complete set of 16 differential matrices that correspond to the basic types of optical behavior for depolarizing anisotropic media. The method is successfully applied to the polarimetric analysis of several samples. The differential parameters enable one to perform an exhaustive characterization of anisotropy and depolarization. This decomposition is particularly appropriate for studying media in which several polarization effects take place simultaneously. PMID:21593943

  4. Mechanisms balancing skeletal matrix synthesis and degradation.

    PubMed Central

    Blair, Harry C; Zaidi, Mone; Schlesinger, Paul H

    2002-01-01

    Bone is regulated by evolutionarily conserved signals that balance continuous differentiation of bone matrix-producing cells against apoptosis and matrix removal. This is continued from embryogenesis, where the skeleton differentiates as a solid mass and is shaped into separate bones by cell death and proteolysis. The two major tissues of the skeleton are avascular cartilage, with an extracellular matrix based on type II collagen and hydrophilic proteoglycans, and bone, a stronger and lighter material based on oriented type I collagen and hydroxyapatite. Both differentiate from the same mesenchymal stem cells. This differentiation is regulated by a family of related signals centred on bone morphogenic proteins. Fibroblast growth factors, Indian hedgehog and parathyroid hormone-related protein are important in determining the type of matrix and the relation of skeletal and non-skeletal structures. Removal of mineralized matrix involves apoptosis of matrix cells and differentiation of acid-secreting cells (osteoclasts) from macrophage precursors. Key regulators of matrix removal are signals in the tumour-necrosis-factor family. Osteoclasts dissolve bone by isolating a region of the matrix and secreting HCl and proteinases at that site. Successive cycles of removal and replacement allow growth, repair and remodelling. The signals for bone turnover are predominantly cell-membrane-associated, allowing very specific spatial regulation. In addition to its support function, bone is a reservoir of Ca2+, PO3-(4) and OH-. Secondary modulation of mineral secretion and bone degradation are mediated by humoral signals, including parathyroid hormone and vitamin D, as well as the cytokines that also regulate the underlying cell differentiation. PMID:12023876

  5. Measurement matrix optimization method based on matrix orthogonal similarity transformation

    NASA Astrophysics Data System (ADS)

    Pan, Jinfeng

    2016-05-01

    Optimization of the measurement matrix is one of the important research aspects of compressive sensing theory. A measurement matrix optimization method is presented based on the orthogonal similarity transformation of the information operator's Gram matrix. In terms of the fact that the information operator's Gram matrix is a singular symmetric matrix, a simplified orthogonal similarity transformation is deduced, and thus the simplified diagonal matrix that is orthogonally similar to it is obtained. Then an approximation of the Gram matrix is obtained by letting all the nonzero diagonal entries of the simplified diagonal matrix equal their average value. Thus an optimized measurement matrix can be acquired according to its relationship with the information operator. Results of experiments show that the optimized measurement matrix compared to the random measurement matrix is less coherent with dictionaries. The relative signal recovery error also declines when the proposed measurement matrix is utilized.

  6. Precision FT-IR laboratory measurements of atmospheric molecule

    NASA Astrophysics Data System (ADS)

    Sung, K.; Brown, L. R.; Crawford, T. J.

    2014-12-01

    Spectroscopic information is crucial a priori input to interpret atmospheric spectroscopic observations through radiative transfer modeling. The spectroscopic observations lead us to determine the physical and chemical conditions (e.g., atmospheric pressure, temperatures, composition, abundances …). In order to avoid false interpretations of the observed spectra, the molecular spectroscopic information (either line parameters or cross sections) must be sufficiently accurate and complete. To achieve this goal, we employ a broad-band Fourier transform spectrometer, Bruker IFS-125HR equipped with multiple detectors (He-cooled bolometers, N2-cooled MCT and InSb, warm InGaAs, Boron-doped silicates, photodiode) and beamsplitters (Mylars, KBr, CaF2, Quartz) sufficient to cover entire infrared spectra region from 20 to 15000 cm-1. We vacuum-couple up to 15 different absorption cells to the FT-IR, including five coolable cells with optical path lengths ranging from 0.02 m to 52 m; three of them are capable of reaching temperatures down to 50 K. We also have one heatable cell reaching 400 K. Finally, an extra vacuum chamber newly implemented to the Bruker 125HR enables both emission and absorption spectroscopy utilizing the emission port of the FT-IR. Recently, several studies of atmospheric molecules have been completed using the FT-IR at JPL in support of the Earth, terrestrial and planetary atmospheric remote sensing. These include analyses of C3H8 (propane) and 16O12C17O mid- and near-infrared regions, 13C12CH6 and 12C2H6 at longer wavelengths. In addition, we are studying the O2(A) line mixing and collision-induced absorption in the O2 A-band at 0.76 μm, as well as temperature-dependent cross sections of C6H6 (benzene) and C3H6 (propene) in the mid-infrared region. We will present an overview of results and work in progress. [Research described in this paper was performed at the Jet Propulsion Laboratory, California Institute of Technology, Connecticut College, and

  7. Comparative FTIR study of a new fungal rhodopsin.

    PubMed

    Ito, Hiroyasu; Sumii, Masayo; Kawanabe, Akira; Fan, Ying; Furutani, Yuji; Brown, Leonid S; Kandori, Hideki

    2012-10-01

    Bacteriorhodopsin (BR) is a light-driven proton pump of halophilic Archaea , and BR-like proton-pumping rhodopsins have been discovered in Bacteria and Eucarya as well. Leptosphaeria rhodopsin (LR) and Phaeosphaeria Rhodopsin 2 (PhaeoRD2) are both fungal rhodopsins in such a functional class, even though they belong to different branches of the phylogenetic tree. In this study, we compared light-induced structural changes in the K, L, and M photointermediates for PhaeoRD2, LR, and BR using low-temperature Fourier transform infrared (FTIR) spectroscopy. We observed a strongly hydrogen-bonded water molecule in PhaeoRD2 (water O-D stretch in D(2)O at 2258 cm(-1)) as well as in LR and BR. This observation provided additional experimental evidence to the concept that strongly hydrogen-bonded water molecule is the functional determinant of light-driven proton pumping. The difference FTIR spectra for all the K, L, and M states are surprisingly similar between PhaeoRD2 and LR, but not for BR. PhaeoRD2 is more homologous to LR than to BR, but the difference is small. The amino acid identities between PhaeoRD2 and LR, and between PhaeoRD2 and BR are 34.5% and 30.2%, respectively. In addition, the amino acids uniquely identical for the fungal rhodopsins are located rather far from the retinal chromophore. In fact, the amino acid identities within 4 Å from retinal are the same among PhaeoRD2, LR, and BR. For more than 100 amino acids located within 12 Å from retinal, the identities are 48.7% between PhaeoRD2 and LR, 46.0% between PhaeoRD2 and BR, and 47.8% between LR and BR. These results suggest that protein core structures are equally different among the three rhodopsins. Thus, the identical FTIR spectra between PhaeoRD2 and LR (but not BR), even for the K state, indicate that fungal rhodopsins possess some common structural motif and dynamics not obvious from the amino acid sequences. PMID:22973982

  8. FTIR-Microspectroscopy of Prion-Infected Nervous Tissue

    SciTech Connect

    Kretlow,A.; Wang, Q.; Kneipp, J.; Lasch, P.; Beekes, M.; Miller, L.; Naumann, D.

    2006-01-01

    The family of transmissible spongiform encephalopathies (TSE), also termed prion diseases, is a group of fatal, neurodegenerative diseases characterized by the accumulation of a misfolded protein, the disease-associated prion protein PrPSc. This glycoprotein differs in secondary structure from its normal, cellular isoform PrPC, which is physiologically expressed mostly by neurons. Scrapie is a prion disease first described in the 18th century in sheep and goats, and has been established as a model in rodents to study the pathogenesis and pathology of prion diseases. Assuming a multitude of molecular parameters change in the tissue in the course of the disease, FTIR microspectroscopy has been proposed as a valuable new method to study and identify prion-affected tissues due to its ability to detect a variety of changes in molecular structure and composition simultaneously. This paper reviews and discusses results from previous FTIR microspectroscopic studies on nervous tissue of scrapie-infected hamsters in the context of histological and molecular alterations known from conventional pathogenesis studies. In particular, data from studies reporting on disease-specific changes of protein structure characteristics, and also results of a recent study on hamster dorsal root ganglia (DRG) are discussed. These data include an illustration on how the application of a brilliant IR synchrotron light source enables the in situ investigation of localized changes in protein structure and composition in nervous cells or tissue due to PrPSc deposition, and a demonstration on how the IR spectral information can be correlated with results of complementary studies using immunohistochemistry and x-ray fluorescence techniques. Using IR microspectroscopy, some neurons exhibited a high accumulation of disease-associated prion protein evidenced by an increased amount of beta-sheet at narrow regions in or around the infected nervous cells. However, not all neurons from terminally diseased

  9. Matrix isolation studies of the interactions of BF3 with water and substituted diethyl ethers. Chemical ionization mass spectrometric determination of the proton affinity of (CF3CH2)2O

    NASA Technical Reports Server (NTRS)

    Ball, David W.; Zehe, Michael J.

    1993-01-01

    BF3 was co-condensed with H2O, D2O, (C2H5)2O, (CF3CH2)2O, and (C2F5)2O in excess argon at 15 K. Infrared spectra of BF3/water isolated in solid argon provided a more complete analysis of the BF3--H2O complex than previously published. Infrared spectra of the matrices showed a definite Lewis acid-base interaction between BF3 and diethyl ether; a weak but definite interaction with bis (2,2,2-trifluorodiethyl) ether, and no observable interaction with perfluorodiethyl ether. Thus, the ether data indicate a clear trend between strength of interaction with BF3 and the degree of F substitution. To support and explain the emerging relationship between interaction strength and the basicity of the oxygen-containing molecule, the proton affinity of (CF3CH2)2O was measured using chemical ionization mass spectrometry. The implications of the results for lubricant/metal oxide surface interactions are discussed.

  10. Analyzing the impact of different excipients on drug release behavior in hot-melt extrusion formulations using FTIR spectroscopic imaging.

    PubMed

    Pudlas, Marieke; Kyeremateng, Samuel O; Williams, Leonardo A M; Kimber, James A; van Lishaut, Holger; Kazarian, Sergei G; Woehrle, Gerd H

    2015-01-25

    The drug release performance of hot-melt extrudate formulations is mainly affected by its composition and interactions between excipients, drug and the dissolution media. For targeted formulation development, it is crucial to understand the role of these interactions on the drug release performance of extrudate formulations. Attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopic imaging was used with an in-situ flow-cell device to analyze the impact of different excipients on drug release from extrudates. The compositions differed in the type of polymer (copovidone and Soluplus®), the salt or acid form of ibuprofen and the addition of sodium carbonate. For comparison, conventional USP (United States Pharmacopeia) Apparatus 2 dissolution studies were performed. FTIR imaging revealed that differences in the drug release rate were mainly due to drug-polymer interactions. Ibuprofen acid showed interactions with the matrix polymer and exhibited a slower drug release compared to non-interacting ibuprofen salt. Addition of sodium carbonate to the ibuprofen acid containing formulations enhanced the drug release rate of these systems by interfering with the drug-polymer interactions. In addition, drug release rates also depended on the polymer type, showing faster drug release rates for extrudate formulations containing copovidone compared to Soluplus®. FTIR imaging revealed that the stronger the drug-polymer interaction in the formulations, the slower the drug release. The addition of sodium carbonate improved release as it reduces drug-polymer interactions and allows for the formation of the more water-soluble ibuprofen salt.

  11. In situ-ATR-FTIR analysis on the uptake and release of streptomycin from polyelectrolyte complex layers

    NASA Astrophysics Data System (ADS)

    Torger, B.; Müller, M.

    2013-03-01

    In-situ ATR-FTIR spectroscopy and line shape analysis of the diagnostic spectral region was used to quantify the bound amount and release of the antibiotic streptomycin (STRP) at polyelectrolyte (PEL) multilayers (PEM) of poly(ethyleneimine) (PEI) and poly(acrylic acid) (PAA) or PEI and sodium alginate (ALG). Unlike common concepts based on the drug enrichment of the release medium, this analytical concept allowed to measure quantitatively the drug depletion in the delivery matrix. The measured kinetic in situ ATR-FTIR data were analysed by a modified Korsmeyer-Peppas equation based on two characteristic release parameters k and n. As main experimental parameters the number of PEL layers (adsorption steps) z and the STRP/PEL ratio were varied. For z = 8 the STRP/PEL ratio showed the most significant influence on release kinetics, whereby for STRP/PEL = 1:25 slowest (n = 0.77) and lowest (k = 21.4%) and for STRP/PEL = 1:5 most rapid (n = 0.30) and highest (k = 58.6%) drug releases were found. PEM-PEI/ALG-8 (STRP/PEL = 1:5) revealed slower release rates (n = 0.58) and lower released STRP amounts (k = 17.1%) compared to PEI/PAA. UV-VIS data on time dependent STRP enrichment of the release medium showed a similar trend compared to respective ATR-FTIR data on STRP depletion in PEM. Released amounts of around 1-2 mg from the herein introduced PEM films could be determined. The introduced analytical concept will be used as screening tool for other drugs, drug eluting films and bone substituting materials.

  12. Pesticide-Exposure Matrix

    Cancer.gov

    The "Pesticide-exposure Matrix" was developed to help epidemiologists and other researchers identify the active ingredients to which people were likely exposed when their homes and gardens were treated for pests in past years.

  13. Synchrotron-based highest resolution FTIR spectroscopy of chlorobenzene

    NASA Astrophysics Data System (ADS)

    Albert, Sieghard; Keppler, Karen; Lerch, Philippe; Quack, Martin; Wokaun, Alexander

    2015-09-01

    We report the Fourier Transform Infrared (FTIR) spectrum of chlorobenzene (C6H5Cl) measured using synchrotron radiation and the ETH-SLS 2009 prototype spectrometer at the Swiss Light Source (SLS). The maximum optical path difference of these measurements was 11.8 m leading to a resolution of better than 0.0008 cm-1. The spectra were taken at room temperature in the range 600-900 cm-1. It was possible to analyze the in-plane mode ν12 of A1 symmetry (ν˜0 = 706.6686 cm-1) and the out-of-plane mode ν10b of B1 symmetry (ν˜0 = 741.2240 cm-1) of C6H535Cl. In addition, the ground state constant ΔK of C6H535Cl has been readjusted using combination differences (CD).

  14. Measuring Breath Alcohol Concentrations with an FTIR Spectrometer

    NASA Astrophysics Data System (ADS)

    Kneisel, Adam; Bellamy, Michael K.

    2003-12-01

    An FTIR spectrometer equipped with a long-path gas cell can be used to measure breath alcohol concentrations in an instrumental analysis laboratory course. Students use aqueous ethanol solutions to make a calibration curve that relates absorbance signals of breath samples with blood alcohol concentrations. Students use their calibration curve to determine the time needed for their calculated blood alcohol levels to drop below the legal limit following use of a commercial mouthwash. They also calculate their blood alcohol levels immediately after chewing bread. The main goal of the experiment is to provide the students with an interesting laboratory exercise that teaches them about infrared spectrometers. While the results are meant to be only semiquantitative, they have compared well with results from other published studies. A reference is included that describes how to fabricate a long-path gas cell.

  15. Diffusion of water in diopside from Kunlun Mts. by FTIR

    NASA Astrophysics Data System (ADS)

    Ferriss, E.; Plank, T.; Walker, D.

    2012-12-01

    Diffusion of hydrogen and other water-related species in clinopyroxenes has potential for use quantifying the ascent rate of magma near the surface of the Earth and has implications for our understanding of water in the mantle. Previous work on diopside has yielded diffusivities that range over four orders of magnitude (e.g., very fast diffusion in Woods et al. 2000 versus slow diffusion in Sundvall et al. 2011), and the relationship between diffusivity and mineral chemistry is still poorly understood. The diffusivity of water has been investigated in natural low-Fe (Mg number: 98.3) diopside from the Kunlun Mts., China supplied by the curator of the American Museum of Natural History (AMNH) mineral collection. Polished, small (typically 1.5-2 mm × 1.5-2 mm × 1.5-2 mm) blocks were oriented and heated at 1 atm in a vertical gas-mixing furnace. The samples were held in gold wire, and the oxygen fugacity was buffered at the quartz-fayalite-magnetite buffer (QFM) using a mixture of CO and CO2. Fourier transform infrared spectroscopy (FTIR, at AMNH) was used to measure the water content based on absorption peaks between wavenumbers 3000 and 4000 cm-1. The initial water content (33 ppm) was estimated using polarized spectra obtained in three orthogonal directions and the calibration of Bell et al. (1995). Integrated peak areas were obtained from FTIR spectra through the edges of the uncut, heated block using a linear baseline from wavenumbers 3500-3700 cm-1 and 3200-3700 cm-1 for spectra taken with the polarized infrared beam traveling parallel to [001] and [010], respectively. Diffusion profiles were obtained in each direction by normalizing these peak areas to the initial peak area measured prior to heating in each direction. The interpretation of these profiles and determination of diffusivities is complicated by the interdependence of the profiles and the fact that each FTIR measurement represents an average value of the water contents through the sample

  16. Tamoxifen-model membrane interactions: an FT-IR study

    NASA Astrophysics Data System (ADS)

    Boyar, Handan; Severcan, Feride

    1997-06-01

    The temperature- and concentration-induced effects of tamoxifen (TAM) on dipalmitoyl phosphatidylcholine (DPPC) model membranes were investigated by the Fourier transform-infrared (FT-IR) spectroscopic technique. An investigation of the C-H stretching region and the CO mode reveals that the inclusion of TAM changes the physical properties of the DPPC multibilayers by (i) shifting the main phase transition to lower temperatures; (ii) broadening the transition profile slightly; (iii) disordering the system in the gel and in the liquid crystalline phases; (iv) increasing the dynamics in the gel phase and decreasing the dynamics of the acyl chains in the liquid crystalline phase; (v) increasing the mobility of the terminal methyl group region of the bilayer in the gel phase and decreasing it in the liquid crystalline phase; (vi) increasing the frequency of the CO stretching mode both in the gel and in the liquid crystalline phases, i.e. non-bonding with carbonyl groups.

  17. Raman/FTIR spectroscopy of oil shale retort gases

    SciTech Connect

    Richardson, J H; Monaco, S B; Sanborn, R H; Hirschfeld, T B; Taylor, J R

    1982-08-01

    A Raman facility was assembled in order to aid in the evaluation of the feasibility of using Raman or FTIR spectroscopy for analyzing gas mixtures of interest in oil shale. Applications considered in oil shale research included both retort monitoring and laboratory kinetic studies. Both techniques gave limits of detection between 10 and 1000 ppM for ten representative pertinent gases. Both techniques are inferior as a general analytical technique for oil shale gas analysis in comparison with mass spectroscopy, which had detection limits between 1 and 50 ppM for the same gases. The conclusion of the feasibility study was to recommend that mass spectroscopic techniques be used for analyzing gases of interest to oil shale.

  18. Increasing FTIR spectromicroscopy speed and resolution through compressive imaging

    SciTech Connect

    Gallet, Julien; Riley, Michael; Hao, Zhao; Martin, Michael C

    2007-10-15

    At the Advanced Light Source at Lawrence Berkeley National Laboratory, we are investigating how to increase both the speed and resolution of synchrotron infrared imaging. Synchrotron infrared beamlines have diffraction-limited spot sizes and high signal to noise, however spectral images must be obtained one point at a time and the spatial resolution is limited by the effects of diffraction. One technique to assist in speeding up spectral image acquisition is described here and uses compressive imaging algorithms. Compressive imaging can potentially attain resolutions higher than allowed by diffraction and/or can acquire spectral images without having to measure every spatial point individually thus increasing the speed of such maps. Here we present and discuss initial tests of compressive imaging techniques performed with ALS Beamline 1.4.3?s Nic-Plan infrared microscope, Beamline 1.4.4 Continuum XL IR microscope, and also with a stand-alone Nicolet Nexus 470 FTIR spectrometer.

  19. Measurement of air toxics using extractive FTIR spectroscopy

    SciTech Connect

    Lacoss, J.P.; Ogle, L.D.; Shareef, G.S.

    1995-12-31

    In response to the 1990 Clean Air Act Amendments, the Gas Research Institute (GRI) is investigating air toxics emissions from natural gas industry sources. Included in this effort are measurements from internal combustion engines, one of the source categories targeted by U.S. Environmental Protection Agency (EPA) for development of maximum achievable control technology (MACT) based regulations by the year 2000. Formaldehyde and other aldehydes are the air toxics potentially present in engine exhaust. Since there are no EPA approved methods available for quantifying aldehydes in engine exhaust, GRI initiated a field test to validate an extractive Fourier transform infrared spectroscopy (FTIR) based method according to U.S. EPA Method 301 {open_quotes}Field Validation of Pollutant Measurement Methods for Various Media{close_quotes}. The extended paper presents the results of this validation testing for formaldehyde, acetaldehyde, and acrolein conducted to support this validation testing.

  20. HITRAN spectroscopy evaluation using solar occultation FTIR spectra

    NASA Astrophysics Data System (ADS)

    Toon, Geoffrey C.; Blavier, Jean-Francois; Sung, Keeyoon; Rothman, Laurence S.; E. Gordon, Iouli

    2016-10-01

    High resolution FTIR solar occultation spectra, acquired by the JPL MkIV Fourier transform spectrometer from balloon, covering 650-5650 cm-1 at 0.01 cm-1 resolution, are systematically analyzed using the last four versions of the HITRAN linelist (2000, 2004, 2008, 2012). The rms spectral fitting residuals are used to assess the quality and adequacy of the linelists as a function of wavenumber and altitude. Although there have been substantial overall improvements with each successive version of HITRAN, there are nevertheless a few spectral regions where the latest HITRAN version (2012) has regressed, or produces residuals that far exceed the noise level. A few of these instances are investigated further and their causes identified. We emphasize that fitting atmospheric spectra, in addition to laboratory spectra, should be part of the quality assurance for any new linelist before public release.

  1. Photoacoustic Fourier Transform Infrared (FTIR) Spectroscopy Of Solids

    NASA Astrophysics Data System (ADS)

    Vidrine, D. Warren

    1981-10-01

    After discovering the photoacoustic effect, Alexander Graham Bell predicted its use in spectrometers, and that it would find its greatest utility "in the ultra-red." More than ninety years were required to fulfil his first prediction, and the second is still a prophecy. There is no record whether he ever imagined that an invention being developed that same winter by a young protege of his named Albert Michelson would ever be combined with his photoacoustic effect. A century later, the combination was made by Farrow Burnham, and Eyring, using a visible-range interferometer spectrometer of their own design. Soon afterwards, Rockley and myself, working independently, applied the technique to infrared measurements of solid samples. Photoacoustic cells are now commercially available as FT-IR accessories, and the technique is in use in the field.

  2. [Raman, FTIR spectra and normal mode analysis of acetanilide].

    PubMed

    Liang, Hui-Qin; Tao, Ya-Ping; Han, Li-Gang; Han, Yun-Xia; Mo, Yu-Jun

    2012-10-01

    The Raman and FTIR spectra of acetanilide (ACN) were measured experimentally in the regions of 3 500-50 and 3 500-600 cm(-1) respectively. The equilibrium geometry and vibration frequencies of ACN were calculated based on density functional theory (DFT) method (B3LYP/6-311G(d, p)). The results showed that the theoretical calculation of molecular structure parameters are in good agreement with previous report and better than the ones calculated based on 6-31G(d), and the calculated frequencies agree well with the experimental ones. Potential energy distribution of each frequency was worked out by normal mode analysis, and based on this, a detailed and accurate vibration frequency assignment of ACN was obtained. PMID:23285870

  3. [Remote sensing of atmospheric trace gas by airborne passive FTIR].

    PubMed

    Gao, Min-quang; Liu, Wen-qing; Zhang, Tian-shu; Liu, Jian-guo; Lu, Yi-huai; Wang, Ya-ping; Xu, Liang; Zhu, Jun; Chen, Jun

    2006-12-01

    The present article describes the details of aviatic measurement for remote sensing trace gases in atmosphere under various surface backgrounds with airborne passive FTIR. The passive down viewing and remote sensing technique used in the experiment is discussed. The method of acquiring atmospheric trace gases infrared characteristic spectra in complicated background and the algorithm of concentration retrieval are discussed. The concentrations of CO and N2O of boundary-layer atmosphere in experimental region below 1000 m are analyzed quantitatively. This measurement technique and the data analysis method, which does not require a previously measured background spectrum, allow fast and mobile remote detection and identification of atmosphere trace gas in large area, and also can be used for urgent monitoring of pollution accidental breakout.

  4. FTIR studies of low temperature sulfuric acid aerosols

    NASA Technical Reports Server (NTRS)

    Anthony, S. E.; Tisdale, R. T.; Disselkamp, R. S.; Tolbert, M. A.; Wilson, J. C.

    1995-01-01

    Sub-micrometer sized sulfuric acid H2SO4 particles were generated using a constant output atomizer source. The particles were then exposed to water vapor before being injected into a low temperature cell. Multipass transmission Fourier Transformation Infrared (FTIR) spectroscopy was used to determine the phase and composition of the aerosols as a function of time for periods of up to five hours. Binary H2SO4H2O aerosols with compositions from 35 to 95 wt % H2SO4 remained liquid for over 3 hours at room temperatures ranging from 189-240 K. These results suggest that it is very difficut to freeze SSAs via homogeneous nucleation. Attempts to form aerosols more dilute than 35 wt % H2SO4 resulted in ice formation.

  5. Freeze-thaw induced biomechanical changes in arteries: role of collagen matrix and smooth muscle cells.

    PubMed

    Venkatasubramanian, Ramji T; Wolkers, Wim F; Shenoi, Mithun M; Barocas, Victor H; Lafontaine, Daniel; Soule, Charles L; Iaizzo, Paul A; Bischof, John C

    2010-03-01

    Applications involving freeze-thaw, such as cryoplasty or cryopreservation can significantly alter artery biomechanics including an increase in physiological elastic modulus. Since artery biomechanics plays a significant role in hemodynamics, it is important to understand the mechanisms underlying these changes to be able to help control the biomechanical outcome post-treatments. Understanding of these mechanisms requires investigation of the freeze-thaw effect on arterial components (collagen, smooth muscle cells or SMCs), as well as the components' contribution to the overall artery biomechanics. To do this, isolated fresh swine arteries were subjected to thermal (freeze-thaw to -20 degrees C for 2 min or hyperthermia to 43 degrees C for 2 h) and osmotic (0.1-0.2 M mannitol) treatments; these treatments preferentially altered either the collagen matrix (hydration/stability) or smooth muscle cells (SMCs), respectively. Tissue dehydration, thermal stability and SMC functional changes were assessed from bulk weight measurements, analyses of the thermal denaturation profiles using Fourier transform infrared (FTIR) spectroscopy and in vitro arterial contraction/relaxation responses to norepinephrine (NE) and acetylcholine (AC), respectively. Additionally, Second Harmonic Generation (SHG) microscopy was performed on fresh and frozen-thawed arteries to directly visualize the changes in collagen matrix following freeze-thaw. Finally, the overall artery biomechanics was studied by assessing responses to uniaxial tensile testing. Freeze-thaw of arteries caused: (a) tissue dehydration (15% weight reduction), (b) increase in thermal stability (approximately 6.4 degrees C increase in denaturation onset temperature), (c) altered matrix arrangement observed using SHG and d) complete SMC destruction. While hyperthermia treatment also caused complete SMC destruction, no tissue dehydration was observed. On the other hand, while 0.2 M mannitol treatment significantly increased the

  6. Matrix fractional systems

    NASA Astrophysics Data System (ADS)

    Tenreiro Machado, J. A.

    2015-08-01

    This paper addresses the matrix representation of dynamical systems in the perspective of fractional calculus. Fractional elements and fractional systems are interpreted under the light of the classical Cole-Cole, Davidson-Cole, and Havriliak-Negami heuristic models. Numerical simulations for an electrical circuit enlighten the results for matrix based models and high fractional orders. The conclusions clarify the distinction between fractional elements and fractional systems.

  7. FTIR measurements of biomass burning species in the Arctic

    NASA Astrophysics Data System (ADS)

    Lutsch, E.; Viatte, C.; Strong, K.; Nussbaumer, E.; Hannigan, J. W.; Kasai, Y.

    2014-12-01

    We present time series of the total column amounts of carbon monoxide (CO), hydrogen cyanide(HCN), acetylene (C2H2), ethane (C2H6), formaldehyde (H2CO), formic acid (HCOOH) and methanol(CH3OH) obtained by Fourier Transform Infrared (FTIR) spectrometer measurements at three Arcticsites. Two are located in the high Arctic at Eureka, Nunavut (80.02°N, 86.42°W) and Thule, Greenland(76.53°N , 68.74°W), and the third is at Poker Flat, Alaska (65.11°N, 147.42°W). Total column amounts of each target species are obtained using the SFIT4 retrieval algorithm based onthe optimal estimation method, along with spectral line parameters from the HITRAN 2008spectroscopic database. The total column time series allow for biomass burning events to be identified at all three sites byenhancements of the total columns above ambient levels. HYSPLIT back-trajectories and MODIS firehot spot data are used to determine the burning source regions and the travel time durations of theplumes. The seasonal variabilities of the longer-lived species of CO, HCN, C2H2 and C2H6 are primarilydetermined by reactions with OH and long-range transport, while those of the shorter-lived species ofH2CO, HCOOH, CH3OH are most influenced by biogenic emissions and short-range transport. Thevarying lifetimes of these species and the independent measurements at the three sites allow for thetransport pathways to be investigated. By accounting for the effect of the aging of the smoke plumes,the measured FTIR enhancement ratios are corrected to obtain emission ratios and emission factors,which are needed to improve the simulation of fire emissions in chemical transport models.

  8. Raman and FTIR imaging of dynamic polymer systems

    NASA Astrophysics Data System (ADS)

    Bobiak, John Peter

    This work aims to expand the applications of Raman and infrared imaging in materials science and engineering. Recent developments in spectroscopic imaging technology have led to relatively fast image acquisition rates, enabling the in situ analysis of various engineering processes. A brief review of spectroscopic imaging principles and existing applications is provided as background before three novel applications are set forth. First, the effectiveness of FTIR imaging for modeling polymer dissolution behavior was examined in a series of binary poly (methyl methacrylate) (PMMA) systems. The dissolution behavior was influenced by polymer conformation as well as the solvent characteristics. The results indicate that chemistry alone is a poor predictor of dissolution rate. Rather, the diffusion coefficients of both the polymer and solvent have a foremost impact on the dissolution process. One major complication in modeling diffusion-related process by FTIR imaging is the precise determination of component locations in a series of images. This issue is addressed through the introduction of a new position-reporting technique based on hypothesis testing. A rudimentary drug release system, consisting of a poly (ethylene-co-vinyl acetate) film and a nicotine solution, was used to illustrate the importance of precisely reporting the nicotine diffusion front position. The new reporting method provided an inherent level of certainty to the position report. This method was applied to qualitatively assess the uptake of nicotine from solutions containing different solubilizing agents, which were capable of either promoting or inhibiting nicotine uptake. Finally, Raman mapping and Raman line imaging were used to classify individual carbon nanotubes that were dispersed on a substrate. Individual nanotubes displayed a range of spectral characteristics, indicating that the bulk sample was a mixture of materials with different graphitic domain sizes. The results from images acquired

  9. Assessing dysplasia of a bronchial biopsy with FTIR spectroscopic imaging

    NASA Astrophysics Data System (ADS)

    Foreman, Liberty; Kimber, James A.; Oliver, Katherine V.; Brown, James M.; Janes, Samuel M.; Fearn, Tom; Kazarian, Sergei G.; Rich, Peter

    2015-03-01

    An FTIR image of an 8 µm section of de-paraffinised bronchial biopsy that shows a histological transition from normal to severe dysplasia/squamous cell carcinoma (SCC) in situ was obtained in transmission by stitching together images of 256 x 256 µm recorded using a 96 x 96 element FPA detector. Each pixel spectrum was calculated from 128 co-added interferograms at 4 cm-1 resolution. In order to improve the signal to noise ratio, blocks of 4x4 adjacent pixels were subsequently averaged. Analyses of this spectral image, after conversion of the spectra to their second derivatives, show that the epithelium and the lamina propria tissue types can be distinguished using the area of troughs at either 1591, 1334, 1275 or 1215 cm-1 or, more effectively, by separation into two groups by hierarchical clustering (HCA) of the 1614-1465 region. Due to an insufficient signal to noise ratio, disease stages within the image could not be distinguished with this extent of pixel averaging. However, after separation of the cell types, disease stages within either the epithelium or the lamina propria could be distinguished if spectra were averaged from larger, manually selected areas of the tissue. Both cell types reveal spectral differences that follow a transition from normal to cancerous histology. For example, spectral changes that occurred in the epithelium over the transition from normal to carcinoma in situ could be seen in the 1200-1000 cm-1 region, particularly as a decrease in the second derivative troughs at 1074 and 1036 cm-1 , consistent with changes in some form of carbohydrate. Spectral differences that indicate a disease transition from normal to carcinoma in the lamina propria could be seen in the 1350-1175 cm-1 and 1125-1030 cm-1 regions. Thus demonstrating that a progression from healthy to severe dysplasia/squamous cell carcinoma (SCC) in situ can be seen using FTIR spectroscopic imaging and multivariate analysis.

  10. Optical coherency matrix tomography

    NASA Astrophysics Data System (ADS)

    Kagalwala, Kumel H.; Kondakci, H. Esat; Abouraddy, Ayman F.; Saleh, Bahaa E. A.

    2015-10-01

    The coherence of an optical beam having multiple degrees of freedom (DoFs) is described by a coherency matrix G spanning these DoFs. This optical coherency matrix has not been measured in its entirety to date—even in the simplest case of two binary DoFs where G is a 4 × 4 matrix. We establish a methodical yet versatile approach—optical coherency matrix tomography—for reconstructing G that exploits the analogy between this problem in classical optics and that of tomographically reconstructing the density matrix associated with multipartite quantum states in quantum information science. Here G is reconstructed from a minimal set of linearly independent measurements, each a cascade of projective measurements for each DoF. We report the first experimental measurements of the 4 × 4 coherency matrix G associated with an electromagnetic beam in which polarization and a spatial DoF are relevant, ranging from the traditional two-point Young’s double slit to spatial parity and orbital angular momentum modes.

  11. Optical coherency matrix tomography

    PubMed Central

    Kagalwala, Kumel H.; Kondakci, H. Esat; Abouraddy, Ayman F.; Saleh, Bahaa E. A.

    2015-01-01

    The coherence of an optical beam having multiple degrees of freedom (DoFs) is described by a coherency matrix G spanning these DoFs. This optical coherency matrix has not been measured in its entirety to date—even in the simplest case of two binary DoFs where G is a 4 × 4 matrix. We establish a methodical yet versatile approach—optical coherency matrix tomography—for reconstructing G that exploits the analogy between this problem in classical optics and that of tomographically reconstructing the density matrix associated with multipartite quantum states in quantum information science. Here G is reconstructed from a minimal set of linearly independent measurements, each a cascade of projective measurements for each DoF. We report the first experimental measurements of the 4 × 4 coherency matrix G associated with an electromagnetic beam in which polarization and a spatial DoF are relevant, ranging from the traditional two-point Young’s double slit to spatial parity and orbital angular momentum modes. PMID:26478452

  12. Stabilisation of matrix polynomials

    NASA Astrophysics Data System (ADS)

    Galindo, R.

    2015-10-01

    A state feedback is proposed to analyse the stability of a matrix polynomial in closed loop. First, it is shown that a matrix polynomial is stable if and only if a state space realisation of a ladder form of certain transfer matrix is stable. Following the ideas of the Routh-Hurwitz stability procedure for scalar polynomials, certain continued-fraction expansions of polynomial matrices are carrying out by unimodular matrices to achieve the Euclid's division algorithm which leads to an extension of the well-known Routh-Hurwitz stability criteria but this time in terms of matrix coefficients. After that, stability of the closed-loop matrix polynomial is guaranteed based on a Corollary of a Lyapunov Theorem. The sufficient stability conditions are: (i) The matrices of one column of the presented array must be symmetric and positive definite and (ii) the matrices of the cascade realisation must satisfy a commutative condition. These stability conditions are also necessary for matrix polynomial of second order. The results are illustrated through examples.

  13. Characterization of compression-molded UHMWPE, PMMA and PMMA/MMA treated UHMWPE: density measurement, FTIR-ATR, and DSC.

    PubMed

    Park, K D; Khang, G S; Lee, H B; Park, J B

    2001-01-01

    Considered one of the weak links in the total hip replacement (THR), efforts to enhance the interfacial strength between bone cement and ultra-high molecular weight polyethylene (UHMWPE) acetabular cup had been conducted in this laboratory. Following the successful demonstration of high interfacial strengths for our new acetabular component design, the nature of physical, chemical, and thermal property of the compression-molded specimens, including UHMWPE, PMMA/MMA treated UHMWPE, and PMMA has been investigated in this study. Density results from a density gradient column showed that the molding processes and conditions were adequate for complete sintering of UHMWPE and PMMA powders. FTIR-ATR results gave a direct evidence that PMMA did exist in the PMMA/MMA treated UHMWPE matrix. It also revealed a clear diffusion-related behavior across the interface. Under the high temperature and pressure, the UHMWPE powders undergo drastic changes of their morphology and crystalline structures. These changes were examined by differential scanning calorimeter (DSC) which showed a large difference in terms of % crystallinity. The percent of PMMA deposited in the treated UHMWPE was 17.8%, 18.8%, and 24.3% from the analyses of density, FTIR-ATR, and DSC, respectively. Finally, an evidence of diffusive behavior at the interface exhibited diffusion of PMMA occurring across the interfaces between the treated UHMWPE and UHMWPE or PMMA.

  14. A strategy to quantitate global phosphorylation of bone matrix proteins.

    PubMed

    Sroga, Grażyna E; Vashishth, Deepak

    2016-04-15

    Current studies of protein phosphorylation focus primarily on the importance of specific phosphoproteins and their landscapes of phosphorylation in the regulation of different cellular functions. However, global changes in phosphorylation of extracellular matrix phosphoproteins measured "in bulk" are equally important. For example, correct global phosphorylation of different bone matrix proteins is critical to healthy tissue biomineralization. To study changes of bone matrix global phosphorylation, we developed a strategy that combines a procedure for in vitro phosphorylation/dephosphorylation of fully mineralized bone in addition to quantitation of the global phosphorylation levels of bone matrix proteins. For the first time, we show that it is possible to enzymatically phosphorylate/dephosphorylate fully mineralized bone originating from either cadaveric human donors or laboratory animals (mice). Using our strategy, we detected the difference in the global phosphorylation levels of matrix proteins isolated from wild-type and osteopontin knockout mice. We also observed that the global phosphorylation levels of matrix proteins isolated from human cortical bone were lower than those isolated from trabecular bone. The developed strategy has the potential to open new avenues for studies on the global phosphorylation of bone matrix proteins and their role in biomineralization as well for other tissues/cells and protein-based materials.

  15. Formulation and drug-content assay of microencapsulated antisense oligonucleotide to NF-κB using ATR-FTIR

    NASA Astrophysics Data System (ADS)

    Siwale, Rodney; Meadows, Fred; Mody, Vicky V.; Shah, Samit

    2013-09-01

    Antisense oligonucleotide to NF-κB sequence: 5‧-GGA AAC ACA TCC TCC ATG-3‧, was microencapsulated in an albumin matrix by the method of spray dryingTM. Spectral analysis was performed on varying drug loading formulations of both drugs by mid-IR attenuated total reflectance-Fourier transform infrared spectroscopy (ATR-FTIR). An out of plane O-H bending vibration at 948 cm-1, unique to both the native and microencapsulated drugs was identified. The calculated peak areas corresponded to the drug loadings in the microsphere formulations. A standard curve could then be used to determine the drug content of an unknown microsphere formulation. Accuracy and precision were determined to be comparable to other analytical techniques such as HPLC.

  16. Development of a percutaneous penetration predictive model by SR-FTIR.

    PubMed

    Jungman, E; Laugel, C; Rutledge, D N; Dumas, P; Baillet-Guffroy, A

    2013-01-30

    This work focused on developing a new evaluation criterion of percutaneous penetration, in complement to Log Pow and MW and based on high spatial resolution Fourier transformed infrared (FTIR) microspectroscopy with a synchrotron source (SR-FTIR). Classic Franz cell experiments were run and after 22 h molecule distribution in skin was determined either by HPLC or by SR-FTIR. HPLC data served as reference. HPLC and SR-FTIR results were compared and a new predictive criterion based from SR-FTIR results, named S(index), was determined using a multi-block data analysis technique (ComDim). A predictive cartography of the distribution of molecules in the skin was built and compared to OECD predictive cartography. This new criterion S(index) and the cartography using SR-FTIR/HPLC results provides relevant information for risk analysis regarding prediction of percutaneous penetration and could be used to build a new mathematical model.

  17. Ceramic Matrix Composites Performances Under High Gamma Radiation Doses

    NASA Astrophysics Data System (ADS)

    Cemmi, A.; Baccaro, S.; Fiore, S.; Gislon, P.; Serra, E.; Fassina, S.; Ferrari, E.; Ghisolfi, E.

    2014-06-01

    Ceramic matrix composites reinforced by continuous ceramic fibers (CMCs) represent a class of advanced materials developed for applications in automotive, aerospace, nuclear fusion reactors and in other specific systems for harsh environments. In the present work, the silicon carbide/silicon carbide (SiCf/SiC) composites, manufactured by Chemical Vapour Infiltration process at FN S.p.A. plant, have been evaluated in term of gamma radiation hardness at three different absorbed doses (up to around 3MGy). Samples behavior has been investigated before and after irradiation by means of mechanical tests (flexural strength) and by surface and structural analyses (X-ray diffraction, SEM, FTIR-ATR, EPR).

  18. Classification of FTIR cancer data using wavelets and fuzzy C-means clustering

    NASA Astrophysics Data System (ADS)

    Bai, Li; Liu, Yihui

    2005-11-01

    A feature extracting method based on wavelets for Fourier Transform Infrared (FTIR) cancer data analysis is presented in this paper. A set of low frequency wavelet basis is used to represent FTIR data to reduce data dimension and remove noise. The fuzzy C-means algorithm is used to classify the data. Experiments are conducted to compare classification performance using wavelet features and the original FTIR data provided by the Derby City General Hospital in the UK. Experiments show that only 30 wavelet features are needed to represent 901 wave numbers of the FTIR data to produce good clustering results.

  19. Nickel nanoparticle decorated graphene for highly selective isolation of polyhistidine-tagged proteins

    NASA Astrophysics Data System (ADS)

    Liu, Jia-Wei; Yang, Ting; Ma, Lin-Yu; Chen, Xu-Wei; Wang, Jian-Hua

    2013-12-01

    Nickel nanoparticle decorated graphene (GP-Ni) is prepared by one-pot hydrothermal reduction of graphene oxide and nickel cations by hydrazine hydrate in the presence of poly(sodium-p-styrenesulfonate) (PSS). The GP-Ni hybrid is characterized by XRD, TEM, SEM, XPS, Raman and FT-IR spectra, demonstrating the formation of poly-dispersed nickel nanoparticles with an average size of 83 nm attached on the surface of graphene sheets. The GP-Ni hybrid exhibits ferromagnetic behavior with a magnetization saturation of 31.1 emu g-1 at 10 000 Oersted (Oe). The GP-Ni also possesses favorable stability in aqueous medium and rapid magnetic response to an external magnetic field. These make it a novel magnetic adsorbent for the separation/isolation of His6-tagged recombinant proteins from a complex sample matrix (cell lysate). The targeted protein species is captured onto the surface of the GP-Ni hybrid via specific metal affinity force between polyhistidine groups and nickel nanoparticles. The SDS-PAGE assay indicates highly selective separation of His6-tagged Smt A from cell lysate. The GP-Ni hybrid displays favorable performance on the separation/isolation of His6-tagged recombinant proteins with respect to the commercial NTA-Ni2+ column.

  20. Nickel nanoparticle decorated graphene for highly selective isolation of polyhistidine-tagged proteins.

    PubMed

    Liu, Jia-Wei; Yang, Ting; Ma, Lin-Yu; Chen, Xu-Wei; Wang, Jian-Hua

    2013-12-20

    Nickel nanoparticle decorated graphene (GP-Ni) is prepared by one-pot hydrothermal reduction of graphene oxide and nickel cations by hydrazine hydrate in the presence of poly(sodium-p-styrenesulfonate) (PSS). The GP-Ni hybrid is characterized by XRD, TEM, SEM, XPS, Raman and FT-IR spectra, demonstrating the formation of poly-dispersed nickel nanoparticles with an average size of 83 nm attached on the surface of graphene sheets. The GP-Ni hybrid exhibits ferromagnetic behavior with a magnetization saturation of 31.1 emu g(-1) at 10,000 Oersted (Oe). The GP-Ni also possesses favorable stability in aqueous medium and rapid magnetic response to an external magnetic field. These make it a novel magnetic adsorbent for the separation/isolation of His6-tagged recombinant proteins from a complex sample matrix (cell lysate). The targeted protein species is captured onto the surface of the GP-Ni hybrid via specific metal affinity force between polyhistidine groups and nickel nanoparticles. The SDS-PAGE assay indicates highly selective separation of His6-tagged Smt A from cell lysate. The GP-Ni hybrid displays favorable performance on the separation/isolation of His6-tagged recombinant proteins with respect to the commercial NTA-Ni(2+) column.

  1. Matrix interdiction problem

    SciTech Connect

    Pan, Feng; Kasiviswanathan, Shiva

    2010-01-01

    In the matrix interdiction problem, a real-valued matrix and an integer k is given. The objective is to remove k columns such that the sum over all rows of the maximum entry in each row is minimized. This combinatorial problem is closely related to bipartite network interdiction problem which can be applied to prioritize the border checkpoints in order to minimize the probability that an adversary can successfully cross the border. After introducing the matrix interdiction problem, we will prove the problem is NP-hard, and even NP-hard to approximate with an additive n{gamma} factor for a fixed constant {gamma}. We also present an algorithm for this problem that achieves a factor of (n-k) mUltiplicative approximation ratio.

  2. EKG isolator

    NASA Technical Reports Server (NTRS)

    Palmer, E.; Rasquin, J. R.; Smith, H. E.

    1971-01-01

    Light beam transmits heartbeat signal from electrodes on patient to electrocardiograph without exposing patient to possible severe electrical shock. System provides complete isolation between patient and EKG instrumentation.

  3. Combined SIMS, NanoSIMS, FTIR, and SEM Studies of OH in Nominally Anhydrous Minerals (NAMs)

    NASA Astrophysics Data System (ADS)

    Mosenfelder, J. L.; Le Voyer, M.; Rossman, G. R.; Guan, Y.; Bell, D. R.; Asimow, P. D.; Eiler, J.

    2010-12-01

    The accurate analysis of trace concentrations of hydrogen in NAMs is a long-standing problem, with wide-ranging implications in geology and planetology. SIMS and FTIR are two powerful and complementary analytical tools capable of measuring concentrations down to levels of less than 1 ppm H2O. Both methods, however, are subject to matrix effects and rely on other techniques such as manometry or nuclear reaction analysis (NRA) for quantitative calibration. We compared FTIR and SIMS data for a wide variety of NAMs: olivine, orthopyroxene, clinopyroxene, pyrope and grossular garnet, rutile, zircon, kyanite, andalusite, and sillimanite. Some samples were also characterized using high-resolution FE-SEM to assess the potential contribution of submicrocopic inclusions to the analyses. For SIMS, we use high mass resolution (≥5000 MRP) to measure 16O1H, using 30Si and/or 18O as reference isotopes. We use both primary standards, measured independently using manometry or NRA (e.g., [1]), and secondary standards, measured using polarized FTIR referenced back to calibrations developed on primary standards. Our major focus was on on olivine, for which we collected repeated calibration data with both SIMS and NanoSIMS, bracketing measurements of H diffusion profiles in both natural and experimentally annealed crystals at levels of 5-100 ppm H2O. With both instruments we establish low blanks (≤5 ppm) and high precision (typically less than 5% 2-σ errors in 16O1H/30Si), critical requirements for the low concentration levels being measured. Assessment of over 300 analyses on 11 olivines allows us to evaluate the suitability of different standards, several of which are in use in other laboratories [2,3,4]. Seven olivines, with 0-125 ppm H2O, give highly reproducible results and allow us to establish well-constrained calibration slopes with high correlation coefficients (r2 = 0.98-99), in contrast to previous studies [2,3,4]. However, four kimberlitic megacrysts with 140-243 ppm H

  4. Matrixed business support comparison study.

    SciTech Connect

    Parsons, Josh D.

    2004-11-01

    The Matrixed Business Support Comparison Study reviewed the current matrixed Chief Financial Officer (CFO) division staff models at Sandia National Laboratories. There were two primary drivers of this analysis: (1) the increasing number of financial staff matrixed to mission customers and (2) the desire to further understand the matrix process and the opportunities and challenges it creates.

  5. FTIR Analysis of Functional Groups in Aerosol Particles

    NASA Astrophysics Data System (ADS)

    Shokri, S. M.; McKenzie, G.; Dransfield, T. J.

    2012-12-01

    Secondary organic aerosols (SOA) are suspensions of particulate matter composed of compounds formed from chemical reactions of organic species in the atmosphere. Atmospheric particulate matter can have impacts on climate, the environment and human health. Standardized techniques to analyze the characteristics and composition of complex secondary organic aerosols are necessary to further investigate the formation of SOA and provide a better understanding of the reaction pathways of organic species in the atmosphere. While Aerosol Mass Spectrometry (AMS) can provide detailed information about the elemental composition of a sample, it reveals little about the chemical moieties which make up the particles. This work probes aerosol particles deposited on Teflon filters using FTIR, based on the protocols of Russell, et al. (Journal of Geophysical Research - Atmospheres, 114, 2009) and the spectral fitting algorithm of Takahama, et al (submitted, 2012). To validate the necessary calibration curves for the analysis of complex samples, primary aerosols of key compounds (e.g., citric acid, ammonium sulfate, sodium benzoate) were generated, and the accumulated masses of the aerosol samples were related to their IR absorption intensity. These validated calibration curves were then used to classify and quantify functional groups in SOA samples generated in chamber studies by MIT's Kroll group. The fitting algorithm currently quantifies the following functionalities: alcohols, alkanes, alkenes, amines, aromatics, carbonyls and carboxylic acids.

  6. 3-Iodobenzaldehyde: XRD, FT-IR, Raman and DFT studies.

    PubMed

    Kumar, Chandraju Sadolalu Chidan; Parlak, Cemal; Tursun, Mahir; Fun, Hoong-Kun; Rhyman, Lydia; Ramasami, Ponnadurai; Alswaidan, Ibrahim A; Keşan, Gürkan; Chandraju, Siddegowda; Quah, Ching Kheng

    2015-06-15

    The structure of 3-iodobenzaldehyde (3IB) was characterized by FT-IR, Raman and single-crystal X-ray diffraction techniques. The conformational isomers, optimized geometric parameters, normal mode frequencies and corresponding vibrational assignments of 3IB were examined using density functional theory (DFT) method, with the Becke-3-Lee-Yang-Parr (B3LYP) functional and the 6-311+G(3df,p) basis set for all atoms except for iodine. The LANL2DZ effective core basis set was used for iodine. Potential energy distribution (PED) analysis of normal modes was performed to identify characteristic frequencies. 3IB crystallizes in monoclinic space group P21/c with the O-trans form. There is a good agreement between the theoretically predicted structural parameters, and vibrational frequencies and those obtained experimentally. In order to understand halogen effect, 3-halogenobenzaldehyde [XC6H4CHO; X=F, Cl and Br] was also studied theoretically. The free energy difference between the isomers is small but the rotational barrier is about 8kcal/mol. An atypical behavior of fluorine affecting conformational preference is observed.

  7. Analyzing peat pyrolysis by in-situ FTIR

    SciTech Connect

    Fen, J.; Li, W.Y.; Li, F.; Xie, K.C.

    1997-12-31

    Coal pyrolysis is complex process that includes many small reactions. Being complicated, it is difficult to study the pyrolysis mechanism with high rank coal directly. Peat is a rudimentary coal which has the most simple structure with lower polymerization. Some researchers think that the key to understanding coal structure is in an appreciation of the molecular components of the original peat swamp and how these might be modified. It is generally agreed that the chemical diversity of various coals will affect rate of coal combustion through the devolatilization process. Upon heating, some of the chemical bonds in coal undergo cracking and result in the release of light gases and the production of tar. Through analysis of peat which is best model compound of coal, some basic step reactions of coal can be understood. The objective of this study is to analyze peat pyrolysis using a in-situ pyrolysis-FTIR and to establish the pyrolysis model. The results show that during rapid peat pyrolysis, all the functional groups produced have almost the same activity energy; the difference among them is the degree of reaction.

  8. 3-Iodobenzaldehyde: XRD, FT-IR, Raman and DFT studies.

    PubMed

    Kumar, Chandraju Sadolalu Chidan; Parlak, Cemal; Tursun, Mahir; Fun, Hoong-Kun; Rhyman, Lydia; Ramasami, Ponnadurai; Alswaidan, Ibrahim A; Keşan, Gürkan; Chandraju, Siddegowda; Quah, Ching Kheng

    2015-06-15

    The structure of 3-iodobenzaldehyde (3IB) was characterized by FT-IR, Raman and single-crystal X-ray diffraction techniques. The conformational isomers, optimized geometric parameters, normal mode frequencies and corresponding vibrational assignments of 3IB were examined using density functional theory (DFT) method, with the Becke-3-Lee-Yang-Parr (B3LYP) functional and the 6-311+G(3df,p) basis set for all atoms except for iodine. The LANL2DZ effective core basis set was used for iodine. Potential energy distribution (PED) analysis of normal modes was performed to identify characteristic frequencies. 3IB crystallizes in monoclinic space group P21/c with the O-trans form. There is a good agreement between the theoretically predicted structural parameters, and vibrational frequencies and those obtained experimentally. In order to understand halogen effect, 3-halogenobenzaldehyde [XC6H4CHO; X=F, Cl and Br] was also studied theoretically. The free energy difference between the isomers is small but the rotational barrier is about 8kcal/mol. An atypical behavior of fluorine affecting conformational preference is observed. PMID:25767992

  9. 3-Iodobenzaldehyde: XRD, FT-IR, Raman and DFT studies

    NASA Astrophysics Data System (ADS)

    Kumar, Chandraju Sadolalu Chidan; Parlak, Cemal; Tursun, Mahir; Fun, Hoong-Kun; Rhyman, Lydia; Ramasami, Ponnadurai; Alswaidan, Ibrahim A.; Keşan, Gürkan; Chandraju, Siddegowda; Quah, Ching Kheng

    2015-06-01

    The structure of 3-iodobenzaldehyde (3IB) was characterized by FT-IR, Raman and single-crystal X-ray diffraction techniques. The conformational isomers, optimized geometric parameters, normal mode frequencies and corresponding vibrational assignments of 3IB were examined using density functional theory (DFT) method, with the Becke-3-Lee-Yang-Parr (B3LYP) functional and the 6-311+G(3df,p) basis set for all atoms except for iodine. The LANL2DZ effective core basis set was used for iodine. Potential energy distribution (PED) analysis of normal modes was performed to identify characteristic frequencies. 3IB crystallizes in monoclinic space group P21/c with the O-trans form. There is a good agreement between the theoretically predicted structural parameters, and vibrational frequencies and those obtained experimentally. In order to understand halogen effect, 3-halogenobenzaldehyde [XC6H4CHO; X = F, Cl and Br] was also studied theoretically. The free energy difference between the isomers is small but the rotational barrier is about 8 kcal/mol. An atypical behavior of fluorine affecting conformational preference is observed.

  10. Diffuse reflectance FTIR of stains on grit blasted metals

    SciTech Connect

    Powell, G.L.; Hallman, R.L. Jr.; Cox, R.L.

    1998-06-01

    Diffuse reflectance mid-infrared Fourier transform (DRIFT) spectroscopy has been applied to the detection of oil contamination on grit-blasted metals. The object of this application is to detect and discriminate between silicone and hydrocarbon oil contamination at levels approaching 10 mg m{sup {minus}2}. A portable FTIR spectrometer with dedicated diffuse reflectance optics was developed for this purpose. Using translation devices positioned by instructions from the spectrometer operating system, images of macroscopic substrates were produced with millimeter spatial resolution. The pixels that comprise an image are each a full mid-infrared spectrum with excellent signal-to-noise, each determined as individual files and uniquely saved to disc. Reduced spectra amplitudes, based on peak height, area, or other chemometric techniques, mapped as a function of the spatial coordinates of the pixel are used to display the image. This paper demonstrates the application of the technique to the analysis of stains on grit-blasted metals, including the calibration of the method, the inspection of substrates, and the migration of oil contamination. {copyright} {ital 1998 American Institute of Physics.}

  11. Current status of FTIR in the analysis of coal structure

    SciTech Connect

    Painter, P.; Sobkowiak, M.; Heidray, S.; Coleman, M.

    1994-12-31

    Infrared spectroscopy has been a basic {open_quotes}workhorse{close_quotes} technique for coal characterization since the pioneering work of Brown nearly 40 years ago. The optical and data handling advantages of MR have allowed various advances, such as the introduction of {open_quotes}hyphenated{close_quotes} techniques (GC-FTIR, IR-Microscopy, etc.) and novel sampling methods (diffuse reflection, photo-acoustic measurement, etc.), but most of the problems in coal structural analysis remain the same; the quantitative determination of various functional groups in coal and how the concentration of these groups varies with, for example, oxidation or liquefaction. In a short article of this type justice cannot be done to the range and scope of work reported by various groups. Accordingly, we will concentrate our attention on just one problem, but a problem that is of central importance in the analysis of coal structure; the determination of the aliphatic and aromatic CH content of coal and coal derived material.

  12. Diffuse reflectance FTIR of stains on grit blasted metals

    SciTech Connect

    Powell, G.L.; Hallman, R.L. Jr.; Cox, R.L.

    1997-08-09

    Diffuse reflectance mid-infrared Fourier transform (DRIFT) spectroscopy has been applied to the detection of oil contamination on grit-blasted metals. The object of this application is to detect and discriminate between silicone and hydrocarbon oil contamination at levels approaching 10 mg/m{sup 2}. A portable FTIR spectrometer with dedicated diffuse reflectance optics was developed for this purpose. Using translation devices positioned by instructions from the spectrometer operating system, images of macroscopic substrates were produced with millimeter spatial resolution. The pixels that comprise an image are each a full mid-infrared spectrum with excellent signal-to-noise, each determined as individual files and uniquely saved to disc. Reduced spectra amplitudes, based on peak height, area, or other chemometric techniques, mapped as a function of the spatial coordinates of the pixel are used to display the image. This paper demonstrates the application of the technique to the analysis of stains on grit-blasted metals, including the calibration of the method, the inspection of substrates, and the migration of oil contamination.

  13. FTIR, Raman spectra and ab initio calculations of 2-mercaptobenzothiazole.

    PubMed

    Rai, Amareshwar K; Singh, Rachana; Singh, K N; Singh, V B

    2006-02-01

    FTIR and Raman spectra of a rubber vulcanization accelerator, 2-mercaptobenzothiazole (MBT), were recorded in the solid phase. The harmonic vibrational wavenumbers, for both the toutomeric forms of MBT, as well as for its dimeric complex, have been calculated, using ab initio RHF and density functional B3LYP methods invoking different basis sets upto RHF/6-31G** and B3LYP/6-31G** and the results were compared with the experimental values. Conformational studies have been also carried out regarding its toutomeric monomer forms and its dimer form. With all the basis sets the thione form of MBT (II) is predicted to be more stable than thiol form (I) and dimeric conformation (III) is predicted to be more stable with monomeric conformations (I) and (II). Vibrational assignments have been made, and it has been found that the calculated normal mode frequencies of dimeric conformation (III) are required for the analysis of IR and Raman bands of the MBT. The predicted shift in NH- stretching vibration towards the lower wave number side with the B3LYP/6-31G** calculations for the most stable dimer form (III), is in better agreement with experimental results. The intermolecular sulfur-nitrogen distance in N-H...S hydrogen bond was found to be 3.35 angstroms from these calculations, is also in agreement to the experimental value. PMID:16098806

  14. Fourier transform infrared spectroscopy (FTIR) of laser-irradiated cementum

    NASA Astrophysics Data System (ADS)

    Rechmann, Peter; White, Joel M.; Cecchini, Silvia C. M.; Hennig, Thomas

    2003-06-01

    Utilizing Fourier Transform Infrared Spectroscopy (FTIR) in specular reflectance mode chemical changes of root cement surfaces due to laser radiation were investigated. A total of 18 samples of root cement were analyzed, six served as controls. In this study laser energies were set to those known for removal of calculus or for disinfection of periodontal pockets. Major changes in organic as well as inorganic components of the cementum were observed following Nd:YAG laser irradiation (wavelength 1064 nm, pulse duration 250 μs, free running, pulse repetition rate 20 Hz, fiber diameter 320 μm, contact mode; Iskra Twinlight, Fontona, Slovenia). Er:YAG laser irradiation (wavelength 2.94 μm, pulse duration 250 μs, free running, pulse repetition rate 6 Hz, focus diameter 620 μm, air water cooling 30 ml/min; Iskra Twinlight, Fontona, Slovenia) significantly reduced the Amid bands due to changes in the organic components. After irradiation with a frequency doubled Alexandrite laser (wavelength 377 nm, pulse duration 200 ns, q-switched, pulse repetition rate 20 Hz, beam diameter 800 μm, contact mode, water cooling 30 ml/min; laboratory prototype) only minimal reductions in the peak intensity of the Amide-II band were detected.

  15. Nanosecond step-scan FTIR spectroscopy applied to photobiological systems

    NASA Astrophysics Data System (ADS)

    Rödig, C.; Weidlich, O.; Hackmann, C.; Siebert, F.

    1998-06-01

    Our improved step-scan FTIR instrument, capable of measuring spectra within 15 ns after the flash, is employed to measure flash-induced infrared difference spectra of bacteriorhodopsin, halorhodopsin and CO-myoglobin. For all three systems it is necessary to cover a large time range extending into several milliseconds. Therefore, the linear time base provided by the transient recorder board is converted to a quasi-logarithmic scale. Each of the three systems is characterized by several time constants extending over the large time range. For bacteriorhodopsin, it is shown that two spectral changes occur, one in the 20 and the other in the 100 ns time range. Furthermore, spectral differences between the two M states could be detected in the μs time range. For halorhodopsin, a clear batho intermediate with red-shifted ethylenic mode could be identified in the nanosecond time range. In addition, a transition corresponding to the N intermediate in bacteriorhodopsin was deduced. Further, it is shown that the millisecond time constant depends on Cl- concentration, enabling the detection of the O intermediate. In the case of CO-myoglobin, spectral differences could be identified caused by mutations of the distal histidine of the heme binding pocket.

  16. Hydrogen-Deuterium exchange monitored by ATR-FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Poe, Brent; Del Vecchio, Alessandro; Cestelli Guidi, Mariangela

    2016-04-01

    Measuring the extent of isotopic exchange is a common means for the determination of self-diffusion coefficients in any type of medium (gas, liquid, amorphous solid, crystalline solid). For rapidly diffusing species such as hydrogen in condensed phases, real time methods involving vibrational spectroscopy can be used by taking advantage of the large relative mass difference between 1H and 2H, resulting in large differences in the band positions of their vibrational modes. We demonstrate rapid isotopic exchange between D2O liquid and H2O vapor using ATR (attenuated total reflectance) in a FTIR spectrometer. Over the course of a few minutes several spectra were acquired of a D2O droplet mounted on a diamond crystal. The progressive exchange reaction between the liquid phase and H2O from the atmosphere was monitored by measuring the decreasing absorbance of the D-O-D bending and O-D stretching bands and the increasing absorbance of the D-O-H and H-O-H bending and O-H stretching bands as functions of time. Our results offer some intriguing insights into the structural characteristics of water as inferred by this exchange process.

  17. Rapid discrimination of maggots utilising ATR-FTIR spectroscopy.

    PubMed

    Pickering, Claire L; Hands, James R; Fullwood, Leanne M; Smith, Judith A; Baker, Matthew J

    2015-04-01

    Entomological evidence is used in forensic investigations to indicate time since death. The species and age of maggots or flies that are present at the scene can be used when estimating how much time has passed since death. Current methods that are used to identify species and developmental stage of larvae and fly samples are highly subjective, costly and often time consuming processes and require the expertise of an entomologist or species identification via DNA analysis. The use of vibrational spectroscopy, as an alternative identification method, would allow for a quicker, cheaper and less subjective technique and would allow entomological evidence to be used more commonly in the forensic process. This proof of principle study shows the potential for using attenuated total reflection-Fourier transform infrared spectroscopy (ATR-FTIR) as a rapid tool for differentiating between various species of larvae, such as those commonly found at crime scenes. The proposed regime would provide a rapid and valuable tool resulting in reduced time for both species identification and life cycle determination, particularly in forensic situations.

  18. Hydration of amino acids: FTIR spectra and molecular dynamics studies.

    PubMed

    Panuszko, Aneta; Adamczak, Beata; Czub, Jacek; Gojło, Emilia; Stangret, Janusz

    2015-11-01

    The hydration of selected amino acids, alanine, glycine, proline, valine, isoleucine and phenylalanine, has been studied in aqueous solutions by means of FTIR spectra of HDO isotopically diluted in H2O. The difference spectra procedure and the chemometric method have been applied to remove the contribution of bulk water and thus to separate the spectra of solute-affected HDO. To support interpretation of obtained spectral results, molecular dynamics simulations of amino acids were performed. The structural-energetic characteristic of these solute-affected water molecules shows that, on average, water affected by amino acids forms stronger and shorter H-bonds than those in pure water. Differences in the influence of amino acids on water structure have been noticed. The effect of the hydrophobic side chain of an amino acid on the solvent interactions seems to be enhanced because of the specific cooperative coupling of water strong H-bond chain, connecting the carboxyl and amino groups, with the clathrate-like H-bond network surrounding the hydrocarbon side chain. The parameter derived from the spectral data, which corresponds to the contributions of the population of weak hydrogen bonds of water molecules which have been substituted by the stronger ones in the hydration sphere of amino acids, correlated well with the amino acid hydrophobicity indexes.

  19. The Acrosomal Matrix.

    PubMed

    Foster, James A; Gerton, George L

    2016-01-01

    The acrosome, a single exocytotic vesicle on the head of sperm, has an essential role in fertilization, but the exact mechanisms by which it facilitates sperm-egg interactions remain unresolved. The acrosome contains dozens of secretory proteins that are packaged into the forming structure during spermatogenesis; many of these proteins are localized into specific topographical areas of the acrosome, while others are more diffusely distributed. Acrosomal proteins can also be biochemically classified as components of the acrosomal matrix, a large, relatively insoluble complex, or as soluble proteins. This review focuses on recent findings using genetically modified mice (gene knockouts and transgenic "green acrosome" mice) to study the effects of eliminating acrosomal matrix-associated proteins on sperm structure and function. Some gene knockouts produce infertile phenotypes with obviously missing, specific activities that affect acrosome biogenesis during spermatogenesis or interfere with acrosome function in mature sperm. Mutations that delete some components produce fertile phenotypes with subtler effects that provide useful insights into acrosomal matrix function in fertilization. In general, these studies enable the reassessment of paradigms to explain acrosome formation and function and provide novel, objective insights into the roles of acrosomal matrix proteins in fertilization. The use of genetically engineered mouse models has yielded new mechanistic information that complements recent, important in vivo imaging studies. PMID:27194348

  20. Constructing the matrix

    NASA Astrophysics Data System (ADS)

    Elliott, John

    2012-09-01

    As part of our 'toolkit' for analysing an extraterrestrial signal, the facility for calculating structural affinity to known phenomena must be part of our core capabilities. Without such a resource, we risk compromising our potential for detection and decipherment or at least causing significant delay in the process. To create such a repository for assessing structural affinity, all known systems (language parameters) need to be structurally analysed to 'place' their 'system' within a relational communication matrix. This will need to include all known variants of language structure, whether 'living' (in current use) or ancient; this must also include endeavours to incorporate yet undeciphered scripts and non-human communication, to provide as complete a picture as possible. In creating such a relational matrix, post-detection decipherment will be assisted by a structural 'map' that will have the potential for 'placing' an alien communication with its nearest known 'neighbour', to assist subsequent categorisation of basic parameters as a precursor to decipherment. 'Universal' attributes and behavioural characteristics of known communication structure will form a range of templates (Elliott, 2001 [1] and Elliott et al., 2002 [2]), to support and optimise our attempt at categorising and deciphering the content of an extraterrestrial signal. Detection of the hierarchical layers, which comprise intelligent, complex communication, will then form a matrix of calculations that will ultimately score affinity through a relational matrix of structural comparison. In this paper we develop the rationales and demonstrate functionality with initial test results.

  1. Matrix Embedded Organic Synthesis

    NASA Astrophysics Data System (ADS)

    Kamakolanu, U. G.; Freund, F. T.

    2016-05-01

    In the matrix of minerals such as olivine, a redox reaction of the low-z elements occurs. Oxygen is oxidized to the peroxy state while the low-Z-elements become chemically reduced. We assign them a formula [CxHyOzNiSj]n- and call them proto-organics.

  2. Matrix isolation studies on the co-condensation reactions of molecular SiO and GeO: the characterisation of the novel cyclic species SiGeO(2), Si(2)GeO(3) and SiGe(2)O(3).

    PubMed

    Ogden, J Steven; Harrowven, David C; Wyatt, Robert S; Ferrante, Francesco; Cannady, John P

    2010-06-21

    Matrix isolation IR studies, together with DFT calculations, have established that the co-condensation of molecular SiO and GeO in low temperature (12 K) nitrogen matrices leads to the formation of the novel silicon germanium oxide species SiGeO(2), Si(2)GeO(3) and SiGe(2)O(3) analogous to the known dimer and trimer species M(2)O(2) and M(3)O(3) (M = Si, Ge). Controlled diffusion studies in the temperature range 20-34 K result in a significant increase in trimer formation, which implies a very low activation energy for this oligomerisation step. Characteristic IR modes are assigned for all three novel mixed oxide molecules, and the DFT calculations establish that these species have cyclic C(2v) structures and provide estimates for their geometrical parameters. The significance of these results is noted in the light of current interest in the properties of mixed Si/Ge oxide systems.

  3. ATR-FTIR Spectroscopy in the Undergraduate Chemistry Laboratory: Part I--Fundamentals and Examples

    ERIC Educational Resources Information Center

    Schuttlefield, Jennifer D.; Grassian, Vicki H.

    2008-01-01

    Attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy is a useful technique for measuring the infrared spectra of solids and liquids as well as probing adsorption on particle surfaces. Several examples of the use of FTIR-ATR spectroscopy in different undergraduate chemistry laboratory courses are presented here. These…

  4. Comparison of biochar formation from various agricultural by-products using FTIR spectroscopy

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Biochar is charred material produced by the pyrolysis of organic biomass. In this work, Fourier transform infrared (FTIR) spectra of different agricultural by-products feedstock and their derived biochars were collected to explore the potential of FTIR technique as a simple and rapid method for char...

  5. An Innovative Carbonate Fuel Cell Matrix, Abstract #188

    SciTech Connect

    Hilmi, Abdelkader; Surendranath, Arun; Yuh, Chao-Yi

    2015-05-28

    The electrolyte matrix in direct carbonate fuel cell (DFC) is a microporous ceramic structure sandwiched between the electrodes to isolate the fuel from the oxidant, store electrolyte and facilitate ionic transport. FCE has advanced DFC electrolyte matrix over the years and demonstrated that the matrix meets the requirements for greater than 5 year life based on accelerated tests and field stack operations. However, development of advanced designs and materials that can further increase the performance and extend cell life will enable accelerated MCFC deployment. This paper will report the progress on the development of an unique and innovative matrix design that offers numerous benefits to the carbonate fuel cell performance and durability. In addition, this paper will also review parameters that affect matrix material stability and approaches to extend cell life.

  6. The controversial nuclear matrix: a balanced point of view.

    PubMed

    Martelli, A M; Falcieri, E; Zweyer, M; Bortul, R; Tabellini, G; Cappellini, A; Cocco, L; Manzoli, L

    2002-10-01

    The nuclear matrix is defined as the residual framework after the removal of the nuclear envelope, chromatin, and soluble components by sequential extractions. According to several investigators the nuclear matrix provides the structural basis for intranuclear order. However, the existence itself and the nature of this structure is still uncertain. Although the techniques used for the visualization of the nuclear matrix have improved over the years, it is still unclear to what extent the isolated nuclear matrix corresponds to an in vivo existing structure. Therefore, considerable skepticism continues to surround the nuclear matrix fraction as an accurate representation of the situation in living cells. Here, we summarize the experimental evidence in favor of, or against, the presence of a diffuse nucleoskeleton as a facilitating organizational nonchromatin structure of the nucleus.

  7. Discrimination of single-porin Escherichia (E.) coli mutants by ATR and transmission mode FTIR spectroscopy.

    PubMed

    Saraiva, Raúl G; Lopes, João Almeida; Machado, Jorge; Gameiro, Paula; Feio, Maria J

    2014-06-01

    Vibrational spectroscopy has long been used in bacterial identification with different levels of taxonomic discrimination but its true potential for intra-species differentiation remains poorly explored. Herein, both transmission Fourier-transform infrared (FTIR) and attenuated total reflectance (ATR)-FTIR spectroscopy are used to analyse E. coli strains that differ solely in their porin expression profile. In this previously unreported approach, the applicability of both FTIR-spectroscopy techniques is compared with the same collection of unique strains. ATR-FTIR spectroscopy proved to reliably distinguish between several E. coli porin mutants with an accuracy not replicated by FTIR in transmission mode (using previously optimized procedures). Further studies should allow the identification of the individual contribution of the single porin channel to the overall bacterial infrared spectrum and of molecular predictive patterns of porin alterations.

  8. Study of the formation of carbonyl compounds in edible oils and fats by 1H-NMR and FTIR

    NASA Astrophysics Data System (ADS)

    Moya Moreno, M. C. M.; Mendoza Olivares, D.; Amézquita López, F. J.; Peris Martínez, V.; Bosch Reig, F.

    1999-05-01

    Oils and fats start decomposing from the moment they are isolated from their natural environment. Heating accelerates oxidative rancidity and frying at high temperatures produces thermal degradation with the formation of decomposition products, such as aldehydes, ketones, free acids and hydroxilic compounds that in high levels can be harmful to human health. The decomposition products formed up to 300°C were determined by means of 1H-NMR spectroscopy and an FTIR spectroscopic method was developed for the quantification of carbonyl compounds generated during heating. The results show that there is a formation of carbonyl compounds starting at 150°C and when the sample was heated at 300°C for 40 min, the following contents (expressed as butyraldehyde mass fraction) were found: olive oil 10.5%, sunflower oil 11.3%, corn oil 3.0%, seeds oil (sunflower, safflower and canola seed) 6.6% and lard 3.5%.

  9. Some ultrastructural information on intact, living bacterial cells and related cell-wall fragments as given by FTIR

    NASA Astrophysics Data System (ADS)

    Naumann, D.

    1984-05-01

    Living bacterial cells of Staphylococcus aureus have been measured from aqueous suspensions taking advantage of the solvent subtraction capabilities of FTIR. All spectral features, between 1800-800 cm -1, of the intact cells could be measured with a reproducibility of better than ±5% when applying strict metabolic control of cell growth and a highly standardized experimental procedure prior to IR measurements. IR bands near 1745, 1656, 1547, 1240 and 1200-1000 cm -1were tentatively assigned to: CO stretching of ester groups, amide I and amide II bands of the various peptides and proteins, asymmetric stretching of phosphate groups and complex vibrational modes resulting from polysaccharidal compounds, respectively. Absorbance subtraction of IR spectra of different intact baterial cells and cell-wall preparations yielded reasonable results on structural variations accompanying: (i) cell growth, (ii) use of different growth media, (iii) chemical treatment of cells and (iv) biochemical isolation processes of cell walls from the intact cells.

  10. FTIR spectroscopy and scanning electron microscopic analysis of pretreated biosorbent to observe the effect on Cr (VI) remediation.

    PubMed

    Kiran, Bala; Rani, Nisha; Kaushik, Anubha

    2016-11-01

    Various chemical and physical treatments have been applied to indigenously isolated cyanobacterial strain, Lyngbya putealis HH-15, to observe the effect on chromium removal capacity. Pretreatment with hydrochloric acid (99.1%) and nitric acid (98.5%) resulted in enhanced chromium removal as compared to untreated control biosorbent (98.1%). Pretreatment with acetic acid (97.9%), methanol (97.0%), calcium chloride (96.0%), hot water (95.2%), and sodium hydroxide (93.9%) did not improve the chromium removal capacity of biosorbent. Fourier transform infrared spectrometry (FTIR) and scanning electron microscopy (SEM) analysis identified changes in biomass functionality and availability after physical and chemical modification-the results of which were in agreement with metal removal studies. In conclusion, this acid-treated biosorbent represents a suitable candidate to replace conventional removal technologies for metal-bearing wastewaters. PMID:27185214

  11. FTIR-I compositional mapping of the cartilage-to-bone interface as a function of tissue region and age.

    PubMed

    Khanarian, Nora T; Boushell, Margaret K; Spalazzi, Jeffrey P; Pleshko, Nancy; Boskey, Adele L; Lu, Helen H

    2014-12-01

    Soft tissue-to-bone transitions, such as the osteochondral interface, are complex junctions that connect multiple tissue types and are critical for musculoskeletal function. The osteochondral interface enables pressurization of articular cartilage, facilitates load transfer between cartilage and bone, and serves as a barrier between these two distinct tissues. Presently, there is a lack of quantitative understanding of the matrix and mineral distribution across this multitissue transition. Moreover, age-related changes at the interface with the onset of skeletal maturity are also not well understood. Therefore, the objective of this study is to characterize the cartilage-to-bone transition as a function of age, using Fourier transform infrared spectroscopic imaging (FTIR-I) analysis to map region-dependent changes in collagen, proteoglycan, and mineral distribution, as well as collagen organization. Both tissue-dependent and age-related changes were observed, underscoring the role of postnatal physiological loading in matrix remodeling. It was observed that the relative collagen content increased continuously from cartilage to bone, whereas proteoglycan peaked within the deep zone of cartilage. With age, collagen content across the interface increased, accompanied by a higher degree of collagen alignment in both the surface and deep zone cartilage. Interestingly, regardless of age, mineral content increased exponentially across the calcified cartilage interface. These observations reveal new insights into both region- and age-dependent changes across the cartilage-to-bone junction and will serve as critical benchmark parameters for current efforts in integrative cartilage repair.

  12. FTIR-I Compositional Mapping of the Cartilage-to-Bone Interface as a Function of Tissue Region and Age

    PubMed Central

    Khanarian, Nora T; Boushell, Margaret K; Spalazzi, Jeffrey P; Pleshko, Nancy; Boskey, Adele L; Lu, Helen H

    2016-01-01

    Soft tissue-to-bone transitions, such as the osteochondral interface, are complex junctions that connect multiple tissue types and are critical for musculoskeletal function. The osteochondral interface enables pressurization of articular cartilage, facilitates load transfer between cartilage and bone, and serves as a barrier between these two distinct tissues. Presently, there is a lack of quantitative understanding of the matrix and mineral distribution across this multitissue transition. Moreover, age-related changes at the interface with the onset of skeletal maturity are also not well understood. Therefore, the objective of this study is to characterize the cartilage-to-bone transition as a function of age, using Fourier transform infrared spectroscopic imaging (FTIR-I) analysis to map region-dependent changes in collagen, proteoglycan, and mineral distribution, as well as collagen organization. Both tissue-dependent and age-related changes were observed, underscoring the role of postnatal physiological loading in matrix remodeling. It was observed that the relative collagen content increased continuously from cartilage to bone, whereas proteoglycan peaked within the deep zone of cartilage. With age, collagen content across the interface increased, accompanied by a higher degree of collagen alignment in both the surface and deep zone cartilage. Interestingly, regardless of age, mineral content increased exponentially across the calcified cartilage interface. These observations reveal new insights into both region- and age-dependent changes across the cartilage-to-bone junction and will serve as critical benchmark parameters for current efforts in integrative cartilage repair. PMID:24839262

  13. Carbon dioxide (CO2) absorption behavior of mixed matrix polymer composites containing a flexible coordination polymer.

    PubMed

    Culp, Jeffrey T; Sui, Lang; Goodman, Angela; Luebke, David

    2013-03-01

    Mixed matrix membranes (MMMs) comprised of metal organic frameworks (MOFs) dispersed in organic polymers are popular materials under study for potential applications in gas separations. However, research on MMMs containing structurally dynamic sorbents known as flexible MOFs has only very recently appeared in the literature. The thermodynamic requirements of the structure transition between the low porosity and high porosity phases of flexible MOFs may provide a mechanism for high adsorption selectivity in these materials. A fundamental question in MMMs containing flexible MOFs is how the constraint of the polymer matrix on the intrinsic expansion of the flexible MOF particles that occurs during gas adsorption might affect the thermodynamics of this structural phase transition and influence the gas adsorption properties of the embedded MOF. To investigate the fundamental nature of this flexible MOF-polymer interface, thin films of ~20 um thickness were prepared using the flexible linear chain coordination polymer catena-bis(dibenzoylmethanato)-(4,4'bipyridyl)nickel(II) "Ni(Bpy)(DBM)(2)" embedded as 35 wt% dispersions in Matrimid®, polystyrene, and polysulfone. The adsorption of CO(2) in the polymers and embedded particles was studied using in situ ATR-FTIR spectroscopy and variable temperature volumetric CO(2) adsorption/desorption isotherms. Interestingly, no effect of the polymer matrix on the gas adsorption behavior of the embedded Ni(Bpy)(DBM)(2) particles was observed. The composite samples all showed the same threshold pressures for CO(2) absorption and desorption hysteresis associated with the structural phase change in the polymer embedded Ni(Bpy)(DBM)(2) particles as was observed in the pristine polycrystalline sample. The current results contrast those recently reported for a MMM containing the flexible MOF "NH(2)-MIL-53" where a significant increase in the threshold pressure for CO(2) adsorption associated with the structural phase change of the MOF was

  14. FTIR Spectroscopic Studies on Cross Linking of SU-8 Photoresist

    NASA Astrophysics Data System (ADS)

    Kalaiselvi, S. M. P.; Tan, T. L.; Rawat, R. S.; Lee, P.; Heussler, S. P.; Breese, M. B. H.

    2013-11-01

    The usage of chemically-amplified, negative tone SU-8 photoresist is numerous, spanning industrial, scientific and medical fields. Hence, in this study, some preliminary studies were conducted to understand the dosage and heat treatment requirements of the SU-8 photoresist essential for pattern generation using X-ray lithography. In this work, using Synchrotron as the X-ray source, SU-8 photoresist was characterized for X-ray lithography in terms of its process parameters such as X-ray exposure dose, post exposure bake (PEB) time and temperature for various photoresist thicknesses which is considered worthwhile in view of applications of SU-8 for the fabrication of very high aspect ratio micro structures. The process parameters were varied and the resultant cross linking of the molecular chains of the photoresist was accurately monitored using a Fourier Transform Infra-Red (FTIR) spectrometer and the results are discussed. The infrared absorption peak at 914 cm-1 in the spectrum of the SU-8 photoresist was found to be a useful indicator for the completion of cross linking in the SU-8 photoresist. Results show that the cross linking of the SU-8 photoresist is at a higher rate from 0 J/cm3 to 30 J/cm3 after which the peak almost saturates regardless of the PEB time. It is a good evidence for the validation of dosage requirement of SU-8 photoresist for effective completion of cross linking, which in turn is a requirement for efficient fabrication of micro and nano structures. An analogous behavior was also observed between the extent of cross linking and the PEB time and temperature. The rate of cross linking declines after a certain period of PEB time regardless of PEB temperature. The obtained results also show a definite relation between variation of the absorbance area of the peak at 914 cm-1 and the X-ray exposure dose.

  15. FTIR studies of PVC/PMMA blend based polymer electrolytes.

    PubMed

    Ramesh, S; Leen, Koay Hang; Kumutha, K; Arof, A K

    2007-04-01

    The polymer electrolytes composing of the blend of polyvinyl chloride-polymethyl methacrylate (PVC/PMMA) with lithium triflate (LiCF3SO3) as salt, ethylene carbonate (EC) and dibutyl phthalate (DBP) as plasticizers and silica (SiO2) as the composite filler were prepared. FTIR studies confirm the complexation between PVC/PMMA blends. The CCl stretching mode at 834 cm-1 for pure PVC is shifted to 847 cm-1 in PVC-PMMA-LiCF3SO3 system. This suggests that there is interaction between Cl in PVC with Li+ ion from LiCF3SO3. The band due to OCH3 at 1150 cm-1 for PVC-PMMA blend is shifted to 1168 cm-1 in PVC-PMMA-LiCF3SO3 system. This shift is expected to be due to the interaction between Li+ ion and the oxygen atom in PMMA. The symmetric vibration band and the asymmetric vibration band of LiCF3SO3 at 1033 and 1256 cm-1 shifted to 1075 and 1286 cm-1 in the DBP-EC plasticized PVC-PMMA-LiCF3SO3 complexes. The interaction between Li+ ions and SiO2 will lead to an increase in the number of free plasticizers (which does not interact with Li+ ions). When the silica content increases from 2% to 5%, the intensity of the peak at 896 cm-1 (due to the ring breathing vibration of free EC) increases in PVC-PMMA-LiCF3SO3-DBP-EC system.

  16. Synchrotron FTIR microspectroscopy of the yeast Saccharomyces cerevisiae after exposure to plasma-deposited nanosilver-containing coating.

    PubMed

    Saulou, C; Jamme, F; Maranges, C; Fourquaux, I; Despax, B; Raynaud, P; Dumas, P; Mercier-Bonin, M

    2010-02-01

    The present work was focused on elucidating changes in the model yeast Saccharomyces cerevisiae (cell composition, ultrastructure) after exposure to antimicrobial plasma-mediated nanocomposite films. In order to achieve this, a nanosilver-containing coating was deposited onto stainless steel using radiofrequency HMDSO plasma deposition, combined with simultaneous silver sputtering. X-ray photoelectron spectroscopy (XPS) confirmed the presence of silver nanoparticles embedded in an organosilicon matrix. In addition, scanning electron microscopy (SEM) demonstrated the nanoparticle-based morphology of the deposited layer. The antifungal properties towards S. cerevisiae were established, since a 1.4 log reduction in viable counts was observed after a 24-h adhesion compared to control conditions with the matrix alone. Differences in cell composition after exposure to the nanosilver was assessed for the protein region using, for the first time, synchrotron Fourier-transform infrared (FTIR) microspectroscopy of single S. cerevisiae cells, through in situ mapping with sub-cellular spatial resolution. IR spectrum of yeast cells recovered after a 24-h adhesion to the nanosilver-containing coating revealed a significant downshift (20 cm(-1)) of the amide I peak at 1655 cm(-1), compared to freshly harvested cells. This lower band position, corresponding to a loss in alpha-helix structures, is indicative of the disordered secondary structures of proteins, due to the transition between active and inactive conformations under nanosilver-induced stress conditions. No significant effect on the nucleic acid region was detected. The inhibitory action of silver was targeted against both cell wall and intracellular proteins such as enzymes. Transmission electron microscopy (TEM) observations of the yeast ultrastructure confirmed serious morphological and structural damages. A homogeneous protein-binding distribution of nanosilver all over the cell was assumed, since the presence of

  17. ATR-FTIR study of water in Nafion membrane combined with proton conductivity measurements during hydration/dehydration cycle.

    PubMed

    Kunimatsu, Keiji; Bae, Byungchan; Miyatake, Kenji; Uchida, Hiroyuki; Watanabe, Masahiro

    2011-04-21

    We have conducted combined time-resolved attenuated total reflection Fourier transform infrared (ATR-FTIR) and proton conductivity measurements of Nafion NRE211 membrane during hydration/dehydration cycles at room temperature. Conductivity change was interpreted in terms of different states of water in the membrane based on its δ(HOH) vibrational spectra. It was found that hydration of a dry membrane leads first to complete dissociation of the sulfonic acid groups to liberate hydrated protons, which are isolated from each other and have δ(HOH) vibrational frequency around 1740 cm(-1). The initial hydration is not accompanied by a significant increase of the proton conductivity. Further hydration gives rise to a rapid increase of the conductivity in proportion to intensity of a new δ(HOH) band around 1630 cm(-1). This was interpreted in terms of formation of channels of weakly hydrogen-bonded water to combine the isolated hydrophilic domains containing hydrated protons and hydrated sulfonate ions produced during the initial stage of hydration. Upon dehydration, proton conductivity drops first very rapidly due to loss of the weakly hydrogen bonded water from the channels to leave hydrophilic domains isolated in the membrane. Dehydration of the protons proceeds very slowly after significant loss of the proton conductivity.

  18. Characterization of PAH matrix with monazite stream containing uranium, gadolinium and iron

    NASA Astrophysics Data System (ADS)

    Pal, Sangita; Meena, Sher Singh; Goswami, D.

    2016-05-01

    Uranium (U) gadolinium(Gd) and iron (Fe) containing alkaline waste simulated effluent (relevant to alkaline effluent of monazite ore) has been treated with a novel amphoteric resin viz, Polyamidehydroxamate (PAH) containing amide and hydroxamic acid groups. The resin has been synthesized in an eco-friendly manner by polymerization nad conversion to functional groups characterized by FT-IR spectra and architectural overview by SEM. Coloration of the loaded matrix and de-coloration after extraction of uranium is the special characteristic of the matrix. Effluent streams have been analyzed by ICP-AES, U loaded PAH has been characterized by FT-IR, EXAFS, Gd and Fe by X-ray energy values of EDXRF at 6.053 Kev and 6.405 Kev respectively. The remarkable change has been observed in Mössbauer spectrum of Fe-loaded PAH samples.

  19. Investigating the microstructure of keratin extracted from wool: Peptide sequence (MALDI-TOF/TOF) and protein conformation (FTIR)

    NASA Astrophysics Data System (ADS)

    Cardamone, Jeanette M.

    2010-04-01

    Investigations of keratins extracted from wool by reduction hydrolysis and by alkaline hydrolysis showed that their chemical compositions and secondary structures were similar to original wool. The keratin isolates were similar in amino acid, Amides I and II, and secondary structure to each other and to original wool. From SDS-PAGE electrophoresis, keratin isolated by reduction contained protein homologs of molecular weight, ˜40-60 kDa and keratin isolate from alkaline hydrolysis contained peptide fragments of ˜6-8 kDa. MALDI-TOF/TOF spectrometry confirmed that the reduction isolate contained Type II microfibrillar component 7C, hair Type II intermediate filament, Type I microfibrillar 48 kDa component 8C-1, and Type I microfibrillar 47.6 kDa protein homologs which contained alanine, glutamine, glutamic acid, leucine, serine, leucine, and cystine with highest amounts glutamic acid and leucine amino acids. FTIR spectroscopy was applied to examine secondary structure to confirm the content of α-helix/β-sheet/disordered regions for original wool (58.2%/37.9%/3.9%); keratin from reduction (36.7%/50.2%/13.1%); and keratin from alkaline hydrolysis (25.7%/51.8%/22.5%). The higher content of β-sheet secondary structure and intact α-helical conformation characterized these isolates as viable starting materials for chemical modification to form novel bio-based materials useful in industrial formulations and compositions. In particular keratin extracted by reduction with the molecular weight of original wool and the probability of useful mechanical properties can be transformed into stand-alone products of various shapes and forms such as porous foams, sponges, mats, and films for bio-based, adaptable structures.

  20. Reactions of matrix-isolated iron atoms with dinitrogen

    SciTech Connect

    Doeff, M.M.; Parker, S.F.; Barrett, P.H.; Pearson, R.G.

    1984-11-21

    The results of a study carried out to better characterize the product formed in the co-condensation reaction of iron with N/sub 2/ with regard to both the metal and ligand stoichiometry are reported. Results of ir and Mossbauer spectral studies and of concentration variation studies are presented. All data support the conclusion that the complex is a monomeric species, most likely Fe(N)/sub 5/. No evidence is furnished to support beliefs that the structure of such compounds differs significantly from their Fe/CO analogues.

  1. Infrared Spectroscopy of Matrix-Isolated Polycyclic Aromatic Hydrocarbon Cations

    NASA Technical Reports Server (NTRS)

    Hudgins, D. M.; Allamandola, L. J.

    1995-01-01

    Gaseous, ionized polycyclic aromatic hydrocarbons (PAHs) are thought to be responsible for a very common family of interstellar infrared emission bands. Here the near- and mid-infrared spectra of the cations of the five most thermodynamically favored PAHs up to coronene: phenanthrene, pyrene, benzo(e)pyrene, benzo-(ghi)perylene, and coronene, are presented to test this hypothesis. For those molecules that have been studied previously (pyrene, pyrene-d(sub 10), and coronene), band positions and relative intensities are in agreement. In all of these cases we report additional features. Absolute integrated absorbance values are given for the phenanthrene, perdeuteriophenanthrene, pyrene, benzo(ghi]perylene, and coronene cations. With the exception of coronene, the cation bands corresponding to the CC modes are typically 2-5 times more intense than those of the CH out-of-plane bending vibrations. For the cations, the CC stretching and CH in-plane bending modes give rise to bands that are an order of magnitude stronger than those of the neutral species, and the CH out-of-plane bends produce bands that are 5-20 times weaker than those of the neutral species. This behavior is similar to that found in most other PAH cations studied to date. The astronomical implications of these PAH cation spectra are also discussed.

  2. Social isolation

    PubMed Central

    Cacioppo, John T.; Hawkley, Louise C.; Norman, Greg J.; Berntson, Gary G.

    2011-01-01

    Social species, by definition, form organizations that extend beyond the individual. These structures evolved hand in hand with behavioral, neural, hormonal, cellular, and genetic mechanisms to support them because the consequent social behaviors helped these organisms survive, reproduce, and care for offspring sufficiently long that they too reproduced. Social isolation represents a lens through which to investigate these behavioral, neural, hormonal, cellular, and genetic mechanisms. Evidence from human and nonhuman animal studies indicates that isolation heightens sensitivity to social threats (predator evasion) and motivates the renewal of social connections. The effects of perceived isolation in humans share much in common with the effects of experimental manipulations of isolation in nonhuman social species: increased tonic sympathetic tonus and HPA activation, and decreased inflammatory control, immunity, sleep salubrity, and expression of genes regulating glucocorticoid responses. Together, these effects contribute to higher rates of morbidity and mortality in older adults. PMID:21651565

  3. Optical shutter switching matrix

    NASA Technical Reports Server (NTRS)

    Grove, Charles H.

    1991-01-01

    The interface switching systems are discussed which are related to those used in the Space Shuttle ground control system, transmission systems, communications systems, and airborne radar electronic countermeasure systems. The main goal is to identify a need that exists throughout the comprehensive information processing and communications disciplines supporting the Space Shuttle and Space Station programs, and introduce one viable approach to satisfy that need. The proposed device, described in NASA patent entitled 'Optical Shutter Switch Matrix', is discussed.

  4. Hypercube matrix computation task

    NASA Technical Reports Server (NTRS)

    Calalo, Ruel H.; Imbriale, William A.; Jacobi, Nathan; Liewer, Paulett C.; Lockhart, Thomas G.; Lyzenga, Gregory A.; Lyons, James R.; Manshadi, Farzin; Patterson, Jean E.

    1988-01-01

    A major objective of the Hypercube Matrix Computation effort at the Jet Propulsion Laboratory (JPL) is to investigate the applicability of a parallel computing architecture to the solution of large-scale electromagnetic scattering problems. Three scattering analysis codes are being implemented and assessed on a JPL/California Institute of Technology (Caltech) Mark 3 Hypercube. The codes, which utilize different underlying algorithms, give a means of evaluating the general applicability of this parallel architecture. The three analysis codes being implemented are a frequency domain method of moments code, a time domain finite difference code, and a frequency domain finite elements code. These analysis capabilities are being integrated into an electromagnetics interactive analysis workstation which can serve as a design tool for the construction of antennas and other radiating or scattering structures. The first two years of work on the Hypercube Matrix Computation effort is summarized. It includes both new developments and results as well as work previously reported in the Hypercube Matrix Computation Task: Final Report for 1986 to 1987 (JPL Publication 87-18).

  5. Reactive aluminum metal nanoparticles within a photodegradable poly(methyl methacrylate) matrix

    NASA Astrophysics Data System (ADS)

    Patel, Ashish; Becic, Jasmin; Buckner, Steven W.; Jelliss, Paul A.

    2014-01-01

    We report here on new photoreactive core-matrix reactive metal nanoparticles. Poly(methyl methacrylate)-capped aluminum nanoparticles (PMMA-Al NPs) were synthesized and demonstrated air stability on the order of 2 months. Upon exposure of the PMMA-Al NPs to UV radiation the composite reacts more rapidly to release H2 gas from alkaline solution. FTIR spectroscopy indicates that the PMMA cap degrades under UV irradiation, exposing the reactive metal core.

  6. The evolution of extracellular matrix.

    PubMed

    Ozbek, Suat; Balasubramanian, Prakash G; Chiquet-Ehrismann, Ruth; Tucker, Richard P; Adams, Josephine C

    2010-12-01

    We present a perspective on the molecular evolution of the extracellular matrix (ECM) in metazoa that draws on research publications and data from sequenced genomes and expressed sequence tag libraries. ECM components do not function in isolation, and the biological ECM system or "adhesome" also depends on posttranslational processing enzymes, cell surface receptors, and extracellular proteases. We focus principally on the adhesome of internal tissues and discuss its origins at the dawn of the metazoa and the expansion of complexity that occurred in the chordate lineage. The analyses demonstrate very high conservation of a core adhesome that apparently evolved in a major wave of innovation in conjunction with the origin of metazoa. Integrin, CD36, and certain domains predate the metazoa, and some ECM-related proteins are identified in choanoflagellates as predicted sequences. Modern deuterostomes and vertebrates have many novelties and elaborations of ECM as a result of domain shuffling, domain innovations and gene family expansions. Knowledge of the evolution of metazoan ECM is important for understanding how it is built as a system, its roles in normal tissues and disease processes, and has relevance for tissue engineering, the development of artificial organs, and the goals of synthetic biology.

  7. The Evolution of Extracellular Matrix

    PubMed Central

    Özbek, Suat; Balasubramanian, Prakash G.; Chiquet-Ehrismann, Ruth; Tucker, Richard P.

    2010-01-01

    We present a perspective on the molecular evolution of the extracellular matrix (ECM) in metazoa that draws on research publications and data from sequenced genomes and expressed sequence tag libraries. ECM components do not function in isolation, and the biological ECM system or “adhesome” also depends on posttranslational processing enzymes, cell surface receptors, and extracellular proteases. We focus principally on the adhesome of internal tissues and discuss its origins at the dawn of the metazoa and the expansion of complexity that occurred in the chordate lineage. The analyses demonstrate very high conservation of a core adhesome that apparently evolved in a major wave of innovation in conjunction with the origin of metazoa. Integrin, CD36, and certain domains predate the metazoa, and some ECM-related proteins are identified in choanoflagellates as predicted sequences. Modern deuterostomes and vertebrates have many novelties and elaborations of ECM as a result of domain shuffling, domain innovations and gene family expansions. Knowledge of the evolution of metazoan ECM is important for understanding how it is built as a system, its roles in normal tissues and disease processes, and has relevance for tissue engineering, the development of artificial organs, and the goals of synthetic biology. PMID:21160071

  8. Investigations of the effects of the growth of SnO 2 nanoparticles on the structural properties of glass-ceramic planar waveguides using Raman and FTIR spectroscopies

    NASA Astrophysics Data System (ADS)

    Van Tran, T.; Turrell, S.; Eddafi, M.; Capoen, B.; Bouazaoui, M.; Roussel, P.; Berneschi, S.; Righini, G.; Ferrari, M.; Bhaktha, S. N. B.; Cristini, O.; Kinowski, C.

    2010-07-01

    (100- x) SiO 2- x SnO 2 ( x from 12 to 60 mol%) glass-ceramic thin films have been prepared by the sol-gel processing method, obtaining high SnO 2 concentrations (up to 60 mol%) for the first time. Using an appropriate thermal process, SnO 2 nanocrystals were nucleated in the glassy silica matrix, providing optical waveguides for x ⩽ 30 mol%. M-line measurements were used to determine the thickness and refractive index of each film. Raman and FTIR spectroscopies, in situ high-temperature XRD and TEM data have been used to identify the initiation of crystallization (at about 900 °C for x ⩽ 30 mol%). Calculations based on the low-wavenumber Raman data yield the sizes of the semi-conductor nanoparticles, which vary from 3.2 to 4.6 nm with heat-treatments varying from 900 °C to 1100 °C for SnO 2 concentrations varying from 12 to 30 mol%. Raman and FTIR data have provided information on the structural evolutions of the matrix which result from the formation and the growth of the SnO 2 nanocrystals.

  9. TGF-beta/extracellular matrix interactions in dentin matrix: a role in regulating sequestration and protection of bioactivity.

    PubMed

    Baker, S M; Sugars, R V; Wendel, M; Smith, A J; Waddington, R J; Cooper, P R; Sloan, A J

    2009-07-01

    TGF-beta isoforms sequestrated in dentin matrix potentially provide a reservoir of bioactive molecules that may influence cell behavior in the dentin-pulp complex following tissue injury. The association of these growth factors with dentin matrix and the influence of such associations on the bioactivity of growth factors are still unclear. We used surface plasmon resonance technology in the BIAcore 3000 system to investigate the binding of TGF-beta isoforms 1 and 3 to purified decorin, biglycan, and EDTA soluble dentin matrix components. TGF-beta isoforms 1 and 3 were immobilized on sensorchips CM4 through amine coupling. For kinetic studies of protein binding, purified decorin and biglycan, isolated EDTA soluble dentin matrix, and dentin matrix immunodepleted of decorin and/or biglycan were injected over TGF-beta isoforms and allowed to interact. Programmed kinetic analysis software provided sensorgrams for each concentration of proteoglycan or dentin matrix extract injected. Purified decorin and biglycan and dentin matrix extract bound to the TGF-beta isoforms. However, the association with TGF-beta3 was much weaker than that with TGF-beta1. After immunoaffinity depletion of the dentin matrix extract, the level of interaction between the dentin matrix extract and TGF-beta was significantly reduced. These results suggest isoform-specific interactions between decorin/biglycan and TGF-beta isoforms 1 and 3, which may explain why TGF-beta3 is not detected in the dentin matrix despite being expressed at higher levels than TGF-beta1 in odontoblasts. These proteoglycans appear to play a significant role in TGF-beta/extracellular matrix interactions and may be important in the sequestration of these growth factors in the dentin matrix.

  10. Open-path FTIR measurement of criteria pollutants and other ambient species in an industrial city

    NASA Astrophysics Data System (ADS)

    Kagann, Robert H.; Wang, C. D.; Chang, King L.; Lu, Chung H.

    1999-02-01

    Recent improvements in signal processing techniques for Open- Path FTIR (OP-FTIR) have resulted in a dramatic reduction of detection limits for infrared active chemicals including ambient species. These lower detection limits opens the open- path FTIR technology to new applications involving monitoring and analyzing ambient air in urban settings. To test application of OP-FTIR technology to urban applications, an RAM2000TM system was used over a seven-day period to measure ambient air-quality in an urban-industrial environment. Several of the ambient species which are ozone precursors and referred to as criteria pollutants in Title I of the Clean Air Act Amendment of 1990, have poor OP-FTIR detection limits because of overlap of their infrared absorption by very strong water vapor lines. Due to the high detection limits for sulfur dioxide and nitrogen dioxide, OP- FTIR has not been the technology of choice for measuring air quality in urban environments. In the present test, we were particularly interested in the improvements in the detection limits of the criteria pollutants, ozone, carbon monoxide, sulfur dioxide and nitrogen dioxide. Improvement in these detection limits will greatly increase the suitability of using OP-FTIR for measuring urban air quality and for measurement programs relating to the USEPA tropospheric ozone- photochemistry studies.

  11. MOP /Matrix Operation Programs system/

    NASA Technical Reports Server (NTRS)

    Muller, P. M.

    1968-01-01

    MOP /Matrix Operation Programs/ system consists of a set of FORTRAN 4 subroutines which are related through a small common allocation. The system accomplishes all matrix algebra operations plus related input-output and housekeeping details.

  12. Matrix Theory of Small Oscillations

    ERIC Educational Resources Information Center

    Chavda, L. K.

    1978-01-01

    A complete matrix formulation of the theory of small oscillations is presented. Simple analytic solutions involving matrix functions are found which clearly exhibit the transients, the damping factors, the Breit-Wigner form for resonances, etc. (BB)

  13. RIBAVIRIN: The analysis of a polymorphic substance by LC-MS and FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Machal, A. C.; Flurer, R. A.; Brueggemeyer, T. W.; Ellis, L. E.; Satzger, R. D.; Stewart, K. R.

    1998-06-01

    The FTIR laboratory often has the task of identifying unknown pharmaceuticals. This case involves unknown capsules received at the Forensic Chemistry Center. Through extensive searching of pharmaceutical data bases, it was concluded that the capsules might contain ribavirin, which is classified as an anti-viral agent. Mass spectral analysis (LC-MS) concluded that the capsules contained ribavirin; however, the FTIR results did not agree with the mass spectral results. Additional experiments were performed and the results demonstrate the capabilities of FTIR to discern differences between polymorphic forms of a substance, such as ribavirin, when other techniques are unable to provide this information.

  14. On the Matrix Exponential Function

    ERIC Educational Resources Information Center

    Hou, Shui-Hung; Hou, Edwin; Pang, Wan-Kai

    2006-01-01

    A novel and simple formula for computing the matrix exponential function is presented. Specifically, it can be used to derive explicit formulas for the matrix exponential of a general matrix A satisfying p(A) = 0 for a polynomial p(s). It is ready for use in a classroom and suitable for both hand as well as symbolic computation.

  15. Determination of drug content in semisolid formulations by non-invasive spectroscopic methods: FTIR - ATR, - PAS, - Raman and PDS

    NASA Astrophysics Data System (ADS)

    Gotter, B.; Faubel, W.; Heißler, St.; Hein, J.; Neubert, R. H. H.

    2010-03-01

    This study elucidates the potential use of photothermal deflection spectroscopy (PDS), FTIR photoacoustic (FTIR-PAS), FT Raman, and FTIR-attenuated total reflection (FTIR-ATR) spectroscopy as analytical tools for investigating the drug content in semisolid formulations. Regarding the analytical parameters, this study demonstrates the photothermal beam deflection to be definitely comparable to well established spectroscopic methods for this purpose. The correlation coefficients range from 0.990 to 0.999. Likewise, repeatability and limit of detection are comparable.

  16. Modified 16S-23S rRNA intergenic region restriction endonuclease analysis for species identification of Enterococcus strains isolated from pigs, compared with identification using classical methods and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry.

    PubMed

    Nowakiewicz, Aneta; Ziółkowska, Grażyna; Zięba, Przemysław; Trościańczyk, Aleksandra; Banach, Tomasz; Kowalski, Cezary

    2015-03-01

    Fast and reliable identification of bacteria to at least the species level is currently the basis for correct diagnosis and appropriate treatment of infections. This is particularly important in the case of bacteria of the genus Enterococcus, whose resistance profile is often correlated with their species (e.g. resistance to vancomycin). In this study, we evaluated restriction endonuclease analysis of the 16S-23S rRNA gene intergenic transcribed spacer (ITS) region for species identification of Enterococcus. The utility of the method was compared with that of phenotypic methods [biochemical profile evaluation and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS)]. Identification was based on 21 Enterococcus reference strains, of the species E. faecalis, E. faecium, E. hirae, E. durans, E. casseliflavus, E. gallinarum, E. avium, E. cecorum and E. columbae, and 47 Enterococcus field strains isolated from pigs. Restriction endonuclease analysis of the ITS-PCR product using HinfI, RsaI and MboI, in the order specified, enabled species differentiation of the Enterococcus reference and field strains, and in the case of the latter, the results of species identification were identical (47/47) to those obtained by MALDI-TOF MS. Moreover, as a result of digestion with MboI, a unique restriction profile was also obtained for the strains (3/3) identified by MALDI-TOF MS as E. thailandicus. In our opinion, restriction endonuclease analysis of the 16S-23S rRNA gene ITS region of Enterococcus may be a simple and relatively fast (less than 4 h) alternative method for identifying the species occurring most frequently in humans and animals.

  17. Electron cryotomography of measles virus reveals how matrix protein coats the ribonucleocapsid within intact virions.

    PubMed

    Liljeroos, Lassi; Huiskonen, Juha T; Ora, Ari; Susi, Petri; Butcher, Sarah J

    2011-11-01

    Measles virus is a highly infectious, enveloped, pleomorphic virus. We combined electron cryotomography with subvolume averaging and immunosorbent electron microscopy to characterize the 3D ultrastructure of the virion. We show that the matrix protein forms helices coating the helical ribonucleocapsid rather than coating the inner leaflet of the membrane, as previously thought. The ribonucleocapsid is folded into tight bundles through matrix-matrix interactions. The implications for virus assembly are that the matrix already tightly interacts with the ribonucleocapsid in the cytoplasm, providing a structural basis for the previously observed regulation of RNA transcription by the matrix protein. Next, the matrix-covered ribonucleocapsids are transported to the plasma membrane, where the matrix interacts with the envelope glycoproteins during budding. These results are relevant to the nucleocapsid organization and budding of other paramyxoviruses, where isolated matrix has been observed to form helices.

  18. The cellulose resource matrix.

    PubMed

    Keijsers, Edwin R P; Yılmaz, Gülden; van Dam, Jan E G

    2013-03-01

    The emerging biobased economy is causing shifts from mineral fossil oil based resources towards renewable resources. Because of market mechanisms, current and new industries utilising renewable commodities, will attempt to secure their supply of resources. Cellulose is among these commodities, where large scale competition can be expected and already is observed for the traditional industries such as the paper industry. Cellulose and lignocellulosic raw materials (like wood and non-wood fibre crops) are being utilised in many industrial sectors. Due to the initiated transition towards biobased economy, these raw materials are intensively investigated also for new applications such as 2nd generation biofuels and 'green' chemicals and materials production (Clark, 2007; Lange, 2007; Petrus & Noordermeer, 2006; Ragauskas et al., 2006; Regalbuto, 2009). As lignocellulosic raw materials are available in variable quantities and qualities, unnecessary competition can be avoided via the choice of suitable raw materials for a target application. For example, utilisation of cellulose as carbohydrate source for ethanol production (Kabir Kazi et al., 2010) avoids the discussed competition with easier digestible carbohydrates (sugars, starch) deprived from the food supply chain. Also for cellulose use as a biopolymer several different competing markets can be distinguished. It is clear that these applications and markets will be influenced by large volume shifts. The world will have to reckon with the increase of competition and feedstock shortage (land use/biodiversity) (van Dam, de Klerk-Engels, Struik, & Rabbinge, 2005). It is of interest - in the context of sustainable development of the bioeconomy - to categorize the already available and emerging lignocellulosic resources in a matrix structure. When composing such "cellulose resource matrix" attention should be given to the quality aspects as well as to the available quantities and practical possibilities of processing the

  19. The cellulose resource matrix.

    PubMed

    Keijsers, Edwin R P; Yılmaz, Gülden; van Dam, Jan E G

    2013-03-01

    The emerging biobased economy is causing shifts from mineral fossil oil based resources towards renewable resources. Because of market mechanisms, current and new industries utilising renewable commodities, will attempt to secure their supply of resources. Cellulose is among these commodities, where large scale competition can be expected and already is observed for the traditional industries such as the paper industry. Cellulose and lignocellulosic raw materials (like wood and non-wood fibre crops) are being utilised in many industrial sectors. Due to the initiated transition towards biobased economy, these raw materials are intensively investigated also for new applications such as 2nd generation biofuels and 'green' chemicals and materials production (Clark, 2007; Lange, 2007; Petrus & Noordermeer, 2006; Ragauskas et al., 2006; Regalbuto, 2009). As lignocellulosic raw materials are available in variable quantities and qualities, unnecessary competition can be avoided via the choice of suitable raw materials for a target application. For example, utilisation of cellulose as carbohydrate source for ethanol production (Kabir Kazi et al., 2010) avoids the discussed competition with easier digestible carbohydrates (sugars, starch) deprived from the food supply chain. Also for cellulose use as a biopolymer several different competing markets can be distinguished. It is clear that these applications and markets will be influenced by large volume shifts. The world will have to reckon with the increase of competition and feedstock shortage (land use/biodiversity) (van Dam, de Klerk-Engels, Struik, & Rabbinge, 2005). It is of interest - in the context of sustainable development of the bioeconomy - to categorize the already available and emerging lignocellulosic resources in a matrix structure. When composing such "cellulose resource matrix" attention should be given to the quality aspects as well as to the available quantities and practical possibilities of processing the

  20. On Hermite Matrix Polynomials of Two Variables

    NASA Astrophysics Data System (ADS)

    Kahmmash, Ghazi S.

    This study deals with the two-variable Hermite matrix polynomials, some relevant matrix functions appear interims of the two-variable Hermite matrix polynomials the relationships with Hermite matrix polynomials of one variable, Chepyshev matrix polynomials of the second kind have been obtained and expansion of the. Gegenbauer matrix polynomials as series of Hermite matrix polynomials.

  1. Supported Molecular Matrix Electrophoresis.

    PubMed

    Matsuno, Yu-Ki; Kameyama, Akihiko

    2015-01-01

    Mucins are difficult to separate using conventional gel electrophoresis methods such as SDS-PAGE and agarose gel electrophoresis, owing to their large size and heterogeneity. On the other hand, cellulose acetate membrane electrophoresis can separate these molecules, but is not compatible with glycan analysis. Here, we describe a novel membrane electrophoresis technique, termed "supported molecular matrix electrophoresis" (SMME), in which a porous polyvinylidene difluoride (PVDF) membrane filter is used to achieve separation. This description includes the separation, visualization, and glycan analysis of mucins with the SMME technique. PMID:26139278

  2. Identification of microorganisms by FTIR spectroscopy: perspectives and limitations of the method.

    PubMed

    Wenning, Mareike; Scherer, Siegfried

    2013-08-01

    Fourier transform infrared (FTIR) spectroscopy was introduced in 1991 as a technique to identify and classify microbes. Since then, it has gained growing interest and has undergone a remarkable evolution. Highly sophisticated spectrometers have been developed, enabling a high sample throughput. Today, the generation of high-quality data in a short time and the application of the technique for rapid and reliable identification of microbes to the species level are well documented. What makes FTIR spectroscopy even more attractive is the fact that spectral information can also be exploited for strain typing purposes, which is particularly important for epidemiological analyses and some technological applications. Accordingly, in recent years, FTIR spectroscopy has been increasingly used for typing and classifying microorganisms below the species level. The intention of this review is to give an overview over current knowledge and strategies of using FTIR spectroscopy for species identification and to describe different approaches for strain typing.

  3. Evaluation of FTIR spectroscopy as diagnostic tool for colorectal cancer using spectral analysis

    NASA Astrophysics Data System (ADS)

    Dong, Liu; Sun, Xuejun; Chao, Zhang; Zhang, Shiyun; Zheng, Jianbao; Gurung, Rajendra; Du, Junkai; Shi, Jingsen; Xu, Yizhuang; Zhang, Yuanfu; Wu, Jinguang

    2014-03-01

    The aim of this study is to confirm FTIR spectroscopy as a diagnostic tool for colorectal cancer. 180 freshly removed colorectal samples were collected from 90 patients for spectrum analysis. The ratios of spectral intensity and relative intensity (/I1460) were calculated. Principal component analysis (PCA) and Fisher's discriminant analysis (FDA) were applied to distinguish the malignant from normal. The FTIR parameters of colorectal cancer and normal tissues were distinguished due to the contents or configurations of nucleic acids, proteins, lipids and carbohydrates. Related to nitrogen containing, water, protein and nucleic acid were increased significantly in the malignant group. Six parameters were selected as independent factors to perform discriminant functions. The sensitivity for FTIR in diagnosing colorectal cancer was 96.6% by discriminant analysis. Our study demonstrates that FTIR can be a useful technique for detection of colorectal cancer and may be applied in clinical colorectal cancer diagnosis.

  4. Identification of Cortex Eucommiae from different producing areas by FTIR microspectroscopy

    NASA Astrophysics Data System (ADS)

    Wang, Xin; Sheng, Daping; Zhu, Zhengjie; Xu, Fangcheng; Huang, Dake; Yu, Changjun

    2015-04-01

    In this paper, FTIR microspectroscopy was used to compare Cortex Eucommiae from Anhui Province (A), Henan Province (B) and Sichuan Province (C) of China. High-resolution spectra were obtained with good reproducibility. From IR spectra, some obvious differences in band frequency could be observed among Cortex Eucommiae A-C. Curve fitting result indicated that polysaccharides' structures and contents were different among Cortex Eucommiae A-C. To distinguish Cortex Eucommiae from different producing areas, the A1245/A1328 ratio might be an exceptionally practical factor. Additionally, FTIR microspectroscopy could identify Cortex Eucommiae A-C with 89.5% accuracy in combination with hierarchical cluster analysis. The results suggest FTIR microspectroscopy is very easy and efficient for distinguishing Cortex Eucommiae from different areas, and also indicate FTIR microspectroscopy may be practical for TCM research.

  5. Generation of chemical movies: FT-IR spectroscopic imaging of segmented flows.

    PubMed

    Chan, K L Andrew; Niu, X; deMello, A J; Kazarian, S G

    2011-05-01

    We have previously demonstrated that FT-IR spectroscopic imaging can be used as a powerful, label-free detection method for studying laminar flows. However, to date, the speed of image acquisition has been too slow for the efficient detection of moving droplets within segmented flow systems. In this paper, we demonstrate the extraction of fast FT-IR images with acquisition times of 50 ms. This approach allows efficient interrogation of segmented flow systems where aqueous droplets move at a speed of 2.5 mm/s. Consecutive FT-IR images separated by 120 ms intervals allow the generation of chemical movies at eight frames per second. The technique has been applied to the study of microfluidic systems containing moving droplets of water in oil and droplets of protein solution in oil. The presented work demonstrates the feasibility of the use of FT-IR imaging to study dynamic systems with subsecond temporal resolution. PMID:21438630

  6. [Application of HATR-FTIR spectroscopy to the analysis of quality mensuration of rhizoma Atractylodes].

    PubMed

    Hong, Qing-hong; Cheng, Cun-gui; Cheng, Ze-feng; Li, Dan-ting

    2007-02-01

    The present paper used many kinds of mensuration of FTIR spectroscopy to determine traditional Chinese drugs--rhizoma atractylodis macrocephalae. Comparing the horizontal attenuated total reflection-Fourier transform infrared spectra (HATR-FTIR) of xylem and outer layer parts of cuticle indicates that there are more butenolide and its derivatives in outer layer parts of cuticle. Much more chemical materials could be found in fresh sample than in drying sample, possibly due to the decreased amount of naphtha in the drying sample. The HATR-FTIR of xylem of rhizoma atractylodis macrocephalae and its confusable varieties were transformed into second derivative FTIR to make sure whether the peak location is consistent. As a result, the difference is significant.

  7. Surface characterization of poly(L-lactic acid)-methoxy poly(ethylene glycol) diblock copolymers by static and dynamic contact angle measurements, FTIR, and ATR-FTIR.

    PubMed

    Mert, O; Doganci, E; Erbil, H Y; Demir, A S

    2008-02-01

    The surface composition and surface free energy properties of two types of amphiphilic and semicrystalline diblock copolymers consisting of poly(L-lactic acid) coupled to (methoxy poly(ethylene glycol) (PLLA-MePEG) having differing block lengths of PEG were investigated by using static and dynamic contact angle measurements, transmission Fourier infrared spectroscopy (FTIR), and attenuated total reflection spectroscopy (ATR-FTIR) and compared with results obtained from PLLA and MePEG homopolymers. The contact angle results were evaluated by using the van Oss-Good method (acid-base method), and it was determined that the Lewis base surface tension coefficient (gamma-) of the copolymers increased with an increase of the PEG molar content at the copolymer surface. This result is in good agreement with the transmission FTIR and ATR-FTIR results but not proportional to them, indicating that the surfaces of the copolymers are highly mobile and that the molecular rearrangement takes place upon contact with a polar liquid drop. The dynamic contact angle measurements showed that the strong acid-base interaction between the oxygen atoms in the copolymer backbone of the relatively more hydrophilic PEG segments with the Lewis acidic groups of the polar and hydrogen-bonding water molecules enabled the surface molecules to restructure (conformational change) at the contact area, so that the PEG segments moved upward, whereas the apolar methyl pendant groups of PLLA segments buried downward.

  8. Feature selection versus feature compression in the building of calibration models from FTIR-spectrophotometry datasets.

    PubMed

    Vergara, Alexander; Llobet, Eduard

    2012-01-15

    Undoubtedly, FTIR-spectrophotometry has become a standard in chemical industry for monitoring, on-the-fly, the different concentrations of reagents and by-products. However, representing chemical samples by FTIR spectra, which spectra are characterized by hundreds if not thousands of variables, conveys their own set of particular challenges because they necessitate to be analyzed in a high-dimensional feature space, where many of these features are likely to be highly correlated and many others surely affected by noise. Therefore, identifying a subset of features that preserves the classifier/regressor performance seems imperative prior any attempt to build an appropriate pattern recognition method. In this context, we investigate the benefit of utilizing two different dimensionality reduction methods, namely the minimum Redundancy-Maximum Relevance (mRMR) feature selection scheme and a new self-organized map (SOM) based feature compression, coupled to regression methods to quantitatively analyze two-component liquid samples utilizing FTIR spectrophotometry. Since these methods give us the possibility of selecting a small subset of relevant features from FTIR spectra preserving the statistical characteristics of the target variable being analyzed, we claim that expressing the FTIR spectra by these dimensionality-reduced set of features may be beneficial. We demonstrate the utility of these novel feature selection schemes in quantifying the distinct analytes within their binary mixtures utilizing a FTIR-spectrophotometer.

  9. An improved transfer-matrix model for optical superlenses.

    PubMed

    Moore, Ciaran P; Blaikie, Richard J; Arnold, Matthew D

    2009-08-01

    The use of transfer-matrix analyses for characterizing planar optical superlensing systems is studied here, and the simple model of the planar superlens as an isolated imaging element is shown to be defective in certain situations. These defects arise due to neglected interactions between the superlens and the spatially varying shadow masks that are normally used as scattering objects for imaging, and which are held in near-field proximity to the superlenses. An extended model is proposed that improves the accuracy of the transfer-matrix analysis, without adding significant complexity, by approximating the reflections from the shadow mask by those from a uniform metal layer. Results obtained using both forms of the transfer matrix model are compared to finite element models and two example superlenses, one with a silver monolayer and the other with three silver sublayers, are characterized. The modified transfer matrix model gives much better agreement in both cases.

  10. Ageing of EUROBITUM bituminised radioactive waste: An ATR-FTIR spectroscopy study

    NASA Astrophysics Data System (ADS)

    Valcke, E.; Rorif, F.; Smets, S.

    2009-08-01

    The extent of the physico-chemical processes of concern in the study of the acceptability of Eurobitum bituminised radioactive waste for underground disposal (water uptake by hygroscopic NaNO 3 - swelling - pressure build-up - NaNO 3 leaching) will depend on the degree of ageing of the bituminous matrix. In the work reported here, the ageing behaviour was studied by comparing the characteristics of 25 years old radioactive Eurobitum with those of 25 years old non-radioactive Eurobitum samples that were heated or gamma-irradiated in the presence or absence of oxygen. Chemical changes in the bitumen structure were followed in the mid-infrared region with Attenuated Total Reflectance Fourier Transform InfraRed Spectroscopy (ATR-FTIR) by measuring the evolution of the band heights at 1700 cm -1 (C dbnd O functional groups) and 1600 cm -1 (C dbnd C double bonds). Needle penetration depths and ring and ball softening points were determined for some samples. Oxidation of bitumen in the presence of oxygen results in a distinct increase of both the number of C dbnd O and C dbnd C functionalities, with a positive linear relationship existing between the two groups. The production of C dbnd O functional groups seems to promote the generation of C dbnd C double bonds. Heating at 130 °C is much more efficient than gamma irradiation at low to moderate dose rates (20-140 Gy/h) to oxidise the bitumen. As the oxygen concentration decreases, for instance by diffusion limitation deeper inside the bitumen, the number of C dbnd O and C dbnd C functionalities formed per unit of time decreases. A similar behaviour was observed for 25 years old radioactive Eurobitum. In absence of oxygen, gamma irradiation still results in a small increase of the number of C dbnd O functional groups, probably by oxygen still adsorbed on the bitumen, and in a relatively higher amount of C dbnd C double bonds. The surface layer (<5 cm) of 25 years old radioactive Eurobitum was heavily oxidised. The

  11. Ceramic matrix and resin matrix composites: A comparison

    NASA Technical Reports Server (NTRS)

    Hurwitz, Frances I.

    1987-01-01

    The underlying theory of continuous fiber reinforcement of ceramic matrix and resin matrix composites, their fabrication, microstructure, physical and mechanical properties are contrasted. The growing use of organometallic polymers as precursors to ceramic matrices is discussed as a means of providing low temperature processing capability without the fiber degradation encountered with more conventional ceramic processing techniques. Examples of ceramic matrix composites derived from particulate-filled, high char yield polymers and silsesquioxane precursors are provided.

  12. Detection of PLGA-based nanoparticles at a single-cell level by synchrotron radiation FTIR spectromicroscopy and correlation with X-ray fluorescence microscopy

    PubMed Central

    Pascolo, Lorella; Bortot, Barbara; Benseny-Cases, Nuria; Gianoncelli, Alessandra; Tosi, Giovanni; Ruozi, Barbara; Rizzardi, Clara; De Martino, Eleonora; Vandelli, Maria Angela; Severini, Giovanni Maria

    2014-01-01

    Poly-lactide-co-glycolide (PLGA) is one of the few polymers approved by the US Food and Drug Administration as a carrier for drug administration in humans; therefore, it is one of the most used materials in the formulation of polymeric nanoparticles (NPs) for therapeutic purposes. Because the cellular uptake of polymeric NPs is a hot topic in the nanomedicine field, the development of techniques able to ensure incontrovertible evidence of the presence of NPs in the cells plays a key role in gaining understanding of their therapeutic potential. On the strength of this premise, this article aims to evaluate the application of synchrotron radiation-based Fourier transform infrared spectroscopy (SR-FTIR) spectromicroscopy and SR X-ray fluorescence (SR-XRF) microscopy in the study of the in vitro interaction of PLGA NPs with cells. To reach this goal, we used PLGA NPs, sized around 200 nm and loaded with superparamagnetic iron oxide NPs (PLGA-IO-NPs; Fe3O4; size, 10–15 nm). After exposing human mesothelial (MeT5A) cells to PLGA-IO-NPs (0.1 mg/mL), the cells were analyzed after fixation both by SR-FTIR spectromicroscopy and SR-XRF microscopy setups. SR-FTIR-SM enabled the detection of PLGA NPs at single-cell level, allowing polymer detection inside the biological matrix by the characteristic band in the 1,700–2,000 cm−1 region. The precise PLGA IR-signature (1,750 cm−1 centered pick) also was clearly evident within an area of high amide density. SR-XRF microscopy performed on the same cells investigated under SR-FTIR microscopy allowed us to put in evidence the Fe presence in the cells and to emphasize the intracellular localization of the PLGA-IO-NPs. These findings suggest that SR-FTIR and SR-XRF techniques could be two valuable tools to follow the PLGA NPs’ fate in in vitro studies on cell cultures. PMID:24944512

  13. Detection of PLGA-based nanoparticles at a single-cell level by synchrotron radiation FTIR spectromicroscopy and correlation with X-ray fluorescence microscopy.

    PubMed

    Pascolo, Lorella; Bortot, Barbara; Benseny-Cases, Nuria; Gianoncelli, Alessandra; Tosi, Giovanni; Ruozi, Barbara; Rizzardi, Clara; De Martino, Eleonora; Vandelli, Maria Angela; Severini, Giovanni Maria

    2014-01-01

    Poly-lactide-co-glycolide (PLGA) is one of the few polymers approved by the US Food and Drug Administration as a carrier for drug administration in humans; therefore, it is one of the most used materials in the formulation of polymeric nanoparticles (NPs) for therapeutic purposes. Because the cellular uptake of polymeric NPs is a hot topic in the nanomedicine field, the development of techniques able to ensure incontrovertible evidence of the presence of NPs in the cells plays a key role in gaining understanding of their therapeutic potential. On the strength of this premise, this article aims to evaluate the application of synchrotron radiation-based Fourier transform infrared spectroscopy (SR-FTIR) spectromicroscopy and SR X-ray fluorescence (SR-XRF) microscopy in the study of the in vitro interaction of PLGA NPs with cells. To reach this goal, we used PLGA NPs, sized around 200 nm and loaded with superparamagnetic iron oxide NPs (PLGA-IO-NPs; Fe₃O₄; size, 10-15 nm). After exposing human mesothelial (MeT5A) cells to PLGA-IO-NPs (0.1 mg/mL), the cells were analyzed after fixation both by SR-FTIR spectromicroscopy and SR-XRF microscopy setups. SR-FTIR-SM enabled the detection of PLGA NPs at single-cell level, allowing polymer detection inside the biological matrix by the characteristic band in the 1,700-2,000 cm(-1) region. The precise PLGA IR-signature (1,750 cm(-1) centered pick) also was clearly evident within an area of high amide density. SR-XRF microscopy performed on the same cells investigated under SR-FTIR microscopy allowed us to put in evidence the Fe presence in the cells and to emphasize the intracellular localization of the PLGA-IO-NPs. These findings suggest that SR-FTIR and SR-XRF techniques could be two valuable tools to follow the PLGA NPs' fate in in vitro studies on cell cultures. PMID:24944512

  14. Matrix membranes and integrability

    SciTech Connect

    Zachos, C.; Fairlie, D.; Curtright, T.

    1997-06-01

    This is a pedagogical digest of results reported in Curtright, Fairlie, {ampersand} Zachos 1997, and an explicit implementation of Euler`s construction for the solution of the Poisson Bracket dual Nahm equation. But it does not cover 9 and 10-dimensional systems, and subsequent progress on them Fairlie 1997. Cubic interactions are considered in 3 and 7 space dimensions, respectively, for bosonic membranes in Poisson Bracket form. Their symmetries and vacuum configurations are explored. Their associated first order equations are transformed to Nahm`s equations, and are hence seen to be integrable, for the 3-dimensional case, by virtue of the explicit Lax pair provided. Most constructions introduced also apply to matrix commutator or Moyal Bracket analogs.

  15. Mixed Mode Matrix Multiplication

    SciTech Connect

    Meng-Shiou Wu; Srinivas Aluru; Ricky A. Kendall

    2004-09-30

    In modern clustering environments where the memory hierarchy has many layers (distributed memory, shared memory layer, cache,...), an important question is how to fully utilize all available resources and identify the most dominant layer in certain computations. When combining algorithms on all layers together, what would be the best method to get the best performance out of all the resources we have? Mixed mode programming model that uses thread programming on the shared memory layer and message passing programming on the distributed memory layer is a method that many researchers are using to utilize the memory resources. In this paper, they take an algorithmic approach that uses matrix multiplication as a tool to show how cache algorithms affect the performance of both shared memory and distributed memory algorithms. They show that with good underlying cache algorithm, overall performance is stable. When underlying cache algorithm is bad, superlinear speedup may occur, and an increasing number of threads may also improve performance.

  16. Light cone matrix product

    SciTech Connect

    Hastings, Matthew B

    2009-01-01

    We show how to combine the light-cone and matrix product algorithms to simulate quantum systems far from equilibrium for long times. For the case of the XXZ spin chain at {Delta} = 0.5, we simulate to a time of {approx} 22.5. While part of the long simulation time is due to the use of the light-cone method, we also describe a modification of the infinite time-evolving bond decimation algorithm with improved numerical stability, and we describe how to incorporate symmetry into this algorithm. While statistical sampling error means that we are not yet able to make a definite statement, the behavior of the simulation at long times indicates the appearance of either 'revivals' in the order parameter as predicted by Hastings and Levitov (e-print arXiv:0806.4283) or of a distinct shoulder in the decay of the order parameter.

  17. X-ray, FT-IR, NMR and PM5 structural studies and antibacterial activity of unexpectedly stable salinomycin-benzotriazole intermediate ester

    NASA Astrophysics Data System (ADS)

    Huczyński, Adam; Janczak, Jan; Antoszczak, Michał; Stefańska, Joanna; Brzezinski, Bogumil

    2012-08-01

    The unexpectedly stable benzotriazole ester of salinomycin (SAL-HOBt) - an intermediate product of the amidation reaction of salinomycin has been isolated and structurally characterised (using a single crystal) by X-ray, FT-IR, NMR and semiempirical methods. The results of the X-ray and spectroscopic studies demonstrated that this intermediate ester exist in the solid state and in solution exclusively as the stable O-acyl form. The molecular structure of SAL-HOBt is stabilised by relatively weak intramolecular hydrogen bonds. The PM5 calculation of possible structures of SAL-HOBt has shown that the O-acyl form is more energetically favourable than its N-oxide-N-acyl isomers. The antimicrobial tests show that SAL-HOBt is active against Gram-positive bacteria and clinical isolates methicillin-resistant Staphylococcus aureus (MIC = 1-2 μg/ml).

  18. Homolumo gap and matrix model

    SciTech Connect

    Andric, I.; Jonke, L.; Jurman, D.; Nielsen, H. B.

    2008-06-15

    We discuss a dynamical matrix model by which probability distribution is associated with Gaussian ensembles from random matrix theory. We interpret the matrix M as a Hamiltonian representing interaction of a bosonic system with a single fermion. We show that a system of second-quantized fermions influences the ground state of the whole system by producing a gap between the highest occupied eigenvalue and the lowest unoccupied eigenvalue.

  19. Extracellular matrix mineralization in murine MC3T3-E1 osteoblast cultures: an ultrastructural, compositional and comparative analysis with mouse bone.

    PubMed

    Addison, W N; Nelea, V; Chicatun, F; Chien, Y-C; Tran-Khanh, N; Buschmann, M D; Nazhat, S N; Kaartinen, M T; Vali, H; Tecklenburg, M M; Franceschi, R T; McKee, M D

    2015-02-01

    Bone cell culture systems are essential tools for the study of the molecular mechanisms regulating extracellular matrix mineralization. MC3T3-E1 osteoblast cell cultures are the most commonly used in vitro model of bone matrix mineralization. Despite the widespread use of this cell line to study biomineralization, there is as yet no systematic characterization of the mineral phase produced in these cultures. Here we provide a comprehensive, multi-technique biophysical characterization of this cell culture mineral and extracellular matrix, and compare it to mouse bone and synthetic apatite mineral standards, to determine the suitability of MC3T3-E1 cultures for biomineralization studies. Elemental compositional analysis by energy-dispersive X-ray spectroscopy (EDS) showed calcium and phosphorus, and trace amounts of sodium and magnesium, in both biological samples. X-ray diffraction (XRD) on resin-embedded intact cultures demonstrated that similar to 1-month-old mouse bone, apatite crystals grew with preferential orientations along the (100), (101) and (111) mineral planes indicative of guided biogenic growth as opposed to dystrophic calcification. XRD of crystals isolated from the cultures revealed that the mineral phase was poorly crystalline hydroxyapatite with 10 to 20nm-sized nanocrystallites. Consistent with the XRD observations, electron diffraction patterns indicated that culture mineral had low crystallinity typical of biological apatites. Fourier-transform infrared spectroscopy (FTIR) confirmed apatitic carbonate and phosphate within the biological samples. With all techniques utilized, cell culture mineral and mouse bone mineral were remarkably similar. Scanning (SEM) and transmission (TEM) electron microscopy showed that the cultures had a dense fibrillar collagen matrix with small, 100nm-sized, collagen fibril-associated mineralization foci which coalesced to form larger mineral aggregates, and where mineralized sites showed the accumulation of the

  20. A matrix model for WZW

    NASA Astrophysics Data System (ADS)

    Dorey, Nick; Tong, David; Turner, Carl

    2016-08-01

    We study a U( N) gauged matrix quantum mechanics which, in the large N limit, is closely related to the chiral WZW conformal field theory. This manifests itself in two ways. First, we construct the left-moving Kac-Moody algebra from matrix degrees of freedom. Secondly, we compute the partition function of the matrix model in terms of Schur and Kostka polynomials and show that, in the large N limit, it coincides with the partition function of the WZW model. This same matrix model was recently shown to describe non-Abelian quantum Hall states and the relationship to the WZW model can be understood in this framework.

  1. High strain carbon nanotubes based epoxy matrix nanocomposite

    NASA Astrophysics Data System (ADS)

    Manocha, L. M.; Basak, Arpana; Bhandari, T.; Baishya, T.; Manocha, S.

    2013-06-01

    Multiwalled carbon nanotubes, synthesized by catalytic chemical vapour deposition using xylene as the carbon precursor and ferrocene as the catalyst source, were used as reinforcements for the preparation of carbon nanotubes based epoxy matrix composites. For higher degree of dispersion in the matrix system, oxygen containing groups (C=O, COOH) were attached to the surface of carbon nanotubes by acid treatment followed by rigorous sonication of reinforcement in the matrix system. FTIR confirms the formation of oxygen containing groups on the surface of the carbon nanotubes. Tensile strength and glass transition temperature of the epoxy resin as well as nanocomposite samples have been determined. Carbon nanotubes reinforced composites exhibited ten times higher elongation than as such epoxy mainly due to the strengthening effect of the dispersed nanotubes and the development of moderate interfacial bonding between the resin and the reinforcing agent. A noticeable increase in the glass transition temperature of ˜20°C in the nanocomposites is attributable to the restricted movement of the polymeric chains on account of addition of carbon nanotubes.

  2. Electron cryotomography of measles virus reveals how matrix protein coats the ribonucleocapsid within intact virions

    PubMed Central

    Liljeroos, Lassi; Huiskonen, Juha T.; Ora, Ari; Susi, Petri; Butcher, Sarah J.

    2011-01-01

    Measles virus is a highly infectious, enveloped, pleomorphic virus. We combined electron cryotomography with subvolume averaging and immunosorbent electron microscopy to characterize the 3D ultrastructure of the virion. We show that the matrix protein forms helices coating the helical ribonucleocapsid rather than coating the inner leaflet of the membrane, as previously thought. The ribonucleocapsid is folded into tight bundles through matrix–matrix interactions. The implications for virus assembly are that the matrix already tightly interacts with the ribonucleocapsid in the cytoplasm, providing a structural basis for the previously observed regulation of RNA transcription by the matrix protein. Next, the matrix-covered ribonucleocapsids are transported to the plasma membrane, where the matrix interacts with the envelope glycoproteins during budding. These results are relevant to the nucleocapsid organization and budding of other paramyxoviruses, where isolated matrix has been observed to form helices. PMID:22025713

  3. Multivariate curve resolution of rapid-scan FTIR difference spectra of quinone photoreduction in bacterial photosynthetic membranes.

    PubMed

    Blanchet, L; Mezzetti, A; Ruckebusch, C; Huvenne, J-P; de Juan, A

    2007-03-01

    Photosynthetic reaction centres and membranes are systems of particular interest and are often taken as models to investigate the molecular mechanisms of selected bioenergetic reactions. In this work, a multivariate curve resolution by alternating least squares procedure is detailed for resolution of time-resolved difference FTIR spectra probing the evolution of quinone reduction in photosynthetic membranes from Rhodobacter sphaeroides under photoexcitation. For this purpose, different data sets were acquired in the same time range and spectroscopic domain under slightly different experimental conditions. To enable resolution and provide meaningful results the different data sets were arranged in an augmented matrix. This strategy enabled recovery of three different species despite rank-deficiency conditions. It also results in better definition (identity and evolution) of the contributions. From the resolved spectra, the species have been attributed to: 1. the formation of ubiquinol, more precisely the disappearance of Q/appearance of QH(2); 2. conformational change of the protein in the surrounding biological medium; 3. oxidation of diaminodurene, a redox mediator. Because, moreover, results obtained from augmented data sets strategies enable quantitative and qualitative interpretation of concentration profiles, other effects, for example the consequence of repeated light excitation of the same sample, choice of illumination power, or the number of spectra accumulated could be compared and discussed.

  4. Chromium (VI) biosorption by immobilized Aspergillus niger in continuous flow system with special reference to FTIR analysis.

    PubMed

    Chhikara, S; Hooda, A; Rana, L; Dhankhar, R

    2010-09-01

    Aspergillus niger was treated with acid and immobilized in calcium alginate matrix. The dynamic removal of Cr (VI) ion was studied using continuously fed column packed with immobilized biosorbent beads. Column experiments were carried out to study the effect of various bed heights (20, 30, 40 cm) under different flow rates (5, 7.5, 10 ml min(-1)) on efficiency of biosorption. The maximum time (1020 minutes; 17 hr) before breakthrough point was observed in case of 40 cm bed height with flow rate of 5ml min(-1). FTIR analysis of acid treated immobilized A. niger was used fora qualitative and preliminary analysis of chemical functional groups present on its cell wall which provided the information on nature of cell wall and Cr (VI) interaction during the process of biosorption. The IR spectra of biosorbent recorded before and after chromium biosorption had shown some changes in the band patterns, which were finally analyzed and was found that chemical interaction such as ion-exchange between carboxyl (-COOH), hydroxyl (-OH) and amine (-NH2) group of biosorbent and Chromium ion were mainlyinvolved in biosorption of Cr (VI) onto A. niger cell wall surface. The biosorbed metal was eluted from biosorbent by using 0.1 M H2SO4 as eluant. Immobilized biosorbent could be reused for five consecutive biosorption and desorption cycles without apparent loss of efficiency after its reconditioning. Considering all above factors together this paper discusses the efficient chromium biosorption process carried out by immobilized A. niger biosorbent. PMID:21387903

  5. Matrix market: a web resource for test matrix collection

    SciTech Connect

    Boisvert, R.F.; Pozo, R.; Remington, K.; Barrett, R.F.; Dongarra, J.J. /

    1996-05-30

    We describe a repository of data for the testing of numerical algorithms and mathematical software for matrix computations. The repository is designed to accommodate both dense and sparse matrices, as well as software to generate matrices. It has been seeded with the well known Harwell-Boeing sparse matrix collection. The raw data files have been augmented with an integrated World Wide Web interface which describes the matrices in the collection quantitatively and visually, For example, each matrix has a Web page which details its attributes, graphically depicts its sparsity pattern, and provides access to the matrix itself in several formats. In addition, a search mechanism is included which allows retrieval of matrices based on a variety of attributes, such as type and size, as well as through free-text search in abstracts. The URL is http://math.nist.gov/MatrixMarket.

  6. Ectomycorrhizal identification in environmental samples of tree roots by Fourier-transform infrared (FTIR) spectroscopy

    PubMed Central

    Pena, Rodica; Lang, Christa; Naumann, Annette; Polle, Andrea

    2014-01-01

    Roots of forest trees are associated with various ectomycorrhizal (ECM) fungal species that are involved in nutrient exchange between host plant and the soil compartment. The identification of ECM fungi in small environmental samples is difficult. The present study tested the feasibility of attenuated total reflection Fourier-transform infrared (ATR-FTIR) spectroscopy followed by hierarchical cluster analysis (HCA) to discriminate in situ collected ECM fungal species. Root tips colonized by distinct ECM fungal species, i.e., Amanita rubescens, Cenococcum geophilum, Lactarius subdulcis, Russula ochroleuca, and Xerocomus pruinatus were collected in mono-specific beech (Fagus sylvatica) and mixed deciduous forests in different geographic areas to investigate the environmental variability of the ECM FTIR signatures. A clear HCA discrimination was obtained for ECM fungal species independent of individual provenance. Environmental variability neither limited the discrimination between fungal species nor provided sufficient resolution to discern species sub-clusters for different sites. However, the de-convoluted FTIR spectra contained site-related spectral information for fungi with wide nutrient ranges, but not for Lactarius subdulcis, a fungus residing only in the litter layer. Specific markers for distinct ECM were identified in spectral regions associated with carbohydrates (i.e., mannans), lipids, and secondary protein structures. The present results support that FTIR spectroscopy coupled with multivariate analysis is a reliable and fast method to identify ECM fungal species in minute environmental samples. Moreover, our data suggest that the FTIR spectral signatures contain information on physiological and functional traits of ECM fungi. PMID:24904624

  7. Thermodynamic investigations of nitroxoline sublimation by simultaneous DSC-FTIR method and isothermal TG analysis.

    PubMed

    Gao, Gau-Yi; Lin, Shan-Yang

    2010-01-01

    To investigate the physicochemical characteristics, thermodynamics, possible sublimation process and kinetics of nitroxoline, differential scanning calorimetry (DSC), isothermal thermogravimetry (TG), and Fourier transform infrared (FTIR) microspectroscopy equipped with a micro hot-stage of DSC microscopy assembly (simultaneous DSC-FTIR method) were used. The DSC result indicates that nitroxoline exhibited a sharp endothermic peak at 182 degrees C with enthalpy of 103.1 J/g due to the melting point of nitroxoline. A sublimation behavior of nitroxoline was found from 129 degrees C by gradual weight loss in TG curve. However, the nonisothermal DSC-FTIR method reveals that the temperature at 95 degrees C was the onset temperature of nitroxoline sublimation. A significant difference between DSC-FTIR method and TG analysis suggests that the simultaneous DSC-FTIR method was more sensitive than that of the TG analysis to detect the beginning temperature of nitroxoline sublimation. The sublimation kinetics of nitroxoline determined by isothermal TG analysis evidenced that the zero-order kinetics was followed over the sublimation time. The sublimation enthalpy correction was also carried out by a group additivity approach for the estimation of heat capacity. The enthalpy of nitroxoline sublimation estimated was 86.14 KJ/mol at 298.15 K.

  8. Ectomycorrhizal identification in environmental samples of tree roots by Fourier-transform infrared (FTIR) spectroscopy.

    PubMed

    Pena, Rodica; Lang, Christa; Naumann, Annette; Polle, Andrea

    2014-01-01

    Roots of forest trees are associated with various ectomycorrhizal (ECM) fungal species that are involved in nutrient exchange between host plant and the soil compartment. The identification of ECM fungi in small environmental samples is difficult. The present study tested the feasibility of attenuated total reflection Fourier-transform infrared (ATR-FTIR) spectroscopy followed by hierarchical cluster analysis (HCA) to discriminate in situ collected ECM fungal species. Root tips colonized by distinct ECM fungal species, i.e., Amanita rubescens, Cenococcum geophilum, Lactarius subdulcis, Russula ochroleuca, and Xerocomus pruinatus were collected in mono-specific beech (Fagus sylvatica) and mixed deciduous forests in different geographic areas to investigate the environmental variability of the ECM FTIR signatures. A clear HCA discrimination was obtained for ECM fungal species independent of individual provenance. Environmental variability neither limited the discrimination between fungal species nor provided sufficient resolution to discern species sub-clusters for different sites. However, the de-convoluted FTIR spectra contained site-related spectral information for fungi with wide nutrient ranges, but not for Lactarius subdulcis, a fungus residing only in the litter layer. Specific markers for distinct ECM were identified in spectral regions associated with carbohydrates (i.e., mannans), lipids, and secondary protein structures. The present results support that FTIR spectroscopy coupled with multivariate analysis is a reliable and fast method to identify ECM fungal species in minute environmental samples. Moreover, our data suggest that the FTIR spectral signatures contain information on physiological and functional traits of ECM fungi.

  9. Implementation of an FTIR spectral library of 486 filamentous fungi strains for rapid identification of molds.

    PubMed

    Lecellier, A; Gaydou, V; Mounier, J; Hermet, A; Castrec, L; Barbier, G; Ablain, W; Manfait, M; Toubas, D; Sockalingum, G D

    2015-02-01

    Filamentous fungi may cause food and feed spoilage and produce harmful metabolites to human and animal health such as mycotoxins. Identification of fungi using conventional phenotypic methods is time-consuming and molecular methods are still quite expensive and require specific laboratory skills. In the last two decades, it has been shown that Fourier transform infrared (FTIR) spectroscopy was an efficient tool for microorganism identification. The aims of this study were to use a simple protocol for the identification of filamentous fungi using FTIR spectroscopy coupled with a partial least squares discriminant analysis (PLS-DA), to implement a procedure to validate the obtained results, and to assess the transferability of the method and database. FTIR spectra of 486 strains (43 genera and 140 species) were recorded. An IR spectral database built with 288 strains was used to identify 105 different strains. It was found that 99.17% and 92.3% of spectra derived from these strains were correctly assigned at the genus and species levels, respectively. The establishment of a score and a threshold permitted to validate 80.79% of the results obtained. A standardization function (SF) was also implemented and tested on FTIR data from another instrument on a different site and permitted to increase the percentage of well predicted spectra for this set from 72.15% to 89.13%. This study confirms the good performance of high throughput FTIR spectroscopy for fungal identification using a spectral library of molds of industrial relevance.

  10. Matrix effects in PIXE elemental analysis of thick calculi targets

    NASA Astrophysics Data System (ADS)

    Kwiatek, Wojciech M.; Lekki, Janusz; Nowak, Tomasz; Dutkiewicz, Erazm M.; Paluszkiewicz, Czeslawa

    1997-02-01

    The PIXE technique for Trace Element Analysis have been applied to the studies of mineral deposits such as kidney stones in human organism. The calculi mainly composed of phosphates, oxalates and uric acid were extracted during surgical operations and were measured at the proton beam as thick targets. Trace elements studies of such samples are influenced by the thick targets matrix effects and by the sample composition changes caused by energy deposition in the target due to the proton beam irradiation. These both difficulties are especially pronounced in the case of the biological samples. In this paper the procedure dealing with the above problems is described, basing on calculations with the use of principal formula for the detected X-ray yields and two complementary techniques for PIXE experiments such as Fourier Transform InfraRed Spectroscopy (FTIR) and Elastic Back Scattering (EBS). A rough estimation of sample chemical composition was achieved by means of the FTIR analysis, which also may serve as a tool for local sample temperature estimation during beam irradiation. Composition of major target elements, needed for beam stopping and X-rays attenuation calculations were determined using the EBS technique applied simultaneously with PIXE. The above approach was used to estimate elemental contents of several samples. Comparison between traditionally calculated and improved results is presented.

  11. The studies of FT-IR and CD spectroscopy on catechol oxidase I from tobacco

    NASA Astrophysics Data System (ADS)

    Xiao, Hourong; Xie, Yongshu; Liu, Qingliang; Xu, Xiaolong; Shi, Chunhua

    2005-10-01

    A novel copper-containing enzyme named COI (catechol oxidase I) has been isolated and purified from tobacco by extracting acetone-emerged powder with phosphate buffer, centrifugation at low temperature, ammonium sulfate fractional precipitation, and column chromatography on DEAE-sephadex (A-50), sephadex (G-75), and DEAE-celluse (DE-52). PAGE, SDS-PAGE were used to detect the enzyme purity, and to determine its molecular weight. Then the secondary structures of COI at different pH, different temperatures and different concentrations of guanidine hydrochloride (GdnHCl) were studied by the FT-IR, Fourier self-deconvolution spectra, and circular dichroism (CD). At pH 2.0, the contents of both α-helix and anti-parallel β-sheet decrease, and that of random coil increases, while β-turn is unchanged compared with the neutral condition (pH 7.0). At pH 11.0, the results indicate that the contents of α-helix, anti-parallel β-sheet and β-turn decrease, while random coil structure increases. According to the CD measurements, the relative average fractions of α-helix, anti-parallel β-sheet, β-turn/parallel β-sheet, aromatic residues and disulfide bond, and random coil/γ-turn are 41.7%, 16.7%, 23.5%, 11.3%, and 6.8% at pH 7.0, respectively, while 7.2%, 7.7%, 15.2%, 10.7%, 59.2% at pH 2.0, and 20.6%, 9.5%, 15.2%, 10.5%, 44.2% at pH 11.0. Both α-helix and random coil decrease with temperature increasing, and anti-parallel β-sheet increases at the same time. After incubated in 6 mol/L guanidine hydrochloride for 30 min, the fraction of α-helix almost disappears (only 1.1% left), while random coil/γ-turn increases to 81.8%, which coincides well with the results obtained through enzymatic activity experiment.

  12. FTIR, FT-Raman, ab initio and density functional studies on 4-methyl-1,3-dioxolan-2-one and 4,5-dichloro-1,3-dioxolan-2-one

    NASA Astrophysics Data System (ADS)

    Arjunan, V.; Saravanan, I.; Ravindran, P.; Mohan, S.

    2010-09-01

    The Fourier transform infrared (FTIR) and FT-Raman spectra of 4-methyl-1,3-dioxolan-2-one and 4,5-dichloro-1,3-dioxolan-2-one have been recorded in the range 3700-400 and 3700-100 cm -1, respectively. The complete vibrational assignment and analysis of the fundamental modes of the compounds were carried out using the observed FTIR and FT-Raman data. The vibrational frequencies determined experimentally were compared with those obtained theoretically from ab initio HF and DFT-B3LYP gradient calculations employing 6-311++G** and cc-pVTZ basis sets for the optimised geometries of the compounds. The geometries and normal modes of vibration obtained from the HF and DFT methods are in good agreement with the experimental data. The normal coordinate analysis was also carried out with ab initio force fields utilising Wilson's FG matrix method. The interactions of the skeletal vibrational modes were investigated.

  13. Glass matrix armor

    DOEpatents

    Calkins, Noel C.

    1991-01-01

    An armor system which utilizes glass. A plurality of constraint cells are mounted on a surface of a substrate, which is metal armor plate or a similar tough material, such that the cells almost completely cover the surface of the substrate. Each constraint cell has a projectile-receiving wall parallel to the substrate surface and has sides which are perpendicular to and surround the perimeter of the receiving wall. The cells are mounted such that, in one embodiment, the substrate surface serves as a sixth side or closure for each cell. Each cell has inside of it a plate, termed the front plate, which is parallel to and in contact with substantially all of the inside surface of the receiving wall. The balance of each cell is completely filled with a projectile-abrading material consisting of glass and a ceramic material and, in certain embodiments, a polymeric material. The glass may be in monolithic form or particles of ceramic may be dispersed in a glass matrix. The ceramic material may be in monolithic form or may be in the form of particles dispersed in glass or dispersed in said polymer.

  14. Hypercube matrix computation task

    NASA Technical Reports Server (NTRS)

    Calalo, R.; Imbriale, W.; Liewer, P.; Lyons, J.; Manshadi, F.; Patterson, J.

    1987-01-01

    The Hypercube Matrix Computation (Year 1986-1987) task investigated the applicability of a parallel computing architecture to the solution of large scale electromagnetic scattering problems. Two existing electromagnetic scattering codes were selected for conversion to the Mark III Hypercube concurrent computing environment. They were selected so that the underlying numerical algorithms utilized would be different thereby providing a more thorough evaluation of the appropriateness of the parallel environment for these types of problems. The first code was a frequency domain method of moments solution, NEC-2, developed at Lawrence Livermore National Laboratory. The second code was a time domain finite difference solution of Maxwell's equations to solve for the scattered fields. Once the codes were implemented on the hypercube and verified to obtain correct solutions by comparing the results with those from sequential runs, several measures were used to evaluate the performance of the two codes. First, a comparison was provided of the problem size possible on the hypercube with 128 megabytes of memory for a 32-node configuration with that available in a typical sequential user environment of 4 to 8 megabytes. Then, the performance of the codes was anlyzed for the computational speedup attained by the parallel architecture.

  15. Emergency Response Synchronization Matrix

    1999-06-01

    An emergency response to a disaster is complex, requiring the rapid integration, coordination, and synchronization of multiple levels of governmental and non-governmental organizations from numerous jurisdictions into a unified community response. For example, a community’s response actions to a fixed site hazardous materials incident could occur in an area extending from an on-site storage location to points 25 or more miles away. Response actions are directed and controlled by local governments and agencies situated withinmore » the response area, as well as by state and federal operaticns centers quite removed from the area of impact. Time is critical and the protective action decision-making process is greatly compressed. The response community must carefully plan and coordinate response operations in order to have confidence that they will be effectively implemented when faced with the potentially catastrophic nature of such releases. A graphical depiction of the entire response process via an emergency response synchronization matrix is an effective tool in optimizing the planning, exercising, and implementation of emergency plans. This system—based approach to emergency planning depicts how a community organizes its response tasks across space and time in relation to hazard actions. It provides the opportunity to make real—time adjustments as necessary for maximizing the often limited resources in protecting area residents. A response must involve the entire community and must not be limited by individual jurisdictions and organizations acting on their own without coordination, integration, and synchronization.« less

  16. Hybridized polymer matrix composites

    NASA Technical Reports Server (NTRS)

    House, E. E.; Hoggatt, J. T.; Symonds, W. A.

    1980-01-01

    The extent to which graphite fibers are released from resin matrix composites that are exposed to fire and impact conditions was determined. Laboratory simulations of those conditions that could exist in the event of an aircraft crash and burn situation were evaluated. The effectiveness of various hybridizing concepts in preventing this release of graphite fibers were also evaluated. The baseline (i.e., unhybridized) laminates examined were prepared from commercially available graphite/epoxy, graphite/polyimide, and graphite/phenolic materials. Hybridizing concepts investigated included resin fillers, laminate coatings, resin blending, and mechanical interlocking of the graphite reinforcement. The baseline and hybridized laminates' mechanical properties, before and after isothermal and humidity aging, were also compared. It was found that a small amount of graphite fiber was released from the graphite/epoxy laminates during the burn and impact conditions used in this program. However, the extent to which the fibers were released is not considered a severe enough problem to preclude the use of graphite reinforced composites in civil aircraft structure. It also was found that several hybrid concepts eliminated this fiber release. Isothermal and humidity aging did not appear to alter the fiber release tendencies.

  17. Snapshot imaging Mueller matrix polarimeter using polarization gratings.

    PubMed

    Kudenov, Michael W; Escuti, Michael J; Hagen, Nathan; Dereniak, Eustace L; Oka, Kazuhiko

    2012-04-15

    A snapshot imaging Mueller matrix polarimeter (SIMMP) is theoretically described and empirically demonstrated through simulation. Spatial polarization fringes are localized onto a sample by incorporating polarization gratings (PGs) into a polarization generator module. These fringes modulate the Mueller matrix (MM) components of the sample, which are subsequently isolated with PGs in an analyzer module. The MM components are amplitude modulated onto spatial carrier frequencies which, due to the PGs, maintain high visibility in spectrally broadband illumination. An interference model of the SIMMP is provided, followed by methods of reconstruction and calibration. Lastly, a numerical simulation is used to demonstrate the system's performance in the presence of noise. PMID:22513688

  18. The large-scale influence of the Great Barrier Reef matrix on wave attenuation

    NASA Astrophysics Data System (ADS)

    Gallop, Shari L.; Young, Ian R.; Ranasinghe, Roshanka; Durrant, Tom H.; Haigh, Ivan D.

    2014-12-01

    Offshore reef systems consist of individual reefs, with spaces in between, which together constitute the reef matrix. This is the first comprehensive, large-scale study, of the influence of an offshore reef system on wave climate and wave transmission. The focus was on the Great Barrier Reef (GBR), Australia, utilizing a 16-yr record of wave height from seven satellite altimeters. Within the GBR matrix, the wave climate is not strongly dependent on reef matrix submergence. This suggests that after initial wave breaking at the seaward edge of the reef matrix, wave energy that penetrates the matrix has little depth modulation. There is no clear evidence to suggest that as reef matrix porosity (ratio of spaces between individual reefs to reef area) decreases, wave attenuation increases. This is because individual reefs cast a wave shadow much larger than the reef itself; thus, a matrix of isolated reefs is remarkably effective at attenuating wave energy. This weak dependence of transmitted wave energy on depth of reef submergence, and reef matrix porosity, is also evident in the lee of the GBR matrix. Here, wave conditions appear to be dependent largely on local wind speed, rather than wave conditions either seaward, or within the reef matrix. This is because the GBR matrix is a very effective wave absorber, irrespective of water depth and reef matrix porosity.

  19. Ceramic matrix composite article and process of fabricating a ceramic matrix composite article

    DOEpatents

    Cairo, Ronald Robert; DiMascio, Paul Stephen; Parolini, Jason Robert

    2016-01-12

    A ceramic matrix composite article and a process of fabricating a ceramic matrix composite are disclosed. The ceramic matrix composite article includes a matrix distribution pattern formed by a manifold and ceramic matrix composite plies laid up on the matrix distribution pattern, includes the manifold, or a combination thereof. The manifold includes one or more matrix distribution channels operably connected to a delivery interface, the delivery interface configured for providing matrix material to one or more of the ceramic matrix composite plies. The process includes providing the manifold, forming the matrix distribution pattern by transporting the matrix material through the manifold, and contacting the ceramic matrix composite plies with the matrix material.

  20. A proteinaceous organic matrix regulates carbonate mineral production in the marine teleost intestine

    NASA Astrophysics Data System (ADS)

    Schauer, Kevin L.; Lemoine, Christophe M. R.; Pelin, Adrian; Corradi, Nicolas; Warren, Wesley C.; Grosell, Martin

    2016-10-01

    Marine teleost fish produce CaCO3 in their intestine as part of their osmoregulatory strategy. This precipitation is critical for rehydration and survival of the largest vertebrate group on earth, yet the molecular mechanisms that regulate this reaction are unknown. Here, we isolate and characterize an organic matrix associated with the intestinal precipitates produced by Gulf toadfish (Opsanus beta). Toadfish precipitates were purified using two different methods, and the associated organic matrix was extracted. Greater than 150 proteins were identified in the isolated matrix by mass spectrometry and subsequent database searching using an O. beta transcriptomic sequence library produced here. Many of the identified proteins were enriched in the matrix compared to the intestinal fluid, and three showed no substantial homology to any previously characterized protein in the NCBI database. To test the functionality of the isolated matrix, a micro-modified in vitro calcification assay was designed, which revealed that low concentrations of isolated matrix substantially promoted CaCO3 production, where high concentrations showed an inhibitory effect. High concentrations of matrix also decreased the incorporation of magnesium into the forming mineral, potentially providing an explanation for the variability in magnesium content observed in precipitates produced by different fish species.