Biomedical subjects

Isao Noda

Publications and source records attributed to Isao Noda.

At least 19 recordsLinked to original sources

PubMed2006

Crystallization behaviors of poly(3-hydroxybutyrate) and poly(l-lactic acid) in their immiscible and miscible blends.

By adjusting the molecular weight of the poly(l-lactic acid) (PLLA) component in poly(3-hydroxybutyrate) (PHB)/PLLA blends, we investigated the crystallization behaviors of the two components in their immiscible and miscible 50:50 blends by real time infrared (IR) spectroscopy. In the immiscible PHB/PLLA blend, the stepwise crystallization of PHB and PLLA was realized at different crystallization temperatures. PLLA crystallizes first at a higher temperature (120 degrees C). Its crystallization mechanism from the immiscible PHB/PLLA melt is not affected by the presence of the PHB component, while its crystallization rate is substantially depressed. Subsequently, in the presence of crystallized PLLA, the isothermal melt-crystallization of PHB takes place at a lower temperature (90 degrees C). It is interesting to find that there are two growth stages for PHB. At the early stage of the growth period, the Avrami exponent is 5.0, which is unusually high, while in the late stage, it is 2.5, which is very close to the reported value (n approximately 2.5) for the neat PHB system. In contrast to the stepwise crystallization of PHB and PLLA in the immiscible blends, the almost simultaneous crystallization of PHB and PLLA in the miscible 50:50 blend was observed at the same crystallization temperature (110 degrees C). Detailed dynamic analysis by IR spectroscopy has disclosed that, even in such apparently simultaneous crystallization, the crystallization of PLLA actually occurs faster than that of PHB. It has been found that, both in the immiscible and miscible blends, the crystallization dynamics of PHB are heavily affected by the presence of crystallized PLLA.

Crystallization↗

PubMed2006

Noise perturbation in functional principal component analysis filtering for two-dimensional correlation spectroscopy: its theory and application to infrared spectra of a poly(3-hydroxybutyrate) thin film.

A method based on noise perturbation in functional principal component analysis (NPFPCA) is for the first time introduced to overcome the noise interference problem in two-dimensional correlation spectroscopy (2D-COS). By the systematic addition of synthetic noise to the dynamic multivariate spectral data, the functional principal component analysis (FPCA) described in this report is able to accurately determine which eigenvectors are representing significant signals instead of noise in the original data. This feature is especially useful for the data reconstruction and noise filtering. Reconstructed data resulted from the smooth eigenvectors can produce much more reliable 2D correlation spectra by removing the correlation artifacts from noise, which in turn enable more accurate interpretation of the spectral variations. The usefulness of this method is demonstrated with a theoretical framework and applications to the 2D correlation analyses of both simulated data and temperature-dependent reflection-absorption infrared spectra of a poly(3-hydroxybutyrate) (PHB) thin film.

Absorption↗

PubMed2006

Generalized two-dimensional correlation analysis of NMR and Raman spectra for structural evolution characterizations of silk fibroin.

Generalized two-dimensional (2D) correlation spectroscopy was used to characterize the structural evolution of silk fibroin as the pH changed from 6.8 to 4.8, demonstrating that the conformational transitions of silk fibroin are induced step by step as the pH decreases. 2D homo- and hetero-spectral correlation spectroscopy was used to establish the relationship between information extracted from NMR and Raman spectroscopy. This novel method reveals the structural evolution using two probes with different frequency scales (10(5-9) Hz for nuclear spin motion and 10(12-14) Hz for molecular vibration motion), reflecting the different spatial scale sensitivity to the molecular conformational change. The transition order is identified as silk I state (helix dominant) --> silk I intermediate state --> silk II intermediate state --> silk II state (beta-sheet dominant), as the pH decreases. The results may rationalize the silkworm spinning process, which undergoes the conformational transition steadily from the soluble helix state to the insoluble beta-sheet state as the pH decreases from the posterior to anterior glands.

Journal Article↗

PubMed2006

Two-dimensional fluorescence correlation spectroscopy IV: resolution of fluorescence of tryptophan residues in alcohol dehydrogenase and lysozyme.

Generalized two-dimensional (2D) fluorescence correlation spectroscopy has been used to resolve the fluorescence spectra of two tryptophan (Trp) residues in alcohol dehydrogenase and lysozyme. In each protein, one Trp residue is buried in a hydrophobic domain of the protein matrix and the other Trp residue is located at a hydrophilic domain close to the protein-water interface. Fluorescence quenching by iodide ion, a hydrophilic quencher, was employed as a perturbation to induce the intensity change in the spectra. The Trp residue which is located at the hydrophilic domain is effectively quenched by the quencher, while the Trp residue located at the hydrophobic domain is protected from the quenching. Therefore, the fluorescence of these two Trp residues have a different sensitivity to the quenching, showing a different response to the concentration of the quencher. Fluorescence spectra of the two Trp residues in alcohol dehydrogenase, which are heavily overlapped in conventional one-dimensional spectra, have been successfully resolved by the 2D correlation technique. From the asynchronous correlation map, it was revealed that the quenching of Trp located at the hydrophobic part was brought about after that of Trp located at the hydrophilic part. In contrast, the fluorescence spectra of the two Trp residues could not be resolved after the alcohol dehydrogenase was denatured with guanidine hydrochloride. These results are consistent with the well-known structure of alcohol dehydrogenase. Furthermore, it was elucidated that the present 2D analysis is not interfered by Raman bands of the solvent, which sometimes bring difficulty into the conventional fluorescence analysis. Fluorescence spectra of the Trp residues in lysozyme could not be resolved by the 2D correlation technique. The differences between the two proteins are attributed to the fact that the Trp residue in the hydrophobic site of lysozyme is not sufficiently protected from the quenching.

Alcohol Dehydrogenase↗

PubMed2006

Two-dimensional correlation study of uniaxially drawn poly(ethylene terephthalate) films by using attenuated total reflection based dynamic compression modulation step-scan fourier transform infrared in combination with spectral simulation analysis by density functional theory.

Attenuated total reflection (ATR) based dynamic compression modulation two-dimensional (2D) correlation studies of uniaxially drawn poly(ethylene terephthalate) (PET) films have been performed in combination with spectral simulation analysis by density functional theory (DFT). The dynamic 2D infrared (IR) correlation spectra in the region of the CCO stretching mode vibrations show four distinct correlation peaks located around 1290, 1265, 1248, and 1234 cm(-1). These bands can be clearly assigned to the combination bands or coupling modes of the CH in-plane bend of the benzene ring or the CH(2) deformation of the ethylene glycol unit, as well as CCO stretching vibrations, which are gauche conformer's characteristic bands, by DFT analysis. The sequential analysis of 2D correlation data shows that, upon applying the dynamic compression, the response of the side chain regions (ester groups) occurs first, followed by that of the backbone regions (benzene rings). The ATR based dynamic compression modulation 2D correlation spectroscopy in combination with DFT analysis can be a powerful tool for various polymer characterizations.

Algorithms↗

PubMed2006

Perturbation-correlation moving-window two-dimensional correlation spectroscopy.

A new method of analysis, perturbation-correlation moving-window two-dimensional (PCMW2D) correlation spectroscopy, is proposed. For a spectral data set collected under an external perturbation, this method provides a pair of synchronous and asynchronous two-dimensional correlation spectra plotted on a plane between a spectral variable (e.g., wavenumber) axis and a perturbation variable (e.g., temperature) axis. One of the advantages of this new correlation analysis method is that complicated spectral variation along the perturbation direction can be monitored. It has been found that the synchronous and asynchronous PCMW2D correlation spectra are similar to the first perturbation derivative and negative second perturbation derivative spectra of the original data, respectively. To demonstrate the potential of PCMW2D correlation spectroscopy, it has been applied to temperature-dependent infrared (IR) spectra of a poly(vinyl alcohol) (PVA) film. The thermal behavior of the PVA film has been revealed by the PCMW2D correlation analysis. Two characteristic cross-peaks are observed in the synchronous PCMW2D correlation spectra generated from the temperature-dependent IR spectra between the crystalline phase C-O stretching band at 1141 cm-1 and the melting temperature of 209 degrees C and between the amorphous phase C-O stretching band at 1095 cm-1 and another specific temperature of 233 degrees C. This specific temperature of 233 degrees C corresponds to the thermal degradation temperature due to the elimination of the hydroxyl group attached to the main chain.

Journal Article↗

PubMed2006

Quadrature orthogonal signal corrected two-dimensional correlation spectroscopy.

Orthogonal signal correction (OSC) removes a substantial part of the spectral response that is orthogonal to the selected external variable. The combined use of OSC filtering and two-dimensional (2D) correlation analysis was proposed in the previous study (Wu, Noda, Meersman, and Ozaki, J. Mol. Struct., 2006, paper in press) to enable one to obtain high-quality 2D correlation spectra by eliminating any information unrelated to the external variables. However, the direct application of OSC to two-dimensional (2D) correlation analysis will result in the loss of the component that is significantly perpendicular to the external variable but also is the portion significant to the asynchronous 2D correlation analysis. Therefore, in order to avoid the problem of losing the valuable asynchronous 2D correlation information, the present study proposes a modified OSC filtering method, which is called quadrature OSC (QOSC) filtering. By replacing the external variable vector y used for OSC filtering with a two-column Y matrix consisting of y and its Hilbert-Noda transformation, the component of the spectral data asynchronously correlated to the external variable y is preserved. The performance of this technique on two simulated spectra data sets with a strong contaminant band and systematic noises has demonstrated that QOSC filtering 2D correlation analysis enables not only the elimination of the influence of signals that are unrelated to the external variable but also the preservation of the portions of information in the data matrix that are 90 degrees out of phase with y. It enables OSC 2D to deal with the problems of losing the portion of information that is perpendicular to the external variable y but is quite significant to the 2D correlation analysis.

Journal Article↗

PubMed2005

An NMR approach applicable to biomolecular structure characterization.

A generalized 2D correlation NMR (GEN2D-NMR) scheme capable of substantially reducing the experimental time for two-dimensional correlation NMR experiments is described. The experimental time used in GEN2D-NMR is shortened to less than one-tenth of that required in traditional double Fourier transform 2D-NMR (FT2D-NMR) for a 13C-13C spin diffusion experiment for Nephila edulis spider threads. Experimentally, one needs to acquire many fewer points in GEN2D-NMR than that in FT2D-NMR in the evolution time domain. By keeping other acquisition pulse sequence and parameters the same in both methods, the GEN2D-NMR technique can produce a 2D-NMR spectrum using fewer points along the evolution time domain equivalent to that produced by the FT2D-NMR technique using more points. GEN2D-NMR would provide a significant advantage for those molecules that are difficult to highly isotropically label, such as proteins, polypeptides, and polymers, or those which become unstable in a prolonged measurement time.

Animals↗

PubMed2005

Miscibility and hydrogen-bonding interactions in biodegradable polymer blends of poly(3-hydroxybutyrate) and a partially hydrolyzed poly(vinyl alcohol).

Miscibility and hydrogen-bonding interactions, as well as the morphological properties, of biodegradable polymer blends of poly(3-hydroxybutyrate) (PHB) and a 80% hydrolyzed poly(vinyl alcohol) (PVA80) were studied using Fourier transform infrared spectroscopy (FTIR) and differential scanning calorimetry (DSC). It was found that PHB is miscible with PVA80 in the amorphous phase over the whole composition range. PVA80 or PHB assumes the amorphous state when its content in the blend is lower than 30 or 20 wt %, respectively. Due to the heavy overlapping of C=O stretching bands from both PVA80 and PHB and the nonmeasurable peak shift in the OH stretching band region, hydrogen-bonding interactions between the OH group of PVA80 and the C=O group of PHB were not detectable at room temperature, but were observed at a higher temperature of 180 degrees C. This is because hydrogen-bonding interactions are promoted above the melting points of these two crystalline polymers, by increasing the mixing entropy and reducing the Deltachi effect. Blending PHB with PVA80 does not have a significant effect on the OH groups of PVA80 that are hydrogen bonded with each other. Instead, the C=O groups of PHB dispossess some of the OH groups that are hydrogen bonded to the C=O groups of PVA80, which gives rise to the miscibility between PVA80 and PHB in the amorphous phase.

Biodegradation, Environmental↗

PubMed2005

Study of traditional Chinese animal drugs using FT-IR and 2D-IR correlation spectroscopy.

Using FT-IR and 2D-IR correlation spectroscopy, the intensity changes and their sequence of amide I and II bands of four traditional Chinese animal drugs (Cornu Cervi Pantotrichum, Cornu Saigae Tataricae, Scorpio and Hirud) under thermal perturbation are studied, and component of Ca(3)(PO(4))(2) in the drug of Cornu Cervi Pantotrichum and sulfates components in the drug of scorpion are identified. The drug of Cornu Cervi Pantotrichum contains inorganic salt Ca(3)(PO(4))(2) and the drug of Scorpio contains sulfates. It is assigned that the bands of 604 and 561 cm(-1) belong to the component of Ca(3)(PO(4))(2), and the bands of 637 and 615 cm(-1) belong to sulfates. Organic components of these drugs respond to the thermal perturbation far stronger than that of the inorganic components. The intensities of amide I and II bands in the drugs, except for amide II band in drug Scorpio, change strongly. For the drugs of Cornu Cervi Pantotrichum, Cornu Saigae Tataricae and Hirudo, the intensity changes of amide II band occurs prior to that of amide I band. The C-N bond in the product operator(3)(4) conjugative system converts from double bond to single bond, but the C=O bond remains double bond during the heating process. On the other hand, amide II vibrations, which may involve much more of the hydrogen bonded local structures of amide groups in the system compared to the C=O dominated amide I vibration, may undergo thermally induced changes at a temperature much lower than the other mode. The traditional Chinese animal drugs can be identified rapidly and non-separately by using FT-IR and 2D-IR correlation spectroscopy.

Amides↗

PubMed2005

Liquid-crystalline phase development of a mesogen-jacketed polymer-application of two-dimensional infrared correlation analysis.

Two-dimensional correlation spectroscopy has been applied to study PMPCS (poly{2,5-bis[(4-methoxyphenyl)oxycarbonyl]styrene}), a representative example of mesogen-jacketed liquid crystalline polymers. With the precise analysis of a series of Fourier transform infrared (FTIR) spectra of PMPCS recorded at varied temperatures, a reasonable mechanism of the development of liquid crystalline (LC) phase is proposed. Before the phase transition, the conformational change of individual side chains occurs sooner than that of the backbone due to the larger motional freedom of the side chains. After the phase transition, however, the readjustment of still somewhat mobile backbone occurs before the ordered, rigid, and mutually interacting side chains. That is, phase transition leading to the LC phase formation brings in a new cooperative restriction of motions to the segments.

Journal Article↗

PubMed2005

Initial crystallization mechanism of isotactic polystyrene from different States.

The isothermal crystallization processes of isotactic polystyrene at 160 degrees C from different initial states (quenched glassy state and melt state), i.e., cold- and melt-crystallization processes, have been investigated by infrared (IR) and generalized two-dimensional (2D) IR correlation spectroscopy. It has been found that not only the crystallization kinetics and crystallinity but also the sequential changes of the amorphous and crystalline sensitive bands are quite different for the cold- and melt-crystallization processes. This leads to the conclusion that the physical origins for spinodal decomposition prior to polymer crystallization may be different for different crystallization processes.

Journal Article↗

PubMed2005

Research on processing medicinal herbs with multi-steps infrared macro-fingerprint method.

How to apply rapid and effective method to research medicinal herbs, the representative of complicated mixture system, is the current study focus for analysts. The functions of non-processed and processed medicinal herbs are greatly different, so controlling the processing procedure is highly important for guarantee of the curative effect. Almost, the conventional criteria of processing are based on personal sensory experience. There is no scientific and impersonal benchmark. In this article, we take Rehmannia for example, conducting a systematic study on the process of braising Rehmannia with yellow wine by using the multi-steps infrared (IR) macro-fingerprint method. The method combines three steps: conventional Fourier transform infrared spectroscopy (FT-IR), second derivative spectroscopy, and two-dimensional infrared (2D-IR) correlation spectroscopy. Based on the changes in different types of IR spectra during the process, we can infer the optimal end-point of processing Rehmannia and the main transformations during the process. The result provides a scientific explanation to the traditional sensory experience based recipe: the end-point product is "dark as night and sweet as malt sugar". In conclusion, the multi-steps IR macro-fingerprint method, which is rapid and reasonable, can play an important role in controlling the processing of medicinal herbs.

Carbohydrate Conformation↗

PubMed2005

Melting behavior of poly(3-hydroxybutyrate) investigated by two-dimensional infrared correlation spectroscopy.

The melting behavior of a bacterially synthesized biodegradable polymer, poly(3-hydroxybutyrate) (PHB), was investigated by using generalized two-dimensional infrared (2D IR) correlation spectroscopy. Temperature-dependent spectral variations in the regions of the C-H stretching (3100-2850 cm(-1)), C=O stretching (1800-1680 cm(-1)), and C-O-C stretching (1320-1120 cm(-1)) bands were monitored during the melting process. The asynchronous 2D correlation spectrum for the C=O stretching band region resolved two crystalline bands at 1731 and 1723 cm(-1). The intense band at 1723 cm(-1) may be due to the highly ordered crystalline part of PHB, and the weak band at 1731 cm(-1) possibly arises from the crystalline part with a less ordered structure. These crystalline bands at 1731 and 1723 cm(-1) share asynchronous cross peaks with a band at around 1740 cm(-1) assignable to the C=O band due to the amorphous component. This observation indicates that the decreases in the crystalline components do not proceed simultaneously with the increase in the amorphous component. In the 3020-2915 cm(-1) region where bands due to the asymmetric CH3 stretching and antisymmetric CH2 stretching modes are expected to appear, eight bands are identified at 3007, 2995, 2985, 2975, 2967, 2938, 2934, and 2929 cm(-1). The bands at 2985 and 2938 cm(-1) are ascribed to the amorphous part while the rest come from crystal field splitting, which is a characteristic of polymers with a helical structure.

Carbon↗

PubMed2004

2DCOR-GC: an application of the generalized two-dimensional correlation analysis as a route to optimization of continuous flow supercritical fluid reactions.

A new approach for optimization and monitoring of continuous reactions has been developed using 2D correlation methods for the analysis of GC data (2DCOR-GC). 2DCOR-GC maps are obtained following perturbation of the system that allow the effect of changing reaction parameters such as time, temperature, pressure, or concentration to be both monitored and sequenced with regard to changes in the raw GC data. In this paper, we describe the application of the 2DCOR-GC technique to monitoring the reverse water-gas shift reaction in scCO(2). 2DCOR-GC is combined with FT-IR data to validate the methodology. We also report the application of 2DCOR-GC to probe the mechanism of the alkylation of m-cresol with isopropyl alcohol in scCO(2) using Nafion SAC-13 as the catalyst. These results identify coeluting peaks that could easily be missed without exhaustive method development.

Journal Article↗

PubMed2004

Molecular factor analysis applied to collections of NMR spectra.

It is often useful to identify and quantify mixture components by analyzing collections of NMR spectra. Such collections arise in metabonomics and many other applications. Many mixtures studied by NMR can contain hundreds of compounds, and it is challenging to analyze the resulting complex spectra. We have approached the problem of separating signals from different molecules in complex mixtures by using self-modeling curve resolution as implemented by the alternating least-squares algorithm. Alternating least squares uses nonnegativity criteria to generate spectra and concentrations from a collection of mixture spectra. Compared to previous applications of alternating least squares, NMR spectra of complex mixtures possess unique features, such as large numbers of components and sample-to-sample variability in peak positions. To deal with these features, we developed a set of data preprocessing methods, and we made modifications to the alternating least-squares algorithm. We use the term "molecular factor analysis" to refer to the preprocessing and modified alternating least-squares methods. Molecular factor analysis was tested using an artificial data set and spectra from a metabonomics study. The results show that the tools can extract valuable information on sample composition from sets of NMR spectra.

Journal Article↗

PubMed2004

Polymer alloys of Nodax copolymers and poly(lactic acid).

Properties of polymer alloys comprising poly(lactic acid) and Nodax copolymers are investigated. Nodax is a family of bacterially produced polyhydroxyalkanoate (PHA) copolymers comprising 3-hydroxybutyrate (3HB) and other 3-hydroxyalkanoate (3HA) units with side groups greater than or equal to three carbon units. The incorporation of 3HA units with medium-chain-length (mcl) side groups effectively lowers the crystallinity and the melt temperature, Tm, of this class of PHA copolymers, in a manner similar to that of alpha olefins controlling the properties of linear low density polyethylene. The lower Tm makes the material easier to process, as the thermal decomposition temperature of PHAs is then relatively low. The reduced crystallinity provides the ductility and toughness required for many plastics applications. When a small amount of ductile PHA is blended with poly(lactic acid) (PLA), a new type of polymer alloy with much improved properties is created. The toughness of PLA is substantially increased without a reduction in the optical clarity of the blend. The synergy between the two materials, both produced from renewable resources, is attributed to the retardation of crystallization of PHA copolymers finely dispersed in a PLA matrix as discrete domains.

Biopolymers↗

PubMed2004

Two-dimensional fluorescence correlation spectroscopy II: spectral analysis of derivatives of anthracene and pyrene in micellar solutions.

Generalized two-dimensional (2D) correlation spectroscopy has been applied to the analysis of fluorescence spectra in two micellar systems: (1) a mixture of pyrene and 1,3,6,8-pyrenetetrasulfonic acid in the cationic micellar solutions of cetyltrimethylammonium chloride (CTAC) and (2) a mixture of pyrene and 9-anthracencepropionic acid in anionic micellar solutions of sodium dodecyl sulfate (SDS). Fluorescence quenching is employed as a perturbation mode for causing intensity changes in fluorescence bands (quenching perturbation). Iodide ion (I-) is used as a quencher in the former system, and cetyl pridinium chloride (CPC) is used in the latter. Vibronic bands in the complicated fluorescence spectra of the mixture of the analytes were successfully resolved. It is shown that asynchronous maps are especially useful for spectral resolution enhancement when the quenching perturbation is employed in 2D fluorescence correlation spectroscopy. Furthermore, the information about the order of response of the bands to quenching is obtained by comparing the signs of synchronous and asynchronous cross-peaks.

Anthracenes↗