Pressure cell assisted solution characterization of polysaccharides. 2. Locust bean gum and tara gum

Following the work carried out on guar gum in our first paper of a series, the "pressure cell" solubilization method was applied to two other less highly substituted galactomannans: locust bean gum (LBG) and tara gum. True molecular solution of the polymers was achieved using appropriate temperature, time, and pressure regimes. The technique of capillary viscometry was used to determine the intrinsic viscosity [eta] of the "pressure cell" treated and untreated samples. Molecular weight (M(w)) and radius of gyration (R(g)) were determined by light scattering. The data obtained for LBG and tara gum were compared statistically with reliable data found for guar gum in the literature. The variation in [eta] with M(w) followed the Mark-Houwink-Sakurada relationship, giving the exponent alpha = 0.74 +/- 0.01 for galactomannans consistent with random coil behavior. The characteristic ratio, C(infinity), and the chain persistence length, L(p), were both calculated for LBG and tara gum using the Burchard-Stockmayer-Fixman (BSF) method which is appropriate for flexible to semiflexible chains. A general value of 9 < C(infinity) < 16 and 3 < L(p) < 5 nm can now be estimated with statistical confidence for all galactomannans. According to our statistical analysis, the chain persistence length was found to be insensitive to the degree of galactose substitution.     

Pressure cell assisted solution characterization of galactomannans. 3. Application of analytical ultracentrifugation techniques

The pressure heating cell approach previously applied to galactomannans in two earlier studies is now used to prepare samples for characterization using the analytical ultracentrifuge. Sedimentation velocity data were obtained for both guar gum and locust bean gum samples. These were compared to our earlier light scattering and intrinsic viscosity measurements on samples prepared using identical temperature and pressure profiles. A number of methods were then employed to obtain chain persistence lengths, including the Hearst-Stockmayer and Bohdanecky wormlike chain approaches. These results were compared to earlier results obtained using methods appropriate for excluded volume coil and rodlike chains, respectively.     

Molecular dynamic studies of the compatibility of some cellulose derivatives with selected ionic liquids

Molecular dynamics techniques were used to study oligomers that mimic cellulose and various derivatives in the amorphous phase, including cellulose (C), methyl cellulose (MC), hydroxypropyl cellulose (HPC), and carboxymethyl cellulose (CMC). Densities and solubility parameters were determined for a series of oligomers with increasing chain length. Both properties were found to change linearly with the degree of polymerization (from monomers to dodecamers). Extrapolated predictions of the densities (g/cm³) for long chain polymers are: C, 1.42; MC, 1.33; HPC, 1.30; and CMC, 1.42. Computed values for the solubility parameter (MPa^1/2) are: C, 25.39; MC, 21.43; HPC, 21.70; and CMC, 24.35. We also evaluated the sensitivity of the solubility parameter to changes in the calculated density and found the dependence to be significant. The calculated solubility parameters were evaluated against experimental and other theoretical values as well as against selected ionic liquids comprised of cations in the imidazolium family and the chloride and trifluoroacetate anions.     

Comparative studies of the polysaccharides from species of the genus Ramalina-lichenized fungi-of three distinct habitats

Several structurally different glucans (alpha- and beta-) and galactomannans were characterized as components of four species of the genus Ramalina, namely R. dendriscoides, R. fraxinea, R. gracilis and R. peruviana. Freeze-thawing treatment of hot aqueous extracts furnished as precipitates (PW) linear alpha-D-glucans of the nigeran type, with regularly distributed (1-->3)- and (1-->4)-linkages in a 1:1 ratio. The supernatants (SW) contained alpha-D-glucans with (1-->3)- and (1-->4)-linkages in a molar ratio of 3:1. The lichen residues were then extracted with 2% aq. KOH, and the resulting extracts submitted to the freeze-thawing treatment, giving rise to precipitates (PK2) of a mixture of alpha-glucan (nigeran) and beta-glucan, which were suspended in aqueous 0.5% NaOH at 50 degrees C, dissolving preferentially the beta-glucan. These were linear with (1-->3)-linkages (laminaran). The mother liquor of the KOH extractions (2% and 10% aq. KOH) was treated with Fehling's solution to give precipitates (galactomannans). The galactomannans are related, having (1-->6)-linked alpha-D-mannopyranosyl main chains, substituted at O-4 and in a small proportion at O-2,4 by beta-D-galactopyranosyl units. Despite the different habitats of these lichenized fungi, all species studied in this investigation have a similar pool of polysaccharides.     

Persistence in food webs—I Lotka-Volterra food chains

Persistence-extinction in simple food chains modelled by Lotka-Volterra dynamics is governed by a single parameter which depends upon the interspecific interaction coefficients, the intraspecific interaction coefficients, and the length of the food chain. In persistent systems with nonzero carrying capacity, two new features predominate. Trophic level influence factors relate persistence on different trophic levels and determine, in conjunction with the persistence parameter, the magnitude of persistence. Equilibrium component ordering, which results in persistent systems, mandates once again that systems need to be studied on the complete ecosystem level; static field measurements reflect species location in the food chain, the total length of the food chain and assume characteristics according to these factors.     

Extraction,purification and characterization of galactomannans from non-traditional sources

This work presents a methodology for the extraction of galactomannans from seeds of four different species of Leguminosae (Adenanthera pavonina, Caesalpinia pulcherrima, Gleditsia triacanthos and Sophora japonica) to be used e.g. in the food and biomedical industries. The galactomannans were obtained by aqueous extraction followed by a precipitation with ethanol. This methodology is simpler and easier to perform than other existing extraction and purification methodologies, and because it avoids the use of organic solvents (other than ethanol), it is able to generate food grade substances and is environmentally friendlier. The yield of extraction in different stages of the process, monosaccharide composition, as well as physical and chemical parameters of the isolated galactomannans were determined and compared with previously published results. The mannose/galactose ratio of the extracted galactomannans ranged from 1.35 (A. pavonina) to 5.75 (S. japonica). The intrinsic viscosity ranged from 11.34 dL/g (C. pulcherrima) to 8.74 dL/g (S. japonica), while the viscosity average molecular mass ranged between 1.81 × 10⁶ Da and 1.17 × 10⁶ Da (A. pavonina > C. pulcherrima > G. triacanthos > S. japonica). The results confirm the suitability of the extraction and purification procedure to obtain galactomannans from non-traditional sources.     

Arabinosyl and glucosyl residues as structural features of acetylated galactomannans from green and roasted coffee infusions

A good yield mild fractionation procedure was developed for the purification of mannans from green and roasted coffee infusions that included anion-exchange chromatography and phenylboronic acid immobilized Sepharose chromatography of the dialyzed and ethanol precipitated material. Enzymatic hydrolysis with endo-beta-mannanase and ESIMS allowed finding that the mannans from roasted coffee infusions, as well as those from green coffee, are acetylated (8 mol% and 11 mol%, respectively). Fragmentation pattern obtained by ESIMS/MS analysis of the acetylated oligosaccharide ions indicates that the acetylation also occurs at O-2 of the mannose residues. Doubly acetylated and contiguously acetylated hexose residues were also found. Arabinose residues, as side chains, were also found as structural features of hot water soluble green (2%) and roasted (<0.9 mol) coffee galactomannans. Methylation analysis, hydrolysis with specific glycosidases and GC-EIMS analysis of the reduced and methylated oligosaccharides allowed to conclude that beta-(1-->4)-linked glucose residues are also structural features of green and roasted coffee galactomannans (6 and 1 mol%, respectively). In hot water soluble green coffee mannans, glucose residues are a constituent of the mannan backbone, and in the roasted coffee they were detected only at the reducing end of the mannan backbone.     

β-Glucan hydrolases from Aspergillus niger. Isolation of a β-(1→4)-glucan hydrolase and some properties of the β-(1→3)-glucan-hydrolase components

1. The components of an enzyme preparation from Aspergillus niger, which hydrolysed substrates containing beta-(1-->3)- and beta-(1-->4)-glucosidic linkages, were separated by calcium phosphate and Dowex 1 column chromatography. 2. The hydrolytic activity of each fraction from both types of column towards laminaribiose, laminarin, carboxymethylpachyman, pachydextrins, salicin, cellobiose, cellopentaose and swollen cellulose was tested. 3. The activity towards the beta-(1-->3)-glucosidic substrates was found in three well-separated groups of fractions. The differences in action pattern of these groups is discussed. 4. Preparative-scale chromatography that enabled the separation of a beta-(1-->4)-glucan-glucanohydrolase component substantially free of activity towards beta-(1-->3)-glucosidic substrates is described. Residual beta-(1-->3)-glucan-hydrolase activity was removed by adsorption on to insoluble laminarin at pH3.5.     

A (1→4)-β-mannan-specific monoclonal antibody and its use in the immunocytochemical location of galactomannans

Galactomannan was coupled to a protein carrier for the preparation of monoclonal antibodies. The monoclonal antibodies generated bound to galactomannans from different sources as well as to glucomannan and galactoglucomannan. One monoclonal antibody, BGM C6, was characterised and found to be specific for (1-->4)-beta-linked mannopyranosyl residues; it had a binding affinity estimated at 1x10(-6) M for the (1-->4)-beta-linked mannohexaose. BGM C6 was used in immunogold labelling studies to locate galactomannans in the endosperm walls of normal coconuts (Cocos nucifera L.) and those of the mutant makapuno at two different developmental stages. The pattern and intensity of antibody labelling varied for each type of coconut at the mature and immature stages, indicating differences in the galactomannan composition of the endosperm walls.     

Characterization of polysaccharide-protein complexes by size-exclusion chromatography combined with three detectors

Two water-soluble samples (TM1 and TM2) were extracted from Pleurotus tuber-regium using 0.9% aqueous NaCl at 20 and 80 degrees C to obtain relatively low molecular mass fractions. The chemical structure of TM1 was analyzed to be a branched heteropolysaccharide-protein complex, and the sugar moiety was mainly beta-(1-->6)-, beta-(1-->4)-, and beta-(1-->3)-linked glucan containing galactose and mannose. TM2 was a branched polysaccharide-protein complex, and the sugar moiety was mainly beta-(1-->6)-, beta-(1-->4)-, and beta-(1-->3)-linked glucan. Preparative size-exclusion chromatography (SEC) and analytical SEC combined with three detectors were used to detect the TM1 and TM2 samples, confirming that the proteins were bonded to the polysaccharides. Furthermore, analytical SEC combined with online laser light scattering, differential refractive index detector, and UV to determine the components, weight-average molecular mass (M(w)) and chain conformation of the samples. The relatively low exponent values (nu) of S(2)(z)(1/2)=k(nu)M(w)(nu) for the samples in 0.15M aqueous NaCl at 25 degrees C suggested that TM1 and TM2 existed in compact sphere conformation in the aqueous solution. This work provided valuable information on the structure and chain conformation characterization of the polysaccharide-protein complex having relatively low M(w).     

Hydrodynamic properties of aqueous solutions of galactomannans

Galactomannans were extracted from the seeds of seven different legumes to obtain samples which differed in average molecular weight, in polydispersity, and in average mannose-to-galactose ratio in the molecule. Measurements were made of the viscosities as a function of shear rate and of the sedimentation and diffusion coefficients of the aqueous solutions of all the galactomannans. Average molecular weights were calculated from the sedimentation and diffusion coefficients using the Svedberg equation. The Mark-Houwink relationship between the intrinsic viscosity and the average molecular weights was found to hold for the series of galactomannans despite differences in the mannose-to-galactose ratios of the solutes. Estimates were made of the galactomannan polydispersities from both the sedimentation-coeffient distributions and also from the diffusion-coefficient ratios, D_m/D_A. The two methods gave results in qualitative agreement. The hydrodynamic properties of the more homogeneous galactomannans were compared with the predictions of the Flory-Fox hydro-dynamic theory, with results very similar to those which were obtained for the water-soluble synthetic cellulose derivatives, hydroxyethylcellulose and ethydroxycellulose.     

Semiflexibility of collagens in solution

The persistence length of lugworm cuticle collagen in 0.1M acetic acid was evaluated as 1600 ～ 1800 Å by Yamakawa-Fujii's model for a wormlike chain from the sedimentation constant and the intrinsic viscosity. The persistence length was further examined for a series of sample “collagen sonicates” produced by varying the duration of sonic irradiation. To estimate the salt effect on the persistence length, measurements were made over a range of NaCl concentrations from 0 to 0.1M. The results showed that the cuticle collagen and collagen sonicates had identical values of persistence length and that the neutral salt effect for the cuticle collagen was far smaller than that for DNA.     

The use of CO2 flux time series for parameter and carbon stock estimation in carbon cycle research

Data assimilation (DA) is increasingly being employed to estimate the parameters and states of terrestrial ecosystem models from eddy covariance measurements of net carbon (C) fluxes. The length of the observation time series used varies for each study. The impact of these differences has not been quantified explicitly. Therefore, in this study, we investigate the importance of the time series length relative to observation noise and data gaps. Different length synthetic time series are used to determine the parameter and C stocks of a simple ecosystem C model. Two commonly used DA schemes are tested: the sequential Ensemble Kalman Filter (EnKF) and a batch Metropolis Markov chain Monte Carlo algorithm. Longer time series improve both the parameter and C pool estimates of the EnKF, while adversely affecting those of the Metropolis algorithm. For both DA approaches, the length of the time series has more influence on the parameter and pool estimates than the level of random noise or amount of data. In this study, the EnKF provides more robust parameter and C pool estimates than the Metropolis algorithm. Optimized parameters and states are often used as the basis for forecasting future responses. Despite having better parameter and C pool estimates, EnKF forecasts estimates have much larger uncertainties than the Metropolis algorithm forecast estimates. Finally, we suggest that the structure of simple box models, as used in this study, introduces a large degree of equifinality into DA. Neither DA scheme correctly accounts for the equifinality, but our results suggest that it is particularly problematic for the batch Metropolis algorithm.     

Cholinergic ligand-induced affinity changes in Torpedo californica acetylcholine receptor

Measurement of small-angle X-ray scattering from a sample of hyaluronic acid of high molecular weight in 0.05 m HNO₃ gave persistence length plots which agreed in form with theory and led to apparent persistence lengths of from 4 to 6 nm. Similar measurements in 0.2 m NaCl gave plots which deviated somewhat in form from theoretical expectation, but which could be interpreted to give a persistence length of 4 nm in this solvent. Data for intrinsic viscosity [η] as a function of molecular weight were in reasonable agreement with the Yamakawa-Fujii treatment of [η] for the worm-like chain model for a persistence length of about 4 nm in both 0.5 m NaCl and 0.1 m HCl, perhaps slightly higher in the latter. The values of persistence length estimated from [η] depend somewhat on the choice of chain parameters and the method of correction of experimental data to unperturbed solvent conditions. Experimental data for the sedimentation coefficient, while less definitive, were consistent within experimental uncertainty with the same parameters of the worm-like chain model. These calculated results are in substantial agreement with the values derived from small-angle X-ray scattering. A fraction of hyaluronic acid of low molecular weight in 0.05 m HNO₃ gave an estimated molecular weight of 2.7 × 10⁴ and a radius of gyration of 8 nm, in reasonable agreement with expected values based on the worm-like chain model for a persistence length of about 4 nm.     

Seed galactomannans: an overview

Seed galactomannans are vegetable, heterogeneous polysaccharides widely distributed in nature. Generally, they possess (1-->4)-linked D-mannopyranose (Man) main chains to which are attached (1-->6)-linked D-galactopyranosyl (Gal) units. The Man/Gal ratios differ from gum to gum, resulting in a change in structure, which, in turn, determines the various industrial applications of seed galactomannans. These materials are important in paper, textile, petroleum-drilling, pharmaceutics, food, cosmaceutics, and explosives industries. In this review, the biodiversified applicability of galactomannan gums is discussed, particularly with respect to structural aspects, properties, human consumption, and technical applications. Especially important is that the solution properties (rheological behaviour, viscosity, emulsifying tendency, etc.) of natural and chemically modified galactomannans can be tuned by interaction with other (carbohydrate-based) monomers or polymers.     

Quantitative understanding of the energy transfer between fluorescent proteins connected via flexible peptide linkers

The fusion of different protein domains via peptide linkers is a powerful, modular approach to obtain proteins with new functions. A detailed understanding of the conformational behavior of peptide linkers is important for applications such as fluorescence resonance energy transfer (FRET)-based sensor proteins and multidomain proteins involved in multivalent interactions. To investigate the conformational behavior of flexible glycine- and serine-containing peptide linkers, we constructed a series of fusion proteins of enhanced cyan and yellow fluorescent proteins (ECFP-linker-EYFP) in which the linker length was systematically varied by incorporating between 1 and 9 GGSGGS repeats. As expected, both steady-state and time-resolved fluorescence measurements showed a decrease in energy transfer with increasing linker length. The amount of energy transfer observed in these fusion proteins can be quantitatively understood by simple models that describe the flexible linker as a worm-like chain with a persistence length of 4.5 A or a Gaussian chain with a characteristic ratio of 2.3. The implications of our results for understanding the properties of FRET-based sensors and other fusion proteins with Gly/Ser linkers are discussed.     

Computer simulation of hydrodynamic properties of semiflexible macromolecules: randomly broken chains, wormlike chains, and analysis of properties of DNA

The translational and rotational diffusion coefficients and the intrinsic viscosity of semiflexible, randomly broken, and wormlike chains have been obtained by Monte Carlo simulation in the context of the rigid-body treatment. Both approximate and rigorous rigid-body hydrodynamics are used, so that the error introduced by the approximate methods can be evaluated. A randomly broken chain and a wormlike chain having the same contour length and persistence length have the same radius of gyration but different values for any of the hydrodynamic properties. The two types of chains are compared in this regard. Considering that the cross section of the chain is represented by a cylinder better than by a string of spheres, we devise a cylindrical correction to be applied to the results simulated for chains of beads. Application is made to the analysis of experimental data for the translational and rotational coefficients of DNA fragments with up to 10(3) base pairs, obtaining the persistence length for each model. The values for the wormlike chain agree well with model-independent values obtained from radii of gyration and with other literature data at varying ionic strength. The randomly broken chain is equally able to reproduce the experimental length dependence of the properties, but the resulting persistence length may be too high.     

Properties of a β-(1→4)-glucan hydrolase from Aspergillus niger

1. A beta-(1-->4)-glucan hydrolase prepared from Aspergillus niger, as described by Clarke & Stone (1965a), showed a pH optimum in the range 4.5-6 and K(m) 0.25% when acting on a cellulose dextrin sulphate substrate. 2. The hydrolase rapidly decreased the specific viscosity of carboxymethylcellulose with a small increase in the production of reducing sugars. The identity of the products of hydrolysis of cellotetraose, cellopentaose and their reduced analogues indicate a preferential cleavage of non-terminal glucosidic linkages. The enzyme may be described as beta-(1-->4)-glucan 4-glucanohydrolase (EC 3.2.1.4). 3. In addition to carboxymethylcellulose, cellulose dextrins, cellopentaose and cellotetraose the enzyme fraction hydrolysed lichenin, oat and barley glucans, ivory-nut mannan and a glucomannan from Konjak flour. No hydrolysis of wheat-straw beta-(1-->4)-xylan, Lupinus albus beta-(1-->4)-galactan, pneumococcal type III polysaccharide, chitin, hyaluronic acid, laminarin, pachydextrins, carboxymethylpachyman or beta-(1-->3)-oligoglucosides was detected. 4. The hydrolase showed no transglycosylase activity from cellodextrin or cellopentaose substrates to glucose or methanol acceptors. 5. The hydrolysis of cellodextrins was inhibited completely by 1.0mm-Hg(2+), 0.7mm-phenylmercuric nitrate and 1.0mm-iodine.     

Influence of anomeric configuration on mechanochemical degradation of polysaccharides: cellulose versus amylose

Cellulose and amylose are (1-->4)-linked polysaccharides that are used extensively in the textiles, paper, and food and feed industries and are finding increasing use as alternative fuels and so forth. At the molecular level, cellulose and amylose differ only in their anomeric configuration: beta in cellulose, alpha in amylose. During processing and end use, these polymers experience a variety of mechanochemical stresses, many through contact with transient elongational flow fields. Here, we subject solutions of both polysaccharides to extended periods of ultrasonic irradiation, as the cavitational bubble collapse characteristic of ultrasound experiments creates flow fields strictly analogous to those encountered in other transient elongational flow scenarios. With the use of multidetector size-exclusion chromatography, the effects of anomeric configuration on both the limiting molar mass, beyond which polymers do not degrade in transient elongation flow ( M lim), and the rate of degradation have been isolated in these (1-->4)-linked polysaccharides. This effect was found to be pronounced; for example, M lim (cellulose) = 5( M lim (amylose)). Also, while extensive change was observed in molar mass averages, distribution, polydispersity, and size of the analytes during degradation, their structure was found to remain invariant. A modified "path theory" of transient elongational flow degradation was proposed, with the persistence length identified as a parameter which embodies the minimum continuous path length and flexibility requirements of the theory.     

Determination of molecular size and shape of hyperbranched polysaccharide in solution

The chemical structure of a water-soluble polysaccharide, coded as TM3b, extracted from sclerotia of Pleurotus tuber-rigium was analyzed to be a hyperbranched beta-D-glucan with beta-(1-->6), beta-(1-->4), and beta-(1-->3)-linked residues, with degree of branching (DB) of 57.6%. The results from size-exclusion chromatography combined with laser light scattering (SEC-LLS) revealed that the hyperbranched polysaccharide easily aggregated in 0.15 M aqueous NaCl, whereas it dispersed as individual chains in DMSO. The weight-average molecular weight (M(w)), radius of gyration, intrinsic viscosity, and chain density of TM3b in DMSO and in 0.15 M aqueous NaCl were measured with SEC-LLS, LLS, and viscometry. The results indicated that single chains and aggregates with aggregation number of 12 coexisted in the aqueous solution, whereas individual molecules of TM3b occurred in DMSO. In view of the molecular parameters, the aggregates in aqueous solution exhibited more compact chain structure than the individual molecules in DMSO. Furthermore, transmission electron microscopy and atomic force microscopy showed that all of the aggregates and individual molecules exhibited spherical particles in the solutions. This work provided the valuable information of chain conformation and molecular morphology of the hyperbranched polysaccharide in different solvents.