Complexity of cellulases from Trichoderma reesei with acidic isoelectric points: A two-dimensional gel electrophoretic study using immunoblotting

Antibody specific to Trichoderma reesei cellulase (65 kDa, isoelectric point, pI, 7.7) shows immuno-cross reactivity with acidic hydrolase complexes containing other cellulases, (pI_app. 3.4–4.5) when tested under conditions of 2D-electrophoresis (1^st dim. PAGIF, 2^nd dim. SDS-PAGE) together with Western blotting. Degradation pattern of ¹⁴C(U)-labeled G₁–G₅ of the 65 kDa cellulase was followed by a 2-directional oligodextrin mapping procedure.Using preparative IEF, homologous antigen portions were detected in cellulases present within acidic hydrolase complexes showing mainly identical molar weight (M_r 65 kDa and 57 kDa) but a range of charge (pI 3.4–4.5). The pattern of acidic cellulases as found after analytical 2D-electrophoresis was reconstituted by preparative IEF (pI_app. 2.7–5.1) followed by SDS-PAGE separation. Homogeneous fractions (upon IEF) gave up to 8 different polypeptides per complex upon SDS-PAGE (M_r 70−20 kDa). Charge heterogeneity of individual acidic hydrolase complexes upon IEF is discussed as one reason for ‘multiplicity’ of acidic cellulases.     

Morphology and Release Profiles of Biodegradable Microparticles Containing Rhamnolipid Biosurfactant

In an effort to expand the technology of bioremediation of hydrophobic organic compounds, microencapsulation technology was investigated as a method of biosurfactant delivery to contaminated sites. Microparticles are composed of active or inactive materials encapsulated in a polymer coating designed for controlled release of the encapsulated substance. Surface morphology and release profiles of microparticles containing rhamnolipid biosurfactant were investigated for development of a controlled release bioremediation scheme. The evaluation was conducted under laboratory conditions with 45 mg/ml concentration of biosurfactant and a representative environmental medium; using artificial salt water (35 ppt) and deionized water medium as a control. The microparticles were prepared by the water–in–oil–in–water double emulsion solvent evaporation method. The surface morphology was examined after initial preparation, at 0, 15 and 31 days incubation, using light microscopy. Light microscopic images revealed smooth, spherical microparticles that degraded over time in the media. Results indicated that microparticle degradation occurred mostly in the salt water environment, suggesting that the presence of salts (Na⁺ and Cl^? ions) in the water enhanced microparticle degradation. The deionized water environment achieved polymeric degradation that was similar to what was generally reported in the literature. Biosurfactant release was evaluated for polymer molecular weights (M_w) 40, 80, and 200 kDa, in salt water and deionized water media, each of which showed a high initial burst release of biosurfactant, followed by pulse releases that occurred over the 31 day period. The highest level of biosurfactant release of all the molecular weights tested occurred in the M_w 80 kDa. The release from M_w 40 kDa and M_w 200 kDa was not significantly different (P > 0.05). The results showed that this technology may be useful for enhancing bioremediation of residual hydrophobic organic contaminants (HOC) in estuarine and marine environments.     

Biochemical characterization of aspartate aminotransferase allozymes from common wheat

Six allozymes of aspartate aminotransferase (AAT, EC 2.6.1.1): three plastidial (AAT-2 zone) and three cytosolic (AAT-3 zone) were isolated from common wheat (Triticum aestivum) seedlings and highly purified by a five-step purification procedure. The identity of the studied proteins was confirmed by mass spectrometry. The molecular weight of AAT allozymes determined by gel filtration was 72.4±3.6 kDa. The molecular weights of plastidial and cytosolic allozymes estimated by SDS-PAGE were 45.3 and 43.7 kDa, respectively. The apparent Michaelis constant (K _m) values determined for four substrates appeared to be very similar for each allozyme. The values of the turnover number (k _cat) and the k _cat/K _m ratio calculated for allozymes with L-aspartate as a leading substrate were in the range of 88.5–103.8 s^?1/10,412–10,795 s^?1 M^?1 for AAT-2 zone and 4.6–7.0 s^?1/527–700 s^?1 M^?1 for AAT-3 zone. These results clearly demonstrated much higher catalytic efficiency of AAT-2 allozymes. Therefore, partial sequences of cDNA encoding AATs from different zones were obtained using the RT-PCR technique. Comparison of the AAT-2 and AAT-3 amino acid sequences from active site regions revealed five non-conservative substitutions, which impact on the observed differences in the isozymes catalytic efficiency is discussed.     

On the possibility of true phase transition in heterogeneous DNA during thermal denaturation under conditions close to equal stability of A+T and G+C pairs

The DNA helix–coil transition has been studied in the presence of high concentrations of manganese ions (about 10^?3M), which corresponds to the conditions close to equal stability of the A+T and G+C pairs, at the ionic strengths of 10^?1, 10^?2, and 1.6 × 10^?3M Na⁺. With the Mn²⁺ ion effect, the transition range is significantly reduced to not more than 0.2°C at 1.2 × 10^?3M Mn²⁺ and 1.6 × 10^?3M Na⁺. The melting curves display a sharp kink at the end of the helix–coil transition, which is interpreted as an indication of the second-order phase transition. It is shown that the melting curves obtained can be approximated by a simple analytical expression 1 – θ = exp[–a(t_c - t)], where θ is the DNA helix fraction, t_c is the phase transition temperature, and a is an empirical parameter characterizing the breadth of the melting range and responsible for the magnitude of a jump of the helicity derivative with respect to the temperature at the phase transition point.     

Purification and biochemical characterization of a novel thermostable serine alkaline protease from Aeribacillus pallidus C10: a potential additive for detergents

An extracellular thermostable alkaline serine protease enzyme from Aeribacillus pallidus C10 (GenBank No: KC333049), was purified 4.85 and 17. 32-fold with a yield of 26.9 and 19.56%, respectively, through DE52 anion exchange and Probond affinity chromatography. The molecular mass of the enzyme was determined through sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), with approximately 38.35?kDa. The enzyme exhibited optimum activity at pH 9 and at temperature 60?°C. It was determined that the enzyme had remained stable at the range of pH 7.0–10.0, and that it had preserved more than 80% of its activity at a broad temperature range (20–80?°C). The enzyme activity was found to retain more than 70% and 55% in the presence of organic solvents and commercial detergents, respectively. In addition, it was observed that the enzyme activity had increased in the presence of 5% SDS. K_M and V_max values were calculated as 0.197?mg/mL and 7.29?μmol.mL^?1.min^?1, respectively.     

On the molecular mass of the extracellular hemoglobin of Glossoscolex paulistus: Analytical ultracentrifugation reexamination

The giant extracellular hemoglobin of Glossoscolex paulistus (HbGp) is constituted by subunits containing heme groups with molecular masses (M) in the range of 15 to 19 kDa, monomers of 16 kDa (d), and trimers of 51 to 52 kDa (abc) linked by nonheme structures named linkers of 24 to 32 kDa (L). HbGp is homologous to Lumbricus terrestris hemoglobin (HbLt). Several reports propose M of HbLt in the range of 3.6 to 4.4 MDa. Based on subunits M determined by mass spectrometry and assuming HbGp stoichiometry of 12(abcd)₃L₃ (Vinogradov model) plus 144 heme groups, a value of M for HbGp oligomer of 3560 kDa can be predicted. This value is nearly 500 kDa higher than the unique HbGp M value reported in the literature. In the current work, sedimentation velocity analytical ultracentrifugation (AUC) experiments were performed to obtain M for HbGp in oxy and cyano-met forms. s⁰_20,w values of 58.1 ± 0.2 S and 59.6 ± 0.2 S, respectively, for the two oxidation forms were obtained. The ratio between sedimentation and diffusion coefficients supplied values for M of approximately 3600 ± 100 and 3700 ± 100 kDa for oxy and cyano-met HbGp forms, respectively. An independent determination of the partial specific volume, V_bar, for HbGp was performed based on density measurements, providing a value of 0.764 ± 0.008, in excellent agreement with the estimates from SEDFIT software. Our results show total consistency between M obtained by AUC and recent partial characterization by mass spectrometry. Therefore, HbGp possesses M very close to that of HbLt, suggesting an oligomeric assembly in agreement with the Vinogradov model.     

A Highly N-Glycosylated Chitin Deacetylase Derived from a Novel Strain of Mortierella sp. DY-52

Chitin deacetylase (CDA), the enzyme that catalyzes the hydrolysis of acetamido groups of GlcNAc in chitin, was purified from culture filtrate of the fungus Mortierella sp. DY-52 and characterized. The extracellular enzyme is likely to be a highly N-glycosylated protein with a pI of 4.2–4.8. Its apparent molecular weight was determined to be about 52 kDa by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS–PAGE) and 67 kDa by size-exclusion chromatography. The enzyme had an optimum pH of 6.0 and an optimum temperature of 60 °C. Enzyme activity was slightly inhibited by 1–10 mM Co²⁺ and strongly inhibited by 10 mM Cu²⁺. It required at least two GlcNAc residues for catalysis. When (GlcNAc)₆ was used as substrate, K _m and V _max were determined to be 1.1 mM and 54.6 μmol min^?1 respectively.     

Fractionation and characterization of chitosan by analytical SEC and H NMR after semi-preparative SEC

Heterogeneity in molecular weight and degree of deacetylation (DDA) of chitosans from different sources and preparation methods were studied by fractionating chitosans, using semi-preparative SEC, and then determining molecular weight profiles of fractions by analytical SEC with multi-angle laser light scattering (SEC–MALLS), and degree of deacetylation (DDA) by ¹H NMR. Fractionation of two high molecular weight chitosans from different manufacturers, produced fractions that spanned a wide range of molecular weight (number-average M_n), from 65 to 400 kDa in one case, that was not evident when unfractionated material was directly analyzed by SEC providing M_n = 188 kDa and PDI = M_w/M_n = 1.73. In a second case, fractions ranged from 20 to 600 kDa with unfractionated M_n = 145 kDa and PDI = 1.83. Fractionation of low molecular weight chitosans also showed a broad range of molecular weight in the original material, however, the fractions obtained with the TSKgel G4000W column in the M_n range of 5–100 kDa were essentially monodisperse with PDIs between 1.0 and 1.4. The DDA of one low molecular weight chitosan (10 kDa) produced by nitrous acid degradation was dependent on the M_n of the fraction. This semi-preparative fractionation procedure revealed important compositional heterogeneities of chitosans not evident in unfractionated material, and permitted the production of monodisperse low molecular weight chitosans with homogeneous properties.     

Catalyses by polymer complexes. VII. Enhanced esterolytic reactivity of polymer-coenzyme A,glutathione complexes

The association of coenzyme A(CoASH) and glutathione (GSH) with the water-soluble polymers and their esterolytic reactivities were evaluated through the reaction with p-nitrophenyl acetate in the presence of cationic polymer micelles: partially laurylated poly(2-ethyl-1-vinylimidazole) and poly(4-vinylpyridine). The polymer micelles with high lauryl-group content (more than 12 mol%) markedly accelerated the reaction at very low concentrations of the polymer. Other polymers with no or small lauryl-group content only slightly enhanced the association and the reaction rate. From the rate-polymer concentration profiles, the association constants (K) and the rate constants for thiol coenzymes bound to the polymer (k′_a,bound) were determined: for polymers with more than 12 mol % lauryl-group content, K_CoASH = 1110–2270 M^?1, K_GSH = 170–503M^?1, k′_a,bound at pH 8.65 = 142–341M^?1 sec^?1. k′_a,bound were 20–340 times larger than that observed in the absence of the polymer. The logarithm of k′_a,bound was found to be correlated well with the polymer hydrophobicity, indicating that the hydrophobic environment of the polymer activated the bound thiol anions. On the other hand, the polymer hydrophobicity did not correlate with the association constant.     

Characterizing the Escherichia coli O157:H7 proteome including protein associations with higher order assemblies

Background

The recent outbreak of severe infections with Shiga toxin (Stx) producing Escherichia coli (STEC) serotype O104:H4 highlights the need to understand horizontal gene transfer among E. coli strains, identify novel virulence factors and elucidate their pathogenesis. Quantitative shotgun proteomics can contribute to such objectives, allowing insights into the part of the genome translated into proteins and the connectivity of biochemical pathways and higher order assemblies of proteins at the subcellular level.

Methodology/Principal Findings

We examined protein profiles in cell lysate fractions of STEC strain 86-24 (serotype O157:H7), following growth in cell culture or bacterial isolation from intestines of infected piglets, in the context of functionally and structurally characterized biochemical pathways of E. coli. Protein solubilization in the presence of Triton X-100, EDTA and high salt was followed by size exclusion chromatography into the approximate M_r ranges greater than 280 kDa, 280-80 kDa and 80-10 kDa. Peptide mixtures resulting from these and the insoluble fraction were analyzed by quantitative 2D-LC-nESI-MS/MS. Of the 2521 proteins identified at a 1% false discovery rate, representing 47% of all predicted E. coli O157:H7 gene products, the majority of integral membrane proteins were enriched in the high M_r fraction. Hundreds of proteins were enriched in a M_r range higher than that predicted for a monomer supporting their participation in protein complexes. The insoluble STEC fraction revealed enrichment of aggregation-prone proteins, including many that are part of large structure/function entities such as the ribosome, cytoskeleton and O-antigen biosynthesis cluster.

Significance

Nearly all E. coli O157:H7 proteins encoded by prophage regions were expressed at low abundance levels or not detected. Comparative quantitative analyses of proteins from distinct cell lysate fractions allowed us to associate uncharacterized proteins with membrane attachment, potential participation in stable protein complexes, and susceptibility to aggregation as part of larger structural assemblies.     

Experimental and computational studies of two new mono- and dinuclear iridium complexes containing a Buchwald biphenyl phosphine ligand

The reaction of [(η⁴-1,5-C₈H₁₂)₂Ir₂(μ-Cl)₂] with 2-di-t-butylphosphino-2′-methylbiphenyl (t-Bu₂Pbiph^Me) in the presence of AgBF₄ afforded the dichlorido-bridged Ir–Ag complex [(η⁴-1,5-C₈H₁₂)Ir(μ-Cl)₂Ag(t-Bu₂Pbiph^Me)] (1) which was fully characterized by a single crystal X-ray diffraction study. Sequential treatment of the diiridium precursor first with the silver salt and then with the phosphine yielded cyclometalated [(η⁴-1,5-C₈H₁₂)Ir(t-Bu₂Pbiph^Me–H⁺)] (2). Detailed DFT calculations gave evidence that the phosphine ligand of 2 forms a strained four-membered iridaheterocycle through orthometalation rather than a sterically congested six-membered chelate structure through C–H activation on the remote phenyl ring. The phosphonium salt [t-Bu₂P(H)biph^Me]BF₄ was isolated as a by-product of the preparations of 1 and 2; its crystal structure was determined.     

Towards functional proteomics of minority component of honeybee royal jelly: The effect of post‐translational modifications on the antimicrobial activity of apalbumin2

This study illustrates multifunctionality of proteins of honeybee royal jelly (RJ) and how their neofunctionalization result from various PTMs of maternal proteins. Major proteins of RJ, designated as apalbumins belong to a protein family consisting of nine members with M_r of 49–87 kDa and they are accompanied by high number of minority homologs derived from maternal apalbumins. In spite of many data on diversity of apalbumins, the molecular study of their individual minority homologous is still missing. This work is a contribution to functional proteomics of second most abundant protein of RJ apalbumin2 (M_r 52.7 kDa). We have purified a minority protein from RJ; named as apalbumin2a, differ from apalbumin2 in M_r (48.6 kDa), in N‐terminal amino acids sequences – ENSPRN and in N‐linked glycans. Characterization of apalbumin2a by LC‐MALDI TOF/TOF MS revealed that it is a minority homolog of the major basic royal jelly protein, apalbumin2, carrying two fully occupied N‐glycosylation sites, one with high‐mannose structure, HexNAc2Hex9, and another carrying complex type antennary structures, HexNAc4Hex3 and HexNAc5Hex4. We have found that apalbumin2a inhibit growth of Paenibacillus larvae. The obtained data call attention to functional plasticity of RJ proteins with potential impact on functional proteomics in medicine.     

Evaluation of genetic risks of alkylating agents: tissue doses in the mouse from air contaminated with ethylene oxide

The degree of alkylation of proteins was used to determined tissue doses D_t i.e. the concentration of free alkylating agent, integrated over time, in resting male mice exposed for 1–2 h to air containing 1–35 ppm ethylene oxide (EO). The exposure doses were thus 0.03–2% of LD₅₀. The results agree with an absorption of all EO in alveolar ventilation, a rapid distribution to all organs, and a rapid detoxication and excertion (biological half-life about 9 min).D_t is proportional to the exposure dose within the range studied. In most organs, including the testes, the D_t is about 0.5 μM · h per ppm · h of expsoure. The degree of alkylation of DNA agreed with expectation from the doses determined.Expressing genetic risks of environmental chemicals in the frame of reference of radiation hazard will facilitate comparison and summations of risks of various origins. On the basis of dose-effect curves of EO and X-rays in barely, a tissue dose of EO in man of $\text{i}\text{m}\text{M}$ · h may be provisionally set equal to 80 rad of low LET radiation. Allowing for the difference in alveolar ventilation between mouse and man, this would mean that epoxide operators working at 5 ppm EO 40 h/week receive a weeky gonad dose of EO amounting to about 4 “rad-equivalenst”. Various data show that this risk estimate is realistic.     

Convergence to Normality of the Asymptotic Quasi‐Score Function on a Linear Model

The asymptotic quasi‐likelihood method is considered for the model y_t = f_t(θ) + M_t, t = 0,1, …,T where f_tθ) is a linear predictable process of the parameter of interest θ, M_t is a martingale difference, and the nature of E(M_t² | ℱ_t–1) is unknown. This paper is concerned with the limiting distribution of the asymptotic quasi‐score function of such a model. Confidence intervals and hypothesis testing of θ is derived from the limiting distribution. Comparison is made between the estimates obtained through this method and those obtained through the least squares method.     

Flow properties of high-molecular-weight DNA solutions: viscosity, recoil, and longest retardation time

Viscosity η, recoil Γ, and longest retardation time τ_1R were measured for buffered aqueous solution of T2 DNA (M = 1.3 × 10⁸) and cell lysattes of Bacillus subtiles W23 (DNA M = 2 × 10⁹) as a function of concetration, shear stress σ, and time of shear t, using a cartesian-diver-suspended couette flow system. For the T2 solution, η decreased with increasing σ, Γ(t) going through a maximum with t. For the B. subtiles lysates, the preponderant rheological component of which is chromatin DNA, above a critical σ, the η, Γ(t), and τ_1R increased t over 15 to 45 minutes duration to values up to several times larger, indicating the formation of intermolecular aggregates. The onset of such effects and their significance in th e measurement of molecular properties by hydrodynamic means is disscussed.     

Theoretical calculations on a series of dinuclear vanadium and niobium clusters

Electronic structures of chalcogenide-bridged binuclear clusters of vanadium and niobium with the {M₂(μ-Q₂)₂}⁴⁺, {M₂(μ-Q)₂}⁴⁺ and {M₂(μ-Q)(μ-Q)₂}⁴⁺ cores (Q = S, Se, Te) have been studied by density functional theory methods. In the vanadium clusters, the V-V distances are calculated to be in the range of 2.766-3.193 ?, whereas in the niobium clusters the calculated Nb-Nb bond lengths fall in the range of 2.881-3.380 ?, in accordance with the experimentally determined values. The calculated M-M bond distances generally decrease in the order {M₂(μ-Q₂)₂}⁴⁺ > {M₂(μ-Q)₂}⁴⁺ > {M₂(μ-Q)(μ-Q)₂}⁴⁺ (M = V, Nb, Q = S, Se). The calculated enthalpies of formation for the V clusters are higher than for the corresponding Nb clusters. On the other hand, the M₂Q₂ clusters have always higher enthalpies of formation than the M₂Q₃ species, and also (with the exception of M = V, Q = S) higher values of enthalpy of formation than for the M₂Q₄ species. The hardness η of the niobium clusters are higher than that of the vanadium analogs, except for the [V₂S₂(SH₂)₈]⁴⁺ case. The enthalpies ΔH₂₉₈ and the free energies ΔG₂₉₈ for the reactions of hydrogen addition to the [V₂(μ-S₂)₂(H₂O)₈]⁴⁺ and the [Nb₂(μ-S₂)₂(H₂O)₈]⁴⁺ clusters at constant pressure are −121.75 and −59.73 kJ/mol for the vanadium cluster, and 13.97 and 75.15 kJ/mol for the niobium cluster.