In vitro investigation of the geometric contraction behavior of chemo-mechanical P-protein aggregates (forisomes)

We investigated the contracting behavior of forisomes from Vicia faba by carrying out precise measurements of their changing geometric parameters in vitro in the absence and in the presence of dissolved oxygen. Furthermore, we investigated the fine structure of forisomes by scanning electron microscopy. For the first time, single forisomes were titrated with Ca(2+), protons, and hydroxide ions recording the complete progression of their contractions. An apparent Ca(2+)-binding constant of (22+/-3) muM was calculated from two complete titration curves. The forisomes also contracted in the presence of Ba(2+) and Sr(2+) ions, but the amplitudes of contraction were smaller under the same measuring conditions. The time taken to change from the longitudinally expanded into the longitudinally contracted state was up to 2 s shorter in 10 mM Ca(2+) in comparison to 0.2mM Ca(2+). However, the contraction time was prolonged by decreasing the Ca(2+) concentration. In the absence of dissolved oxygen, the transition between the two final states of the forisomes was almost reversible and the amplitude of contraction remained almost constant during the first 25 contraction cycles. In the presence of dissolved oxygen the forisomes denaturated after a few cycles and lost their ability to contract, just after only a few cycles with 10 min in the contracted state. Denaturation of the forisomes occurred appreciably in the contracted state. We propose a cycle process to explain the thermodynamic basis of the Ca(2+)-induced contraction and its reversal by EDTA. Reducing the pH-value from 7.3 to 4.0 caused the forisomes to shorten by approximately 15%, while increasing the pH to 11.0 caused them to shorten by 28 to 30%. In both cases, the increases of the forisomes volume were greater than during the Ca(2+) induced contraction. The pH values of 4.7+/-0.3, and 10.2+/-0.2 marked the inflection points of the acid base titration of different forisomes.     

Formation of aggregates by plant roots in homogenised soils

The influence of root growth and water regime on the formation of aggregates was studied in modified minirhizotrons under controlled conditions. Two soils, a black earth (67% clay) and a red-brown earth (19% clay) were ground and forced through a 0.5 mm sieve. Ryegrass, pea and wheat were grown for fifteen wetting and drying (wd) cycles for 5 months. Another set of minirhizotrons was not planted and served as a control. Measurements of aggregate size distribution (ASD), aggregate tensile strength (ATS), aggregate stability (AS), aggregate bulk density (ABD) and organic carbon (OC) were made on single aggregates of the 2–4 mm fraction. The results showed that aggregates of the black earth which has a high clay content and shrink/swell properties had more smaller aggregates with higher ATS, AS and ABD than those from the red-brown earth. It was also found that for both soils: (1) w/d cycles and higher root length density (RLD) increased the proportions of smaller aggregates and aggregate strength; (2) differences in the ability of the plant species to influence aggregation was evident and seemed to be related to the RLD. The RLD was in the order ryegrass > wheat > pea. Mechanisms likely to be involved in processes of aggregate formation and stabilization are discussed. They include cracking of soil due to tensile stresses generated during drying of a shrinking soil; changes in pore water pressure within the soil mass caused by water uptake by plant roots generating effective stresses; and biological processes associated with plant roots and root exudates.     

Magnetic cross-linked enzyme aggregates (CLEAs): A novel concept towards carrier free immobilization of lignocellulolytic enzymes

The enzymatic conversion of lignocellulosic biomass into biofuels has been identified as an excellent strategy to generate clean energy. However, the current process is cost-intensive as an effective immobilization approach to reuse the enzyme(s) has been a major challenge. The present study introduces the concept and application of novel magnetic cross-linked enzyme aggregates (mag-CLEAs). Both mag-CLEAs and calcium-mag-CLEAs (Ca-mag-CLEAs) exhibited a 1.35 fold higher xylanase activity compared to the free enzyme and retained more than 80.0% and 90.0% activity, respectively, after 136 h of incubation at 50 °C, compared to 50% activity retained by CLEAs. A 7.4 and 9.0 fold higher sugar release from lime-pretreated and NH₄OH pre-treated sugar bagasse, respectively, was achieved with Ca-mag-CLEAs compared to the free enzymes. The present study promotes the successful application of mag-CLEAs and Ca-mag-CLEAs as carrier free immobilized enzymes for the effective hydrolysis of lignocellulolytic biomass and associated biofuel feedstocks.     

Organic aggregates formed by benthopleustophyte brown alga Acinetospora crinita (Acinetosporaceae,Ectocarpales)

This work presents the elemental, polysaccharide, and fatty acid compositions of benthic aggregates formed by the filamentous brown alga Acinetospora crinita, which are widely spread on the rocky bottoms of the Mediterranean Sea. The aggregates can be characterized as mineralized centers in which regeneration of nutrients and recycling of dissolved organic matter actively occur and favor the development of an abundant phytoplankton community. Analyses of the stable isotopes of C and N display their marine origin and could provide evidence of the processes that occur inside/outside of the aggregates. The monosaccharide compositions of Adriatic and Tyrrhenian mucilages produced by brown alga A. crinita were quite similar. In particular, the Adriatic sample compositions resembled the average composition of the Tyrrhenian high molecular weight exopolymers, and the observed differences could be ascribed to different degradation stages. The fatty acid patterns found for the aggregates were similar to those observed in the isolated A. crinita algae with variable contributions from embedded diatom species. The bacterial contribution to the fatty acid pool was quite low, most likely due to the known poor conditions for their heterotrophic growth.     

Ultrastructural observation of paracrystalline aggregates of microtubules in anterior pituitary cells of the chinchilla (Chinchilla laniger)

Summary Unusual paracrystalline aggregates of microtubules which have not been described in any other mammalian species were observed in cultured anterior pituitary cells of normal chinchillas as well as in situ in the pituitary glands of these animals. These aggregates appeared as regularly arranged tubular structures in the longitudinal plane, and as a checkerboard pattern of closely and regularly packed microtubules when examined in transverse section. Supplementation with vinblastine, colcemide or colchicine in the culture medium did not change these structures morphologically. Each unit of tubules consisted of an outer wall or parellelogram profile and an inner wall composed of a single hexagonal doublet or in a figure 8 form. The outer wall of the parallelogram was 35×28 nm in length for both sides, while the diagonal of the inner wall was 18×28 nm. These paracrystalline aggregates of microtubules in the chinchilla pituitary cells are morphologically distinct from the paracrystalline assembly of cytoplasmic microtubules induced by vinblastine or other alkaloids.The function and significance of these paracrystalline aggregates in anterior pituitary cells of the chinchilla are uncertain.Supported by USPHS Grant HD 11826     

Ultrastructure and surface topography of aggregates of human limb mesenchymal cells (HLM15) in vitro

Summary Tissue-like aggregates of human embryo fibroblasts can be created in vitro by limited aspiration of cells released from substrate during subcultivation. Aggregates increase in size, exhibit intercellular junctions, display a surface topography characteristic of cellular movement, elaborate an extracellular matrix and possess features of cellular death and phagocytosis. These cells, when introduced to a new culture environment, do not migrate away from one another as is common when a primary culture is started from tissue fragments. Instead, cells exhibit continued contact with each other, and develop complex junctional structures during that association. Cellular aggregates generated in this manner may provide a useful system for providing further information on cellular adhesion, intercellular communication, morphogenetic cell movements and the mechanisms of cell death. Dr. Kelley is the recipient of a Research Career Development Award (HD70407).     

A new design strategy with stochastic optimization on the preparation of magnetite cross-linked tyrosinase aggregates (MCLTA)

In this study, a new design strategy with a systematic optimization process is proposed for the preparation of magnetite cross-linked tyrosinase aggregates (MCLTA) by using the concentration of magnetite nanoparticle, glutaraldehyde and tyrosinase enzyme as design variables. A comprehensive study on multiple non-linear neuro-regression analysis has been performed as a compelling alternative to the insufficient approaches on modeling-design-optimization of MCLTA. For this aim, the experimental process has been modeled with 13 candidate functional structures by using a hybrid method to test the accuracy of their predictions. R²_training, R²_testing values, and boundedness of the functions have been checked to reveal the realistic ones. Then four different design approaches in terms of three distinct scenarios have been used to optimize the process. The results show that, all models define the process well, depending on R²_training. However, only five and nine models are appropriate based on R²_testing for the first use activity and residual activity, respectively. On the other hand, depending on to be a realistic value, model TON best describes the "first use activity," while the best one is FONT for residual activity. It is also concluded that the scenario types and selection of constraints for design variables affect the optimization results.     

Extracellular polymeric substances (EPS) of microbial aggregates in biological wastewater treatment systems: A review

A review concerning the definition, extraction, characterization, production and functions of extracellular polymeric substances (EPS) of microbial aggregates in biological wastewater treatment reactors is given in this paper. EPS are a complex high-molecular-weight mixture of polymers excreted by microorganisms, produced from cell lysis and adsorbed organic matter from wastewater. They are a major component in microbial aggregates for keeping them together in a three-dimensional matrix. Their characteristics (e.g., adsorption abilities, biodegradability and hydrophilicity/hydrophobicity) and the contents of the main components (e.g., carbohydrates, proteins, humic substances and nucleic acids) in EPS are found to crucially affect the properties of microbial aggregates, such as mass transfer, surface characteristics, adsorption ability, stability, the formation of microbial aggregates etc. However, as EPS are very complex, the knowledge regarding EPS is far from complete and much work is still required to fully understand their precise roles in the biological treatment process.     

Computational fluid dynamics of flow regime and hydrodynamic forces generated by a gliding North Atlantic right whale (Eubalaena glacialis)

Accurate estimates of drag on marine animals are required to investigate the locomotive cost, propulsive efficiency, and the impacts of entanglement if the animal is carrying fishing gear. In this study, we performed computational fluid dynamics analysis of a 10 m (length over all) right whale to obtain baseline measurements of drag on the animal. Swimming speeds covering known right whale speed range (0.125 m/s to 8 m/s) were tested. We found a weak dependence between drag coefficient and Reynolds number. At a swimming speed of 2 m/s, we analyzed the boundary layer thicknesses, the flow regimes, and drag components. We found the thickest boundary layer at the lateral sides of the peduncle, whereas the boundary layer thickness over the outer part of the flukes was less than 1.7 cm. Laminar flow occurred over the anterior ~0.6 LoA and turbulent flow from ~0.8 LoA to the fluke notch. On the surfaces of the flukes outside of the body wake region, flow was laminar. Our most significant finding is that the drag coefficient (0.0071–0.0059) of a right whale for swimming speeds ranging from 0.25 m/s to 2 m/s is approximately twice that of many previous estimates for cetaceans.     

花鼠外部形态及部分内脏器官的测量和分析

对捕捉的花鼠进行了外部形态和内脏器官的测量和分析,结果表明:外部形态和内脏器官的变异系数较大,各器官之间存在着显著的相关关系;不同年龄组间外部形态和内脏器官的大小存在着显著差异,同年龄组不同性别间差异不显著。     

Conformation-dependent recognition of mutant HTT (huntingtin) proteins by selective autophagy

Protein misfolding is the common theme for neurodegenerative disorders including Huntington disease (HD), which is mainly caused by cytotoxicity of the mutant HTT (huntingtin) protein (mHTT). The soluble mHTT has an expanded polyglutamine (polyQ) stretch that may adopt multiple conformations, among which the one recognized by the polyQ antibody 3B5H10 is the most toxic due to unknown mechanisms. In a recent study, we showed that the 3B5H10-recognized mHTT species has a slower degradation rate due to its resistance to selective macroautophagy/autophagy. In HD mouse brain tissues as well as HD patient fibroblasts and post-mortem brain tissues, the 3B5H10-recognized mHTT species lacks Lys63-polyubiquitination and SQSTM1/p62 interaction, which are essential for cargo recognition by selective autophagy. Collectively, we discovered that the mHTT protein is subject to conformation-dependent recognition by selective autophagy, which is more selective than what we perceived: the process can be selective among different conformations of the same protein, leading to conformation-dependent differences in protein degradation and toxicity.     

Real-Time Measurement of Intracellular Reactive Oxygen Species Using Mito Tracker Orange (CMH2TMRos)

We have investigated a novel method to monitor real changes of intracellular ROS by the use of CMH₂TMRos (a reduced form of MitoTracker orange) in Swiss 3T3 fibroblasts. Arachidonic acid induced a rapid increase of CMTMRos fluorescence with a maximal elevation at 120–150 sec, which was determined by scanning every 10 sec with a confocal microscope. The fluorescence increase by arachidonic acid was completely inhibited by 2-MPG but not by catalase, indicating a major contribution of superoxide to the oxidation of CMH₂TMRos. Incubation with glucose oxidase, exogenous H₂O₂, KO₂ and lysophosphatidic acid also increased the CMTMRos fluorescence, which was blocked by 2-MPG. These results suggested that CMH₂TMRos is a useful fluorophore for real-time monitoring of intracellular ROS and also indicated that CMH₂TMRos detects primarily superoxide in cells even though the fluorophore can be oxidized by both superoxide and H₂O₂.     

Measurement of biological aerosol with a fluorescent aerodynamic particle sizer (FLAPS): correlation of optical data with biological data

Biological aerosol measurement in real time is anurgent military requirement that also has manypotential non-military applications. Such detectioncapabilities will be useful in environmentalmonitoring, for example, in gathering information inperceived hazardous areas like housing developmentsdownwind of sewage treatment plants.Experience gained from measuring fluorescence signalsof single bacterial spores under flow cytometry usingUV excitation at 340--360 nm, was applied to concepttesting of a prototype instrument, built to do thesame for aerosols. This machine was capable ofresolving particle size as well as fluorescenceintensity of each particle under laboratory and fieldconditions; it was called the fluorescent aerodynamicparticle sizer (FLAPS). A second generation FLAPS(FLAPS2) was designed to be smaller, power efficientand field portable. FLAPS2 was challenged underrefereed conditions in blind trials to determine if itcould detect biological aerosols in natural fieldenvironment. This paper describes practical aspects ofmeasuring biological aerosols when the results must becompared to reference samplers that provide culturableor ``live' data. Treatment of particle size andfluorescence information is discussed with respect toFLAPS and reference data fidelity. Finally, anobjective method is introduced to evaluate FLAPS datacorrelation to reference data. The measurementssuggest that there is positive correlation betweenFLAPS measurements and live biological aerosolparticles.     

Hydrogen peroxide can be generated by tau in the presence of Cu(II)

Alzheimer's disease has been closely related with oxidative stress, which might be responsible for the dysfunction or death of neuronal cells that contributes to disease pathogenesis. Impaired copper homeostasis makes contribution to the oxidative stress and consequently to several neurodegenerative conditions. Inappropriate binding of Cu(II) to cellular proteins are currently being explored as sources of pathological oxidative stress in several neurodegenerative disorders. Here we report that a fragment of tau protein possesses copper reduction activity and initiates the copper-mediated generation of hydrogen peroxide. The tau peptide was found to be oxidized to form disulfide bond-linked dimer. The hydrogen peroxide generated was quantified by TCEP/DTNB (tris(2-carboxyethyl) phosphine hydrochloride/5,5'-dithio-bis(2-nitrobenzoic acid). Since the copper reduction capacity and the generation of hydrogen peroxide were believe to be a major toxicological pathway of Abeta peptide, the functional similarity shared by tau and Abeta implies a new perspective of tau pathology.     

SERS Study of Tetrodotoxin (TTX) by Using Silver Nanoparticle Arrays

The optical properties of tetrodotoxin (TTX), a scarce toxin with anesthetic properties, were studied using nanoparticle arrays-assisted surface-enhanced Raman scattering (SERS). The nanoparticles arrays were fabricated using nanosphere lithography and a metallic lift-off process to control the particle size, shape, and spacing in the arrays. Using density functional methods, the Raman spectrum of TTX was also calculated with Gaussian03 software. The main peaks of the spectrum are originated from the vibration of the NH₂ molecule group. In the SERS experiment, we were able to measure the Raman spectrum with a TTX concentration as less as 0.9 ng/mL. This sensitivity is comparable to that from high performance liquid chromatography.     

Microbial synthesis of cis,cis-muconic acid by Sphingobacterium sp. GCG generated from effluent of a styrene monomer (SM) production plant

Sphingobacterium sp. GCG was isolated from the sewage of a styrene monomer manufacturing factory in Taiwan. This bacterium could utilize benzoic acid to synthesize cis,cis-muconic acid. Production of cis,cis-muconic acid by Sphingobacterium sp. strain is growth-associated. It was found that the strain through the BS-type (benzoic acid/succinic acid) culture medium with succinic acid as a growth carbon source exhibits better growth rate than the other mediums. It was also found that glutamate used as a nitrogen source could optimize the production of cis,cis-muconic acid. In addition, an increment of ca. 75–100% of cis,cis-muconic acid could be obtained by adding EDTA–FeCl₃ complex solution, since the enzyme catA, a necessary oxygenase to convert catechol to cis,cis-muconic acid, consists of 2 Fe(III) ions as the cofactor. On the other hand, a five-fold increase in the yield of cis,cis-muconic acid was observed when proceeded under fed-batch culture.     

Specific biodegradation of polychlorinated biphenyls (PCBs) facilitated by plant terpenoids

The aim of this study was to examine how plant terpenoids, as natural growth substrates or inducers, would affect the biodegradation of PCB congeners. Various PCB degraders that could grow on biphenyl and several terpenoids were tested for their PCB degradation capabilities. Degradation activities of the PCB congeners, 4,4′-dichlorobiphenyl (4,4′-DCBp) and 2,2′-dichlorobiphenyl (2,2′-DCBp), were initially monitored through a resting cell assay technique that could detect their degradation products. The PCB degraders,Pseudomonas sp. P166 andRhodococcus sp. T104, were found to grow on both biphenyl and terpenoids ((S)-(−) limonene,p-cymene and α-terpinene) whereasArthrobacter sp. B1B could not grow on the terpenoids as a sole carbon source. The B1B strain grown on biphenyl exhibited good degradation activity for 4,4′-DCBp and 2,2′-DCBp, while the activity of strains P166 and T104 was about 25% that of the B1B strain, respectively. Concomitant GC analysis, however, demonstrated that strain T104, grown on (S)-(−) limonene,p-cymene and α-terpinene, could degrade 4,4′-DCBp up to 30%, equivalent to 50% of the biphenyl induction level. Moreover, strain T104 grown on (S)-(−) limonene, could also degrade 2,2′-DCBp up to 30%. This indicates that terpenoids, widely distributed in nature, could be utilized as both growth and/or inducer substrate(s) for PCB biodegradation in the environment.     

Inhibition of random amplified polymorphic DNAs (RAPDs) by plant polysaccharides

A survey of the inhibition of the amplification of spinach DNA by various plant polysaccharides revealed that neutral polysaccharides (arabinogalactan, dextran, gum guar, gum locust bean, inulin, mannan, and starch) were not inhibitory. In contrast, the acidic polysaccharides (carrageenan, dextran sulfate, gum ghatti, gum karaya, pectin, and xylan)were inhibitory. In the process of preparing random amplified polymorphic DNAs (RAPDs), the loss of large DNA bands appears to be an indicator that the fingerprint pattern has been affected by polysaccharides. The addition of various concentrations of Tween 20, DMSO, or PEG 400 to the PCR reaction mixture resulted in partial restoration of amplification of RAPDs for the acidic polysaccharides. The most effective way to eliminate the effects of polysaccharide inhibition was by diluting the DNA extracts, and thereby diluting the polysaccharide inhibitors.     

Plant penetration by pea aphids (Acyrthosiphon pisum) of different plant range

Plant penetration by the stylets of six clones of the pea aphid, Acyrthosiphon pisum, on Vicia faba (acceptable to all clones) and Pisum sativum (acceptable to 3/6 clones) was investigated by the DC electrical penetration graph technique. In a 10 h recording period, 93% of 144 aphids exhibited sustained feeding on phloem sap. Significant interclonal differences were observed for the incidence of potential drops (indicative of brief punctures of plant cells) and the duration of waveform E1 (insect salivation into a sieve element). In addition, the total duration of the sieve element phase and the duration of completed bouts of sustained feeding differed between the two test plants, in a fashion varying between clones. However, these differences could not be related to the acceptability of plants to the different aphid clones. The duration of the stylet pathway phase preceding the first sustained feeding on phloem sap did not vary significantly with either aphid clone or plant. It is concluded that the resistance of P. sativum to certain A. pisum clones does not arise from factors impeding either stylet penetration through the plant tissues or the maintenance of feeding from the sieve elements. It is proposed that host plant affiliation of A. pisum may be mediated primarily by specific olfactory or gustatory cues, before the aphid initiates stylet penetration of the plant.