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PubMed2004

Dissection and design of yeast prions.

Many proteins can misfold into beta-sheet-rich, self-seeding polymers (amyloids). Prions are exceptional among such aggregates in that they are also infectious. In fungi, prions are not pathogenic but rather act as epigenetic regulators of cell physiology, providing a powerful model for studying the mechanism of prion replication. We used prion-forming domains from two budding yeast proteins (Sup35p and New1p) to examine the requirements for prion formation and inheritance. In both proteins, a glutamine/asparagine-rich (Q/N-rich) tract mediates sequence-specific aggregation, while an adjacent motif, the oligopeptide repeat, is required for the replication and stable inheritance of these aggregates. Our findings help to explain why although Q/N-rich proteins are relatively common, few form heritable aggregates: prion inheritance requires both an aggregation sequence responsible for self-seeded growth and an element that permits chaperone-dependent replication of the aggregate. Using this knowledge, we have designed novel artificial prions by fusing the replication element of Sup35p to aggregation-prone sequences from other proteins, including pathogenically expanded polyglutamine.

Amino Acid Motifs↗
PubMed1997

Floral homeotic genes were recruited from homologous MADS-box genes preexisting in the common ancestor of ferns and seed plants.

Flowers sensu lato are short, specialized axes bearing closely aggregated sporophylls. They are typical for seed plants (spermatophytes) and are prominent in flowering plants sensu stricto (angiosperms), where they often comprise an attractive perianth. There is evidence that spermatophytes evolved from gymnosperm-like plants with a fern-like mode of reproduction called progymnosperms. It seems plausible, therefore, that the stamens/carpels and pollen sacs/nucelli of spermatophytes are homologous to fern sporophylls and sporangia, respectively. However, the exact mode and molecular basis of early seed and flower evolution is not yet known. Comparing flower developmental control genes to their homologs from lower plants that do not flower may help to clarify the issue. We have isolated and characterized MADS-box genes expressed in gametophytes and sporophytes of the fern Ceratopteris. The data indicate that at least two different MADS-box genes homologous to floral homeotic genes existed in the last common ancestor of contemporary vascular plants, some descendants of which underwent multiple duplications and diversifications and were recruited into novel developmental networks during the evolution of floral organs.

Amino Acid Sequence↗
PubMed2001

The effect of osteopontin immobilized collagen granules in the seed crystal method.

Osteopontin (OPN) is a urinary protein which inhibits calcium oxalate (CaOx) crystal growth in the seed crystal system. The aim of this study was to evaluate the effects of OPN immobilized on collagen granules (CG) for CaOx crystal growth and aggregation in this system. OPN-immobilized CG showed a 30% decrease in inhibitory activity compared with non-OPN-immobilized CG. Scanning electron microscopy revealed that 1) OPN-immobilized CG showed more marked aggregation and adhesion of seed crystals (smaller than 0.5 microm in diameter) than non-OPN-immobilized CG, 2) the amount of adherent large type crystals (2-3 microm in diameter) did not differ between OPN immobilized and non-OPN-immobilized CG. In conclusion, immobilized OPN promotes aggregation and adhesion of CaOx crystals smaller than 0.5 microm on CG. These observations suggest that crystal adhesion to immobilized OPN plays a role in the retention of crystals in the kidney.

Calcium Oxalate↗
PubMed1985

Mechanisms of proteoglycan inhibition of hydroxyapatite growth.

Purified bovine nasal cartilage proteoglycans (aggregate and subunit containing fractions) and to a lesser degree, chondroitin 4-sulfate of physiological size, retard seeded hydroxyapatite (HA) growth in vitro. The large hydrodynamic size and high charge density of these macromolecules are believed to be associated with the ability of proteoglycans to inhibit HA formation and growth. We now demonstrate the involvement of the negative charges of proteoglycans in this inhibition by comparing the inhibitory ability of chondroitin 4-sulfate and its desulfated analog, and by comparing the growth of HA seed crystals coated either with proteoglycan aggregates or chondroitin 4-sulfate to that of uncoated crystals. In the desulfation experiments, desulfated chondroitin sulfate was a less efficient HA growth inhibitor than untreated, undesulfated chondroitin sulfate of similar molecular size. Dextran sulfate showed higher inhibitory effectiveness than unchanged neutral dextran. Both experiments suggest that sulfate groups play an important role in the regulation of mineral deposition by proteoglycans. In the coating experiment, precoating of HA seed crystals with proteoglycan aggregates decreased the amount of HA precipitated as a function of time, suggesting proteoglycans may block the active nucleating sites on HA surface and slow down the growth process. Chondroitin 4-sulfate had a similar but weaker coating effect. Neutral dextran, having little affinity for HA, had no effect.

Animals↗
PubMed2003

Shrub spatial aggregation and consequences for reproductive success.

To link spatial patterns and ecological processes, we analysed the distribution of two shrub species (one large and dominant, the other smaller) and estimated the reproductive consequences of their distribution for the smaller species. We tested the significance of the spatial distribution pattern of the two shrubs by second-order bivariate point pattern analysis (Ripley's K function). Performance of Asparagus albus, the smaller shrub, was measured as (1) survival of transplanted seedlings in two contrasting habitats: patches of the dominant shrub (Ziziphus lotus), and open interspaces; and (2) reproductive output of plants naturally occurring in both habitats. The two species were significantly aggregated. Transplanted Asparagus albus seedlings had higher survival rates in patches than in the open. Plants produced more flowers, fruits, and showed a higher mass of seeds when living in aggregates than when isolated. The mechanisms responsible for this facilitative effect seem to be related to soil enrichment in patches. These results suggest that the spatial aggregation of species can be indicative of a positive interaction among them, directly affecting fitness of at least one of the species. Facilitation, by inducing variations in the reproductive performance may play a major role in the demography and dynamics of plant populations.

Asparagus Plant↗
PubMed2005

Grape seed and skin extracts inhibit platelet function and release of reactive oxygen intermediates.

Red wine and purple grape juice contain polymeric flavonoids with antioxidant properties believed to be protective against cardiovascular events but the alcohol and sugar content of these beverages has curtailed their medicinal use. Acute cardiac events are also associated with enhanced inflammation and thrombosis. In this study, the extracts from grape skins or seeds were examined for their anti-inflammatory properties and effect on platelet release of reactive oxygen intermediates. Incubation of platelets with seed or skin extract led to a decrease in platelet aggregation from 68.8+/-19.8% to 45+/-3.6% for seeds and to 27+/-7.2% for skin, respectively (P<0.05). Platelet incubation with grape skin or seed extracts led to a marked decrease in superoxide release from 73+/-6.2 to 2+/-3.4 for grape seeds and to 0.33+/-0.57 for grape skin (chemilum. units; P<0.05) as well as a significant increase in radical-scavenging activity, decrease in reactive oxygen species release by confocal microscopy, and enhanced platelet NO was measured using an NO-sensitive microelectrode. These effects were dose dependent for both grape extracts. Coincubation with seeds and skins led to additive inhibition of platelet aggregation, enhanced NO release, and prevented superoxide production. Incubation with seed or skin extracts led to an immediate attenuation of release of the inflammatory mediator, soluble CD40 ligand. Thus, the extracts from purple grape skins and seeds inhibit platelet function and platelet-dependent inflammatory responses at pharmacologically relevant concentrations. These findings suggest potentially beneficial platelet-dependent antithrombotic and anti-inflammatory properties of purple grape-derived flavonoids.

Blood Platelets↗
PubMed1998

A new antiplatelet diarylheptanoid from Alpinia blepharocalyx.

A new diarylheptanoid, 1,7-bis(4-hydroxyphenyl)-3-hydroxy-1,3-heptadien-5-one (1), along with seven other known compounds, were isolated from the seeds of Alpinia blepharocalyx. Of these, compounds 1 and 3 showed strong inhibition of collagen-induced, arachidonic acid-induced, and adenosine diphosphate-induced platelet aggregation of human whole blood. Compound 3 also strongly inhibited ristocetin-induced platelet aggregation. Structures of these compounds were elucidated by spectroscopic and chemical means.

China↗
PubMed2003

pH-dependent amyloid and protofibril formation by the ABri peptide of familial British dementia.

The ABri is a 34 residue peptide that is the major component of amyloid deposits in familial British dementia. In the amyloid deposits, the ABri peptide adopts aggregated beta-pleated sheet structures, similar to those formed by the Abeta peptide of Alzheimer's disease and other amyloid forming proteins. As a first step toward elucidating the molecular mechanisms of the beta-amyloidosis, we explored the ability of the environmental variables (pH and peptide concentration) to promote beta-sheet fibril structures for synthetic ABri peptides. The secondary structures and fibril morphology were characterized in parallel using circular dichroism, atomic force microscopy, negative stain electron microscopy, Congo red, and thioflavin-T fluorescence spectroscopic techniques. As seen with other amyloid proteins, the ABri fibrils had characteristic binding with Congo red and thioflavin-T, and the relative amounts of beta-sheet and amyloid fibril-like structures are influenced strongly by pH. In the acidic pH range 3.1-4.3, the ABri peptide adopts almost exclusively random structure and a predominantly monomeric aggregation state, on the basis of analytical ultracentrifugation measurements. At neutral pH, 7.1-7.3, the ABri peptide had limited solubility and produced spherical and amorphous aggregates with predominantly beta-sheet secondary structure, whereas at slightly acidic pH, 4.9, spherical aggregates, intermediate-sized protofibrils, and larger-sized mature amyloid fibrils were detected by atomic force microscopy. With aging at pH 4.9, the protofibrils underwent further association and eventually formed mature fibrils. The presence of small amounts of aggregated peptide material or seeds encourage fibril formation at neutral pH, suggesting that generation of such seeds in vivo could promote amyloid formation. At slightly basic pH, 9.0, scrambling of the Cys5-Cys22 disulfide bond occurred, which could lead to the formation of covalently linked aggregates. The presence of the protofibrils and the enhanced aggregation at slightly acidic pH is consistent with the behavior of other amyloid-forming proteins, which supports the premise that a common mechanism may be involved in protein misfolding and beta-amyloidosis.

Adaptor Proteins, Signal Transducing↗
PubMed2003

Concentration effect on the aggregation of a self-assembling oligopeptide.

Concentration is a key parameter in controlling the aggregation of self-assembling oligopeptides. By investigating the concentration effects, an aggregation mechanism of EAK16-II is proposed. Depending on the critical aggregation concentration (CAC) of EAK16-II, the oligopeptide aggregates into protofibrils through seeding and/or a nucleation process. Protofibrils then associate with each other to form fibrils. The CAC was found to be approximately 0.1 mg/ml by surface tension measurements. The nanostructures of aggregates were imaged and analyzed by atomic force microscopy. Globular and fibrillar aggregates were observed, and their dimensions were further quantified. To ensure that the aggregates were formed in bulk solution, light scattering (LS) measurements were conducted to monitor the fibril formation with time. The LS profile showed two different rates of aggregation depending on whether the peptide concentration was above or below the CAC. At high concentrations, the LS intensity increased strongly at early times. At low concentrations, the LS intensity increased only slightly. Our study provides information about the nature of the oligopeptide self-assembly, which is important to the understanding of the fibrillogenesis occurring in conformational diseases and to many biomedical engineering applications.

Binding Sites↗
PubMed1995

Calcium oxalate crystal matrix extract: the most potent macromolecular inhibitor of crystal growth and aggregation yet tested in undiluted human urine in vitro.

Demineralization of calcium oxalate (CaOx) crystals precipitated from human urine in vitro yields an organic crystal matrix extract (CME) consisting predominantly of a single protein which we originally named crystal matrix protein but have subsequently shown to be a urinary form of prothrombin activation peptide fragment 1 (F1). The aim of this study was to determine whether CME is a promoter or inhibitor of CaOx crystallization. The effect of CME on CaOx crystal growth and aggregation was tested using a standard seeded crystallization system, and its effect quantified by use of particle size analysis and a computer model. In addition, the effect of CME on the crystallization of CaOx was tested in undiluted, ultrafiltered human urine using Coulter Counter analysis and scanning electron microscopy. It was shown that CME is a potent inhibitor of CaOx crystal growth and aggregation in a seeded metastable solution. However, of greater significance is that at a concentration of 10 mg/l it completely reversed the formation of large crystalline aggregates that form upon the removal of urinary macromolecules from undiluted urine. It was concluded that CME is the most potent macromolecular urinary inhibitor yet to be tested in urine in vitro. By preventing the aggregation of newly formed crystals, the components of CME may significantly reduce the probability of particle retention in vivo and therefore the occurrence of urolithiasis.

Calcium Oxalate↗
PubMed1981

Independent assessment of the growth and aggregation of calcium oxalate crystals using the Coulter counter.

The growth and aggregation of calcium oxalate seed crystals in a metastable solution of this salt were assessed separately by using the Coulter counter to measure the net increase in total crystal volume and the percentage change in total crystal number respectively. The value of assessing crystal growth and aggregation in these terms was shown by using these parameters to measure the inhibitory effect of a normal human urine. Independent assessment of growth and aggregation enabled a more accurate interpretation of experimental events than was possible by considering the two processes in combination. The method therefore has the potential of improving the discrimination between the inhibitory activities of different urines.

Calcium Oxalate↗
PubMed2005

Ultra-sensitive detection of prion protein fibrils by flow cytometry in blood from cattle affected with bovine spongiform encephalopathy.

BACKGROUND: The definite diagnosis of prion diseases such as Creutzfeldt-Jakob disease (CJD) in humans or bovine spongiform encephalopathy (BSE) in cattle currently relies on the post mortem detection of the pathological form of the prion protein (PrPSc) in brain tissue. Infectivity studies indicate that PrPSc may also be present in body fluids, even at presymptomatic stages of the disease, albeit at concentrations well below the detection limits of currently available analytical methods. RESULTS: We developed a highly sensitive method for detecting prion protein aggregates that takes advantage of kinetic differences between seeded and unseeded polymerization of prion protein monomers. Detection of the aggregates was carried out by flow cytometry. In the presence of prion seeds, the association of labelled recombinant PrP monomers in plasma and serum proceeds much more efficiently than in the absence of seeds. In a diagnostic model system, synthetic PrP aggregates were detected down to a concentration of approximately 10(-8) nM [0.24 fg/ml]. A specific signal was detected in six out of six available serum samples from BSE-positive cattle. CONCLUSION: We have developed a method based on seed-dependent PrP fibril formation that shows promising results in differentiating a small number of BSE-positive serum samples from healthy controls. This method may provide the basis for an ante mortem diagnostic test for prion diseases.

Animals↗
PubMed1981

Oligodendrocytes from postnatal cat brain in cell culture. I. Regeneration and maintenance.

Oligodendrocytes isolated in bulk from white matter of cat brain (8-12 weeks of age) employing a Percoll gradient as the final purification step, were cultured and maintained for more than 10 weeks. Different parameters, e.g. coating material and the age of the animals appeared to have some influence on attachment rate and survival of the cells. Oligodendrocytes from older animals, or oligodendrocytes seeded into poly-L-lysine coated culture dishes revealed a marked tendency to form aggregates. Of the dispersed cells, 80-99% can be classified as oligodendrocytes by transmission electron microscopy (TEM) and immunocytochemical markers. Aggregates which were re-seeded consisted of more than 90% oligodendrocytes. About one day after attachment to the supporting layer the cells start to regenerate their processes which sometimes broaden at their ends into shovel-like, membranous extensions.

Animals↗
PubMed1996

Antiplatelet flavonoids from seeds of Psoralea corylifolia.

The MeOH extract of the seeds of Psoralea corylifolia L. was found to inhibit the aggregation of rabbit platelets induced by arachidonic acid, collagen, and platelet activating factor. Bioassay-directed fractionation led to the isolation of three flavonoids, isobavachalcone (1), neobavaiso-flavone (2), and bavachin (3). Compounds 1 and 2 inhibited platelet aggregation.

Animals↗
PubMed1999

Aggregation and chimney formation during the solidification of ammonium chloride.

Experiments study large-scale pattern formation during the growth of ammonium chloride (NH4Cl) from solution in a thin (Hele-Shaw) geometry. In particular a solid-liquid mixture ("mushy layer") forms in which growing solid NH4Cl crystals form a solid network interspersed with liquid. There are different ways that the mushy layer can be formed, however. If the cell is heated from below and cooled from above, thermal convection generates large-scale recirculating flows that carry seed crystals from the upper (cold) boundary to the (warmer) side and bottom boundaries. Ballistic deposition of these seed crystals leads to aggregation patterns with significant voids (filled with liquid) with a wide range of length scales. If the cell is cooled from below with a warm environment, the solid NH4Cl grows dendritically without deposition, resulting in a compact mushy layer. Plume convection within this mushy layer produces one or two well-defined "chimneys." If the environment is cool (comparable to the liquidus temperature of the solution), the mushy layer forms by a combination of dendritic growth and ballistic deposition, resulting in a more permeable mushy layer and enhanced chimney formation. The effects of ballistic deposition are enhanced if the cell is tipped, in which case the voids reappear. Plume convection and chimney formation are dramatically enhanced in this case. Additional experiments are done in which fluid flows in the system are enhanced artificially to verify that enhancements in chimney formation are due primarily to the aggregation process, and not to the increases in fluid flows due to thermal and compositional convection.

Journal Article↗
PubMed2004

A seed for Alzheimer amyloid in the brain.

A fundamental question about the early pathogenesis of Alzheimer's disease (AD) concerns how toxic aggregates of amyloid beta protein (Abeta) are formed from its nontoxic soluble form. We hypothesized previously that GM1 ganglioside-bound Abeta (GAbeta) is involved in the process. We now examined this possibility using a novel monoclonal antibody raised against GAbeta purified from an AD brain. Here, we report that GAbeta has a conformation distinct from that of soluble Abeta and initiates Abeta aggregation by acting as a seed. Furthermore, GAbeta generation in the brain was validated by both immunohistochemical and immunoprecipitation studies. These results imply a mechanism underlying the onset of AD and suggest that an endogenous seed can be a target of therapeutic strategy.

Adult↗
PubMed2005

Role for Hsp70 chaperone in Saccharomyces cerevisiae prion seed replication.

The Saccharomyces cerevisiae [PSI+] prion is a misfolded form of Sup35p that propagates as self-replicating cytoplasmic aggregates. Replication is believed to occur through breakage of transmissible [PSI+] prion particles, or seeds, into more numerous pieces. In [PSI+] cells, large Sup35p aggregates are formed by coalescence of smaller sodium dodecyl sulfate-insoluble polymers. It is uncertain if polymers or higher-order aggregates or both act as prion seeds. A mutant Hsp70 chaperone, Ssa1-21p, reduces the number of transmissible [PSI+] seeds per cell by 10-fold but the overall amount of aggregated Sup35p by only two- to threefold. This discrepancy could be explained if, in SSA1-21 cells, [PSI+] seeds are larger or more of the aggregated Sup35p does not function as a seed. To visualize differences in aggregate size, we constructed a Sup35-green fluorescent protein (GFP) fusion (NGMC) that has normal Sup35p function and can propagate like [PSI+]. Unlike GFP fusions lacking Sup35p's essential C-terminal domain, NGMC did not form fluorescent foci in log-phase [PSI+] cells. However, using fluorescence recovery after photobleaching and size fractionation techniques, we find evidence that NGMC is aggregated in these cells. Furthermore, the aggregates were larger in SSA1-21 cells, but the size of NGMC polymers was unchanged. Possibly, NGMC aggregates are bigger in SSA1-21 cells because they contain more polymers. Our data suggest that Ssa1-21p interferes with disruption of large Sup35p aggregates, which lack or have limited capacity to function as seed, into polymers that function more efficiently as [PSI+] seeds.

Adenosine Triphosphatases↗