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At least 829 records · Page 46Linked to original sources
PubMed2002

In situ scanning tunneling microscopy of oxide-supported metal clusters: nucleation, growth, and thermal evolution of individual particles.

An experimental approach was developed for imaging the nucleation and growth of individual oxide-supported nanoparticles and their subsequent in situ chemical and thermal treatments by scanning tunneling microscopy (STM). The potential of the method is demonstrated for Au nanoparticles supported on a reduced TiO(2) substrate where a cluster-by-cluster comparison is made of the morphological evolution and stability of nanoparticles during their nucleation and thermal annealing. Using this methodology the details of the nucleation and growth kinetics can be directly observed.

Journal Article↗
PubMed2004

Nonlinear polarization evolution of ultrashort pulses in microstructure fiber.

We present experimental and numerical results for nonlinear polarization evolution of femtosecond pulses during propagation in microstructure fiber. Numerical modeling shows that fiber dispersion permits a long interaction length between the components polarized along the two principal axes, thereby enhancing the effective nonlinear polarization evolution in microstructure fiber.

Journal Article↗
PubMed2004

Yeast as a model organism for studying the evolution of non-standard genetic codes.

During the last 30 years, a number of alterations to the standard genetic code have been uncovered both in prokaryotes and eukaryotic nuclear and mitochondrial genomes. But, the study of the evolutionary pathways and molecular mechanisms of codon identity redefinition has been largely ignored due to the assumption that non-standard genetic codes can only evolve through neutral evolutionary mechanisms and that they have no functional significance. The recent discovery of a genetic code change in the genus Candida that evolved through an ambiguous messenger RNA decoding mechanism is bringing that naive assumption to an abrupt end by showing, in a rather dramatic way, that genetic code changes have profound physiological and evolutionary consequences for the species that redefine codon identity. In this paper, the recent data on the evolution of the Candida genetic code are reviewed and an experimental framework based on forced evolution, molecular genetics and comparative and functional genomics methodologies is put forward for the study of non-standard genetic codes and genetic code ambiguity in general. Additionally, the importance of using Saccharomyces cerevisiae as a model organism for elucidating the evolutionary pathway of the Candida and other genetic code changes is emphasised.

Candida↗
PubMed1993

Experimental endolymphatic hydrops and glycerol. Electrophysiologic study.

The object of the present study was to evaluate electrophysiologically the therapeutic effect of glycerol on the cochlear function of guinea pigs in which experimental hydrops had been surgically induced. Fifteen albino guinea pigs were used. Each animal was chronically implanted to follow the evolution of hearing. The experimental protocol considered 3 groups of guinea pigs (5 animals each). Group 1 received no drug treatment, while groups 2 and 3 were given glycerol orally at 0.75 and 0.50 g/kg of body weight once a day for 4 months. The audiograms of the animals treated with glycerol showed a statistically significant hearing improvement compared with the control group. Clinically, our results seem to support the view of those who favor the use of glycerol for the medical treatment of Meniere's disease at an early stage.

Animals↗
PubMed2005

Social cognitive evolution in captive foxes is a correlated by-product of experimental domestication.

Dogs have an unusual ability for reading human communicative gestures (e.g., pointing) in comparison to either nonhuman primates (including chimpanzees) or wolves . Although this unusual communicative ability seems to have evolved during domestication , it is unclear whether this evolution occurred as a result of direct selection for this ability, as previously hypothesized , or as a correlated by-product of selection against fear and aggression toward humans--as is the case with a number of morphological and physiological changes associated with domestication . We show here that fox kits from an experimental population selectively bred over 45 years to approach humans fearlessly and nonaggressively (i.e., experimentally domesticated) are not only as skillful as dog puppies in using human gestures but are also more skilled than fox kits from a second, control population not bred for tame behavior (critically, neither population of foxes was ever bred or tested for their ability to use human gestures) . These results suggest that sociocognitive evolution has occurred in the experimental foxes, and possibly domestic dogs, as a correlated by-product of selection on systems mediating fear and aggression, and it is likely the observed social cognitive evolution did not require direct selection for improved social cognitive ability.

Animals↗
PubMed1972

Directed evolution of metabolic pathways in microbial populations. I. Modification of the acid phosphatase pH optimum in S. cerevisiae.

An experimental system for directing the evolution of enzymes and metabolic pathways in microbial populations is proposed and an initial test of its power is provided.-The test involved an attempt to genetically enhance certain functional properties of the enzyme acid phosphatase in S. cerevisiae by constructing an environment in which the functional changes desired would be "adaptive". Naturally occurring mutations in a population of 10(9) cells were automatically and continuously screened, over 1,000 generations, for their effect on the efficiency (K(m)) and activity of acid phosphatase at pH 6, and for their effect on the efficiency of orthophosphate metabolism.-The first adaptation observed, M1, was due to a single mutational event that effected a 30% increase in the efficiency of orthophosphate metabolism. The second, M2, effected an adaptive shift in the pH optimum of acid phosphatase and an increase in its activity over a wide range of pH values (an increment of 60% at pH 6). M2 was shown to result from a single mutational event in the region of the acid phosphatase structural gene. The third, M3, effected cell clumping, an adaptation to the culture apparatus that had no effect on phosphate metabolism.-The power of this system for directing the evolution of enzymes and of metabolic pathways is discussed in terms of the kinetic properties of the experimental system and in terms of the results obtained.

Acid Phosphatase↗
PubMed2006

Possible binding sites for biotin stabilized water soluble Ag nanoparticles: an experimental and theoretical study.

The evolution of Ag nanoparticles by photochemical reduction method and the effect of biotin on their UV-Visible absorption spectrum were studied. Surface modification studies were carried out on chemically reduced Ag nanoparticles. ATR-FTIR studies showed that the biotin molecules bind with the surface of Ag nanoparticles through the oxygen of the carboxylate group. Theoretical calculations were carried out on the structure of the biotin and the silver complex of biotin (biotin(-)-Ag+) by optimizing their structures using density functional calculations with the B3LYP method using the LANL2DZ basis set. Theoretical calculations and experimental evidence favors a preferential binding of biotin molecule to Ag nanoparticles through the carboxylate group.

Binding Sites↗
PubMed2001

The Adaptive Evolution Database (TAED).

BACKGROUND: Developing an understanding of the molecular basis for the divergence of species lies at the heart of biology. The Adaptive Evolution Database (TAED) serves as a starting point to link events that occur at the same time in the evolutionary history (tree of life) of species, based upon coding sequence evolution analyzed with the Master Catalog. The Master Catalog is a collection of evolutionary models, including multiple sequence alignments, phylogenetic trees, and reconstructed ancestral sequences, for all independently evolving protein sequence modules encoded by genes in GenBank [1]. RESULTS: We have estimated from these models the ratio of nonsynonymous to synonymous nucleotide substitution (Ka/Ks), for each branch in their respective evolutionary trees of every subtree containing only chordata or only embryophyta proteins. Branches with high Ka/Ks values represent candidate episodes in the history of the family where the protein may have undergone positive selection, a phenomenon in molecular evolution where the mutant form of a gene must have conferred more fitness than the ancestral form. Such episodes are frequently associated with change in function. We have found that an unexpectedly large number of families (between 10 and 20% of those families examined) have at least one branch with a notably high Ka/Ks value (putative adaptive evolution). As a resource for biologists wishing to understand the interaction between protein sequences and the Darwinian processes that shape these sequences, we have collected these into The Adaptive Evolution Database (TAED). CONCLUSIONS: Placed in a phylogenetic perspective, candidate genes that are undergoing evolution at the same time in the same lineage can be viewed together. This framework based upon coding sequence evolution can be readily expanded to include other types of evolution. In its present form, TAED provides a resource for bioinformaticists interested in data mining and for experimental evolutionists seeking candidate examples of adaptive evolution for further experimental study.

Animals↗
PubMed2002

Correlation between transient shear experiments and structure evolution of aqueous foams.

This experimental work deals with rheological properties of aqueous foams and slip phenomena. Rheological measurements are performed on a stable foam with a parallel plate rheometer. When a constant shear rate is applied to foam, two regimes can be identified in the recorded stress vs time curve: a transient regime where the structure evolves and where the recorded stress varies, followed by a steady state regime where the stress is stabilized. Measurements, modeling, and elimination of the slip velocity are performed. Experiments with grooved surfaces allow elimination of slip at the wall. From measurements at two gaps with smooth surfaces, we use two slip correction methods and check their validity by a direct comparison with actual measurements (with grooved surfaces). A foam rheological equation can be determined from the measurements. Finally, using an optical device coupled with image analysis software, foam texture is investigated on the basis of its evolution with shear rate and time. Evolution of the bubbles size and arrangement into the gap with time of shearing are shown. The transient regime is identified as a regime where the intimate structure of the foam evolves. Slip velocity is also evidenced and measured with the visualization device.

Journal Article↗
PubMed1979

Successful treatment of reactive perforating collagenosis with tretinoin.

The clinical and histologic features of lifelong reactive perforating collagenosis in a twenty-five year old woman are presented. Experimentally induced lesions showed the expected evolution and regression, although total time for the experimental lesion to develop and regress was shorter than the time necessary for those occurring spontaneously. Therapeutic trials with a wide variety of topical and systemic medications were without benefit, with the exception of tretinoin cream (0.1 percent), which was regularly effective in reducing the total number of lesions present.

Administration, Topical↗
PubMed2004

Mathematical modeling of polymer-induced flocculation by charge neutralization.

A detailed mathematical model for flocculation of colloidal suspensions in presence of salts and polymers is described and validated. In former case, the classical DLVO theory, which accounts for relevant variables such as pH and salt concentration, is incorporated into a geometrically sectioned discrete population balance model. For processes involving polymers, flocculation via simple charge neutralization is modeled using a modified DLVO theory in which the effect of adsorbed polymer layers on van der Waals attraction is included. The fractal dimension of aggregates is obtained by dynamic scaling of experimental data for time evolution of mean aggregate size. The particle surface potential is assumed to be approximately equal to the zeta potential. The model predictions are in close agreement with experimental results for flocculation of colloidal hematite suspensions in the presence of KCl and polyacrylic acid at different concentrations. In particular, given values of model parameters, e.g., Hamaker constant, fractal dimension, surface potential, and thickness of adsorbed polymer layer, the model can realistically describe the kinetics of flocculation by a simple charge neutralization mechanism and track the evolution of floc size distribution. Representative examples of sensitivity of the flocculation model to perturbations in surface potential and fractal dimension and to modification in the DLVO theory for polymer-coated particles are included.

Journal Article↗
PubMed2000

Dipolar coupling information in multispin systems: application of a compensated REDOR NMR approach to inorganic phosphates. Rotational echo double resonance.

An experimental strategy has been developed for measuring multiple dipole-dipole interactions in inorganic compounds using the technique of rotational echo double resonance (REDOR) NMR. Geometry-independent information about the dipole couplings between the observe nuclear species S (arbitrary quantum number) and the heteronuclear species I (spin-12) can be conveniently obtained from the experimental curve of DeltaS/S(0) versus dipolar evolution time by limiting the analysis to the initial data range 0 < delta S/S(0) < 0.30. Numerical simulations have been carried out on a three-spin system of type SI(2) in order to assess the effect of the I-I homonuclear dipole-dipole coupling and the influence of experimental imperfections such as finite pulse length and misadjustments of the 180 degrees pulses applied to the I-spin species. The simulations show further that within the initial data range the effects of such misadjustments can be internally compensated by a modified sequence having an additional 180 degrees pulse on the I channel in the middle of the dipolar evolution periods. Experimental (27)Al¿(31)P¿ REDOR results on the multispin systems Al(PO(3))(3), AlPO(4), [AlPO(4)](12)(C(3)H(7))(4)NF, and Na(3)PO(4) confirm the general utility of this approach. Thus, for applications to unknown systems the compensation strategy obviates calibration procedures with model compounds.

Computer Simulation↗
PubMed1994

Genome evolution: between the nucleosome and the chromosome.

Intermediate between DNA sequences and broad patterns of karyotypic change there is a major gap in understanding genome structure and evolution. The gap is at the megabase level between genes and chromosomes. New methods for analyzing large DNA fragments cloned in yeast or bacterial vectors provide experimental access to genome evolution at the megabase level by enabling the assembly of megabase-size contiguous regions. Genome evolution at the megabase level can also be studied using high-resolution genetic maps. Rates and patterns of genome evolution in mammals (mouse versus humans) and Drosophila (D. virilis versus D. melanogaster) are compared and contrasted. Opportunities for research in genome evolution using the new technologies are enumerated and discussed.

Animals↗
PubMed1996

Evolution of nematode vulval fate patterning.

Nematodes provide a useful experimental system with which to investigate the evolution of development at the cellular, genetic, and molecular levels. Building on an understanding of vulval development in Caenorhabditis elegans, analysis of vulval development has been extended to a number of other species in three families of the Nematode phylum. Changes have occurred in most aspects of vulval development: alteration in the number of cells competent to participate in vulval development by changes in apoptosis; changes in the relative contributions of position-dependent predisposition toward particular fates (prepattern), inductive signaling and lateral signaling; and in the specific lineages generated by vulval precursor cells. Genetic analysis of one species in which only three vulval precursor cells are present identified a mutation that increases the number of vulva precursor cells toward that found in C. elegans.

Animals↗
PubMed1987

Cellular events in the development of valvular atherosclerotic lesions induced by experimental hypercholesterolemia.

The onset and evolution of ultrastructural changes in the cardiac valves induced by a cholesterol-rich diet were investigated in rabbit and hamster. In both animal models, the atrioventricular and sigmoid valves were comparably affected by lesions intermediary between fatty streak and fibrous plaque. The earliest detectable modification was the progressive accumulation in the subendothelium of extracellular liposome-like structures rich in unesterified cholesterol, associated with the proliferation of a basal lamina-like material. This was followed by the diapedesis of blood monocytes in the same location, which became macrophages increasingly loaded with lipid deposits. Resident interstitial cells accumulate lipids, as well. In advanced stages, the macrophage-derived foam cells clustered, deforming the valve leaflets. The resident macrophages accumulated lipids later and more slowly, while partly preserving their ultrastructure. The advanced lesions are characterized by marked stromal proliferation, massive intra- and extracellular deposition of lipids and cholesterol crystals and the appearance of a necrotic core. The salient findings of these studies were: (1) the appearance of extracellular liposomes as the earliest event in atherogenesis; (2) the capability of the valvular interstitial cells to accumulate lipids; and (3) the slow response of resident macrophages to the cholesterol-rich diet. The results revealed that hypercholesterolemia produces in the cardiac valves atherosclerotic lesions of an intermediate type, which can deform the leaflets thus altering their normal function.

Animals↗
PubMed1995

Relationship between diffusion-weighted MR images, cerebral blood flow, and energy state in experimental brain infarction.

The regional evolution of brain infarction was studied in Wistar rats submitted to remotely controlled thread occlusion of the middle cerebral artery. Occlusion was performed in the magnet of an NMR tomography system to allow continuous recording of diffusion-weighted images. After 30 min (n = 6) or 2 h (n = 9), cerebral blood flow was measured by [14C] iodoantipyrine autoradiography while the regional distribution of ATP, glucose, lactate, and pH was imaged using pictorial bioluminescence and fluoroscopic methods. In diffusion-weighted images, the hemispheric lesion area (HLA) at the level of caudate-putamen amounted to 54.2 +/- 10.9% after 30 min and to 67.0 +/- 5.9% after 2 h vascular occlusion. These areas corresponded to the regions exhibiting tissue acidosis (60.8 +/- 9.3% and 70.4 +/- 4.5%), but were clearly larger than those in which ATP was depleted (22.3 +/- 20.8% and 49.6 +/- 12.9% after 30 min and 2 h, respectively). The threshold of blood flow for the increase of signal intensity in diffusion-weighted images increased between 30 min and 2 h occlusion from 34 to 41 ml/100 g per minute, the threshold of acidosis from 40 to 47 ml/100 g per minute, and the threshold for ATP depletion from 13 to 19 ml/100 g per minute. Our study demonstrates that diffusion-weighted imaging detects both the core and the penumbra of the evolving infarction but is not able to differentiate between the two parts. It further shows that the ischemic lesion grows during the initial 2 h of vascular occlusion, and that the size of the infarct core increases more rapidly than that of the penumbra.

Adenosine Triphosphate↗
PubMed1998

Fast events in protein folding: the time evolution of primary processes.

Most experimental studies on the dynamics of protein folding have been confined to timescales of 1 ms and longer. Yet it is obvious that many phenomena that are obligatory elements of the folding process occur on much faster timescales. For example, it is also now clear that the formation of secondary and tertiary structures can occur on nanosecond and microsecond times, respectively. Although fast events are essential to, and sometimes dominate, the overall folding process, with a few exceptions their experimental study has become possible only recently with the development of appropriate techniques. This review discusses new approaches that are capable of initiating and monitoring the fast events in protein folding with temporal resolution down to picoseconds. The first important results from those techniques, which have been obtained for the folding of some globular proteins and polypeptide models, are also discussed.

Kinetics↗