Large circular and linear rDNA plasmids in Candida albicans

Although plasmids containing rRNA genes (rDNA) are commonly found in fungi, they have not been reported in Candida. We discovered that the yeast opportunistic pathogen Candida albicans contains two types of rDNA plasmids which differ in their structure and number of rDNA repeats. A large circular plasmid of unknown size consists of multiple rDNA repeats, each of which includes an associated autonomously replicating sequence (ARS). In contrast, a linear plasmid, which is represented by a series of molecules with a spread of sizes ranging from 50-150 kbp, carries a limited number of rDNA units and associated ARSs, as well as telomeres. The number of linear plasmids per cell is growth cycle-dependent, accumulating in abundance in actively growing cells. We suggest that the total copy number of rDNA is better controlled when a portion of copies are on a linear extrachromosomal plasmid, thus allowing a rapid shift in the number of corresponding genes and, as a result, better adaptation to the environment. This is the first report of a linear rDNA plasmid in yeast, as well as of the coexistence of circular and linear plasmids. In addition, this is a first report of naturally occurring plasmids in C. albicans.     

Model studies for molecular recognition of carbonic anhydrase and carboxypeptidase

Model studies using Zn(2+) complexes of various derivatives of macrocyclic triamines ([12]aneN(3)) and tetraamines (cyclen) have been found to be useful in elucidating and understanding the intrinsic properties of substrate or inhibitor recognition by zinc ions at the active centers of carbonic anhydrase and carboxypeptidase.     

One- vs two-photon processes in the photochemistry of 1,n-dihaloalkanes

1,n-Dihaloalkanes can be photochemical precursors of n-haloalkyl and -allyl radicals and cations, which are generated via one-photon processes. Time-resolved techniques have provided considerable information on the structures and reactivity of these intermediates. Low-temperature matrix isolation, two-laser two-color, laser-drop, and laser-jet photolysis techniques are powerful tools to photolyze haloalkyl radicals and to generate carbenes or biradicals via two-photon processes.     

Navigator motion correction of diffusion weighted 3D SSFP imaging

Diffusion weighted (DW) 3D steady state MR (SSFP) head imaging technique using navigator echo’s motion correction is presented. This new scheme enables acquisition of DW images even at regions where severe susceptibility is present. Another advantage is the moderate gradient performance requirements. DW imaging methods are sensitive to any kind of motion, thus, most of these methods might suffer from bulk motion artifacts. The common solution to avoid motion artifacts in a 2D DW SSFP acquisition is multi averaging. To avoid the time consuming multi averaging, the new scheme, described here, utilizes navigator echo’s motion correction to remove respiratory bulk motion artifacts. At some brain regions, where the motion is governed by blood or CSF pulsation, the navigator motion correction fails. At these regions the correction is an interpolation of corrections from regions where the motion is particularly of the respiratory type. The combination of a 3D sequence with a navigator echo motion correction, enables acquisition of 10 DW slices within a time of 0:50-2:30 min.     

The potential for phytoremediation of MTBE

This paper examines the potential for phytoremediation of MTBE, a gasoline additive that has become a prevalent and persistent groundwater pollutant, due to its' non-sorbing and non-reactive nature in water. A novel experimental design is developed to measure plant uptake and transpiration of MTBE from hydroponic systems, separating these processes from passive volatilization of the chemical. Plant uptake experiments indicate 30% reduction in MTBE mass in water over a 1-week period by small poplar saplings, at both high (1600 ppb) and low (300 ppb) MTBE concentrations. Active plant uptake of MTBE was approximately double that achieved by passive volatilization through a balsa wood control. MTBE was detected in biomass at the 100-ppb level, confirming passage of MTBE through the plant. A mass balance indicated that MTBE was largely untransformed during transport through the small poplar saplings to air. The high degree of MTBE removal achieved by small plants over a short period of time indicates great potential for successful phytoremediation of subsurface MTBE plumes using poplar trees. The fraction of MTBE removed from the hydroponic systems correlated well with volume of water transpired by the plants; the correlation enabled computation of the MTBE transpiration stream concentration factor of approximately 1, an important parameter for the design of engineered MTBE phytoremediation systems.     

MR imaging of baker cysts—prevalence and relation to internal derangements of the knee

Rationale and objectives: To evaluate the prevalence of popliteal cysts in patients studied with magnetic resonance (MR) imaging. Cyst presence and volume will be related to other internal derangement of the knee.Materials and methods: Three hundred and eighty-two consecutive patients with a MR study of the knee were included. Images were obtained in the three spatial orthogonal planes and evaluated through consensus. Four categories were established for the Baker cyst and synovial fluid (absence, minimum, moderate and massive), and the presence of meniscal, cruciate ligaments and cartilage lesions were recorded. Statistical analysis was carried out with bivariate analysis (χ² of Pearson and Gamma tests).Results: From the 382 patients, 145 had Baker cysts (38.0%). Cyst content was minimum in 99, moderate in 34 and massive in 12. Joint effusion was observed in 269 patients (70.4%), being minimal in 140 patients, moderate in 119 and massive in ten. Meniscal lesions were observed in 195 patients (51%), while 58 patients (15%) had a cruciate ligament lesion. Baker cyst has a statistically significant direct relationship with the presence and quantity of synovial fluid (P=0.002) and with the presence and type of meniscal lesion (P=0.01) but not with cruciate ligaments or cartilage lesions.Conclusions: The prevalence of Baker cysts in MR studies of the knee is high. Its presence and volume are related to the quantity of synovial fluid, and to the presence and severity of meniscal lesions.     

Cells of the yeast Saccharomyces cerevisiae are transformable by DNA under non-artificial conditions

Transformants of bakers' yeast (Saccharomyces cerevisiae) can be generated when non-growing cells metabolize sugars (without additional nutrients) in the presence of plasmid DNA. These results suggest that there is a mechanism by which DNA can naturally be taken up by the yeast cell. Natural transformation does not take place in common complete or minimal yeast culture media such as YPD and YNB. The starvation conditions used in our experiments thus seem to be an important prerequisite for such transformation events.     

Roughness and Light Scattering of Ion-Beam-Sputtered Fluoride Coatings for 193 nm

Scattering characteristics of multilayer fluoride coatings for 193 nm deposited by ion beam sputtering and the related interfacial roughnesses are investigated. Quarter- and half-wave stacks of MgF(2) and LaF(3) with increasing thickness are deposited onto CaF(2) and fused silica and are systematically characterized. Roughness measurements carried out by atomic force microscopy reveal the evolution of the power spectral densities of the interfaces with coating thickness. Backward-scattering measurements are presented, and the results are compared with theoretical predictions that use different models for the statistical correlation of interfacial roughnesses.     

A simple and fast TEM preparation method utilizing the pre-orientation in plate-like, needle-shaped and tubular materials

In order to observe anisotropically grown crystalline materials perpendicular to a certain preferred orientation, a standard cross-sectional TEM preparation method has been modified. The material is embedded in an organic epoxy resin between two Si-wafers. Plates, needles and tubes lay flat inside the resulting sandwich, which is then cut into slices perpendicular to the wafers. The slices are thinned by mechanical abrading and, finally, by ion milling. Crystals located near the central hole are electron-transparent, and their orientation often allows for an observation along the desired direction. The usefulness of this procedure is demonstrated on the examples of high-Tc superconductors and vanadium oxide nanotubes.     

Linkage problem, distribution estimation, and Bayesian networks

This paper proposes an algorithm that uses an estimation of the joint distribution of promising solutions in order to generate new candidate solutions. The algorithm is settled into the context of genetic and evolutionary computation and the algorithms based on the estimation of distributions. The proposed algorithm is called the Bayesian Optimization Algorithm (BOA). To estimate the distribution of promising solutions, the techniques for modeling multivariate data by Bayesian networks are used. The BOA identifies, reproduces, and mixes building blocks up to a specified order. It is independent of the ordering of the variables in strings representing the solutions. Moreover, prior information about the problem can be incorporated into the algorithm, but it is not essential. First experiments were done with additively decomposable problems with both nonoverlapping as well as overlapping building blocks. The proposed algorithm is able to solve all but one of the tested problems in linear or close to linear time with respect to the problem size. Except for the maximal order of interactions to be covered, the algorithm does not use any prior knowledge about the problem. The BOA represents a step toward alleviating the problem of identifying and mixing building blocks correctly to obtain good solutions for problems with very limited domain information.