Frustration and hydrophobicity interplay in protein folding and protein evolution

A lattice model is used to study mutations and compacting effects on protein folding rates and folding temperature. In the context of protein evolution, we address the question regarding the best scenario for a polypeptide chain to fold: either a fast nonspecific collapse followed by a slow rearrangement to form the native structure or a specific collapse from the unfolded state with the simultaneous formation of the native state. This question is investigated for optimized sequences, whose native state has no frustrated contacts between monomers, and also for mutated sequences, whose native state has some degree of frustration. It is found that the best scenario for folding may depend on the amount of frustration of the native structure. The implication of this result on protein evolution is discussed.     

Signal-to-noise ratio and frequency analysis of continuous loop averaging deconvolution (CLAD) of overlapping evoked potentials

In this study, a frequency domain formulation of continuous loop averaging deconvolution (CLAD) of overlapping evoked potentials is developed and applied for the extraction of transient responses from recordings obtained at high stimulation rates. This formulation allows for a faster execution of CLAD by using fast Fourier transform algorithms. The frequency characteristics of the deconvolution filter depends exclusively on the stimulus sequence and determines whether the noncoherent noise is amplified or attenuated in different frequencies. A formula for calculating the signal-to-noise ratio (SNR) achieved by the deconvolution process is developed. The newly developed theory and the methodology is applied to the extraction of the auditory brainstem and middle latency responses using various sequences. The effects of the sequence used and the number of sweeps averaged in ongoing acquisition on SNR are examined by using single sweep recordings. The results verify the deconvolution theory and the methodology and show its limitations. Depending on the frequency characteristics of the sequence, the deconvolution process can amplify or attenuate the EEG noise. Proper selection of the stimulus sequence can increase the SNR enhancement obtained with conventional averaging.     

Raman spectroscopy in astrobiology

Raman spectroscopy is proposed as a valuable analytical technique for planetary exploration because it is sensitive to organic and inorganic compounds and able to unambiguously identify key spectral markers in a mixture of biological and geological components; furthermore, sample manipulation is not required and any size of sample can be studied without chemical or mechanical pretreatment. NASA and ESA are considering the adoption of miniaturised Raman spectrometers for inclusion in suites of analytical instrumentation to be placed on robotic landers on Mars in the near future to search for extinct or extant life signals. In this paper we review the advantages and limitations of Raman spectroscopy for the analysis of complex specimens with relevance to the detection of bio- and geomarkers in extremophilic organisms which are considered to be terrestrial analogues of possible extraterrestial life that could have developed on planetary surfaces.     

Laser ablation inductively coupled plasma mass spectrometry for direct analysis of the spatial distribution of trace elements in metallurgical-grade silicon

The spatial distribution and concentration of impurities in metallurgical-grade silicon (MG-Si) samples (97–99% w/w Si) were investigated by use of laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS). The spatial resolution (120 μm) and low limits of detection (mg kg⁻¹) for quality assurance of such materials were studied in detail. The volume-dependent precision and accuracy of non-matrix-matched calibration for quantification of minor elements, using NIST SRM 610 (silicate standard), indicates that LA-ICP-MS is well suited to rapid process control of such materials. Quantitative results from LA-ICP-MS were compared with previously reported literature data obtained by use of ICP-OES and rf-GD-OES. In particular, the distribution of element impurities and their relationship to their different segregation coefficients in silicon is demonstrated. Dedicated to Professor Klaus G. Heumann     

Dyskinesis in Chagasic myocardium: centerline analysis of wall motion using cardiac-gated magnetic resonance images of mice

We report on the use of centerline analysis of cardiac-gated magnetic resonance images to measure wall motion abnormalities in mice infected with Trypanosoma cruzi. To our knowledge, this is the first report of segmental wall motion abnormalities in an animal model of Chagas' disease. Chagas' disease patients with severe cardiac involvement exhibit mild hypokinesis in an extensive region of the left ventricle and dyskinesis in the apical region. We observed dyskinetic segments in a similar region of the hearts of infected wild-type mice. Dyskinesis was not observed in infected mice lacking macrophage inflammatory protein-1alpha, a chemokine that may play an important role in the cardiac remodeling that is normally observed in mouse models of Chagas' disease and in human patients. This study aimed to demonstrate the utility of cardiac-gated magnetic resonance imaging and centerline analysis as a straightforward method for monitoring regional left ventricular wall motion in transgenic and/or diseased mice.     

Mixed multiplicities and the minimal number of generator of modules

Let (R,m) be a d-dimensional Noetherian local ring. In this work we prove that the mixed Buchsbaum-Rim multiplicity for a finite family of R-submodules of R^p of finite colength coincides with the Buchsbaum-Rim multiplicity of the module generated by a suitable superficial sequence, that is, we generalize for modules the well-known Risler-Teissier theorem. As a consequence, we give a new proof of a generalization for modules of the fundamental Rees’ mixed multiplicity theorem, which was first proved by Kirby and Rees in (1994, [8]). We use the above result to give an upper bound for the minimal number of generators of a finite colength R-submodule of R^p in terms of mixed multiplicities for modules, which generalize a similar bound obtained by Cruz and Verma in (2000, [5]) for m-primary ideals.     

Sufficient conditions for Benford’s law

We present two sufficient conditions for an absolutely continuous random variable to obey Benford’s law for the distribution of the first significant digit. These two sufficient conditions suggest that Benford’s law will not often be observed in everyday sets of numerical data. On the other hand, we recall that there are two processes by way of which a random variable can come close to following Benford’s law. The first of these is the multiplication of independent random variables and the second is the exponentiation of a random variable to a large power. Our working tool is the Poisson sum formula of Fourier analysis. Like the central limit theorem, Benford’s law has an asymptotic nature.