Single-molecule stochastic resonance

Stochastic resonance (SR) is a well known phenomenon in dynamical systems. It consists of the amplification and optimization of the response of a system assisted by stochastic noise. Here we carry out the first experimental study of SR in single DNA hairpins which exhibit cooperatively folding/unfolding transitions under the action of an applied oscillating mechanical force with optical tweezers. By varying the frequency of the force oscillation, we investigated the folding/unfolding kinetics of DNA hairpins in a periodically driven bistable free-energy potential. We measured several SR quantifiers under varied conditions of the experimental setup such as trap stiffness and length of the molecular handles used for single-molecule manipulation. We find that the signal-to-noise ratio (SNR) of the spectral density of measured fluctuations in molecular extension of the DNA hairpins is a good quantifier of the SR. The frequency dependence of the SNR exhibits a peak at a frequency value given by the resonance matching condition. Finally, we carried out experiments in short hairpins that show how SR might be useful to enhance the detection of conformational molecular transitions of low SNR.Comment: 11 pages, 7 figures, supplementary material (http://prx.aps.org/epaps/PRX/v2/i3/e031012/prx-supp.pdf

Comparison between the Torquato-Rintoul theory of the interface effect in composite media and elementary results

We show that the interface effect on the properties of composite media recently proposed by Torquato and Rintoul (TR) [Phys. Rev. Lett. 75, 4067 (1995)] is in fact elementary, and follows directly from taking the limit in the dipolar polarizability of a coated sphere: the TR ``critical values'' are simply those that make the dipolar polarizability vanish. Furthermore, the new bounds developed by TR either coincide with the Clausius-Mossotti (CM) relation or provide poor estimates. Finally, we show that the new bounds of TR do not agree particularly well with the original experimental data that they quote.Comment: 13 pages, Revtex, 8 Postscript figure

Improvement of heart rate recovery after exercise training in older people.

Twenty-four subjects aged 70 and older were retrospectively selected from our archives and screened for symptoms of cardiovascular disease. Baseline exercise test was negative for myocardial ischemia in all subjects. All subjects had completed an 8-week program, performed for a variety of indications and consisting of an aerobic physical training program including 30 minutes of cycling three times per week at 65% to 75% of maximum heart rate achieved at peak exercise test performed at enrollment, an educational intervention, dietary advice, and psychological support. All subjects underwent a cardiopulmonary exercise test (CPX) before and at the end of exercise training. At the end of each CPX, peak oxygen uptake (VO2peak), the rate of increase of ventilation per unit of increase of carbon dioxide production (VE/VCO2slope), and HRR were recorded. Twenty-five healthy subjects younger than 60 with no evidence of exercise-induced myocardial ischemia and not enrolled in any exercise training program were also retrospectively selected from our archives and used as a control group for analyzing HRR. These patients performed two exercise tests several weeks apart. Several studies have shown that changes in vagal tone can be used as an outcome tool that helps identify patients or subjects with or without cardiovascular disease at risk for a cardiovascular event, although the evidence of a prognostic value of HRR in older subjects without cardiovascular disease is rather poor. In this study, exercise training resulted in HRR improvement in healthy elderly subjects, suggesting that exercise training improves vagal/sympathetic balance in older subjects without cardiovascular disease as well. Whether the observed improvement in HRR may have long-term beneficial prognostic effects was not the aim of the study, although a beneficial effect might be postulated, in light of the Framingham dat

Fine structure of the age-chromospheric activity relation in solar-type stars I: The Ca II infrared triplet: Absolute flux calibration

Strong spectral lines are useful indicators of stellar chromospheric activity. They are physically linked to the convection efficiency, differential rotation, and angular momentum evolution and are a potential indicator of age. However, for ages > 2 Gyr, the age-activity relationship remains poorly constrained thus hampering its full application. The Ca II infrared triplet (IRT lines) has been poorly studied compared to classical chromospheric indicators. We report in this paper absolute chromospheric fluxes in the three Ca II IRT lines, based on a new calibration tied to up-to-date model atmospheres. We obtain the Ca II IRT absolute fluxes for 113 FGK stars from high signal-to-noise ratio and high-resolution spectra covering an extensive domain of chromospheric activity levels. We perform an absolute continuum flux calibration for the Ca II IRT lines anchored in atmospheric models calculated as an explicit function of effective temperatures, metallicity, and gravities avoiding the degeneracy present in photometric continuum calibrations based solely on color indices. The internal uncertainties achieved for continuum absolute flux calculations are 2\% of the solar chromospheric flux, one order of magnitude lower than photometric calibrations. We gauge the impact of observational errors on the final chromospheric fluxes due to the absolute continuum flux calibration and find that $T_{\rm eff}$ uncertainties are properly mitigated by the photospheric correction leaving [Fe/H] as the dominating factor in the chromospheric flux uncertainty. Across the FGK spectral types, the Ca II IRT lines are sensitive to chromospheric activity. The reduced internal uncertainties reported here enable us to build a new chromospheric absolute flux scale and explore the age-activity relation from the active regime down to very low activity levels and a wide range of $T_{\rm eff}$, mass, [Fe/H], and age.Comment: 12 pages, 12 figures, 6 tables, Accepted for publication on A&A. Abstract edited to comply with arXiv standards regarding the number of character

Theory of Weak Hypernuclear Decay

The weak nonmesonic decay of Lambda-hypernuclei is studied in the context of a one-meson-exchange model. Predictions are made for the decay rate, p/n stimulation ratio and the asymmetry in polarized hypernuclear decay.Comment: Standard 41 page Latex fil

Effects produced by breach morphology on the outflow discharge due to the overtopping of earthfill dams

River hydrodynamicsUnsteady open channel flow and dam brea

The pgip family in soybean and three other legume species: evidence for a birth-and-death model of evolution

Polygalacturonase-inhibiting proteins (PGIPs) are leucine-rich repeat (LRR) plant cell wall glycoproteins involved in plant immunity. They are typically encoded by gene families with a small number of gene copies whose evolutionary origin has been poorly investigated. Here we report the complete characterization of the full complement of the pgip family in soybean (Glycine max [L.] Merr.) and the characterization of the genomic region surrounding the pgip family in four legume species. Results: BAC clone and genome sequence analyses showed that the soybean genome contains two pgip loci. Each locus is composed of three clustered genes that are induced following infection with the fungal pathogen Sclerotinia sclerotiorum (Lib.) de Bary, and remnant sequences of pgip genes. The analyzed homeologous soybean genomic regions (about 126 Kb) that include the pgip loci are strongly conserved and this conservation extends also to the genomes of the legume species Phaseolus vulgaris L., Medicago truncatula Gaertn. and Cicer arietinum L., each containing a single pgip locus. Maximum likelihood-based gene trees suggest that the genes within the pgip clusters have independently undergone tandem duplication in each species. Conclusions: The paleopolyploid soybean genome contains two pgip loci comprised in large and highly conserved duplicated regions, which are also conserved in bean, M. truncatula and C. arietinum. The genomic features of these legume pgip families suggest that the forces driving the evolution of pgip genes follow the birth-and-death model, similar to that proposed for the evolution of resistance (R) genes of NBS-LRR-type