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  • 1
    Publication Date: 2011-12-19
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 2
    Publication Date: 2012-01-05
    Description: A one-state downhill protein folding process is barrierless at all conditions, resulting in gradual melting of native structure that permits resolving folding mechanisms step-by-step at atomic resolution. Experimental studies of one-state downhill folding have typically focused on the thermal denaturation of proteins that fold near the speed limit (ca. 106 s-1) at their unfolding temperature, thus being several orders of magnitude too fast for current single-molecule methods, such as single-molecule FRET. An important open question is whether one-state downhill folding kinetics can be slowed down to make them accessible to single-molecule approaches without turning the protein into a conventional activated folder. Here we address this question on the small helical protein BBL, a paradigm of one-state downhill thermal (un)folding. We decreased 200-fold the BBL folding-unfolding rate by combining chemical denaturation and low temperature, and carried out free-diffusion single-molecule FRET experiments with 50-μs resolution and maximal photoprotection using a recently developed Trolox-cysteamine cocktail. These experiments revealed a single conformational ensemble at all denaturing conditions. The chemical unfolding of BBL was then manifested by the gradual change of this unique ensemble, which shifts from high to low FRET efficiency and becomes broader at increasing denaturant. Furthermore, using detailed quantitative analysis, we could rule out the possibility that the BBL single-molecule data are produced by partly overlapping folded and unfolded peaks. Thus, our results demonstrate the one-state downhill folding regime at the single-molecule level and highlight that this folding scenario is not necessarily associated with ultrafast kinetics.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 3
    Publication Date: 2014-05-01
    Print ISSN: 0098-3004
    Electronic ISSN: 1873-7803
    Topics: Geosciences , Computer Science
    Published by Elsevier
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  • 4
    Publication Date: 2017-04-04
    Description: We present a coupled fluid-dynamic and electromagnetic model for volcanic ash plumes. In a forward approach, the model is able to simulate the plume dynamics from prescribed input flow conditions and generate the corresponding synthetic thermal infrared (TIR) image, allowing a comparison with field-based observations. An inversion procedure is then developed to retrieve ash plume properties from TIR images. The adopted fluid-dynamic model is based on a one-dimensional, stationary description of a self-similar (top-hat) turbulent plume, for which an asymptotic analytical solution is obtained. The electromagnetic emission/absorption model is based on the Schwarzschild's equation and on Mie's theory for disperse particles, assuming that particles are coarser than the radiation wavelength and neglecting scattering. In the inversion procedure, model parameters space is sampled to find the optimal set of input conditions which minimizes the difference between the experimental and the synthetic image. Two complementary methods are discussed: the first is based on a fully two-dimensional fit of the TIR image, while the second only inverts axial data. Due to the top-hat assumption (which overestimates density and temperature at the plume margins), the one-dimensional fit results to be more accurate. However, it cannot be used to estimate the average plume opening angle. Therefore, the entrainment coefficient can only be derived from the two-dimensional fit. Application of the inversion procedure to an ash plume at Santiaguito volcano (Guatemala) has allowed us to retrieve the main plume input parameters, namely the initial radius $b_0$, velocity $U_0$, temperature $T_0$, gas mass ratio $n_0$, entrainment coefficient $k$ and their related uncertainty. Moreover, coupling with the electromagnetic model, we have been able to obtain a reliable estimate of the equivalent Sauter diameter $d_s$ of the total particle size distribution. The presented method is general and, in principle, can be applied to the spatial distribution of particle concentration and temperature obtained by any fluid-dynamic model, either integral or multidimensional, stationary or time-dependent, single or multiphase. The method discussed here is fast and robust, thus indicating potential for applications to real-time estimation of ash mass flux and particle size distribution, which is crucial for model-based forecasts of the volcanic ash dispersal process.
    Description: Istituto Nazionale di Geofisica e Vulcanologia; MeMoVolc ESF Network Research Programme;
    Description: Published
    Description: 129–147
    Description: 3V. Dinamiche e scenari eruttivi
    Description: JCR Journal
    Description: open
    Keywords: Volcanic ash plume ; Infrared imaging ; One-dimensional model ; Thermal camera ; Inverse model ; Grain size ; 05. General::05.01. Computational geophysics::05.01.03. Inverse methods
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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