Showing papers in "Biophysical Journal in 2006"

TL;DR: A new method for fluorescence imaging has been developed that can obtain spatial distributions of large numbers of fluorescent molecules on length scales shorter than the classical diffraction limit, and suggests a means to address a significant number of biological questions that had previously been limited by microscope resolution.

TL;DR: A hydrodynamic model is provided for near a solid boundary, Escherichia coli swims in clockwise circular motion and the radius of curvature of the trajectory is observed to increase with the length of the bacterium body.

TL;DR: An analysis scheme is developed that casts single-molecule time-binned FRET trajectories as hidden Markov processes, allowing one to determine, based on probability alone, the most likely FRET-value distributions of states and their interconversion rates while simultaneously determining the mostlikely time sequence of underlying states for each trajectory.

TL;DR: Data emphasize the potential importance of material substrate stiffness as a design feature in the next generation of biomaterials intended to promote neuronal regeneration across a lesion in the central nervous system while simultaneously minimizing the ingrowth of astrocytes into the lesion area.

TL;DR: A simple electrostatic method is presented and applied to the Fenna-Matthews-Olson (FMO) complex of Prosthecochloris aestuarii and Chlorobium tepidum, allowing for the first time to reach agreement between experimental optical spectra and calculations based on transition energies of pigments that are calculated in large part independently, rather than fitted to the spectra.

TL;DR: These studies reveal that viscoelastic recoil of individual stress fibers after laser severing is partially slowed by inhibition of Rho-associated kinase and virtually abolished by direct inhibition of myosin light chain kinase, and they confirm that the ECM is effectively a physical extension of the cell and cytoskeleton.

TL;DR: The potential application of confocal micro-Raman spectroscopy as a clinical tool for single cancer cell detection based on intrinsic biomolecular signatures is demonstrated, therefore eliminating the need for exogenous fluorescent labeling.

TL;DR: A new method for selective laser killing of bacteria targeted with light-absorbing gold nanoparticles conjugated with specific antibodies is described, and the multifunctional photothermal (PT) microscope/spectrometer provides a real-time assessment of this new therapeutic intervention.

TL;DR: This communication examines an extension to a two-dimensional distribution of sedimentation coefficient and frictional ratio, c(s,f(r), which is representative of a more general set of size-and-shape distributions, including mass-Stokes radius distributions, c (M,R(S)), and sedimentation coefficients-molar mass distributions c( s,M).

TL;DR: This work demonstrates a simple method for extending AFM mechanical property measurements to nonadherent cells and characterizes properties of human leukemia cells that may contribute to leukostasis, a complication associated with acute leukemia.

TL;DR: This study characterize, by biochemical and optical analysis, the critical structures underlying SHG from the complex muscle sarcomere and finds an orientation for the elemental harmonophore that corresponds well to the pitch of the myosin rod alpha-helix along the thick filament axis.

TL;DR: The results suggest that tissue formation and maintenance is regulated by differential mechanical signals between cell-cell and cell-substrate interactions, which in turn elicit differential contractile forces and adhesions to determine the preferred direction of cell migration and association.

TL;DR: It is found that the nonspherical collapse of bubbles near to the boundary is responsible for cell detachment, and high-speed photography reveals that a wall bounded flow leads to the detachment of cells.

TL;DR: A class of models with which the assembly of particles into T1 capsidlike objects using Newtonian dynamics is simulated, allowing for statistically meaningful conclusions about capsid assembly processes.

TL;DR: In this paper, the authors presented theoretical analysis and experimental data for the use of resonant waveguide grating (RWG) biosensors to characterize stimulation-mediated cell responses including signaling.

TL;DR: The present results indicate that a strategy based on FEP/MD simulations of a reduced GSBP atomic model sampled with conformational, translational, and orientational restraining potentials can be computationally inexpensive and accurate.

TL;DR: The ascending stepwise method proposed here identifies the relevance of each wavenumber of the infrared spectrum for the prediction of a given secondary structure and yields a particularly simple method for computing the secondary structure content.

TL;DR: The recently developed CMAP correction to the CHARMM22 force field (C22) is evaluated from 25 ns molecular dynamics simulations on hen lysozyme and yields improved dynamical and structural properties of proteins in molecular dynamics simulation.

TL;DR: In this article, the effects of short-chain alcohols, methanol and ethanol, on two different fully hydrated lipid bilayer systems (POPC and DPPC) in the fluid phase at 323 K were investigated.

TL;DR: The generation of a FRET-based calcium biosensor employing troponin C as calcium-binding moiety that is fast, is stable in imaging experiments, and shows a significantly enhanced fluorescence change is reported.

TL;DR: This study supports contention, based on mathematical modeling, that cooperativity in apoptosome formation is critically important for determining the healthy responses to apoptotic stimuli, and helps define the roles of Bax, Bcl-2, and MPTP vis-à-vis apoptosomes formation.

TL;DR: In aerated solution, riboflavin and FMN generate more singlet oxygen than exogenous photosensitizers such as Photofrin, which are applied in photodynamic therapy to kill cancer cells.

TL;DR: The results suggest that NMM-IIA is involved in generating a coherent cytoplasmic contractile force from one side of the cell to the other through the cross-linking and the contraction of dorsal actin filaments.

TL;DR: It turns out that an exceptionally high strength of the spider dragline silk can be obtained by decreasing the size of the crystalline nodes in the polypeptide chain network while increasing the degree of orientation of thecrystalline nodes.

TL;DR: Frequency-domain analysis yields an insight into the dependence of the voltage inducement on the electric and geometric parameters characterizing the cell and its vicinity, and it is shown that at sufficiently high field frequencies, for a range of parameter values the voltage induced on the organelle membrane can indeed exceed the voltage inducing on the cell membrane.

TL;DR: This study uses the TBI theory to investigate how the metal ions affect the folding stability of B-DNA helices, and quantitatively evaluates the effects of ion concentration, ion size and valence, and helix length on the helix stability.

TL;DR: By close analysis of the force spectroscopy curves, additional information can be obtained about the molecules and their bonds to the native constructs and how they appear in single molecule forceSpectroscopy measurements are found.

TL;DR: The approach provides a theoretical framework in which to understand both the universality and particularity of cell cycle regulation, and to construct, in modular fashion, increasingly complex models of the networks controlling cell growth and division.

TL;DR: This work presents a complete map of all the gas migration pathways inside Mb for small gas ligands (O2, NO, CO, and Xe), and introduces a computational approach for studying gas migration, which is called implicit ligand sampling.

TL;DR: These findings illuminate the physical principles of membrane protein association due to chemically nonspecific interactions in fluid lipid bilayers and yield a conceptual framework for understanding how the tightly regulated lipid compositions of cellular membranes influence their protein-mediated functions.