Initial photophysical characterization of the proteorhodopsin optical proton sensor (PROPS)

Fluorescence is not frequently used as a tool for investigating the photocycles of rhodopsins, largely because of the low quantum yield of the retinal chromophore. However, a new class of genetically encoded voltage sensors is based upon rhodopsins and their fluorescence. The first such sensor reported in the literature was the proteorhodopsin optical proton sensor (PROPS), which is capable of indicating membrane voltage changes in bacteria by means of changes in fluorescence. However, the properties of this fluorescence, such as its lifetime decay components and its origin in the protein photocycle, remain unknown. This paper reports steady-state and nanosecond time-resolved emission of this protein expressed in two strains of Escherichia coli, before and after membrane depolarization. The voltage-dependence of a particularly long lifetime component is established. Additional work to improve quantum yields and improve the general utility of PROPS is suggested

Bilepton Production at Hadron Colliders

We examine, as model-independently as possible, the production of bileptons at hadron colliders. When a particular model is necessary or useful, we choose the 3-3-1 model. We consider a variety of processes: q anti-q -> Y^{++} Y^{--}, u anti-d -> Y^{++} Y^{-}, anti-u d -> Y^+ Y^{--}, q anti-q -> Y^{++} e^{-} e^{-}, q anti-q -> phi^{++} phi^{--}, u anti-d -> -> phi^{++} phi^{-}, and anti-u d -> phi^{+} phi^{--}, where Y and phi are vector and scalar bileptons, respectively. Given the present low-energy constraints, we find that at the Tevatron, vector bileptons are unobservable, while light scalar bileptons (M_phi <= 300 GeV) are just barely observable. At the LHC, the reach is extended considerably: vector bileptons of mass M_Y <= 1 TeV are observable, as are scalar bileptons of mass M_phi <= 850 GeV.Comment: 20 pages (LATEX), 7 figures, minor modification

A Computational Method for the Rate Estimation of Evolutionary Transpositions

Genome rearrangements are evolutionary events that shuffle genomic architectures. Most frequent genome rearrangements are reversals, translocations, fusions, and fissions. While there are some more complex genome rearrangements such as transpositions, they are rarely observed and believed to constitute only a small fraction of genome rearrangements happening in the course of evolution. The analysis of transpositions is further obfuscated by intractability of the underlying computational problems. We propose a computational method for estimating the rate of transpositions in evolutionary scenarios between genomes. We applied our method to a set of mammalian genomes and estimated the transpositions rate in mammalian evolution to be around 0.26.Comment: Proceedings of the 3rd International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO), 2015. (to appear

Differential toxicity of gold-doxorubicin in cancer cells vs. cardiomyocytes as measured by real-time growth assays and fluorescence lifetime imaging microscopy (FLIM)

The kinetics of toxicity of doxorubicin (Dox) and gold nanoparticle-conjugated doxorubicin (Au-Dox) were investigated in cultured B16 melanoma cells and cardiomyocytes using real-time cell-growth imaging. Both bolus exposure and continuous exposure were used. Modeling of the growth curve dynamics suggested patterns of uptake and/or expulsion of the drug that were different for the different cell lines and exposures. Dox alone in B16 cells fit to a model of slow drug buildup, whereas Au-Dox fit to a pattern of initial high drug efficacy followed by a decrease. In cardiomyocytes, the best fit was to a model of increasing drug concentration which then began to decrease, consistent with breakdown of the doxorubicin in solution. Cardiomyocytes were more sensitive than B16 cells to Dox alone (IC_(50) 123 ± 2 nM vs. 270 ± 2 nM with continuous exposure), but were dramatically less sensitive to Au-Dox (IC_(50) 1 ± 0.1 μM vs. 58 ± 5 nM with continuous exposure). Bolus exposure for 40 min led to significant cell death in B16 cells but not in cardiomyocytes. Fluorescence lifetime imaging (FLIM) showed different patterns of uptake of Au-Dox in the two cell types that explained the differential toxicity. While Au-Dox concentrated in the nuclei of B16 cells, it remained endosomal in cardiomyocytes. These results suggest that stable conjugates of nanoparticles to doxorubicin may be useful for treating resistant cancers while sparing healthy tissue

Use of dyes to increase phase contrast for biological holographic microscopy

Holographic microscopy is an emerging biological technique that provides amplitude and quantitative phase imaging, though the contrast provided by many cell types and organelles is low, and until now no dyes were known that increased contrast. Here we show that the metallocorrole Ga(tpfc)(SO_3H)_2, which has a strong Soret band absorption, increases contrast in both amplitude and phase and facilitates tracking of Escherichia coli with minimal toxicity. The change in phase contrast may be calculated from the dye-absorbance spectrum using the Kramers–Kronig relations, and represents a general principle that may be applied to any dye or cell type. This enables the use of holographic microscopy for all applications in which specific labeling is desired

The stability of modified gravity models

Conditions for the existence and stability of de Sitter space in modified gravity are derived by considering inhomogeneous perturbations in a gauge-invariant formalism. The stability condition coincides with the corresponding condition for stability with respect to homogeneous perturbations, while this is not the case in scalar-tensor gravity. The stability criterion is applied to various modified gravity models of the early and the present universe.Comment: 22 pages, LaTeX, to appear in Phys. Rev.

TRIDENT: an Infrared Differential Imaging Camera Optimized for the Detection of Methanated Substellar Companions

A near-infrared camera in use at the Canada-France-Hawaii Telescope (CFHT) and at the 1.6-m telescope of the Observatoire du Mont-Megantic is described. The camera is based on a Hawaii-1 1024x1024 HgCdTe array detector. Its main feature is to acquire three simultaneous images at three wavelengths across the methane absorption bandhead at 1.6 microns, enabling, in theory, an accurate subtraction of the stellar point spread function (PSF) and the detection of faint close methanated companions. The instrument has no coronagraph and features fast data acquisition, yielding high observing efficiency on bright stars. The performance of the instrument is described, and it is illustrated by laboratory tests and CFHT observations of the nearby stars GL526, Ups And and Chi And. TRIDENT can detect (6 sigma) a methanated companion with delta H = 9.5 at 0.5" separation from the star in one hour of observing time. Non-common path aberrations and amplitude modulation differences between the three optical paths are likely to be the limiting factors preventing further PSF attenuation. Instrument rotation and reference star subtraction improve the detection limit by a factor of 2 and 4 respectively. A PSF noise attenuation model is presented to estimate the non-common path wavefront difference effect on PSF subtraction performance.Comment: 41 pages, 16 figures, accepted for publication in PAS