12,638 research outputs found
Turing jumps through provability
Fixing some computably enumerable theory , the
Friedman-Goldfarb-Harrington (FGH) theorem says that over elementary
arithmetic, each formula is equivalent to some formula of the form
provided that is consistent. In this paper we give various
generalizations of the FGH theorem. In particular, for we relate
formulas to provability statements which
are a formalization of "provable in together with all true
sentences". As a corollary we conclude that each is
-complete. This observation yields us to consider a recursively
defined hierarchy of provability predicates which look a lot
like except that where calls upon the
oracle of all true sentences, the recursively
calls upon the oracle of all true sentences of the form . As such we obtain a `syntax-light' characterization of
definability whence of Turing jumps which is readily extended
beyond the finite. Moreover, we observe that the corresponding provability
predicates are well behaved in that together they provide a
sound interpretation of the polymodal provability logic
Tolman wormholes violate the strong energy condition
For an arbitrary Tolman wormhole, unconstrained by symmetry, we shall define
the bounce in terms of a three-dimensional edgeless achronal spacelike
hypersurface of minimal volume. (Zero trace for the extrinsic curvature plus a
"flare-out" condition.) This enables us to severely constrain the geometry of
spacetime at and near the bounce and to derive general theorems regarding
violations of the energy conditions--theorems that do not involve geodesic
averaging but nevertheless apply to situations much more general than the
highly symmetric FRW-based subclass of Tolman wormholes. [For example: even
under the mildest of hypotheses, the strong energy condition (SEC) must be
violated.] Alternatively, one can dispense with the minimal volume condition
and define a generic bounce entirely in terms of the motion of test particles
(future-pointing timelike geodesics), by looking at the expansion of their
timelike geodesic congruences. One re-confirms that the SEC must be violated at
or near the bounce. In contrast, it is easy to arrange for all the other
standard energy conditions to be satisfied.Comment: 8 pages, ReV-TeX 3.
Time-resolved FRET fluorescence spectroscopy of visible fluorescent protein pairs
Förster resonance energy transfer (FRET) is a powerful method for obtaining information about small-scale lengths between biomacromolecules. Visible fluorescent proteins (VFPs) are widely used as spectrally different FRET pairs, where one VFP acts as a donor and another VFP as an acceptor. The VFPs are usually fused to the proteins of interest, and this fusion product is genetically encoded in cells. FRET between VFPs can be determined by analysis of either the fluorescence decay properties of the donor molecule or the rise time of acceptor fluorescence. Time-resolved fluorescence spectroscopy is the technique of choice to perform these measurements. FRET can be measured not only in solution, but also in living cells by the technique of fluorescence lifetime imaging microscopy (FLIM), where fluorescence lifetimes are determined with the spatial resolution of an optical microscope. Here we focus attention on time-resolved fluorescence spectroscopy of purified, selected VFPs (both single VFPs and FRET pairs of VFPs) in cuvette-type experiments. For quantitative interpretation of FRET–FLIM experiments in cellular systems, details of the molecular fluorescence are needed that can be obtained from experiments with isolated VFPs. For analysis of the time-resolved fluorescence experiments of VFPs, we have utilised the maximum entropy method procedure to obtain a distribution of fluorescence lifetimes. Distributed lifetime patterns turn out to have diagnostic value, for instance, in observing populations of VFP pairs that are FRET-inactiv
Production and decay of evolving horizons
We consider a simple physical model for an evolving horizon that is strongly
interacting with its environment, exchanging arbitrarily large quantities of
matter with its environment in the form of both infalling material and outgoing
Hawking radiation. We permit fluxes of both lightlike and timelike particles to
cross the horizon, and ask how the horizon grows and shrinks in response to
such flows. We place a premium on providing a clear and straightforward
exposition with simple formulae.
To be able to handle such a highly dynamical situation in a simple manner we
make one significant physical restriction, that of spherical symmetry, and two
technical mathematical restrictions: (1) We choose to slice the spacetime in
such a way that the space-time foliations (and hence the horizons) are always
spherically symmetric. (2) Furthermore we adopt Painleve-Gullstrand coordinates
(which are well suited to the problem because they are nonsingular at the
horizon) in order to simplify the relevant calculations.
We find particularly simple forms for surface gravity, and for the first and
second law of black hole thermodynamics, in this general evolving horizon
situation. Furthermore we relate our results to Hawking's apparent horizon,
Ashtekar et al's isolated and dynamical horizons, and Hayward's trapping
horizons. The evolving black hole model discussed here will be of interest,
both from an astrophysical viewpoint in terms of discussing growing black
holes, and from a purely theoretical viewpoint in discussing black hole
evaporation via Hawking radiation.Comment: 25 pages, uses iopart.cls V2: 5 references added; minor typos; V3:
some additional clarifications, additional references, additional appendix on
the Viadya spacetime. This version published in Classical and Quiantum
Gravit
Signature change events: A challenge for quantum gravity?
Within the framework of either Euclidian (functional-integral) quantum
gravity or canonical general relativity the signature of the manifold is a
priori unconstrained. Furthermore, recent developments in the emergent
spacetime programme have led to a physically feasible implementation of
signature change events. This suggests that it is time to revisit the sometimes
controversial topic of signature change in general relativity. Specifically, we
shall focus on the behaviour of a quantum field subjected to a manifold
containing regions of different signature. We emphasise that, regardless of the
underlying classical theory, there are severe problems associated with any
quantum field theory residing on a signature-changing background. (Such as the
production of what is naively an infinite number of particles, with an infinite
energy density.) From the viewpoint of quantum gravity phenomenology, we
discuss possible consequences of an effective Lorentz symmetry breaking scale.
To more fully understand the physics of quantum fields exposed to finite
regions of Euclidean-signature (Riemannian) geometry, we show its similarities
with the quantum barrier penetration problem, and the super-Hubble horizon
modes encountered in cosmology. Finally we raise the question as to whether
signature change transitions could be fully understood and dynamically
generated within (modified) classical general relativity, or whether they
require the knowledge of a full theory of quantum gravity.Comment: 33 pages. 4 figures; V2: 3 references added, no physics changes; V3:
now 24 pages - significantly shortened - argument simplified and more focused
- no physics changes - this version accepted for publication in Classical and
Quantum Gravit
Energy conditions in f(R) gravity and Brans-Dicke theories
The equivalence between f(R) gravity and scalar-tensor theories is invoked to
study the null, strong, weak and dominant energy conditions in Brans-Dicke
theory. We consider the validity of the energy conditions in Brans-Dicke theory
by invoking the energy conditions derived from a generic f(R) theory. The
parameters involved are shown to be consistent with an accelerated expanding
universe.Comment: 9 pages, 1 figure, to appear in IJMP
Structural Changes of Yellow Cameleon Domains Observed by Quantitative FRET Analysis and Polarized Fluorescence Correlation Spectroscopy
Förster resonance energy transfer (FRET) is a widely used method for monitoring interactions between or within biological macromolecules conjugated with suitable donor-acceptor pairs. Donor fluorescence lifetimes in absence and presence of acceptor molecules are often measured for the observation of FRET. However, these lifetimes may originate from interacting and noninteracting molecules, which hampers quantitative interpretation of FRET data. We describe a methodology for the detection of FRET that monitors the rise time of acceptor fluorescence on donor excitation thereby detecting only those molecules undergoing FRET. The large advantage of this method, as compared to donor fluorescence quenching method used more commonly, is that the transfer rate of FRET can be determined accurately even in cases where the FRET efficiencies approach 100% yielding highly quenched donor fluorescence. Subsequently, the relative orientation between donor and acceptor chromophores is obtained from time-dependent fluorescence anisotropy measurements carried out under identical conditions of donor excitation and acceptor detection. The FRET based calcium sensor Yellow Cameleon 3.60 (YC3.60) was used because it changes its conformation on calcium binding, thereby increasing the FRET efficiency. After mapping distances and orientation angles between the FRET moieties in YC3.60, cartoon models of this FRET sensor with and without calcium could be created. Independent support for these representations came from experiments where the hydrodynamic properties of YC3.60 under ensemble and single-molecule conditions on selective excitation of the acceptor were determined. From rotational diffusion times as found by fluorescence correlation spectroscopy and consistently by fluorescence anisotropy decay analysis it could be concluded that the open structure (without calcium) is flexible as opposed to the rather rigid closed conformation. The combination of two independent methods gives consistent results and presents a rapid and specific methodology to analyze structural and dynamical changes in a protein on ligand bindin
Hybridization between wild and cultivated potato species in the Peruvian Andes and biosafety implications for deployment of GM potatoes
The nature and extent of past and current hybridization between cultivated potato and wild relatives in nature is of interest to crop evolutionists, taxonomists, breeders and recently to molecular biologists because of the possibilities of inverse gene flow in the deployment of genetically-modified (GM) crops. This research proves that natural hybridization occurs in areas of potato diversity in the Andes, the possibilities for survival of these new hybrids, and shows a possible way forward in case of GM potatoes should prove advantageous in such areas
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