On the possibility for constraining cosmic topology from the celestial distribution of astronomical objects

We present a method to constrain cosmic topology from the distribution of astronomical objects projected on the celestial sphere. This is an extension of the 3D method introduced in Fujii & Yoshii (2011) that is to search for a pair of pairs of observed objects (quadruplet) linked by a holonomy, i.e., the method we present here is to search for a pair of celestial sphere $n$-tuplets for $n \geq 3$. We find, however, that this method is impractical to apply in realistic situations due to the small signal to noise ratio. We conclude therefore that it is unrealistic to constrain the topology of the Universe from the celestial distribution, and the 3D catalogs are necessary for the purpose.Comment: 4 pages, 1 figure, accepted for publication in A&A (2011

An improved cosmic crystallography method to detect holonomies in flat spaces

A new, improved version of a cosmic crystallography method for constraining cosmic topology is introduced. Like the circles-in-the-sky method using CMB data, we work in a thin, shell-like region containing plenty of objects. Two pairs of objects (quadruplet) linked by a holonomy show a specific distribution pattern, and three filters of \emph{separation, vectorial condition}, and \emph{lifetime of objects} extract these quadruplets. Each object $P_i$ is assigned an integer $s_i$, which is the number of candidate quadruplets including $P_i$ as their members. Then an additional device of $s_i$-histogram is used to extract topological ghosts, which tend to have high values of $s_i$. In this paper we consider flat spaces with Euclidean geometry, and the filters are designed to constrain their holonomies. As the second filter, we prepared five types that are specialized for constraining specific holonomies: one for translation, one for half-turn corkscrew motion and glide reflection, and three for $n$-th turn corkscrew motion for $n=4, 3,$ and 6. {Every multiconnected space has holonomies that are detected by at least one of these five filters.} Our method is applied to the catalogs of toy quasars in flat $\Lambda$-CDM universes whose typical sizes correspond to $z\sim 5$. With these simulations our method is found to work quite well. {These are the situations in which type-II pair crystallography methods are insensitive because of the tiny number of ghosts. Moreover, in the flat cases, our method should be more sensitive than the type-I pair (or, in general, $n$-tuplet) methods because of its multifilter construction and its independence from $n$.}Comment: 12 pages, 8 figures, accepted for publication in A&A (2011

The Mre11-Rad50-Nbs1 complex mediates activation of TopBP1 by ATM

The activation of ATR-ATRIP in response to double-stranded DNA breaks (DSBs) depends upon ATM in human cells and Xenopus egg extracts. One important aspect of this dependency involves regulation of TopBP1 by ATM. In Xenopus egg extracts, ATM associates with TopBP1 and thereupon phosphorylates it on S1131. This phosphorylation enhances the capacity of TopBP1 to activate the ATR-ATRIP complex. We show that TopBP1 also interacts with the Mre11-Rad50-Nbs1 (MRN) complex in egg extracts in a checkpoint-regulated manner. This interaction involves the Nbs1 subunit of the complex. ATM can no longer interact with TopBP1 in Nbs1-depleted egg extracts, which suggests that the MRN complex helps to bridge ATM and TopBP1 together. The association between TopBP1 and Nbs1 involves the first pair of BRCT repeats in TopBP1. In addition, the two tandem BRCT repeats of Nbs1 are required for this binding. Functional studies with mutated forms of TopBP1 and Nbs1 suggested that the BRCT-dependent association of these proteins is critical for a normal checkpoint response to DSBs. These findings suggest that the MRN complex is a crucial mediator in the process whereby ATM promotes the TopBP1-dependent activation of ATR-ATRIP in response to DSBs

Can residuals of the Solar system foreground explain low multipole anomalies of the CMB ?

The low multipole anomalies of the Cosmic Microwave Background has received much attention during the last few years. It is still not ascertained whether these anomalies are indeed primordial or the result of systematics or foregrounds. An example of a foreground, which could generate some non-Gaussian and statistically anisotropic features at low multipole range, is the very symmetric Kuiper Belt in the outer solar system. In this paper, expanding upon the methods presented by Maris et al. (2011), we investigate the contributions from the Kuiper Belt objects (KBO) to the WMAP ILC 7 map, whereby we can minimize the contrast in power between even and odd multipoles in the CMB, discussed discussed by Kim & Naselsky (2010). We submit our KBO de-correlated CMB signal to several tests, to analyze its validity, and find that incorporation of the KBO emission can decrease the quadrupole-octupole alignment and parity asymmetry problems, provided that the KBO signals has a non-cosmological dipole modulation, associated with the statistical anisotropy of the ILC 7 map. Additionally, we show that the amplitude of the dipole modulation, within a 2 sigma interval, is in agreement with the corresponding amplitudes, discussed by Lew (2008).Comment: 24 pages, 9 figures, 5 tables. Matches version in JCA

Real space tests of the statistical isotropy and Gaussianity of the WMAP CMB data

ABRIDGED: We introduce and analyze a method for testing statistical isotropy and Gaussianity and apply it to the WMAP CMB foreground reduced, temperature maps, and cross-channel difference maps. We divide the sky into regions of varying size and shape and measure the first four moments of the one-point distribution within these regions, and using their simulated spatial distributions we test the statistical isotropy and Gaussianity hypotheses. By randomly varying orientations of these regions, we sample the underlying CMB field in a new manner, that offers a richer exploration of the data content, and avoids possible biasing due to a single choice of sky division. The statistical significance is assessed via comparison with realistic Monte-Carlo simulations. We find the three-year WMAP maps to agree well with the isotropic, Gaussian random field simulations as probed by regions corresponding to the angular scales ranging from 6 deg to 30 deg at 68% confidence level. We report a strong, anomalous (99.8% CL) dipole ``excess'' in the V band of the three-year WMAP data and also in the V band of the WMAP five-year data (99.3% CL). We notice the large scale hemispherical power asymmetry, and find that it is not highly statistically significant in the WMAP three-year data (<~ 97%) at scales l <= 40. The significance is even smaller if multipoles up to l=1024 are considered (~90% CL). We give constraints on the amplitude of the previously-proposed CMB dipole modulation field parameter. We easily detect the residual foregrounds in cross-band difference maps at rms level <~ 7 \mu K (at scales >~ 6 deg) and limit the systematical uncertainties to <~ 1.7 \mu K (at scales >~ 30 deg).Comment: 20 pages, 20 figures; more tests added; updated to match the version to be published in JCA

An Optimal Frequency in Ca²⁺ oscillations for stomatal closure is an emergent property of ion transport in guard cells^1[OPEN]

Oscillations in cytosolic-free Ca2+ concentration ([Ca2+]i) have been proposed to encode information that controls stomatal closure. [Ca2+]i oscillations with a period near 10 min were previously shown to be optimal for stomatal closure in Arabidopsis (Arabidopsis thaliana), but the studies offered no insight into their origins or mechanisms of encoding to validate a role in signaling. We have used a proven systems modeling platform to investigate these [Ca2+]i oscillations and analyze their origins in guard cell homeostasis and membrane transport. The model faithfully reproduced differences in stomatal closure as a function of oscillation frequency with an optimum period near 10 min under standard conditions. Analysis showed that this optimum was one of a range of frequencies that accelerated closure, each arising from a balance of transport and the prevailing ion gradients across the plasma membrane and tonoplast. These interactions emerge from the experimentally derived kinetics encoded in the model for each of the relevant transporters, without the need of any additional signaling component. The resulting frequencies are of sufficient duration to permit substantial changes in [Ca2+]i and, with the accompanying oscillations in voltage, drive the K+ and anion efflux for stomatal closure. Thus, the frequency optima arise from emergent interactions of transport across the membrane system of the guard cell. Rather than encoding information for ion flux, these oscillations are a by-product of the transport activities that determine stomatal aperture

Hemispherical power asymmetry: parameter estimation from CMB WMAP5 data

We reexamine the evidence of the hemispherical power asymmetry, detected in the CMB WMAP data using a new method. At first, we analyze the hemispherical variance ratios and compare these with simulated distributions. Secondly, working within a previously-proposed CMB bipolar modulation model, we constrain model parameters: the amplitude and the orientation of the modulation field as a function of various multipole bins. Finally, we select three ranges of multipoles leading to the most anomalous signals, and we process corresponding 100 Gaussian, random field (GRF) simulations, treated as observational data, to further test the statistical significance and robustness of the hemispherical power asymmetry. For our analysis we use the Internally-Linearly-Coadded (ILC) full sky map, and KQ75 cut-sky V channel, foregrounds reduced map of the WMAP five year data (V5). We constrain the modulation parameters using a generic maximum a posteriori method. In particular, we find differences in hemispherical power distribution, which when described in terms of a model with bipolar modulation field, exclude the field amplitude value of the isotropic model A=0 at confidence level of ~99.5% (~99.4%) in the multipole range l=[7,19] (l=[7,79]) in the V5 data, and at the confidence level ~99.9% in the multipole range l=[7,39] in the ILC5 data, with the best fit (modal PDF) values in these particular multipole ranges of A=0.21 (A=0.21) and A=0.15 respectively. However, we also point out that similar or larger significances (in terms of rejecting the isotropic model), and large best-fit modulation amplitudes are obtained in GRF simulations as well, which reduces the overall significance of the CMB power asymmetry down to only about 94% (95%) in the V5 data, in the range l=[7,19] (l=[7,79]).Comment: 24 pages, 10 figures; few typos corrected; published in JCA

Singularly Perturbed Monotone Systems and an Application to Double Phosphorylation Cycles

The theory of monotone dynamical systems has been found very useful in the modeling of some gene, protein, and signaling networks. In monotone systems, every net feedback loop is positive. On the other hand, negative feedback loops are important features of many systems, since they are required for adaptation and precision. This paper shows that, provided that these negative loops act at a comparatively fast time scale, the main dynamical property of (strongly) monotone systems, convergence to steady states, is still valid. An application is worked out to a double-phosphorylation ``futile cycle'' motif which plays a central role in eukaryotic cell signaling.Comment: 21 pages, 3 figures, corrected typos, references remove