Fe alloy slurry and a compacting cumulate pile across Earth's inner-core boundary

Seismic observations show a reduced compressional-wave gradient at the base of the outer core relative to the preliminary reference Earth model and seismic wave asymmetry between the east-west hemispheres at the top of the inner core. Here, we propose a model for the inner core boundary (ICB), where a slurry layer forms through fractional crystallization of an Fe alloy at the base of the outer core (F layer) above a compacting cumulate pile at the top of the inner core (F' layer). Using recent mineral physics data, we show that fractional crystallization of an Fe alloy (e.g., Fe-Si-O) with light element partitioning can explain the observed reduced velocity gradient in the F layer, in cases with a solid fraction of ~15(5)% in liquid with a compositional gradient due to preferential light element partitioning into liquid. The compacting cumulate pile in the F' layer may exhibit lateral variations in thickness between the east-west hemispheres due to lateral variations of large-scale heat flow in the outer core, which may explain the east-west asymmetry observed in the seismic velocity. Our interpretations suggest that the inner core with solid Fe alloy has a high shear viscosity of ~10^23 Pa s.Comment: v2, 39 pages with 10 figure

Symbolic analysis for some planar piecewise linear maps

In this paper a class of linear maps on the 2-torus and some planar piecewise isometries are discussed. For these discontinuous maps, by introducing codings underlying the map operations, symbolic descriptions of the dynamics and admissibility conditions for itineraries are given, and explicit expressions in terms of the codings for periodic points are presented.Comment: 4 Figure

Anisotropy in a Nonsingular Bounce

Following recent claims relative to the question of large anisotropy production in regular bouncing scenarios, we study the evolution of such anisotropies in a model where an Ekpyrotic phase of contraction is followed by domination of a Galileon-type Lagrangian which generates a non-singular bounce. We show that the anisotropies decrease during the phase of Ekpyrotic contraction (as expected) and that they can be constrained to remain small during the non-singular bounce phase (a non-trivial result). Specifically, we derive the e-folding number of the phase of Ekpyrotic contraction which leads to a present-day anisotropy in agreement with current observational bounds.Comment: 12 pages, 5 figure

De novo prediction of PTBP1 binding and splicing targets reveals unexpected features of its RNA recognition and function.

The splicing regulator Polypyrimidine Tract Binding Protein (PTBP1) has four RNA binding domains that each binds a short pyrimidine element, allowing recognition of diverse pyrimidine-rich sequences. This variation makes it difficult to evaluate PTBP1 binding to particular sites based on sequence alone and thus to identify target RNAs. Conversely, transcriptome-wide binding assays such as CLIP identify many in vivo targets, but do not provide a quantitative assessment of binding and are informative only for the cells where the analysis is performed. A general method of predicting PTBP1 binding and possible targets in any cell type is needed. We developed computational models that predict the binding and splicing targets of PTBP1. A Hidden Markov Model (HMM), trained on CLIP-seq data, was used to score probable PTBP1 binding sites. Scores from this model are highly correlated (ρ = -0.9) with experimentally determined dissociation constants. Notably, we find that the protein is not strictly pyrimidine specific, as interspersed Guanosine residues are well tolerated within PTBP1 binding sites. This model identifies many previously unrecognized PTBP1 binding sites, and can score PTBP1 binding across the transcriptome in the absence of CLIP data. Using this model to examine the placement of PTBP1 binding sites in controlling splicing, we trained a multinomial logistic model on sets of PTBP1 regulated and unregulated exons. Applying this model to rank exons across the mouse transcriptome identifies known PTBP1 targets and many new exons that were confirmed as PTBP1-repressed by RT-PCR and RNA-seq after PTBP1 depletion. We find that PTBP1 dependent exons are diverse in structure and do not all fit previous descriptions of the placement of PTBP1 binding sites. Our study uncovers new features of RNA recognition and splicing regulation by PTBP1. This approach can be applied to other multi-RRM domain proteins to assess binding site degeneracy and multifactorial splicing regulation

A Rho family GTPase controls actin dynamics and tip growth via two counteracting downstream pathways in pollen tubes.

Tip growth in neuronal cells, plant cells, and fungal hyphae is known to require tip-localized Rho GTPase, calcium, and filamentous actin (F-actin), but how they interact with each other is unclear. The pollen tube is an exciting model to study spatiotemporal regulation of tip growth and F-actin dynamics. An Arabidopsis thaliana Rho family GTPase, ROP1, controls pollen tube growth by regulating apical F-actin dynamics. This paper shows that ROP1 activates two counteracting pathways involving the direct targets of tip-localized ROP1: RIC3 and RIC4. RIC4 promotes F-actin assembly, whereas RIC3 activates Ca(2+) signaling that leads to F-actin disassembly. Overproduction or depletion of either RIC4 or RIC3 causes tip growth defects that are rescued by overproduction or depletion of RIC3 or RIC4, respectively. Thus, ROP1 controls actin dynamics and tip growth through a check and balance between the two pathways. The dual and antagonistic roles of this GTPase may provide a unifying mechanism by which Rho modulates various processes dependent on actin dynamics in eukaryotic cells

Atlantic Meridional Overturning Circulation at 14.5 N in 1989 and 2013 and 24.5 N in 1992 and 2015: volume, heat, and freshwater transports

The Atlantic Meridional Overturning Circulation (AMOC) is analyzed by applying a box inverse model to hydrographic data from transatlantic sections along 14.5°N, occupied in 1989 and 2013, and along 24.5°N, occupied in 1992 and 2015. Direct comparison of water mass properties among the different realizations at the respective latitudes shows that the Antarctic Intermediate Water (AAIW) became warmer and saltier at 14.5°N, and the densest Antarctic Bottom Water became lighter, while the North Atlantic Deep Water freshened at both latitudes. The inverse solution shows that the intermediate layer transport at 14.5°N was also markedly weaker in 2013 than in 1989, indicating that the AAIW property changes at this latitude may be related to changes in the circulation. The inverse solution was validated using the RAPID and MOVE array data, and the GECCO2 ocean state estimate. Comparison among these datasets indicates that the AMOC has not significantly weakened over the past 2 decades at both latitudes. Sensitivity tests of the inverse solution suggest that the overturning structure and heat transport across the 14.5°N section are sensitive to the Ekman transport, while freshwater transport is sensitive to the transport-weighted salinity at the western boundary

Stripe formation in bacterial systems with density-suppressed motility

Engineered bacteria in which motility is reduced by local cell density generate periodic stripes of high and low density when spotted on agar plates. We study theoretically the origin and mechanism of this process in a kinetic model that includes growth and density-suppressed motility of the cells. The spreading of a region of immotile cells into an initially cell-free region is analyzed. From the calculated front profile we provide an analytic ansatz to determine the phase boundary between the stripe and the no-stripe phases. The influence of various parameters on the phase boundary is discussed.Comment: 5 pages, 3 figures. Phys. Rev. Lett. in press (2012