Particle relabelling transformations in elastodynamics

The motion of a self-gravitating hyperelastic body is described through a time-dependent mapping from a reference body into physical space, and its material properties are determined by a referential density and strain-energy function defined relative to the reference body. Points within the reference body do not have a direct physical meaning, but instead act as particle labels that could be assigned in different ways. We use Hamilton’s principle to determine how the referential density and strain-energy functions transform when the particle labels are changed, and describe an associated “particle relabelling symmetry”. We apply these results to linearised elastic wave propagation, and discuss their implications for seismological inverse problems. In particular, we show that the effects of boundary topography on elastic wave propagation can be mapped exactly into volumetric heterogeneity while preserving the form of the equations of motion. Several numerical calculations are presented to illustrate our results.O.C. is supported through a NERC PhD studentship.This is the final version of the article. It first appeared from Oxford University Press via http://dx.doi.org/10.1093/gji/ggw03

Anelasticity across seismic to tidal timescales: a self-consistent approach

In a pioneering study, Wahr & Bergen developed the widely adopted, pseudo-normal mode framework for predicting the impact of anelastic effects on the Earth's body tides. Lau $\textit{et al.}$ have recently derived an extended normal mode treatment of the problem (as well as a minor variant of the theory known as the direct solution method) that makes full use of theoretical developments in free oscillation seismology spanning the last quarter century and that avoids a series of assumptions and approximations adopted in the traditional theory for predicting anelastic effects. There are two noteworthy differences between these two theories: (1) the traditional theory only considers perturbations to the eigenmodes of an elastic Earth, whereas the new theory augments this set of modes to include the relaxation modes that arise in anelastic behaviour; and (2) the traditional theory approximates the complex perturbation to the tidal Love number as a scaled version of the complex perturbation to the elastic moduli, whereas the new theory computes the full complex perturbation to each eigenmode. In this study, we highlight the above differences using a series of synthetic calculations, and demonstrate that the traditional theory can introduce significant error in predictions of the complex perturbation to the Love numbers due to anelasticity and the related predictions of tidal lag angles. For the simplified Earth models we adopt, the computed lag angles differ by ∼20 per cent. The assumptions in the traditional theory have important implications for previous studies that use model predictions to correct observables for body tide signals or that analyse observations of body tide deformation to infer mantle anelastic structure. Finally, we also highlight the fundamental difference between apparent attenuation (i.e. attenuation inferred from observations or predicted using the above theories) and intrinsic attenuation (i.e. the material property investigated through experiments), where both are often expressed in terms of lag angles or $\textit{Q}$$^{-1}$. In particular, we demonstrate the potentially significant (factor of two or more) bias introduced in estimates of $\textit{Q}$$^{-1}$ and its frequency dependence in studies that have treated $\textit{Q}$$^{-1}$ determined from tidal phase lags or measured experimentally as being equal. The observed or theoretically predicted lag angle (or apparent $\textit{Q}$$^{-1}$) differs from the intrinsic, material property due to inertia, self-gravity and effects associated with the energy budget. By accounting for these differences we derive, for a special case, an expression that accurately maps apparent attenuation predicted using the extended normal mode formalism of Lau $\textit{et al.}$ into intrinsic attenuation. The theory allows for more generalized mappings which may be used to robustly connect observations and predictions of tidal lag angles to results from laboratory experiments of mantle materials.This work was supported by NSF EAR-1464024, NSF EAR-1215061, and Harvard University

Forward and inverse modelling of post-seismic deformation

We consider a new approach to both the forward and inverse problems in post-seismic deformation. We present a method for forward modelling post-seismic deformation in a self-gravitating, heterogeneous and compressible earth with a variety of linear and nonlinear rheologies. We further demonstrate how the adjoint method can be applied to the inverse problem both to invert for rheological structure and to calculate the sensitivity of a given surface measurement to changes in rheology or time-dependence of the source. Both the forward and inverse aspects are illustrated with several numerical examples implemented in a spherically symmetric earth model.Natural Environment Research Council, British Antarctic Surve

High-temperature oxidation of nickel-based alloys and estimation of the adhesion strength of resulting oxide layers

The kinetics of isothermal oxidation (1100°C) of commercial nickel-based alloys with different content of sulfur (0.22–3.2 wt ppm) is studied. The adhesion strength in a metal/oxide system is estimated as a function of sulfur content and duration of high-temperature exposure. The scratch-test technique is proposed to quantitatively estimate the work of adhesion of resulting oxide films. It is found that the film microstructure is composed of an inner α-Al2O3 layer and an outer NiAl2O4 spinel layer, which are separated by discrete inclusions of TiO2. Residual stresses in the oxide film are experimentally determined by X-ray diffraction. spinel layer, which are separated by discrete inclusions of TiO2. Residual stresses in the oxide film are experimentally determined by X-ray diffractio

Damage Analysis of Reinforced Concrete Structures with Substandard Detailing

The goal of this study is to investigate seismic behaviour of existing R/C buildings designed and constructed in accordance with standards that do not meet current seismic code requirements. In these structures, not only flexure, but also shear and bond-slip deformation mechanisms need to be considered, both separately and in combination. To serve this goal, a finite element model is developed for inelastic seismic analysis of complete planar R/C frames. The proposed finite element is able to capture gradual spread of inelastic flexural and shear deformations as well as their interaction in the end regions of R/C members. Additionally, it is capable of predicting shear failures caused by degradation of shear strength in the plastic hinges of R/C elements, as well as pullout failures caused by inadequate anchorage of the reinforcement in the joint regions. The finite element is fully implemented in the general inelastic finite element code IDARC2D and it is verified against experimental results involving individual column and plane frame specimens with nonductile detailing. It is shown that, in all cases, satisfactory correlation is established between the model predictions and the experimental evidence. Finally, parametric studies are conducted to illustrate the significance of each deformation mechanism on the seismic response of the specimens under investigation. It is concluded, that all deformation mechanisms, as well as their interaction, should be taken into consideration in order to predict reliably seismic damage of R/C structures with substandard detailing

How the other half lives: CRISPR-Cas's influence on bacteriophages

CRISPR-Cas is a genetic adaptive immune system unique to prokaryotic cells used to combat phage and plasmid threats. The host cell adapts by incorporating DNA sequences from invading phages or plasmids into its CRISPR locus as spacers. These spacers are expressed as mobile surveillance RNAs that direct CRISPR-associated (Cas) proteins to protect against subsequent attack by the same phages or plasmids. The threat from mobile genetic elements inevitably shapes the CRISPR loci of archaea and bacteria, and simultaneously the CRISPR-Cas immune system drives evolution of these invaders. Here we highlight our recent work, as well as that of others, that seeks to understand phage mechanisms of CRISPR-Cas evasion and conditions for population coexistence of phages with CRISPR-protected prokaryotes.Comment: 24 pages, 8 figure

Suppressing molecular motions for enhanced room-temperature phosphorescence of metal-free organic materials

Metal-free organic phosphorescent materials are attractive alternatives to the predominantly used organometallic phosphors but are generally dimmer and are relatively rare, as, without heavy-metal atoms, spin-orbit coupling is less efficient and phosphorescence usually cannot compete with radiationless relaxation processes. Here we present a general design rule and a method to effectively reduce radiationless transitions and hence greatly enhance phosphorescence efficiency of metal-free organic materials in a variety of amorphous polymer matrices, based on the restriction of molecular motions in the proximity of embedded phosphors. Covalent cross-linking between phosphors and polymer matrices via Diels-Alder click chemistry is devised as a method. A sharp increase in phosphorescence quantum efficiency is observed in a variety of polymer matrices with this method, which is ca. two to five times higher than that of phosphor-doped polymer systems having no such covalent linkage.ope

The prognostic and predictive power of redox rotein expression for anthracycline-based chemotherapy response in locally advanced breast cancer

Neoadjuvant chemotherapy has become the standard of care for locally advanced primary breast cancer. Anthracycline-based regimens have proven to be one of the most effective treatments in this setting. As certain cytotoxic antineoplastic agents, such as anthracyclines, generate reactive oxygen species as a by-product of their mechanism of action, we examined whether redox protein expression was involved in the response to anthracycline-based chemotherapy and with clinical outcome. Pre treatment needle core biopsy and postanthracycline treatment tumour sections were analysed from 98 cases. In all, 32 individuals had a complete clinical response and 17 had a complete pathological response. Immunohistochemical staining was performed for eight redox proteins: thioredoxin, thioredoxin reductase thioredoxin interacting protein (TxNIP), glutathione S-transferase (GST) p, h and a, catalase and manganese superoxide dismutase. GST p (P¼0.05) and catalase (P¼0.045) were associated with pathological complete response in pre-chemotherapy samples. TxNIP (P¼0.017) and thioredoxin reductase (P¼0.022) were independent prognostic factors for distant metastasis free survival and TxNIP for overall survival (P¼0.014). In oestrogen receptor negative patients that are known to have a poor overall survival, a considerably worse prognosis was seen in cases that exhibited low expression of TxNIP (P¼0.000003), stratifying patients into more defined groups. This study indicates the importance of redox regulation in determining breast cancer response to anthracycline-based chemotherapy and provides ways of further stratifying pre-chemotherapy patients to potentially allow more tailored treatments

A Systematic Mapping Approach of 16q12.2/FTO and BMI in More Than 20,000 African Americans Narrows in on the Underlying Functional Variation: Results from the Population Architecture using Genomics and Epidemiology (PAGE) Study

Genetic variants in intron 1 of the fat mass- and obesity-associated (FTO) gene have been consistently associated with body mass index (BMI) in Europeans. However, follow-up studies in African Americans (AA) have shown no support for some of the most consistently BMI-associated FTO index single nucleotide polymorphisms (SNPs). This is most likely explained by different race-specific linkage disequilibrium (LD) patterns and lower correlation overall in AA, which provides the opportunity to fine-map this region and narrow in on the functional variant. To comprehensively explore the 16q12.2/FTO locus and to search for second independent signals in the broader region, we fine-mapped a 646-kb region, encompassing the large FTO gene and the flanking gene RPGRIP1L by investigating a total of 3,756 variants (1,529 genotyped and 2,227 imputed variants) in 20,488 AAs across five studies. We observed associations between BMI and variants in the known FTO intron 1 locus: the SNP with the most significant p-value, rs56137030 (8.3×10-6) had not been highlighted in previous studies. While rs56137030was correlated at r2>0.5 with 103 SNPs in Europeans (including the GWAS index SNPs), this number was reduced to 28 SNPs in AA. Among rs56137030 and the 28 correlated SNPs, six were located within candidate intronic regulatory elements, including rs1421085, for which we predicted allele-specific binding affinity for the transcription factor CUX1, which has recently been implicated in the regulation of FTO. We did not find strong evidence for a second independent signal in the broader region. In summary, this large fine-mapping study in AA has substantially reduced the number of common alleles that are likely to be functional candidates of the known FTO locus. Importantly our study demonstrated that comprehensive fine-mapping in AA provides a powerful approach to narrow in on the functional candidate(s) underlying the initial GWAS findings in European populations