Viscosity of bridgmanite determined by in situ stress and strain measurements in uniaxial deformation experiments

To understand mantle dynamics, it is important to determine the rheological properties of bridgmanite, the dominant mineral in Earth’s mantle. Nevertheless, experimental data on the viscosity of bridgmanite are quite limited due to experimental difficulties. Here, we report viscosity and deformation mechanism maps of bridgmanite at the uppermost lower mantle conditions obtained through in situ stress-strain measurements of bridgmanite using deformation apparatuses with the Kawai-type cell. Bridgmanite would be the hardest among mantle constituent minerals even under nominally dry conditions in the dislocation creep region, consistent with the observation that the lower mantle is the hardest layer. Deformation mechanism maps of bridgmanite indicate that grain size of bridgmanite and stress conditions at top of the lower mantle would be several millimeters and ~105 Pa to realize viscosity of 1021–22 Pa·s, respectively. This grain size of bridgmanite suggests that the main part of the lower mantle is isolated from the convecting mantle as primordial reservoirs

Rheology of hexagonal close-packed(hcp) iron

The viscosity of hexagonal close-packed (hcp) Fe is a fundamental property controlling the dynamics of the Earth’s inner core. We studied the rheology of hcp-Fe using high-pressure and -temperature deformation experiments with in situ stress and strain measurements. Experiments were conducted using D111-type and deformation-DIA apparatuses at pressures of 16.3–22.6 GPa, temperatures of 423–923 K, and uniaxial strain rates of 1.52 × 10−6 to 8.81 × 10−5 s−1 in conjunction with synchrotron radiation. Experimental results showed that power-law dislocation creep with a stress exponent of n = 4.0 ± 0.3, activation energy of E* = 240 ± 20 kJ/mol, and activation volume of V* = 1.4 ± 0.2 cm3/mol is dominant deformation mechanism at >∼800 K, whereas a mechanism with power-law breakdown prevails at lower temperatures. An extrapolation of the power-law dislocation creep flow law based on homologous temperature scaling suggests the viscosity of hcp-Fe under inner core conditions is ≥∼1019 Pa s. If this power-law dislocation creep mechanism is assumed to be the dominant mechanism in the Earth’s inner core, the equatorial growth or translation mode mechanism may be the dominant geodynamical mechanism causing the observed inner core structure

Mantle dynamics inferred from the crystallographic preferred orientation of bridgmanite

　Seismic shear wave anisotropy is observed in Earth's uppermost lower mantle around several subducted slabs. The anisotropy caused by the deformation-induced crystallographic preferred orientation (CPO) of bridgmanite (perovskite-structured (Mg,Fe)SiO3) is the most plausible explanation for these seismic observations. However, the rheological properties of bridgmanite are largely unknown. Uniaxial deformation experiments have been carried out to determine the deformation texture of bridgmanite, but the dominant slip system (the slip direction and plane) has not been determined. Here we report the CPO pattern and dominant slip system of bridgmanite under conditions that correspond to the uppermost lower mantle (25 gigapascals and 1,873 kelvin) obtained through simple shear deformation experiments using the Kawai-type deformation-DIA apparatus. The fabrics obtained are characterized by [100] perpendicular to the shear plane and [001] parallel to the shear direction, implying that the dominant slip system of bridgmanite is [001](100). The observed seismic shear- wave anisotropies near several subducted slabs (Tonga-Kermadec, Kurile, Peru and Java) can be explained in terms of the CPO of bridgmanite as induced by mantle flow parallel to the direction of subduction

分子内結合が調節するJRABのLIMドメインによるアクチン細胞骨格の再編成

JRAB/MICAL-L2 is an effector protein of Rab13, a member of the Rab family of small GTPase. JRAB/MICAL-L2 consists of a calponin homology domain, a LIM domain, and a coiled-coil domain. JRAB/MICAL-L2 engages in intramolecular interaction between the N-terminal LIM domain and the C-terminal coiled-coil domain, and changes its conformation from closed to open under the effect of Rab13. Open-form JRAB/MICAL-L2 induces the formation of peripheral ruffles via an interaction between its calponin homology domain and filamin. Here, we report that the LIM domain, independent of the C-terminus, is also necessary for the function of open-form JRAB/MICAL-L2. In mechanistic terms, two zinc finger domains within the LIM domain bind the first and second molecules of actin at the minus end, potentially inhibiting the depolymerization of actin filaments (F-actin). The first zinc finger domain also contributes to the intramolecular interaction of JRAB/MICAL-L2. Moreover, the residues of the first zinc finger domain that are responsible for the intramolecular interaction are also involved in the association with F-actin. Together, our findings show that the function of open-form JRAB/MICAL-L2 mediated by the LIM domain is fine-tuned by the intramolecular interaction between the first zinc finger domain and the C-terminal domain

Proteome analysis of human metaphase chromosomes

Susumu Uchiyama, Shouhei Kobayashi, Hideaki Takata, Takeshi Ishihara, Naoto Hori, Tsunehito Higashi, Kayoko Hayashihara, Takefumi Sone, Daisuke Higo, Takashi Nirasawa, Toshifumi Takao, Sachihiro Matsunaga, Kiichi Fukui. Proteome Analysis of Human Metaphase Chromosomes. Journal of Biological Chemistry, Volume 280, Issue 17, 2005, Pages 16994-17004. https://doi.org/10.1074/jbc.M412774200

In Situ Synchrotron X-ray Analysis: Application of High-Pressure Sliding Process to Ti Allotropic Transformation

In this study, severe plastic deformation through high-pressure sliding (HPS) was applied for in situ high-energy X-ray diffraction analysis at SPring-8 in JASRI (Japan Synchrotron Radiation Research Institute). Allotropic transformation of pure Ti was examined in terms of temperatures, pressures and imposed strain using a miniaturized HPS facility. The true pressure applied on the sample was estimated from the peak shift. Peak broadening due to local variation of pressure was reduced using white X-rays. The phase transformation from α phase to ω phase occurred at a pressure of ∼4.5 GPa. Straining by the HPS processing was effective to promote the transformation to the ω phase and to maintain the ω phase even at ambient pressure. The reverse transformation from ω phase to α phase occurred at a temperature of ∼110°C under ambient pressure, while under higher pressure as ∼4 GPa, the ω phase remained stable even at ∼170°C covered in this study. It was suggested that the reverse transformation from the ω phase to the α phase is controlled by thermal energy

The Fab portion of immunoglobulin G contributes to its binding to Fcγ receptor III

Most cells active in the immune system express receptors for antibodies which mediate a variety of defensive mechanisms. These receptors interact with the Fc portion of the antibody and are therefore collectively called Fc receptors. Here, using high-speed atomic force microscopy, we observe interactions of human, humanized, and mouse/human-chimeric immunoglobulin G1 (IgG1) antibodies and their cognate Fc receptor, FcγRIIIa. Our results demonstrate that not only Fc but also Fab positively contributes to the interaction with the receptor. Furthermore, hydrogen/deuterium exchange mass spectrometric analysis reveals that the Fab portion of IgG1 is directly involved in its interaction with FcγRIIIa, in addition to the canonical Fc-mediated interaction. By targeting the previously unidentified receptor-interaction sites in IgG-Fab, our findings could inspire therapeutic antibody engineering

PEPPI-MS: Polyacrylamide-Gel-Based Prefractionation for Analysis of Intact Proteoforms and Protein Complexes by Mass Spectrometry

Prefractionation of complex mixtures of proteins derived from biological samples is indispensable for proteome analysis via top-down mass spectrometry (MS). Polyacrylamide gel electrophoresis (PAGE), which enables high-resolution protein separation based on molecular size, is a widely used technique in biochemical experiments and has the potential to be useful in sample fractionation for top-down MS analysis. However, the lack of a means to efficiently recover the separated proteins in-gel has always been a barrier to its use in sample prefractionation. In this study, we present a novel experimental workflow, called Passively Eluting Proteins from Polyacrylamide gels as Intact species for MS ("PEPPI-MS"), which allows top-down MS of PAGE-separated proteins. The optimization of Coomassie brilliant blue staining followed by the passive extraction step in the PEPPI-MS workflow enabled the efficient recovery of proteins, separated on commercial precast gels, from a wide range of molecular weight regions in under 10 min. Two-dimensional separation combining offline PEPPI-MS with online reversed-phase liquid chromatographic separation resulted in identification of over 1000 proteoforms recovered from the target region of the gel (≤50 kDa). Given the widespread availability and relatively low cost of traditional sodium dodecyl sulfate (SDS)-PAGE equipment, the PEPPI-MS workflow will be a powerful prefractionation strategy for top-down proteomics

Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome.

The evolution of land flora transformed the terrestrial environment. Land plants evolved from an ancestral charophycean alga from which they inherited developmental, biochemical, and cell biological attributes. Additional biochemical and physiological adaptations to land, and a life cycle with an alternation between multicellular haploid and diploid generations that facilitated efficient dispersal of desiccation tolerant spores, evolved in the ancestral land plant. We analyzed the genome of the liverwort Marchantia polymorpha, a member of a basal land plant lineage. Relative to charophycean algae, land plant genomes are characterized by genes encoding novel biochemical pathways, new phytohormone signaling pathways (notably auxin), expanded repertoires of signaling pathways, and increased diversity in some transcription factor families. Compared with other sequenced land plants, M. polymorpha exhibits low genetic redundancy in most regulatory pathways, with this portion of its genome resembling that predicted for the ancestral land plant. PAPERCLIP