A symbiotic physical niche in Drosophila melanogaster regulates stable association of a multi-species gut microbiota.

The gut is continuously invaded by diverse bacteria from the diet and the environment, yet microbiome composition is relatively stable over time for host species ranging from mammals to insects, suggesting host-specific factors may selectively maintain key species of bacteria. To investigate host specificity, we used gnotobiotic Drosophila, microbial pulse-chase protocols, and microscopy to investigate the stability of different strains of bacteria in the fly gut. We show that a host-constructed physical niche in the foregut selectively binds bacteria with strain-level specificity, stabilizing their colonization.

A novel endocast technique providing a 3D quantitative analysis of the gastrovascular system in Rhizostoma pulmo: An unexpected through-gut in cnidaria.

The investigation of jellyfish gastrovascular systems mainly focused on stain injections and dissections, negatively affected by thickness and opacity of the mesoglea. Therefore, descriptions are incomplete and data about tridimensional structures are scarce. In this work, morphological and functional anatomy of the gastrovascular system of Rhizostoma pulmo (Macri 1778) was investigated in detail with innovative techniques: resin endocasts and 3D X-ray computed microtomography.

PyPore3D: An Open Source Software Tool for Imaging Data Processing and Analysis of Porous and Multiphase Media.

In this work, we propose the software library PyPore3D, an open source solution for data processing of large 3D/4D tomographic data sets. PyPore3D is based on the Pore3D core library, developed thanks to the collaboration between Elettra Sincrotrone (Trieste) and the University of Trieste (Italy). The Pore3D core library is built with a distinction between the User Interface and the backend filtering, segmentation, morphological processing, skeletonisation and analysis functions.

The hard x-ray nanotomography microscope at the advanced light source.

Beamline 11.3.1 at the Advanced Light Source is a tender/hard (6-17 keV) x-ray bend magnet beamline recently re-purposed with a new full-field, nanoscale transmission x-ray microscope.

A new mini-triaxial cell for combined high-pressure and high-temperature in situ synchrotron X-ray microtomography experiments up to 400°C and 24 MPa.

A new experimental triaxial cell for in situ synchrotron X-ray micro-computed tomography aimed at imaging small samples of (6 mm × 19 mm) at high temperatures (up to 400°C) and pressures (up to 24 MPa confining) is presented. The system has flow-through capabilities, independent axial and radial pressure control, and has been developed and tested at the 8.3.

Supercritical CO uptake by nonswelling phyllosilicates.

Interactions between supercritical (sc) CO and minerals are important when CO is injected into geologic formations for storage and as working fluids for enhanced oil recovery, hydraulic fracturing, and geothermal energy extraction. It has previously been shown that at the elevated pressures and temperatures of the deep subsurface, scCO alters smectites (typical swelling phyllosilicates). However, less is known about the effects of scCO on nonswelling phyllosilicates (illite and muscovite), despite the fact that the latter are the dominant clay minerals in deep subsurface shales and mudstones.

The emerging role of 4D synchrotron X-ray micro-tomography for climate and fossil energy studies: five experiments showing the present capabilities at beamline 8.3.2 at the Advanced Light Source.

Continuous improvements at X-ray imaging beamlines at synchrotron light sources have made dynamic synchrotron X-ray micro-computed tomography (SXR-µCT) experiments more routinely available to users, with a rapid increase in demand given its tremendous potential in very diverse areas. In this work a survey of five different four-dimensional SXR-µCT experiments is presented, examining five different parameters linked to the evolution of the investigated system, and tackling problems in different areas in earth sciences. SXR-µCT is used to monitor the microstructural evolution of the investigated sample with the following variables: (i) high temperature, observing in situ oil shale pyrolysis; (ii) low temperature, replicating the generation of permafrost; (iii) high pressure, to study the invasion of supercritical CO in deep aquifers; (iv) uniaxial stress, to monitor the closure of a fracture filled with proppant, in shale; (v) reactive flow, to observe the evolution of the hydraulic properties in a porous rock subject to dissolution.

Wollastonite Carbonation in Water-Bearing Supercritical CO: Effects of Particle Size.

The performance of geologic CO sequestration (GCS) can be affected by CO mineralization and changes in the permeability of geologic formations resulting from interactions between water-bearing supercritical CO (scCO) and silicates in reservoir rocks. However, without an understanding of the size effects, the findings in previous studies using nanometer- or micrometer-size particles cannot be applied to the bulk rock in field sites. In this study, we report the effects of particle sizes on the carbonation of wollastonite (CaSiO) at 60 °C and 100 bar in water-bearing scCO.

Alteration and Erosion of Rock Matrix Bordering a Carbonate-Rich Shale Fracture.

A novel reactive transport model has been developed to examine the processes that affect fracture evolution in a carbonate-rich shale. An in situ synchrotron X-ray microtomography experiment, flowing CO saturated water through a single fracture mini-core of Niobrara Shale provided the experimental observations for the development and testing of the model. The phenomena observed included the development of a porous altered layer, flow channeling, and increasingly limited calcite dissolution.

A 2.5D Reactive Transport Model for Fracture Alteration Simulation.

Understanding fracture alteration resulting from geochemical reactions is critical in predicting fluid migration in the subsurface and is relevant to multiple environmental challenges. Here, we present a novel 2.5D continuum reactive transport model that captures and predicts the spatial pattern of fracture aperture change and the development of an altered layer in the near-fracture region.

Evaluation of microstructural properties of coffee beans by synchrotron X-ray microtomography: a methodological approach.

Unlabelled: Synchrotron radiation microtomography was used as a nondestructive imaging technique to investigate the microstructural properties of green and roasted coffee beans. After image acquisition, 2D images have been reconstructed and 3D images of the beans have been then obtained. Qualitative and quantitative analysis of the images allow to fully characterize the morphological and structural features of the coffee beans.