Welcome to the Amira-Avizo Software Use Case Gallery

Immunofluorescence tomography is a high-resolution 3-D reconstruction method based on methacrylate embedding and serial-sectioning, where 2-D images of immuno-stained serial-sections are computationally aligned into image stacks, and the 3-D volume rendered. Butyl-Methyl Methacrylate (BMMA) plastic was adopted as it preserves excellent tissue morphology and can be de-plasticized easily using an organic solvent, which enables immuno-staining of serial-sections without antibody penetration issu... Read more

The aim of this research is to model the deformation and fracture behaviour of brittle wafers often used in chocolate confectionery products.

Three point bending and compression experiments were performed on beam and circular disc samples respectively to determine the ‘apparent’ stress-strain curves in bending and compression. The deformation of the wafer for both these testing types was observed in-situ within an SEM. The wafer is modelled analytically and numerically as a composi... Read more

Avian flight is achieved through a number of modifications to the body, including the pectoral girdle (…). Muscle architecture is a critical variable in determining the biomechanical function of the vertebrate musculoskeletal system; however, accurate three-dimensional (3D) understanding of muscle architecture has been historically difficult to acquire. Here, we present a musculoskeletal model of a European starling (Sturnus vulgaris) pectoral girdle generated from iodine contr... Read more

The baculum (os penis) is a mineralized bone within the glans of the mammalian penis and is one of the most morphologically diverse structures in the mammal skeleton. (…) For the first time, to our knowledge, we apply a computational simulation approach (finite-element analysis; FEA) to quantify the three-dimensional biomechanical performance of carnivoran bacula (n = 74) based upon high-resolution micro-computed tomography scans. (…) a highly significant negative relation... Read more

Microorganisms are the chief primary producers within present-day deep-sea hydrothermal vent ecosystems, and play a fundamental role in shaping the ecology of these environments. (…) The oldest known hydrothermal vent community that includes metazoans is preserved within the Ordovician to early Silurian Yaman Kasy massive sulfide deposit, Ural Mountains, Russia. (…) A re-examination of these fossils using a range of microscopy, chemical analysis and nano-tomography techniques re... Read more

For many years, SFRPs (short fibre reinforced polyamides) have been used in the automotive industry as a means to reduce vehicle weight. However, their complex anisotropic and heterogeneous microstructure requires sophisticated material characterisation and simulation. This study aims at presenting the simulation strategy adopted by an automotive company address these challenges. The manufacturing process is first simulated and correlated with tomography analysis. Then, based on the numerical... Read more

The paper proposes a new experimental methodology, based on ultrasonic measurements, that aims at evaluating the anisotropic damage in woven semi-crystalline polymer composites through new damage indicators. Due to their microstructure, woven composite materials are characterized by an anisotropic evolution of damage induced by different damage mechanisms occurring at the micro or mesoscopic scales. In this work, these damage modes in polyamide 6.6/6-woven glass fiber reinforced composites ha... Read more

In this paper a study concerning an automatic determination of distribution of steel fibres in self-compacting concrete (SCC) is presented. The determination of fibre distribution is required to assess any relationship between those features and casting methods of concrete elements. Concrete beams with steel fibres of various types and casting methods were examined. Involved methods were computed tomography imaging followed by image analysis. After image analysis a label map consisting of all... Read more

The coffee berry borer is the most devastating insect pest of coffee throughout the world. The insect spends most of its life cycle inside the coffee berry, which makes it quite difficult to observe its behaviour. Micro-computed tomography (micro-CT) was used to observe all developmental stages of the coffee berry borer inside coffee berries (Coffea canephora). An interesting oviposition pattern involving a sequential placement of eggs starting in the periphery of the seed and moving inwards ... Read more

The porous transport layer (PTL) is a vital component of the polymer electrolyte membrane water electrolyser (PEMWE) as it is both a conduit for current distribution and mass transport. This study aims to examine the influence of the microstructure of the PTL on the performance of a PEMWE by the combination of ex-situ and in-situ techniques. Two PTLs with distinctly different mean pore diameter were characterized to determine key properties such as surface morphology, porosity, pore size dist... Read more

The thermal conductivity values of ordinary concrete can be adjusted to those prescribed in constructions by entraining air bubbles to reduce the density of concrete in order to achieve good thermal insulation. This paper concerns the analysis of air bubble distribution in concrete obtained by micro X-ray µCT (computed tomography) and correlates it with its thermal conductivity (k). (…) The results show that air-entrainment leads to viable use of this material as sealer to achieve good... Read more

The effect of ultrasonic melting processing on three-dimensional architecture of intermetallic phases and pores in two multicomponent cast Al-5.0Cu 0.6Mn-0.5 Fe alloys is characterized using conventional microscopy and synchrotron X-ray microtomography. (…) The results show that ultrasonic melt processing (USP) significantly reduce the volume fraction, grain size, interconnectivity, and equivalent diameter of the intermetallic phases in both alloys. The volume fraction of pores in both ... Read more

The aim of this study was to see the effect of Er:YAG laser irradiation in dentine and compare this with its effect in enamel. The mechanism of crack propagation in dentine was emphasised and its clinical implications were discussed. A possible mechanism is that laser radiation is transmitted down the dentinal tubules causing micro-cracks to form in the dentinal tubule walls that tend to be limited to this region. Crack might be a source of fracture as it represents a weak point and subsequen... Read more

Here we use synchrotron tomography to characterise dental vasculature in the oldest known tooth-bearing sharks, Leonodus carlsi Mader, 1986 and Celtiberina maderi Wang, 1993. Three dimensional reconstruction of the vascular system and microstructure of both taxa revealed a complex and dense network of canals, including horizontal, ascending and secondary bifurcated canals, as well as histological features consistent with an osteodont histotype. However, L. carlsi and C. maderi also exhibit si... Read more

Multicomponent Bi-Mo-Fe-Co oxide catalysts prepared via flame spray pyrolysis were tested for selective propylene oxidation, showing high conversion (>70%) and selectivity (>85%) for acrolein and acrylic acid at temperatures of 330 ◦C. During extended time-on-stream tests (5–7 days), the catalysts retained high activity while undergoing diverse structural changes. This was evident on: (a) the atomic scale, using powder X-ray diffraction, Raman spectroscopy, X-ray absorption spectros... Read more

X-ray micro-tomography is used to image the pore-scale configurations of fluid in a rock saturated with three phases – brine, oil and gas – mimicking a subsurface reservoir, at high pressure and temperature. We determine pore occupancy during a displacement sequence that involves waterflooding, gas injection and water re-injection. In the water-wet sample considered, brine occupied the smallest pores, gas the biggest, while oil occupied pores of intermediate size and is displaced ... Read more

Our novel procedure of injecting oil after reactive transport has revealed previously unidentified (ghost) regions of partially-dissolved grains of carbonate rock. X-ray micro-tomography and FIB-SEM techniques were used to identify and resolve these ghost regions in three-dimensions at the nm- to µm-scale. Considering the solid part of the ghost regions as macro (bulk) pore space can result in the overestimation of porosity and permeability predi... Read more

The aim of this paper was to develop a model that can characterize the actual micropore structures in coal and gain an in-depth insight into water’s seepage rules in coal pores under different pressure gradients from a microscopic perspective. To achieve this goal, long-flame coals were first scanned by an X-ray 3D microscope; then, through a representative elementary volume (REV) analysis, the optimal side length was determined to be 60 μm; subsequently, by using Avizo software, the coal ... Read more

We describe in detail a methodology to estimate the effective elastic parameters of nodular cast iron, using micro-tomography in conjunction with multiscale finite elements. We discuss the adjustment of the image acquisition parameters, address the issue of the representative-volume choice, and present a brief discussion on image segmentation. In addition, the finite-element computational implementation developed to estimate the effective elastic parameters from segmented microstructural imag... Read more

Porous binary Ti-10Mo alloys were prepared using non-spherical titanium, molybdenum powders by the powder metallurgy (PM) space holder technique. Based on the three-dimensional analysis of porosity characteristics, a detailed assessment of the effects of porosity on mechanical properties and corrosion resistances in phosphate-buffered saline (PBS) was carried out. For comparison, PM-fabricated CP-Ti with 50.5% porosity sintered at 1200 °C for 2 h and dense Ti-10Mo alloy sintered at 1450 °C ... Read more

The assessment of neuronal number, spatial organization and connectivity is fundamental for a complete understanding of brain function. However, the evaluation of the three-dimensional (3D) brain cytoarchitecture at cellular resolution persists as a great challenge in the field of neuroscience. In this context, X-ray microtomography has shown to be a valuable non-destructive tool for imaging a broad range of samples, from dense materials to soft biological specimens, arisen as a new method fo... Read more