Application of synchrotron X‐ray microtomography for visualizing bacterial biofilms 3D microstructure in porous media

Roscoat, Sabine Rolland Du; Martins, Jean M.F.; Séchet, Philippe; Vince, Erwann; Latil, P.; Geindreau, Christian

doi:10.1002/bit.25168

Cited by 19 publications

(19 citation statements)

References 18 publications

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“…Silver-coated 10 μm microspheres deposited at the biofilm surface revealed the biofilm-liquid interface using synchrotron radiation [40]. Another approach suggested was based on the use of 1-chloronaphtalene, an immiscible liquid with water, as a contrast agent [41, 42]. Finally, numerical pore-scale biofilm growth modeling was performed based on biofilm structures obtained at different Reynolds numbers from X-ray synchrotron tomography using BaSO 4 as a contrast agent [43].…”

Section: Introductionmentioning

confidence: 99%

“…On the other hand, the approach based on silver-coated microspheres [40] suffered from the heterogeneous distribution of the silver-coated microspheres and possible interactions between the dense microspheres suspensions and the biofilm were not investigated. The 1-chloronaphtalene used as a contrast enhancing agent [41, 42] also has significant drawbacks, since this liquid is immiscible with water. Therefore, the non-wetting phase curvatures and contact angles may not contour exactly the interface with the aqueous biofilm phase.…”

Section: Introductionmentioning

confidence: 99%

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Biofilm imaging in porous media by laboratory X-Ray tomography: Combining a non-destructive contrast agent with propagation-based phase-contrast imaging tools

et al. 2017

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X-ray tomography is a powerful tool giving access to the morphology of biofilms, in 3D porous media, at the mesoscale. Due to the high water content of biofilms, the attenuation coefficient of biofilms and water are very close, hindering the distinction between biofilms and water without the use of contrast agents. Until now, the use of contrast agents such as barium sulfate, silver-coated micro-particles or 1-chloronaphtalene added to the liquid phase allowed imaging the biofilm 3D morphology. However, these contrast agents are not passive and potentially interact with the biofilm when injected into the sample. Here, we use a natural inorganic compound, namely iron sulfate, as a contrast agent progressively bounded in dilute or colloidal form into the EPS matrix during biofilm growth. By combining a very long source-to-detector distance on a X-ray laboratory source with a Lorentzian filter implemented prior to tomographic reconstruction, we substantially increase the contrast between the biofilm and the surrounding liquid, which allows revealing the 3D biofilm morphology. A comparison of this new method with the method proposed by Davit et al (Davit et al., 2011), which uses barium sulfate as a contrast agent to mark the liquid phase was performed. Quantitative evaluations between the methods revealed substantial differences for the volumetric fractions obtained from both methods. Namely, contrast agent—biofilm interactions (e.g. biofilm detachment) occurring during barium sulfate injection caused a reduction of the biofilm volumetric fraction of more than 50% and displacement of biofilm patches elsewhere in the column. Two key advantages of the newly proposed method are that passive addition of iron sulfate maintains the integrity of the biofilm prior to imaging, and that the biofilm itself is marked by the contrast agent, rather than the liquid phase as in other available methods. The iron sulfate method presented can be applied to understand biofilm development and bioclogging mechanisms in porous materials and the obtained biofilm morphology could be an ideal basis for 3D numerical calculations of hydrodynamic conditions to investigate biofilm-flow coupling.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Biofilm imaging in porous media by laboratory X-Ray tomography: Combining a non-destructive contrast agent with propagation-based phase-contrast imaging tools

et al. 2017

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“…Previous studies show that X‐ray µCT technique was used for identifying and evaluating the porous materials such as rock, soil, concrete and stone, and it has proven successful with such materials . Moreover, it has been applied for studying corrosion of aluminium alloys, magnesium and stainless steel .…”

Section: Discussionmentioning

confidence: 99%

X‐ray micro‐computed tomography analysis of accumulated corrosion products in deep‐water shipwrecks

Albahri

Barifcani

Dwivedi

et al. 2019

Materials & Corrosion

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Accumulated corrosion products from two different shipwrecks which had lain on the seabed (2.5 km depth) for 73 years were systematically analysed by three‐dimensional imaging at high resolution using X‐ray micro‐computed tomography. Complementary surface and chemical characterization experiments were conducted to identify the morphological structure of the corrosion products. Goethite was observed as the main corrosion phase found in both the wreck's corrosion products. However, other corrosion products such as silica, lepidocrocite, maghemite, magnetite, benyacarite, jarosite and amorphous materials were noticed using Fourier transform infrared spectroscopy, Raman spectroscopy and X‐ray diffraction. In addition, mineralized microbial structures were also observed as significant constituents of the corrosion products. However, there were significant differences between samples from the two shipwrecks including porosity, distribution and volume percent of the corrosion products components. The mechanism of different corrosion products formation was proposed and discussed in detail.

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“…Peth et al (2014) imaged the OM distribution in soil using osmium as a contrast agent, which is known to bind strongly to OM. Roscoat et al (2014) proposed a method to visualize biofilms in porous media using chloronaphthalene as a contrast agent. Koestel and Larsbo (2014) used iodide to increase the X-ray photon attenuation of water when studying water flow in an undisturbed soil column.…”

Section: Introductionmentioning

confidence: 99%

Quantitative imaging of the 3-D distribution of cation adsorption sites in undisturbed soil

Keck

Strobel

Gustafsson

et al. 2017

SOIL

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Abstract. Several studies have shown that the distribution of cation adsorption sites (CASs) is patchy at a millimetre to centimetre scale. Often, larger concentrations of CASs in biopores or aggregate coatings have been reported in the literature. This heterogeneity has implications on the accessibility of CASs and may influence the performance of soil system models that assume a spatially homogeneous distribution of CASs. In this study, we present a new method to quantify the abundance and 3-D distribution of CASs in undisturbed soil that allows for investigating CAS densities with distance to the soil macropores. We used X-ray imaging with Ba 2+ as a contrast agent. Ba 2+ has a high adsorption affinity to CASs and is widely used as an index cation to measure the cation exchange capacity (CEC). Eight soil cores (approx. 10 cm 3 ) were sampled from three locations with contrasting texture and organic matter contents. The CASs of our samples were saturated with Ba 2+ in the laboratory using BaCl 2 (0.3 mol L −1 ). Afterwards, KCl (0.1 mol L −1 ) was used to rinse out Ba 2+ ions that were not bound to CASs. Before and after this process the samples were scanned using an industrial X-ray scanner. Ba 2+ bound to CASs was then visualized in 3-D by the difference image technique. The resulting difference images were interpreted as depicting the Ba 2+ bound to CASs only. The X-ray image-derived CEC correlated significantly with results of the commonly used ammonium acetate method to determine CEC in well-mixed samples. The CEC of organic-matter-rich samples seemed to be systematically overestimated and in the case of the clay-rich samples with less organic matter the CEC seemed to be systematically underestimated. The results showed that the distribution of the CASs varied spatially within most of our samples down to a millimetre scale. There was no systematic relation between the location of CASs and the soil macropore structure. We are convinced that the approach proposed here will strongly aid the development of more realistic soil system models.

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Application of synchrotron X‐ray microtomography for visualizing bacterial biofilms 3D microstructure in porous media

Cited by 19 publications

References 18 publications

Biofilm imaging in porous media by laboratory X-Ray tomography: Combining a non-destructive contrast agent with propagation-based phase-contrast imaging tools

Biofilm imaging in porous media by laboratory X-Ray tomography: Combining a non-destructive contrast agent with propagation-based phase-contrast imaging tools

X‐ray micro‐computed tomography analysis of accumulated corrosion products in deep‐water shipwrecks

Quantitative imaging of the 3-D distribution of cation adsorption sites in undisturbed soil

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