Fiber orientation in a whole mouse heart reconstructed by laboratory phase-contrast micro-CT

Marius Reichardt; Mareike Töpperwien; Amara Khan; Frauke Alves; Tim Salditt

doi:10.1117/12.2527744

16 September 2019 Fiber orientation in a whole mouse heart reconstructed by laboratory phase-contrast micro-CT

Marius Reichardt, Mareike Töpperwien, Amara Khan, Frauke Alves, Tim Salditt

Proceedings Volume 11113, Developments in X-Ray Tomography XII; 111130S (2019) https://doi.org/10.1117/12.2527744
Event: SPIE Optical Engineering + Applications, 2019, San Diego, California, United States

Abstract

Here we present a phase contrast X-ray tomography study of of wild type C57BL/6 mouse hearts, as nondestructive approach to the microanatomy on the scale of the entire excised organ. Based on the partial coherence at a home-built phase-contrast μ-CT setup installed at a liquid metal jet (LMJ) source, we exploit phase retrieval and hence achieve superior image quality for heart tissue, almost comparable to previous synchrotron data on the whole organ scale. The fact that this is possible with compact laboratory instrumentation opens up new opportunities for screening samples and to optimize sample preparation, also prior to synchrotron beamtimes. In this work, different embedding methods and also heavy metal-based stains have been explored. From the tomographic reconstructions, quantitative structural parameters describing the 3D architecture have been derived, by two different fiber tracking algorithms. The first algorithm is based on the local gradient of the reconstructed electron density. By performing a principal component analysis (PCA) on the local structure-tensor of small sub-volumes the dominant direction inside the volume can be determined. In addition to this approach which is already well established for heart tissue, we have implemented and tested an algorithm which is based on a local 3D Fourier transform. In addition to the determination of the fiber orientation, the degree of filament alignment and local thickness of single muscle fiber bundles can be obtained.

Conference Presentation

Citation Download Citation

Marius Reichardt, Mareike Töpperwien, Amara Khan, Frauke Alves, and Tim Salditt "Fiber orientation in a whole mouse heart reconstructed by laboratory phase-contrast micro-CT", Proc. SPIE 11113, Developments in X-Ray Tomography XII, 111130S (16 September 2019); https://doi.org/10.1117/12.2527744

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