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Quantitative 3D characterization of biological structures by X-ray computed microtomography
Tesařová, Markéta ; Vaňhara,, Petr (oponent) ; Oberta,, Peter (oponent) ; Zikmund, Tomáš (vedoucí práce)
Modern developmental biology uses a broad spectrum of methods for analysing structures of interest. Multi-disciplinary teams are currently pushing forward the understanding of biological questions using 3D approaches. However, one major challenge of 3D imaging techniques in biology is a lack of methodology for quantifying observed phenomena that are often the cause of developmental or genetic disorders. One of the methods whose application has been widely spread in recent years is X-ray computed microtomography (microCT). This technique provides isotropic resolution up to 1 µm and, when a sample is appropriately prepared, a wide variety of tissue differentiation. However, biological structures are usually diverse in size and shape, and every task requires a specific solution regarding data processing. This work addresses the implementation of microCT for imaging and mainly 3D characterization of biological structures ex-vivo. Particular emphasis is given to analysing soft tissues in mouse embryos’ heads and imaging salamander species, focusing on their regeneration ability. This work describes the relevant information for microCT users dealing with biological samples; it includes the preparation of the sample for measurements, selecting suitable parameters for the experiment and mainly subsequent quantitative analysis of 3D datasets. The latest technological advancements in 3D imaging were studied and tested on concrete projects in the field of developmental biology, where 3D information from microCT played a key role.
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