Computational 3D histological phenotyping of whole zebrafish by X-ray histotomography

eLife

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[1] Advanced Photon Source, Argonne National Laboratory, Lemont, United States;Center for In Vivo Microscopy, Duke University, Durham, United States;Department of Radiology, The University of Chicago, Chicago, United States;Imaging Group, Omnivision Technologies, Inc., Santa Clara, United States;National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, United States;The Jake Gittlen Laboratories for Cancer Research, Penn State College of Medicine, Hershey, United States;Division of Experimental Pathology, Department of Pathology, Penn State College of Medicine, Hershey, United States;The Jake Gittlen Laboratories for Cancer Research, Penn State College of Medicine, Hershey, United States;Division of Experimental Pathology, Department of Pathology, Penn State College of Medicine, Hershey, United States;Medical Scientist Training Program, Penn State College of Medicine, Hershey, United States;

关键词: volumetric histology;    whole-organism phenomics;    3D imaging;    micro-CT;    zebrafish;    tissue architecture;    computational phenomics;    3D histology;    phenotypic variation;    cell density;    cell shape;    Zebrafish;   

DOI  :  10.7554/eLife.44898

来源: publisher

【 摘 要 】

10.7554/eLife.44898.001Organismal phenotypes frequently involve multiple organ systems. Histology is a powerful way to detect cellular and tissue phenotypes, but is largely descriptive and subjective. To determine how synchrotron-based X-ray micro-tomography (micro-CT) can yield 3-dimensional whole-organism images suitable for quantitative histological phenotyping, we scanned whole zebrafish, a small vertebrate model with diverse tissues, at ~1 micron voxel resolutions. Micro-CT optimized for cellular characterization (histotomography) allows brain nuclei to be computationally segmented and assigned to brain regions, and cell shapes and volumes to be computed for motor neurons and red blood cells. Striking individual phenotypic variation was apparent from color maps of computed densities of brain nuclei. Unlike histology, the histotomography also allows the study of 3-dimensional structures of millimeter scale that cross multiple tissue planes. We expect the computational and visual insights into 3D cell and tissue architecture provided by histotomography to be useful for reference atlases, hypothesis generation, comprehensive organismal screens, and diagnostics.

【 授权许可】

CC BY