TY - GEN
T1 - Synchrotron microCT imaging of soft tissue in juvenile zebrafish reveals retinotectal projections
AU - Xin, Xuying
AU - Clark, Darin
AU - Ang, Khai Chung
AU - Van Rossum, Damian B.
AU - Copper, Jean
AU - Xiao, Xianghui
AU - La Riviere, Patrick J.
AU - Cheng, Keith C.
N1 - Funding Information:
We acknowledge support from NIH grants R24 RR017441, R24 OD011152, and 1R24 OD18559 to KCC, R01CA242956, R01AR052535 and RO1CA13468 to PLR, and funds from the Jake Gittlen Memorial Golf Tournament, The State of Pennsylvania Department of Health for a Tobacco CURE Cancer Award, and from the Pennsylvania State University Institute for Cyberscience seed grant in support of the Consortium for Interdisciplinary Image Informatics and Visualization (CI3V) to KCC. The Pennsylvania Department of Health specifically disclaims responsibility for any analyses, interpretations or conclusions. We acknowledge help from Tiffany Foster, Alex Lin, and Steve Peckins in the Cheng lab, F. De Carlo of the Advanced Photon Source at the Argonne National Laboratory in Illinois, and Jackie Webb (Rhode Island)
Publisher Copyright:
© 2017 SPIE.
PY - 2017
Y1 - 2017
N2 - Biomedical research and clinical diagnosis would benefit greatly from full volume determinations of anatomical phenotype. Comprehensive tools for morphological phenotyping are central for the emerging field of phenomics, which requires high-throughput, systematic, accurate, and reproducible data collection from organisms affected by genetic, disease, or environmental variables. Theoretically, complete anatomical phenotyping requires the assessment of every cell type in the whole organism, but this ideal is presently untenable due to the lack of an unbiased 3D imaging method that allows histopathological assessment of any cell type despite optical opacity. Histopathology, the current clinical standard for diagnostic phenotyping, involves the microscopic study of tissue sections to assess qualitative aspects of tissue architecture, disease mechanisms, and physiological state. However, quantitative features of tissue architecture such as cellular composition and cell counting in tissue volumes can only be approximated due to characteristics of tissue sectioning, including incomplete sampling and the constraints of 2D imaging of 5 micron thick tissue slabs. We have used a small, vertebrate organism, the zebrafish, to test the potential of microCT for systematic macroscopic and microscopic morphological phenotyping. While cell resolution is routinely achieved using methods such as light sheet fluorescence microscopy and optical tomography, these methods do not provide the pancellular perspective characteristic of histology, and are constrained by the limited penetration of visible light through pigmented and opaque specimens, as characterizes zebrafish juveniles. Here, we provide an example of neuroanatomy that can be studied by microCT of stained soft tissue at 1.43 micron isotropic voxel resolution. We conclude that synchrotron microCT is a form of 3D imaging that may potentially be adopted towards more reproducible, large-scale, morphological phenotyping of optically opaque tissues. Further development of soft tissue microCT, visualization and quantitative tool development will enhance its utility.
AB - Biomedical research and clinical diagnosis would benefit greatly from full volume determinations of anatomical phenotype. Comprehensive tools for morphological phenotyping are central for the emerging field of phenomics, which requires high-throughput, systematic, accurate, and reproducible data collection from organisms affected by genetic, disease, or environmental variables. Theoretically, complete anatomical phenotyping requires the assessment of every cell type in the whole organism, but this ideal is presently untenable due to the lack of an unbiased 3D imaging method that allows histopathological assessment of any cell type despite optical opacity. Histopathology, the current clinical standard for diagnostic phenotyping, involves the microscopic study of tissue sections to assess qualitative aspects of tissue architecture, disease mechanisms, and physiological state. However, quantitative features of tissue architecture such as cellular composition and cell counting in tissue volumes can only be approximated due to characteristics of tissue sectioning, including incomplete sampling and the constraints of 2D imaging of 5 micron thick tissue slabs. We have used a small, vertebrate organism, the zebrafish, to test the potential of microCT for systematic macroscopic and microscopic morphological phenotyping. While cell resolution is routinely achieved using methods such as light sheet fluorescence microscopy and optical tomography, these methods do not provide the pancellular perspective characteristic of histology, and are constrained by the limited penetration of visible light through pigmented and opaque specimens, as characterizes zebrafish juveniles. Here, we provide an example of neuroanatomy that can be studied by microCT of stained soft tissue at 1.43 micron isotropic voxel resolution. We conclude that synchrotron microCT is a form of 3D imaging that may potentially be adopted towards more reproducible, large-scale, morphological phenotyping of optically opaque tissues. Further development of soft tissue microCT, visualization and quantitative tool development will enhance its utility.
UR - http://www.scopus.com/inward/record.url?scp=85019184268&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85019184268&partnerID=8YFLogxK
U2 - 10.1117/12.2267477
DO - 10.1117/12.2267477
M3 - Conference contribution
AN - SCOPUS:85019184268
T3 - Progress in Biomedical Optics and Imaging - Proceedings of SPIE
BT - Optical Biopsy XV
A2 - Alfano, Robert R.
A2 - Demos, Stavros G.
PB - SPIE
T2 - Optical Biopsy XV: Toward Real-Time Spectroscopic Imaging and Diagnosis
Y2 - 31 January 2017 through 1 February 2017
ER -