Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography
Abstract Vertebrate models provide indispensable paradigms to study development and disease. Their analysis requires a quantitative morphometric study of the body, organs and tissues. This is often impeded by pigmentation and sample size. X-ray micro-computed tomography (micro-CT) allows high-resolu...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2018-11-01
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| Series: | Scientific Reports |
| Subjects: | |
| Online Access: | https://doi.org/10.1038/s41598-018-34848-z |
| _version_ | 1818345873856266240 |
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| author | Venera Weinhardt Roman Shkarin Tobias Wernet Joachim Wittbrodt Tilo Baumbach Felix Loosli |
| author_facet | Venera Weinhardt Roman Shkarin Tobias Wernet Joachim Wittbrodt Tilo Baumbach Felix Loosli |
| author_sort | Venera Weinhardt |
| collection | DOAJ |
| description | Abstract Vertebrate models provide indispensable paradigms to study development and disease. Their analysis requires a quantitative morphometric study of the body, organs and tissues. This is often impeded by pigmentation and sample size. X-ray micro-computed tomography (micro-CT) allows high-resolution volumetric tissue analysis, largely independent of sample size and transparency to visual light. Importantly, micro-CT data are inherently quantitative. We report a complete pipeline of high-throughput 3D data acquisition and image analysis, including tissue preparation and contrast enhancement for micro-CT imaging down to cellular resolution, automated data processing and organ or tissue segmentation that is applicable to comparative 3D morphometrics of small vertebrates. Applied to medaka fish, we first create an annotated anatomical atlas of the entire body, including inner organs as a quantitative morphological description of an adult individual. This atlas serves as a reference model for comparative studies. Using isogenic medaka strains we show that comparative 3D morphometrics of individuals permits identification of quantitative strain-specific traits. Thus, our pipeline enables high resolution morphological analysis as a basis for genotype-phenotype association studies of complex genetic traits in vertebrates. |
| first_indexed | 2024-12-13T17:09:18Z |
| format | Article |
| id | doaj.art-b014356499db425f9c5e6daa1605467b |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-12-13T17:09:18Z |
| publishDate | 2018-11-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-b014356499db425f9c5e6daa1605467b2022-12-21T23:37:37ZengNature PortfolioScientific Reports2045-23222018-11-018111210.1038/s41598-018-34848-zQuantitative morphometric analysis of adult teleost fish by X-ray computed tomographyVenera Weinhardt0Roman Shkarin1Tobias Wernet2Joachim Wittbrodt3Tilo Baumbach4Felix Loosli5Institute for Photon Science and Synchrotron Radiation, Karlsruhe Institute of TechnologyLaboratory for Applications of Synchrotron Radiation, Karlsruhe Institute of TechnologyCentre for Organismal Studies, COS, Heidelberg UniversityCentre for Organismal Studies, COS, Heidelberg UniversityInstitute for Photon Science and Synchrotron Radiation, Karlsruhe Institute of TechnologyInstitute of Toxicology and Genetics, Karlsruhe Institute of TechnologyAbstract Vertebrate models provide indispensable paradigms to study development and disease. Their analysis requires a quantitative morphometric study of the body, organs and tissues. This is often impeded by pigmentation and sample size. X-ray micro-computed tomography (micro-CT) allows high-resolution volumetric tissue analysis, largely independent of sample size and transparency to visual light. Importantly, micro-CT data are inherently quantitative. We report a complete pipeline of high-throughput 3D data acquisition and image analysis, including tissue preparation and contrast enhancement for micro-CT imaging down to cellular resolution, automated data processing and organ or tissue segmentation that is applicable to comparative 3D morphometrics of small vertebrates. Applied to medaka fish, we first create an annotated anatomical atlas of the entire body, including inner organs as a quantitative morphological description of an adult individual. This atlas serves as a reference model for comparative studies. Using isogenic medaka strains we show that comparative 3D morphometrics of individuals permits identification of quantitative strain-specific traits. Thus, our pipeline enables high resolution morphological analysis as a basis for genotype-phenotype association studies of complex genetic traits in vertebrates.https://doi.org/10.1038/s41598-018-34848-zMorphometric QuantitationComparative Morphometric AnalysisAdult TeleostsMedaka StrainsMedaka Fish |
| spellingShingle | Venera Weinhardt Roman Shkarin Tobias Wernet Joachim Wittbrodt Tilo Baumbach Felix Loosli Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography Scientific Reports Morphometric Quantitation Comparative Morphometric Analysis Adult Teleosts Medaka Strains Medaka Fish |
| title | Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography |
| title_full | Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography |
| title_fullStr | Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography |
| title_full_unstemmed | Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography |
| title_short | Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography |
| title_sort | quantitative morphometric analysis of adult teleost fish by x ray computed tomography |
| topic | Morphometric Quantitation Comparative Morphometric Analysis Adult Teleosts Medaka Strains Medaka Fish |
| url | https://doi.org/10.1038/s41598-018-34848-z |
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