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...

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Autores principales:	Venera Weinhardt, Roman Shkarin, Tobias Wernet, Joachim Wittbrodt, Tilo Baumbach, Felix Loosli
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Morphometric Quantitation Comparative Morphometric Analysis Adult Teleosts Medaka Strains Medaka Fish Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b014356499db425f9c5e6daa1605467b
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spelling	oai:doaj.org-article:b014356499db425f9c5e6daa1605467b2021-12-02T15:09:06ZQuantitative morphometric analysis of adult teleost fish by X-ray computed tomography10.1038/s41598-018-34848-z2045-2322https://doaj.org/article/b014356499db425f9c5e6daa1605467b2018-11-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-34848-zhttps://doaj.org/toc/2045-2322Abstract 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.Venera WeinhardtRoman ShkarinTobias WernetJoachim WittbrodtTilo BaumbachFelix LoosliNature PortfolioarticleMorphometric QuantitationComparative Morphometric AnalysisAdult TeleostsMedaka StrainsMedaka FishMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-12 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Morphometric Quantitation Comparative Morphometric Analysis Adult Teleosts Medaka Strains Medaka Fish Medicine R Science Q
spellingShingle	Morphometric Quantitation Comparative Morphometric Analysis Adult Teleosts Medaka Strains Medaka Fish Medicine R Science Q Venera Weinhardt Roman Shkarin Tobias Wernet Joachim Wittbrodt Tilo Baumbach Felix Loosli Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography
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.
format	article
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
title	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_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_sort	quantitative morphometric analysis of adult teleost fish by x-ray computed tomography
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/b014356499db425f9c5e6daa1605467b
work_keys_str_mv	AT veneraweinhardt quantitativemorphometricanalysisofadultteleostfishbyxraycomputedtomography AT romanshkarin quantitativemorphometricanalysisofadultteleostfishbyxraycomputedtomography AT tobiaswernet quantitativemorphometricanalysisofadultteleostfishbyxraycomputedtomography AT joachimwittbrodt quantitativemorphometricanalysisofadultteleostfishbyxraycomputedtomography AT tilobaumbach quantitativemorphometricanalysisofadultteleostfishbyxraycomputedtomography AT felixloosli quantitativemorphometricanalysisofadultteleostfishbyxraycomputedtomography
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Quantitative morphometric analysis of adult teleost fish by X-ray computed tomography

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