Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin

Abstract The spatial organization in the cell nucleus is tightly linked to genome functions such as gene regulation. Similarly, specific spatial arrangements of biological components such as macromolecular complexes, organelles and cells are involved in many biological functions. Spatial interaction...

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Autores principales:	Javier Arpòn, Kaori Sakai, Valérie Gaudin, Philippe Andrey
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/18535a34f0d2423b9e056d75a3f488ab
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spelling	oai:doaj.org-article:18535a34f0d2423b9e056d75a3f488ab2021-12-02T15:22:59ZSpatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin10.1038/s41598-020-79158-52045-2322https://doaj.org/article/18535a34f0d2423b9e056d75a3f488ab2021-01-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-79158-5https://doaj.org/toc/2045-2322Abstract The spatial organization in the cell nucleus is tightly linked to genome functions such as gene regulation. Similarly, specific spatial arrangements of biological components such as macromolecular complexes, organelles and cells are involved in many biological functions. Spatial interactions among elementary components of biological systems define their relative positioning and are key determinants of spatial patterns. However, biological variability and the lack of appropriate spatial statistical methods and models limit our current ability to analyze these interactions. Here, we developed a framework to dissect spatial interactions and organization principles by combining unbiased statistical tests, multiple spatial descriptors and new spatial models. We used plant constitutive heterochromatin as a model system to demonstrate the potential of our framework. Our results challenge the common view of a peripheral organization of chromocenters, showing that chromocenters are arranged along both radial and lateral directions in the nuclear space and obey a multiscale organization with scale-dependent antagonistic effects. The proposed generic framework will be useful to identify determinants of spatial organizations and to question their interplay with biological functions.Javier ArpònKaori SakaiValérie GaudinPhilippe AndreyNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-17 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Javier Arpòn Kaori Sakai Valérie Gaudin Philippe Andrey Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin
description	Abstract The spatial organization in the cell nucleus is tightly linked to genome functions such as gene regulation. Similarly, specific spatial arrangements of biological components such as macromolecular complexes, organelles and cells are involved in many biological functions. Spatial interactions among elementary components of biological systems define their relative positioning and are key determinants of spatial patterns. However, biological variability and the lack of appropriate spatial statistical methods and models limit our current ability to analyze these interactions. Here, we developed a framework to dissect spatial interactions and organization principles by combining unbiased statistical tests, multiple spatial descriptors and new spatial models. We used plant constitutive heterochromatin as a model system to demonstrate the potential of our framework. Our results challenge the common view of a peripheral organization of chromocenters, showing that chromocenters are arranged along both radial and lateral directions in the nuclear space and obey a multiscale organization with scale-dependent antagonistic effects. The proposed generic framework will be useful to identify determinants of spatial organizations and to question their interplay with biological functions.
format	article
author	Javier Arpòn Kaori Sakai Valérie Gaudin Philippe Andrey
author_facet	Javier Arpòn Kaori Sakai Valérie Gaudin Philippe Andrey
author_sort	Javier Arpòn
title	Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin
title_short	Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin
title_full	Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin
title_fullStr	Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin
title_full_unstemmed	Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin
title_sort	spatial modeling of biological patterns shows multiscale organization of arabidopsis thaliana heterochromatin
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/18535a34f0d2423b9e056d75a3f488ab
work_keys_str_mv	AT javierarpon spatialmodelingofbiologicalpatternsshowsmultiscaleorganizationofarabidopsisthalianaheterochromatin AT kaorisakai spatialmodelingofbiologicalpatternsshowsmultiscaleorganizationofarabidopsisthalianaheterochromatin AT valeriegaudin spatialmodelingofbiologicalpatternsshowsmultiscaleorganizationofarabidopsisthalianaheterochromatin AT philippeandrey spatialmodelingofbiologicalpatternsshowsmultiscaleorganizationofarabidopsisthalianaheterochromatin
_version_	1718387370723639296

Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin

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