Methods of In Situ Quantitative Root Biology

When dealing with plant roots, a multiscale description of the functional root structure is needed. Since the beginning of 21st century, new devices such as laser confocal microscopes have been accessible for coarse root structure measurements, including three-dimensional (3D) reconstruction. Most r...

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Autores principales:	Taras Pasternak, José Manuel Pérez-Pérez
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	root apical meristem (RAM) lateral root (LR) cell cycle nuclear structure chromatin organization Botany QK1-989
Acceso en línea:	https://doaj.org/article/e3f198ccc48c4f9492690c53ad103583
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id	oai:doaj.org-article:e3f198ccc48c4f9492690c53ad103583
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spelling	oai:doaj.org-article:e3f198ccc48c4f9492690c53ad1035832021-11-25T18:46:17ZMethods of In Situ Quantitative Root Biology10.3390/plants101123992223-7747https://doaj.org/article/e3f198ccc48c4f9492690c53ad1035832021-11-01T00:00:00Zhttps://www.mdpi.com/2223-7747/10/11/2399https://doaj.org/toc/2223-7747When dealing with plant roots, a multiscale description of the functional root structure is needed. Since the beginning of 21st century, new devices such as laser confocal microscopes have been accessible for coarse root structure measurements, including three-dimensional (3D) reconstruction. Most researchers are familiar with using simple 2D geometry visualization that does not allow quantitative determination of key morphological features from an organ-like perspective. We provide here a detailed description of the quantitative methods available for 3D analysis of root features at single-cell resolution, including root asymmetry, lateral root analysis, cell size and nuclear organization, cell-cycle kinetics, and chromatin structure analysis. Quantitative maps of the root apical meristem (RAM) are shown for different species, including <i>Arabidopsis thaliana</i> (L.), Heynh, <i>Nicotiana tabacum</i> L., <i>Medicago sativa</i> L., and <i>Setaria italica</i> (L.) P. Beauv. The 3D analysis of the RAM in these species showed divergence in chromatin organization and cell volume distribution that might be used to study root zonation for each root tissue. Detailed protocols and possible pitfalls in the usage of the marker lines are discussed. Therefore, researchers who need to improve their quantitative root biology portfolio can use them as a reference.Taras PasternakJosé Manuel Pérez-PérezMDPI AGarticleroot apical meristem (RAM)lateral root (LR)cell cyclenuclear structurechromatin organizationBotanyQK1-989ENPlants, Vol 10, Iss 2399, p 2399 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	root apical meristem (RAM) lateral root (LR) cell cycle nuclear structure chromatin organization Botany QK1-989
spellingShingle	root apical meristem (RAM) lateral root (LR) cell cycle nuclear structure chromatin organization Botany QK1-989 Taras Pasternak José Manuel Pérez-Pérez Methods of In Situ Quantitative Root Biology
description	When dealing with plant roots, a multiscale description of the functional root structure is needed. Since the beginning of 21st century, new devices such as laser confocal microscopes have been accessible for coarse root structure measurements, including three-dimensional (3D) reconstruction. Most researchers are familiar with using simple 2D geometry visualization that does not allow quantitative determination of key morphological features from an organ-like perspective. We provide here a detailed description of the quantitative methods available for 3D analysis of root features at single-cell resolution, including root asymmetry, lateral root analysis, cell size and nuclear organization, cell-cycle kinetics, and chromatin structure analysis. Quantitative maps of the root apical meristem (RAM) are shown for different species, including <i>Arabidopsis thaliana</i> (L.), Heynh, <i>Nicotiana tabacum</i> L., <i>Medicago sativa</i> L., and <i>Setaria italica</i> (L.) P. Beauv. The 3D analysis of the RAM in these species showed divergence in chromatin organization and cell volume distribution that might be used to study root zonation for each root tissue. Detailed protocols and possible pitfalls in the usage of the marker lines are discussed. Therefore, researchers who need to improve their quantitative root biology portfolio can use them as a reference.
format	article
author	Taras Pasternak José Manuel Pérez-Pérez
author_facet	Taras Pasternak José Manuel Pérez-Pérez
author_sort	Taras Pasternak
title	Methods of In Situ Quantitative Root Biology
title_short	Methods of In Situ Quantitative Root Biology
title_full	Methods of In Situ Quantitative Root Biology
title_fullStr	Methods of In Situ Quantitative Root Biology
title_full_unstemmed	Methods of In Situ Quantitative Root Biology
title_sort	methods of in situ quantitative root biology
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/e3f198ccc48c4f9492690c53ad103583
work_keys_str_mv	AT taraspasternak methodsofinsituquantitativerootbiology AT josemanuelperezperez methodsofinsituquantitativerootbiology
_version_	1718410746257211392

Methods of In Situ Quantitative Root Biology

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