Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.

Trichomes are leaf hairs that are formed by single cells on the leaf surface. They are known to be involved in pathogen resistance. Their patterning is considered to emerge from a field of initially equivalent cells through the action of a gene regulatory network involving trichome fate promoting an...

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Autores principales:	Henrik Failmezger, Benjamin Jaegle, Andrea Schrader, Martin Hülskamp, Achim Tresch
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/b057896f280e49929cbc0bf3a40cb445
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spelling	oai:doaj.org-article:b057896f280e49929cbc0bf3a40cb4452021-11-18T05:52:12ZSemi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.1553-734X1553-735810.1371/journal.pcbi.1003029https://doaj.org/article/b057896f280e49929cbc0bf3a40cb4452013-04-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23637587/?tool=EBIhttps://doaj.org/toc/1553-734Xhttps://doaj.org/toc/1553-7358Trichomes are leaf hairs that are formed by single cells on the leaf surface. They are known to be involved in pathogen resistance. Their patterning is considered to emerge from a field of initially equivalent cells through the action of a gene regulatory network involving trichome fate promoting and inhibiting factors. For a quantitative analysis of single and double mutants or the phenotypic variation of patterns in different ecotypes, it is imperative to statistically evaluate the pattern reliably on a large number of leaves. Here we present a method that enables the analysis of trichome patterns at early developmental leaf stages and the automatic analysis of various spatial parameters. We focus on the most challenging young leaf stages that require the analysis in three dimensions, as the leaves are typically not flat. Our software TrichEratops reconstructs 3D surface models from 2D stacks of conventional light-microscope pictures. It allows the GUI-based annotation of different stages of trichome development, which can be analyzed with respect to their spatial distribution to capture trichome patterning events. We show that 3D modeling removes biases of simpler 2D models and that novel trichome patterning features increase the sensitivity for inter-accession comparisons.Henrik FailmezgerBenjamin JaegleAndrea SchraderMartin HülskampAchim TreschPublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Computational Biology, Vol 9, Iss 4, p e1003029 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 Henrik Failmezger Benjamin Jaegle Andrea Schrader Martin Hülskamp Achim Tresch Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
description	Trichomes are leaf hairs that are formed by single cells on the leaf surface. They are known to be involved in pathogen resistance. Their patterning is considered to emerge from a field of initially equivalent cells through the action of a gene regulatory network involving trichome fate promoting and inhibiting factors. For a quantitative analysis of single and double mutants or the phenotypic variation of patterns in different ecotypes, it is imperative to statistically evaluate the pattern reliably on a large number of leaves. Here we present a method that enables the analysis of trichome patterns at early developmental leaf stages and the automatic analysis of various spatial parameters. We focus on the most challenging young leaf stages that require the analysis in three dimensions, as the leaves are typically not flat. Our software TrichEratops reconstructs 3D surface models from 2D stacks of conventional light-microscope pictures. It allows the GUI-based annotation of different stages of trichome development, which can be analyzed with respect to their spatial distribution to capture trichome patterning events. We show that 3D modeling removes biases of simpler 2D models and that novel trichome patterning features increase the sensitivity for inter-accession comparisons.
format	article
author	Henrik Failmezger Benjamin Jaegle Andrea Schrader Martin Hülskamp Achim Tresch
author_facet	Henrik Failmezger Benjamin Jaegle Andrea Schrader Martin Hülskamp Achim Tresch
author_sort	Henrik Failmezger
title	Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
title_short	Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
title_full	Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
title_fullStr	Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
title_full_unstemmed	Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
title_sort	semi-automated 3d leaf reconstruction and analysis of trichome patterning from light microscopic images.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/b057896f280e49929cbc0bf3a40cb445
work_keys_str_mv	AT henrikfailmezger semiautomated3dleafreconstructionandanalysisoftrichomepatterningfromlightmicroscopicimages AT benjaminjaegle semiautomated3dleafreconstructionandanalysisoftrichomepatterningfromlightmicroscopicimages AT andreaschrader semiautomated3dleafreconstructionandanalysisoftrichomepatterningfromlightmicroscopicimages AT martinhulskamp semiautomated3dleafreconstructionandanalysisoftrichomepatterningfromlightmicroscopicimages AT achimtresch semiautomated3dleafreconstructionandanalysisoftrichomepatterningfromlightmicroscopicimages
_version_	1718424748709380096

Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.

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