Quantitative imaging of plants: multi-scale data for better plant anatomy

Legland, David; Devaux, Marie-Françoise; Guillon, Fabienne

doi:10.1093/jxb/erx416

Cited by 10 publications

(6 citation statements)

References 21 publications

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“…Further work concern the parametric mapping of local anisotropy of cellular morphology, and the joint analysis of parametric maps of cellular morphology with features obtaines from other acquisition devices (histochemical imaging, fluorescence imaging...). The integration and the fusion of imaging modalities from multiple sources and at multiple scales [8,57,58] should help reveal relationships between morphometry and chemistry of plant tissues.…”

Section: Discussionmentioning

confidence: 99%

Parametric mapping of cellular morphology in plant tissue sections by gray level granulometry

2020

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Background: The cellular morphology of plant organs is strongly related to other physical properties such as shape, size, growth, mechanical properties or chemical composition. Cell morphology often vary depending on the type of tissue, or on the distance to a specific tissue. A common challenge in quantitative plant histology is to quantify not only the cellular morphology, but also its variations within the image or the organ. Image texture analysis is a fundamental tool in many areas of image analysis, that was proven efficient for plant histology, but at the scale of the whole image. Results: This work presents a method that generates a parametric mapping of cellular morphology within images of plant tissues. It is based on gray level granulometry from mathematical morphology for extracting image texture features, and on Centroidal Voronoi Diagram for generating a partition of the image. Resulting granulometric curves can be interpreted either through multivariate data analysis or by using summary features corresponding to the local average cell size. The resulting parametric maps describe the variations of cellular morphology within the organ. Conclusions: We propose a methodology for the quantification of cellular morphology and of its variations within images of tissue sections. The results should help understanding how the cellular morphology is related to genotypic and / or environmental variations, and clarify the relationships between cellular morphology and chemical composition of cell walls.

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Section: Discussionmentioning

confidence: 99%

Parametric mapping of cellular morphology in plant tissue sections by gray level granulometry

2020

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“…For example, microscopy provides rich information about cell and tissue morphology of specific layers, but is limited to 2D images. A multiscale approach could be considered, where 3D μCT images would characterize the spatial distribution of the different tissues, and microscopy images would add details about specific regions [51, 52].…”

Section: Discussionmentioning

confidence: 99%

Use of X-ray micro computed tomography imaging to analyze the morphology of wheat grain through its development

Alvarado

Girousse

et al. 2019

Plant Methods

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Background Wheat is one of the most important staple source in the world for human consumption, animal feed and industrial raw materials. To deal with the global and increasing population demand, enhancing crop yield by increasing the final weight of individual grain is considered as a feasible solution. Morphometric analysis of wheat grain plays an important role in tracking and understanding developmental processes by assessing potential impacts on grains properties, size and shape that are major determinants of final grain weight. X-ray micro computed tomography (μCT) is a very powerful non-invasive imaging tool that is able to acquire 3D images of an individual grain, enabling to assess the morphology of wheat grain and of its different compartments. Our objective is to quantify changes of morphology during growth stages of wheat grain from 3D μCT images. Methods 3D μCT images of wheat grains were acquired at various development stages ranging from 60 to 310 degree days after anthesis. We developed robust methods for the identification of outer and inner tissues within the grains, and the extraction of morphometric features using 3D μCT images. We also developed a specific workflow for the quantification of the shape of the grain crease. Results The different compartments of the grain could be semi-automatically segmented. Variations of volumes of the compartments adequately describe the different stages of grain developments. The evolution of voids within wheat grain reflects lysis of outer tissues and growth of inner tissues. The crease shape could be quantified for each grain and averaged for each stage of development, helping us understand the genesis of the grain shape. Conclusion This work shows that μCT acquisitions and image processing methodologies are powerful tools to extract morphometric parameters of developing wheat grain. The results of quantitative analysis revealed remarkable features of wheat grain growth. Further work will focus on building a computational model of wheat grain growth based on real 3D imaging data. Electronic supplementary material The online version of this article (10.1186/s13007-019-0468-y) contains supplementary material, which is available to authorized users.

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“…There is an increased amount of research focusing on micromorphological studies as plant scientists pursue the question on how organisms evolved and diversified. To understand such morphological complexity of plants, various techniques have been developed or improved to facilitate plant phenotyping (Brodersen & Roddy, 2016; Legland et al ., 2018; Strock et al ., 2022). Here, we tested LATscan, a new imaging technology applied in plant sciences, to demonstrate its potential as an alternative tool for qualitative, quantitative, and high‐throughput research of woody plants.…”

Section: Discussionmentioning

confidence: 99%

Laser ablation tomography (LATscan) as a new tool for anatomical studies of woody plants

Neto

Hall²,

Lanba

et al. 2023

New Phytologist

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Traditionally, botanists study plant anatomy by carefully sectioning samples, histological staining to highlight tissues of interests, then imaging slides under light microscopy. This approach generates significant details; however, this workflow is laborious, particularly in woody vines (lianas) with heterogeneous anatomies, and ultimately yields two-dimensional (2D) images. Laser ablation tomography (LATscan) is a high-throughput imaging system that yields hundreds of images per minute. This method has proven useful for studying the structure of delicate plant tissues; however, its utility in understanding the structure of woody tissues is underexplored.We report LATscan-derived anatomical data from several stems of lianas (c. 20 mm) of seven species and compare these results with those obtained through traditional anatomical techniques.LATscan successfully allows the description of tissue composition by differentiating cell type, size, and shape, but also permits the recognition of distinct cell wall composition (e.g. lignin, suberin, cellulose) based on differential fluorescent signals on unstained samples.LATscan generate high-quality 2D images and 3D reconstructions of woody plant samples; therefore, this new technology is useful for both qualitative and quantitative analyses. This high-throughput imaging technology has the potential to bolster phenotyping of vegetative and reproductive anatomy, wood anatomy, and other biological systems.

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Quantitative imaging of plants: multi-scale data for better plant anatomy

Abstract: This article comments on:Staedler YM, Kreisberger T, Manafzadeh S, Chartier M, Handschuh S, Pamperl S, Sontag S, Paun O, Schönenberger J. 2017. .

Cited by 10 publications

References 21 publications

Parametric mapping of cellular morphology in plant tissue sections by gray level granulometry

Parametric mapping of cellular morphology in plant tissue sections by gray level granulometry

Use of X-ray micro computed tomography imaging to analyze the morphology of wheat grain through its development

Laser ablation tomography (LATscan) as a new tool for anatomical studies of woody plants

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