NDLI: Workflow for phenotyping sugar beet roots by automated evaluation of cell characteristics and tissue arrangement using digital image processing

Content Provider	Springer Nature : BioMed Central
Author	Nause, Nelia Ispizua Yamati, Facundo R. Seidel, Marion Mahlein, Anne-Katrin Hoffmann, Christa M.
Abstract	Background Cell characteristics, including cell type, size, shape, packing, cell-to-cell-adhesion, intercellular space, and cell wall thickness, influence the physical characteristics of plant tissues. Genotypic differences were found concerning damage susceptibility related to beet texture for sugar beet (Beta vulgaris). Sugar beet storage roots are characterized by heterogeneous tissue with several cambium rings surrounded by small-celled vascular tissue and big-celled sugar-storing parenchyma between the rings. This study presents a procedure for phenotyping heterogeneous tissues like beetroots by imaging. Results Ten Beta genotypes (nine sugar beet and one fodder beet) were included to establish a pipeline for the automated histologic evaluation of cell characteristics and tissue arrangement using digital image processing written in the programming language R. The identification of cells has been validated by comparison with manual cell identification. Cells are reliably discriminated from intercellular spaces, and cells with similar morphological features are assigned to biological tissue types. Conclusions Genotypic differences in cell diameter and cell arrangement can straightforwardly be phenotyped by the presented workflow. The presented routine can further identify genotypic differences in cell diameter and cell arrangement during early growth stages and between sugar storage capabilities.
Related Links	https://plantmethods.biomedcentral.com/counter/pdf/10.1186/s13007-023-01014-0.pdf
Ending Page	14
Page Count	14
Starting Page	1
File Format	HTM / HTML
ISSN	17464811
DOI	10.1186/s13007-023-01014-0
Journal	Plant Methods
Issue Number	1
Volume Number	19
Language	English
Publisher	BioMed Central
Publisher Date	2023-03-31
Access Restriction	Open
Subject Keyword	Plant Sciences Biological Techniques Sugar beet Histology Histologic evaluation Digital image processing Phenotyping
Content Type	Text
Resource Type	Article
Subject	Plant Science Biotechnology Genetics
Journal Impact Factor	4.7/2023
5-Year Journal Impact Factor	5.6/2023

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

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