NDLI: Sample preparation and scanning protocol for computerised analysis of root length and diameter

Content Provider	Springer Nature Link
Author	Bouma, Tjeerd J. Nielsen, Kai L. Koutstaal, Bas
Copyright Year	2000
Abstract	Root length and diameter distribution are important characteristics to be considered when describing and comparing root systems. Root length and root-diameter distribution may be obtained in two ways: by microscopical measurements, which are laborious, or by computerised analysis, which is fast but sensitive to the scanning protocol. Although scanning protocols vary widely between laboratories, papers rarely report the details. Using two commercially available root analysis software packages (Delta-T Scan and WinRHIZO), we performed a sensitivity analysis of scanning protocols for estimating root length and diameter distribution. The results are shown graphically, rather than numerically, because the interactions between different parameters in the overall scanning protocol are most clearly illustrated by the shape of the curves. The present analysis clearly demonstrated the sensitivity of the two scanning methods with regard to staining period, maximum root density, scanning resolution and transformation threshold. For example, estimating the root-diameter distribution versus measuring root length, puts opposite constraints on the transformation threshold settings. We suggest the following settings for the most sensitive parameters: a staining period of 24 h, a root density of less than 0.5 mm root per mm$^{2}$ surface, a resolution of 400 dpi and the automatic threshold for WinRHIZO and a brightness of 200 for Delta-T Scan. According to this protocol, comparison of computerised analyses with microscopic measurements showed good total root length and diameter distribution agreement for three contrasting root systems. We suggest to always start with the present protocol when studying other species. If validation indicates that the proposed scanning protocol needs to be modified for other species, the present sensitivity analysis may be used as a guideline for changing the most critical parameters. Similarly, the use of another stain than neutral red may also require modifications of the scanning protocol. In general, a long staining period (e.g., 24 h) is recommended for all stains, as small differences in staining period have the least effect when the root tissue is saturated. To enhance comparability of results in the literature, the staining period, stain, (maximum) root density, scanner resolution and threshold should always be listed when root data obtained by scanning are presented.
Starting Page	185
Ending Page	196
Page Count	12
File Format	PDF
ISSN	0032079X
Journal	Plant and Soil
Volume Number	218
Issue Number	1-2
e-ISSN	15735036
Language	English
Publisher	Kluwer Academic Publishers
Publisher Date	2000-01-01
Publisher Place	Dordrecht
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Ecology Plant Sciences Plant Physiology Soil Science & Conservation
Content Type	Text
Resource Type	Article
Subject	Soil Science Plant Science

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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
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
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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