Rapid phenotyping of crop root systems in undisturbed field soils using X-ray computed tomography

Plant Methods
Johannes PfeiferAchim Walter

Abstract

X-ray computed tomography (CT) has become a powerful tool for root phenotyping. Compared to rather classical, destructive methods, CT encompasses various advantages. In pot experiments the growth and development of the same individual root can be followed over time and in addition the unaltered configuration of the 3D root system architecture (RSA) interacting with a real field soil matrix can be studied. Yet, the throughput, which is essential for a more widespread application of CT for basic research or breeding programs, suffers from the bottleneck of rapid and standardized segmentation methods to extract root structures. Using available methods, root segmentation is done to a large extent manually, as it requires a lot of interactive parameter optimization and interpretation and therefore needs a lot of time. Based on commercially available software, this paper presents a protocol that is faster, more standardized and more versatile compared to existing segmentation methods, particularly if used to analyse field samples collected in situ. To the knowledge of the authors this is the first study approaching to develop a comprehensive segmentation method suitable for comparatively large columns sampled in situ which contain co...Continue Reading

References

Jan 25, 2012·Journal of Experimental Botany·Richard J FlavelIain M Young
Apr 25, 2012·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Jonathan P Lynch, Kathleen M Brown
Feb 5, 2013·Journal of Experimental Botany·Peter J GregorySonja Schmidt
Mar 22, 2013·Plant Methods·Stefan MairhoferTony Paul Pridmore
Oct 22, 2013·Trends in Plant Science·José Luis Araus, Jill E Cairns
Mar 15, 2015·Plant Methods·Achim WalterAndreas Hund

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Citations

Feb 26, 2016·Journal of Integrative Plant Biology·Christopher N ToppZhengbin Liu
Oct 8, 2016·The Science of the Total Environment·Tino ColombiAchim Walter
Nov 20, 2016·The Plant Journal : for Cell and Molecular Biology·Sigrid HeuerHatem Rouached
Feb 23, 2020·Plant Methods·Jessica SchmidtStefan Gerth
Dec 15, 2020·Plant Phenomics : a Science Partner Journal·James D BurridgeJonathan P Lynch
Apr 17, 2021·Frontiers in Plant Science·Jessica K Van HarsselaarStefan Gerth

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Methods Mentioned

BETA
X-ray
RSA
RSAs

Software Mentioned

Volume
WinRHIZO
datos
VG Studio MAX
MatLab
RooTrak

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