Two videos (.AVI files), one per soybean cultivar, were produced in MATLAB (MathWorks, Natick, MA, USA) from skeletal 3-D images of the root systems, and are made available as a supplement to the graphical results presented for the 3-D phenotyping system in Figure 2 in the manuscript.
Open resource ↗lines:100-116Unverified paper record
Comparing Results from 2-D and 3-D Phenotyping Systems for Soybean Root System Architecture: A 'Comparison of Apples and Oranges'?
Plants · 29 Nov 2024 · 10.3390/plants13233369
Abstract
Typically, root system architecture (RSA) is not visible, and realistically, high-throughput methods for RSA trait phenotyping should capture key features of developing root systems in solid substrates in 3D. In a published 2-D study using thin rhizoboxes, vermiculite as a growing medium, and photography for imaging, triplicates of 137 soybean cultivars were phenotyped for their RSA. In the transition to 3-D work using X-ray computed tomography (CT) scanning and mineral soil, two research questions are addressed: (1) how different is the soybean RSA characterization between the two phenotyping systems; and (2) is a direct comparison of the results reliable? Prior to a full-scale study in 3D, we grew, in pots filled with sand, triplicates of the Casino and OAC Woodstock cultivars that had shown the most contrasting RSAs in the 2-D study, and CT scanned them at the V1 vegetative stage of development of the shoots. Differences between soybean cultivars in RSA traits, such as total root length and fractal dimension (FD), observed in 2D, can change in 3D. In particular, in 2D, the mean FD values are 1.48 ± 0.16 (OAC Woodstock) vs. 1.31 ± 0.16 (Casino), whereas in 3D, they are 1.52 ± 0.14 (OAC Woodstock) vs. 1.24 ± 0.13 (Casino), indicating variations in RSA complexity.
Plant phenotyping relevance
2D写真法と3D X線CT法という根系表現型計測システムを比較・評価し、RSA形質の測定結果の信頼性を検討しているため、フェノタイピング手法が中心である。
abstracthigh-throughput methods for RSA trait phenotyping should capture key features of developing root systems in solid substrates in 3D
abstracthow different is the soybean RSA characterization between the two phenotyping systems; and (2) is a direct comparison of the results reliable?
abstractCT scanned them at the V1 vegetative stage
Code and data availability
The paper's own supplement (MDPI S1) contains two videos produced in MATLAB from skeletal 3-D images of the root systems reconstructed from this study's CT scanning data — paper-specific phenotyping outputs made publicly available. The figshare links are explicitly described as 'soybean genomic data' from the prior GWA
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