6953), the 520 Department of Energy ARPA-E ROOTS program (DE-AR0000822), and the United Soybean 521 Board (1420-532-5613). 522 Competing interests: The authors declare no competing interests. 523 Data availability: The wire and root crown image sets, tabular data, and R code for statistics and 524 graphing are available online: http://doi.org/10.5281/zenodo.3380473. The simulated root images 30
Open resource ↗Zenodo · 10.5281/zenodo.3380473 · pdf-layout-page:30 lines:1-56Unverified paper record
RhizoVision Crown: An Integrated Hardware and Software Platform for Root Crown Phenotyping
bioRxiv (Cold Spring Harbor Laboratory) · 6 Mar 2019 · 10.1101/569707
Abstract
ABSTRACT Root crown phenotyping measures the top portion of crop root systems and can be used for marker-assisted breeding, genetic mapping, and understanding how roots influence soil resource acquisition. Several imaging protocols and image analysis programs exist, but they are not optimized for high-throughput, repeatable, and robust root crown phenotyping. The RhizoVision Crown platform integrates an imaging unit, image capture software, and image analysis software that are optimized for reliable extraction of measurements from large numbers of root crowns. The hardware platform utilizes a back light and a monochrome machine vision camera to capture root crown silhouettes. RhizoVision Imager and RhizoVision Analyzer are free, open-source software that streamline image capture and image analysis with intuitive graphical user interfaces. RhizoVision Analyzer was physically validated using copper wire and features were extensively validated using 10,464 ground-truth simulated images of dicot and monocot root systems. This platform was then used to phenotype soybean and wheat root crowns. A total of 2,799 soybean ( Glycine max ) root crowns of 187 lines and 1,753 wheat ( Triticum aestivum ) root crowns of 186 lines were phenotyped. Principal component analysis indicated similar correlations among features in both species. The maximum heritability was 0.74 in soybean and 0.22 in wheat, indicating differences in species and populations need to be considered. The integrated RhizoVision Crown platform facilitates high-throughput phenotyping of crop root crowns, and sets a standard by which open plant phenotyping platforms can be benchmarked.
Plant phenotyping relevance
根冠形質を高スループットに取得するハードウェア、画像取得・解析ソフトウェアを開発し、物理的・シミュレーション画像で検証しているため、植物フェノタイピング手法が中心である。
abstractThe RhizoVision Crown platform integrates an imaging unit, image capture software, and image analysis software that are optimized for reliable extraction of measurements from large numbers of root crowns.
abstractRhizoVision Analyzer was physically validated using copper wire and features were extensively validated using 10,464 ground-truth simulated images of dicot and monocot root systems.
abstractThe integrated RhizoVision Crown platform facilitates high-throughput phenotyping of crop root crowns, and sets a standard by which open plant phenotyping platforms can be benchmarked.
Code and data availability
The paper's data availability statement deposits the wire and root crown image sets, tabular phenotype data, and R analysis code on Zenodo (10.5281/zenodo.3380473), and the authors' RhizoVision Imager and Analyzer software are publicly available on Zenodo (10.5281/zenodo.2585882 and 10.5281/zenodo.2585892). These are直接
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