根の研究 第23巻 第3号
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1 Root Research ミニレビュー ImageJ を用いた画像解析による根長の評価 田島亮介東北大学大学院農学研究科附属複合生態フィールド教育研究センター 要旨 WinRHIZO ImageJ WinRHIZO ImageJ ImageJ キーワード ImageJ Estimation of root length using image analysis with ImageJ: Ryosuke TAJIMA (Field Science Center, Tohoku University) Abstract : Various root traits has been focused and root length is one of important traits for nutrient and water uptake from the soil. Estimation of root length has been dramatically improved by image analysis with image-processing software and image scanners. In estimation of root length, WinRHIZO, the special software for root analysis, has been often used but we proposed a novel method of estimating root length using open-source software ImageJ. The estimates by our proposed method using ImageJ closely corresponded to those estimated by WinRHIZO. Using this method, the high-thoroughput and completely automated estimation of root length could be performed by using ImageJ-plugins and ImageJ-macro. It is necessary to establish the standard protocol of root length measurement. The quantitative discussion of root length will be facilitated between many root researchers in the protocol. In addition, various plant traits can be evaluated with image analysis using ImageJ. Keywords : root length, image analysis, ImageJ. 1. はじめに Gewin, 2010 Henry et al., 2011 Kano et al., 2011 Le Bot et al., 2010 Kato et al., 2010 ImageJ 2014 年 8 月 19 日受付 2014 年 8 月 19 日受理 * 連絡先 宮城県大崎市鳴子温泉蓬田 Tel: tazy@m.tohoku.ac.jp 75
2 2. 画像解析を用いた根長の評価とその注意点 1 GT-X970 ES-G11000 A4 210mm 297mm A3 297mm 420mm A4 A
3 TIFF JPG TIFF DPI dots per inch dpi 400dpi WinRHIZO Regent Instruments Inc. Quebec, Canada, 2000 WinRHIZO WinRHIZO Bouma 2000 WinRHIZO WinRHIZO ImageJ Tajima and Kato, 2011, WinRHIZO ImageJ Tajima Kato ImageJ WinRHIZO Tajima and Kato, 2013 WinRHIZO ImageJ ImageJ ImageJ 3. ImageJ の利用とマクロおよびプラグイン ImageJ ImageJ ImageJ ImageJ NIH NIHImage NIHImage Apple Macintosh MacOS ImageJ Java MacOS Linux Windows OS NIH http //rsb.info.nih.gov/ij/index.html ImageJ 77
4 田島 根の研究 Root Research 第2図 ImageJ におけるマクロとプラグインの使用方法 A. マクロの記録方法 B. マクロの記録例 C. マクロのインストール D. マクロインストール後の画面 E. プラグインのコンパイルと使用方法 F. コンパイル後のプラグインの使用方法 78
5 ImageJ Fiji http //fiji.sc/main_ Page ImageJ NIH "Documentation" ImageJ User Guide ImageJ ImageJ Plugins macros Record... ImageJ 2 A, B Java Java ImageJ 1.2 ImageJ Plugins macros Install... 2 C Plugins macros 2 D ImageJ Plugins Compile and Run... 2 E ImageJ Plugins 2 F ImageJ html ImageJ 3 A. B. C. 2 79
6 400dpi 4. 画像解析の根長評価以外への応用例 ImageJ SmartRoot Lobet et al., 2011 Cornell Kochian RootReader Clark et al., Kumar et al., 2014 ImageJ 3 1 Tajima et al., A 2 ScanSnap FI-SV600 3 B 3 ImageJ RGB 3 C 5. おわりに ImageJ WinRHIZO ImageJ 謝辞 , , 引用文献 Bouma, T. J., Nielsen, K. L., Koutstaal, B Sample preparation and scanning protocol for computerized analysis of root length and diameter. Plant Soil 218: Clark, R. T., MacCurdy, R. B., Jung, J. K., Shaff, J. E., McCouch, S. R., Aneshansley, D. J., Kochian, L. V Three-dimensional root phenotyping with a novel imaging and software platform. Plant Physiol. 156: Gewin, V An underground revolution. Nature Henry, A., Gowda, V. R. P., Torres, R. O., McNally, K. L., Serraj, R., Variation in root system architecture and drought response in rice Oryza sativa phenotyping of the OryzaSNP panel in rainfed lowland fields. Field Crops Res. 120: Kano, M., Inukai, Y., Kitano, H., Yamauchi, A., Root plasticity as the key root trait for adaptation to various intensities of drought stress in rice. Plant Soil 342: Kato, Y., Okami, M., Tajima, R., Fujita, D., Kobayashi, N Root response to aerobic conditions in rice, estimated by Comair root length scanner and scanner-based image analysis. Field Crops Res. 118: Kumar, P., Huang, C., Cai, J., Miklavcic, S. J Root phenotyping by root tip detection and classification through 80
7 statistical learning. Plant Soil 380: Le Bot, J., Serra, V., Fabre, J., Draye, X., Adamowicz, S., Pagès, L DART a software to analyze root system architecture and development from captured images. Plant Soil 326: Lobet, G., Pagès, L., Draye, X A novel image-analysis toolbox enabling quantitative analysis of root system architecture. Plant Physiol. 157: Tajima, R., Kato, Y Comparison of threshold algorithms for automatic image processing of rice roots using freeware ImageJ. Field Crops Res. 121: Tajima, R., Kato, Y A quick method to estimate root length distribution in diameter classes by using freeware ImageJ. Plant Prod. Sci. 16: Tajima, R., Morita, S., Abe, J Distribution pattern of root nodules in relation to root architecture in two leading cultivars of peanut (Arachis hypogaea L.) in Japan. Plant Prod. Sci. 9:
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