3D reconstruction using Structure-from-Motion: a new technique for morphological measurement of tree root systems,Plant and Soil

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3D reconstruction using Structure-from-Motion: a new technique for morphological measurement of tree root systems
Plant and Soil ( IF 3.9 ) Pub Date : 2022-05-12 , DOI: 10.1007/s11104-022-05448-8
Yuki Okamoto ₁ , Hidetoshi Ikeno ₂ , Yasuhiro Hirano ₃ , Toko Tanikawa ₄ , Keitaro Yamase ₅ , Chikage Todo ₅ , Masako Dannoura ₆ , Mizue Ohashi ₇

Affiliation

Purpose

Clarification of root architecture is important for understanding tree root functions. 3D laser scanning reconstructs the 3D structure of root system with high accuracy, but the devices are large and expensive. The Structure-from-Motion with multi-view stereo-photogrammetry (SfM-MVS) method reconstructs the 3D structure of an object from multiple images. This method is suitable for field research because it acquires the 3D data with a commercially available digital camera. Our aim in this study was to test the applicability of the SfM-MVS method for morphological measurement of tree root systems.

Methods

The 3D root system model was created using a dummy and three black pine (Pinus thunbergii) root systems. Image data were collected from the root systems using a camera and reconstructed using the free software, VisualSfM and MeshLab. We evaluated the accuracy of morphological data estimated from the 3D models by comparing them with real data obtained from manual measurements of the root systems.

Results

The 3D reconstructions of the dummy and black pine root systems were successful. The root mean squared error values for the morphological features in the pine root systems ranged from 4 to 24%, which was sufficiently accurate for a successful 3D model. However, the RMSE values were larger than that of dummy root, ranging from 2 to 9%.

Conclusion

The SfM-MVS method is a new tool, based on non-specialised equipment and free software, to obtain the 3D structure of tree root systems. The morphological features of it can be successfully measured from the reconstructed models.

中文翻译：

使用 Structure-from-Motion 进行 3D 重建：一种用于树根系统形态测量的新技术

目的

根架构的澄清对于理解树根功能很重要。3D激光扫描重建根系3D结构，精度高，但设备体积大且价格昂贵。具有多视图立体摄影测量 (SfM-MVS) 的运动结构 (Structure-from-Motion) 方法从多个图像重建对象的 3D 结构。该方法适用于实地研究，因为它使用商用数码相机获取 3D 数据。我们在本研究中的目的是测试 SfM-MVS 方法在树根系统形态测量中的适用性。