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RhizoVision Explorer: open-source software for root image analysis and measurement standardization.

Anand Seethepalli1, Kundan Dhakal1, Marcus Griffiths1

  • 1Noble Research Institute, LLC, Ardmore, OK 73401, USA.

Aob PLANTS
|November 22, 2021
PubMed
Summary
This summary is machine-generated.

RhizoVision Explorer, an open-source software, offers accurate root trait measurements for ecosystem research. It provides reliable length, diameter, and volume data, outperforming existing software in volume accuracy.

Keywords:
Ground truthphenomicsphenotypingrhizosphereroot system architecturetraits

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Area of Science:

  • Plant and Soil Science
  • Ecosystem Function
  • Agricultural Research

Background:

  • Root characteristics are crucial for understanding plant resource acquisition and ecosystem carbon cycling.
  • Accurate measurement of root traits like length, diameter, and volume is essential for plant and soil function studies.

Purpose of the Study:

  • Introduce RhizoVision Explorer, an open-source software for efficient and reliable root trait analysis.
  • Compare the performance of RhizoVision Explorer against existing software (WinRhizo™, IJ_Rhizo) for root trait measurements.

Main Methods:

  • Developed RhizoVision Explorer with default (broken roots) and optional (whole root) modes for diverse root sampling.
  • Validated software using copper wire image sets, simulated root images, and real-world scanned root images from various species and labs.
  • Compared measurements including length, diameter, volume, angles, root depth, and convex hull with other software.

Main Results:

  • RhizoVision Explorer demonstrated accurate measurements, validated against ground truth data.
  • Commercial WinRhizo™ significantly underestimated root volume, especially with varying wire diameters in the same image.
  • General agreement in most measurements between RhizoVision Explorer, WinRhizo™, and IJ_Rhizo, with notable discrepancies in root volume.

Conclusions:

  • RhizoVision Explorer offers improved accuracy and replicability for root trait measurements.
  • The software aims to become a reference tool in root science, fostering collaboration and data accessibility.
  • Addresses limitations in current software, particularly in accurate root volume estimation.