o pmc-prop-manuscript no pmc-prop-legally-suppressed no pmc-prop-has-pdf yes pmc-prop-has-supplement yes pmc-prop-pdf-only no pmc-prop-suppress-copyright no pmc-prop-is-real-version no pmc-prop-is-scanned-article no pmc-prop-preprint no pmc-prop-in-epmc yes pmc-license-ref CC BY Data Availability All code files are available at https://github.com/the-rhizodynamics-robot . Data Availability All code files are available at https://github.com/the-rhizodynamics-robot . Introduction All organisms must perform effective environmental exploration for survival. Plants are sessile and interact with the location where they grow; therefore, they can only navigate and explore their (typically) below-gro
Open resource ↗the-rhizodynamics-robot · lines:71-78Unverified paper record
The rhizodynamics robot: Automated imaging system for studying long-term dynamic root growth.
PloS one · 21 Dec 2023 · 10.1371/journal.pone.0295823
Abstract
The study of plant root growth in real time has been difficult to achieve in an automated, high-throughput, and systematic fashion. Dynamic imaging of plant roots is important in order to discover novel root growth behaviors and to deepen our understanding of how roots interact with their environments. We designed and implemented the Generating Rhizodynamic Observations Over Time (GROOT) robot, an automated, high-throughput imaging system that enables time-lapse imaging of 90 containers of plants and their roots growing in a clear gel medium over the duration of weeks to months. The system uses low-cost, widely available materials. As a proof of concept, we employed GROOT to collect images of root growth of Oryza sativa, Hudsonia montana, and multiple species of orchids including Platanthera integrilabia over six months. Beyond imaging plant roots, our system is highly customizable and can be used to collect time- lapse image data of different container sizes and configurations regardless of what is being imaged, making it applicable to many fields that require longitudinal time-lapse recording.
Plant phenotyping relevance
植物根の長期・高スループット画像取得システムを開発し、根成長という植物形質の時系列計測に実証適用しているため、フェノタイピング手法が中心である。
abstractWe designed and implemented the Generating Rhizodynamic Observations Over Time (GROOT) robot, an automated, high-throughput imaging system that enables time-lapse imaging of 90 containers of plants and their roots growing in a clear gel medium over the duration of weeks to months.
abstractAs a proof of concept, we employed GROOT to collect images of root growth of Oryza sativa, Hudsonia montana, and multiple species of orchids including Platanthera integrilabia over six months.
Code and data availability
The paper's authors explicitly state that all code files (robot control, QR code generation, image sorting/preprocessing) are publicly available on their GitHub organization, with URLs given in the text. No standalone phenotype dataset deposit is stated, but the authors' analysis/control code qualifies as a paper-sphen
processing and analysis of the resulting imaging data. We have included code and documentation for an image preprocessing and time-lapse movie creation system we have developed. This system uses printed QR code labels to identify the individual growth vessels from the raw images ( S3 File : QR Code Generation, code available at https://github.com/orgs/the-rhizodynamics-robot/repositories ), which are then subsequently sorted into individual subdirectories, after which (optionally) stabilized time-lapse videos are created using the open source video editing software FFMPEG [ 24 ] [ S4 File : Image Sorting, code available at https://github.com/the-rhizodynamics-robot ]. This system has been te
Open resource ↗the-rhizodynamics-robot · lines:95-102This is an automatically classified, unverified record. Curator approval is required before any resource enters the Catalog.