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| Content Provider | Springer Nature : BioMed Central |
|---|---|
| Author | Teramoto, Shota Takayasu, Satoko Kitomi, Yuka Arai-Sanoh, Yumiko Tanabata, Takanari Uga, Yusaku |
| Abstract | Background X-ray computed tomography (CT) allows us to visualize root system architecture (RSA) beneath the soil, non-destructively and in a three-dimensional (3-D) form. However, CT scanning, reconstruction processes, and root isolation from X-ray CT volumes, take considerable time. For genetic analyses, such as quantitative trait locus mapping, which require a large population size, a high-throughput RSA visualization method is required. Results We have developed a high-throughput process flow for the 3-D visualization of rice (Oryza sativa) RSA (consisting of radicle and crown roots), using X-ray CT. The process flow includes use of a uniform particle size, calcined clay to reduce the possibility of visualizing non-root segments, use of a higher tube voltage and current in the X-ray CT scanning to increase root-to-soil contrast, and use of a 3-D median filter and edge detection algorithm to isolate root segments. Using high-performance computing technology, this analysis flow requires only 10 min (33 s, if a rough image is acceptable) for CT scanning and reconstruction, and 2 min for image processing, to visualize rice RSA. This reduced time allowed us to conduct the genetic analysis associated with 3-D RSA phenotyping. In 2-week-old seedlings, 85% and 100% of radicle and crown roots were detected, when 16 cm and 20 cm diameter pots were used, respectively. The X-ray dose per scan was estimated at < 0.09 Gy, which did not impede rice growth. Using the developed process flow, we were able to follow daily RSA development, i.e., 4-D RSA development, of an upland rice variety, over 3 weeks. Conclusions We developed a high-throughput process flow for 3-D rice RSA visualization by X-ray CT. The X-ray dose assay on plant growth has shown that this methodology could be applicable for 4-D RSA phenotyping. We named the RSA visualization method ‘RSAvis3D’ and are confident that it represents a potentially efficient application for 3-D RSA phenotyping of various plant species. |
| Related Links | https://plantmethods.biomedcentral.com/counter/pdf/10.1186/s13007-020-00612-6.pdf |
| Ending Page | 14 |
| Page Count | 14 |
| Starting Page | 1 |
| File Format | HTM / HTML |
| ISSN | 17464811 |
| DOI | 10.1186/s13007-020-00612-6 |
| Journal | Plant Methods |
| Issue Number | 1 |
| Volume Number | 16 |
| Language | English |
| Publisher | BioMed Central |
| Publisher Date | 2020-05-11 |
| Access Restriction | Open |
| Subject Keyword | Plant Sciences Biological Techniques Oryza sativa Image processing Plant root Root plasticity RSAvis3D X-ray CT |
| Content Type | Text |
| Resource Type | Article |
| Subject | Plant Science Biotechnology Genetics |
| Journal Impact Factor | 4.7/2023 |
| 5-Year Journal Impact Factor | 5.6/2023 |
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