Agricultural and Biosystems Engineering Publications
Campus Units
Agricultural and Biosystems Engineering, Agronomy
Document Type
Article
Publication Version
Submitted Manuscript
Publication Date
12-2017
Journal or Book Title
Plant Physiology
Volume
175
Issue
4
Research Focus Area(s)
Biological and Process Engineering and Technology
DOI
10.1104/pp.17.00707
Abstract
Recent advances in "omics" technologies have not been accompanied by equally efficient, cost-effective and accurate phenotyping methods required to dissect the genetic architecture of complex traits. Even though high-throughput phenotyping platforms have been developed for controlled environments, field-based aerial and ground technologies have only been designed and deployed for short stature crops. Therefore, we developed and tested Phenobot 1.0, an auto-steered and self-propelled field-based high-throughput phenotyping platform for tall dense canopy crops, such as sorghum (Sorghum bicolor L. Moench). Phenobot 1.0 was equipped with laterally positioned and vertically stacked stereo RGB cameras. Images collected from 307 diverse sorghum lines were reconstructed in 3D for feature extraction. User interfaces were developed and multiple algorithms were evaluated for their accuracy in estimating plant height and stem diameter. Tested feature extraction methods included: i) User-interactive Individual Plant Height Extraction based on dense stereo 3D reconstruction (UsIn-PHe); ii) Automatic Hedge-based Plant Height Extraction (Auto-PHe) based on dense stereo 3D reconstruction; iii) User-interactive Dense Stereo Matching Stem Diameter Extraction (DenS-Di); and iv) User-interactive Image Patch Stereo Matching Stem Diameter Extraction (IPaS-Di). Comparative genome-wide association analysis and ground-truth validation demonstrated that both UsIn-PHe and Auto-PHe were accurate methods to estimate plant height while Auto-PHe had the additional advantage of being a completely automated process. For stem diameter, IPaS-Di generated the most accurate estimates of this biomass-related architectural trait. In summary, our technology was proven robust to obtain ground-based high-throughput plant architecture parameters of sorghum, a tall and densely planted crop species.
Copyright Owner
American Society of Plant Biologists
Copyright Date
2017
Language
en
File Format
application/pdf
Recommended Citation
Salas Fernandez, Maria G.; Bao, Yin; Tang, Lie; and Schnable, Patrick, "A high-throughput, field-based phenotyping technology for tall biomass crops" (2017). Agricultural and Biosystems Engineering Publications. 844.
https://lib.dr.iastate.edu/abe_eng_pubs/844
Included in
Agriculture Commons, Agronomy and Crop Sciences Commons, Bioresource and Agricultural Engineering Commons, Plant Biology Commons
Comments
This is a manuscript of an article published as Fernandez, Maria G. Salas, Yin Bao, Lie Tang, and Patrick S. Schnable. "A high-throughput, field-based phenotyping technology for tall biomass crops." Plant Physiology (2017). DOI: 10.1104/pp.17.00707. Posted with permission.