title: Automated analysis of barley organs using 3D laser scanning: an approach for high throughput phenotyping.
abstract: Due to the rise of laser scanning the 3D geometry of plant architecture is easy to acquire. Nevertheless, an automated interpretation and, finally, the segmentation into functional groups are still difficult to achieve. Two barley plants were scanned in a time course, and the organs were separated by applying a histogram-based classification algorithm. The leaf organs were represented by meshing algorithms, while the stem organs were parameterized by a least-squares cylinder approximation. We introduced surface feature histograms with an accuracy of 96% for the separation of the barley organs, leaf and stem. This enables growth monitoring in a time course for barley plants. Its reliability was demonstrated by a comparison with manually fitted parameters with a correlation R(2) = 0:99 for the leaf area and R(2) = 0:98 for the cumulated stem height. A proof of concept has been given for its applicability for the detection of water stress in barley, where the extension growth of an irrigated and a non-irrigated plant has been monitored.
authors.affiliation: Institute of Geodesy and Geoinformation, Department of Geodesy, University of Bonn, Nussallee 17, 53315 Bonn, Germany. paulus@igg.uni-bonn.de.
authors.forename: Stefan
authors.initials: S
authors.lastname: Paulus
authors.affiliation: Institute of Geodesy and Geoinformation, Department of Geodesy, University of Bonn, Nussallee 17, 53315 Bonn, Germany. j.dupuis@igg.uni-bonn.de.
authors.forename: Jan
authors.initials: J
authors.lastname: Dupuis
authors.affiliation: Institute of Geodesy and Geoinformation, Department of Geodesy, University of Bonn, Nussallee 17, 53315 Bonn, Germany. sr_sebi@web.de.
authors.forename: Sebastian
authors.initials: S
authors.lastname: Riedel
authors.affiliation: Institute of Geodesy and Geoinformation, Department of Geodesy, University of Bonn, Nussallee 17, 53315 Bonn, Germany. heiner.kuhlmann@igg.uni-bonn.de.
authors.forename: Heiner
authors.initials: H
authors.lastname: Kuhlmann
mesh_terms: D001467:Hordeum / Q000033:anatomy & histology / Q000254:growth & development*; D007090:Image Interpretation, Computer-Assisted / Q000379:methods*; D021621:Imaging, Three-Dimensional / Q000379:methods*; D007834:Lasers; D010363:Pattern Recognition, Automated / Q000379:methods*; D010641:Phenotype; D035261:Plant Components, Aerial / Q000033:anatomy & histology / Q000254:growth & development*; D013312:Stress, Physiological / Q000502:physiology*