Three-dimensional photogrammetric mapping of cotton bolls in situ based on point cloud segmentation and clustering

Three-dimensional high throughput plant phenotyping techniques provide an opportunity to measure plant organ-level traits which can be highly useful to plant breeders. The number and locations of cotton bolls, which are the fruit of cotton plants and an important component of fiber yield, are arguably among the most important phenotypic traits but are complex to quantify manually. Hence, there is a need for effective and efficient cotton boll phenotyping solutions to support breeding research and monitor the crop yield leading to better production management systems. We developed a novel methodology for 3D cotton boll mapping within a plot in situ. Point clouds were reconstructed from multi-view images using the structure from motion algorithm. The method used a region-based classification algorithm that successfully accounted for noise due to sunlight. The developed density-based clustering method could estimate boll counts for this situation, in which bolls were in direct contact with other bolls. By applying the method to point clouds from 30 plots of cotton plants, boll counts, boll volume and position data were derived. The average accuracy of boll counting was up to 90% and the R-2 values between fiber yield and boll number, as well as fiber yield and boll volume were 0.87 and 0.66, respectively. The 3D boll spatial distribution could also be analyzed using this method. This method, which was low-cost and provided improved site-specific data on cotton bolls, can also be applied to other plant/fruit mapping analysis after some modification.