Dataset Information

Early Prediction of Soybean Traits through Color and Texture Features of Canopy RGB Imagery.

ABSTRACT: Global crop production is facing the challenge of a high projected demand, while the yields of major crops are not increasing at sufficient speeds. Crop breeding is an important way to boost crop productivity, however its improvement rate is partially hindered by the long crop generation cycles. If end-season crop traits such as yield can be predicted through early-season phenotypic measurements, crop selection can potentially be made before a full crop generation cycle finishes. This study explored the possibility of predicting soybean end-season traits through the color and texture features of early-season canopy images. Six thousand three hundred and eighty-three images were captured at V4/V5 growth stage over 6039 soybean plots growing at four locations. One hundred and forty color features and 315 gray-level co-occurrence matrix-based texture features were derived from each image. Another two variables were also introduced to account for location and timing differences between the images. Five regression and five classification techniques were explored. Best results were obtained using all 457 predictor variables, with Cubist as the regression technique and Random Forests as the classification technique. Yield (RMSE?=?9.82, R²?=?0.68), Maturity (RMSE?=?3.70, R²?=?0.76) and Seed Size (RMSE?=?1.63, R²?=?0.53) were identified as potential soybean traits that might be early predictable.

SUBMITTER: Yuan W

PROVIDER: S-EPMC6773688 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

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Publications

Early Prediction of Soybean Traits through Color and Texture Features of Canopy RGB Imagery.

Yuan Wenan W Wijewardane Nuwan Kumara NK Jenkins Shawn S Bai Geng G Ge Yufeng Y Graef George L GL

Scientific reports 20191001 1

Global crop production is facing the challenge of a high projected demand, while the yields of major crops are not increasing at sufficient speeds. Crop breeding is an important way to boost crop productivity, however its improvement rate is partially hindered by the long crop generation cycles. If end-season crop traits such as yield can be predicted through early-season phenotypic measurements, crop selection can potentially be made before a full crop generation cycle finishes. This study expl ...[more]

PMID: 31575995

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Project description:Yield monitoring is an important parameter to evaluate cotton productivity during cotton harvest. Nondestructive and accurate yield monitoring is of great significance to cotton production. Unmanned aerial vehicle (UAV) remote sensing has fast and repetitive acquisition ability. The visible vegetation indices has the advantages of low cost, small amount of calculation and high resolution. The combination of the UAV and visible vegetation indices has been more and more applied to crop yield monitoring. However, there are some shortcomings in estimating cotton yield based on visible vegetation indices only as the similarity between cotton and mulch film makes it difficult to differentiate them and yields may be saturated based on vegetation index estimates near harvest. Texture feature is another important remote sensing information that can provide geometric information of ground objects and enlarge the spatial information identification based on original image brightness. In this study, RGB images of cotton canopy were acquired by UAV carrying RGB sensors before cotton harvest. The visible vegetation indices and texture features were extracted from RGB images for cotton yield monitoring. Feature parameters were selected in different methods after extracting the information. Linear and nonlinear methods were used to build cotton yield monitoring models based on visible vegetation indices, texture features and their combinations. The results show that (1) vegetation indices and texture features extracted from the ultra-high-resolution RGB images obtained by UAVs were significantly correlated with the cotton yield; (2) The best model was that combined with vegetation indices and texture characteristics RF_ELM model, verification set R 2 was 0.9109, and RMSE was 0.91277 t.ha-1. rRMSE was 29.34%. In conclusion, the research results prove that UAV carrying RGB sensor has a certain potential in cotton yield monitoring, which can provide theoretical basis and technical support for field cotton production evaluation.

Project description:Soybean canopy outline is an important trait used to understand light interception ability, canopy closure rates, row spacing response, which in turn affects crop growth and yield, and directly impacts weed species germination and emergence. In this manuscript, we utilize a methodology that constructs geometric measures of the soybean canopy outline from digital images of canopies, allowing visualization of the genetic diversity as well as a rigorous quantification of shape parameters. Our choice of data analysis approach is partially dictated by the need to efficiently store and analyze large datasets, especially in the context of planned high-throughput phenotyping experiments to capture time evolution of canopy outline which will produce very large datasets. Using the Elliptical Fourier Transformation (EFT) and Fourier Descriptors (EFD), canopy outlines of 446 soybean plant introduction (PI) lines from 25 different countries exhibiting a wide variety of maturity, seed weight, and stem termination were investigated in a field experiment planted as a randomized complete block design with up to four replications. Canopy outlines were extracted from digital images, and subsequently chain coded, and expanded into a shape spectrum by obtaining the Fourier coefficients/descriptors. These coefficients successfully reconstruct the canopy outline, and were used to measure traditional morphometric traits. Highest phenotypic diversity was observed for roundness, while solidity showed the lowest diversity across all countries. Some PI lines had extraordinary shape diversity in solidity. For interpretation and visualization of the complexity in shape, Principal Component Analysis (PCA) was performed on the EFD. PI lines were grouped in terms of origins, maturity index, seed weight, and stem termination index. No significant pattern or similarity was observed among the groups; although interestingly when genetic marker data was used for the PCA, patterns similar to canopy outline traits was observed for origins, and maturity indexes. These results indicate the usefulness of EFT method for reconstruction and study of canopy morphometric traits, and provides opportunities for data reduction of large images for ease in future use.

Dataset Information

Early Prediction of Soybean Traits through Color and Texture Features of Canopy RGB Imagery.

Publications

Early Prediction of Soybean Traits through Color and Texture Features of Canopy RGB Imagery.

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