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Estimating rice yield-related traits using machine learning models integrating hyperspectral and texture features.

Yufen Zhang1,2, Feifei Zhu1, Kaiming Liang1

  • 1Rice Research Institute, Guangdong Academy of Agricultural Sciences/Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Rice Science and Technology, Guangzhou, China.

Frontiers in Plant Science
|November 24, 2025
PubMed
Summary

Accurate rice trait estimation uses spectral and texture data with machine learning. This optimized method significantly improves prediction accuracy for leaf nitrogen, leaf area, biomass, and grain yield.

Keywords:
data dimensionality reductionhyperspectralmachine learningricetexture features

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Area of Science:

  • Agricultural Science
  • Plant Phenomics
  • Remote Sensing

Background:

  • Accurate phenomic diagnosis relies on rapid, precise estimation of multiple trait indicators.
  • Developing advanced estimation models for rice yield-related traits (leaf nitrogen concentration - LNC, leaf area index - LAI, aboveground biomass - AGB, grain yield - GY) is crucial.
  • A strategy combining spectral data, texture data, dimensionality reduction, and machine learning is key to enhancing estimation accuracy.

Purpose of the Study:

  • To enhance the accuracy of estimation models for key rice yield-related trait indicators.
  • To investigate the effectiveness of combining spectral and texture data with dimensionality reduction and machine learning techniques.
  • To provide a robust method for precise diagnosis of rice traits.

Main Methods:

  • Hyperspectral canopy images and trait data (LNC, LAI, AGB, GY) were collected synchronously between 2022-2023.
  • Dimensionality reduction techniques (Pearson correlation, SPA, CARS) were applied to select sensitive wavelengths.
  • Estimation models were built using ANNs, SVM, 1D-CNN, and LSTM, incorporating spectral and texture features.

Main Results:

  • The SPA-ANN model showed the best prediction for LNC (R²=0.82) and LAI (R²=0.75).
  • The CARS-ANN model was optimal for AGB (R²=0.90) and GY (R²=0.63).
  • Incorporating texture features improved R² by up to 9.9% and reduced RMSE by up to 27.2%.

Conclusions:

  • The optimized "spectral + texture + dimensionality reduction + machine learning" method significantly enhances the accuracy of rice trait estimation models.
  • This approach provides a valuable scientific basis and technical data for precise diagnosis of rice yield-related traits.