Vertical Stratification-enabled Early Monitoring of Cotton Verticillium Wilt Using in-situ Leaf Spectroscopy via Machine Learning Models

Yi Gao^1,2Changping Huang^1,2*Xia Zhang¹Ze Zhang³Bing Chen⁴

• ¹Aerospace Information Research Institute, Chinese Academy of Sciences (CAS), Beijing, China
• ²University of Chinese Academy of Sciences, Beijing, Beijing, China
• ³The Key Laboratory of the Oasis Ecological Agriculture, College of Agriculture, Shihezi University, Shihezi, Xinjiang Uyghur Region, China
• ⁴Xinjiang Academy of Agricultural and Reclamation Sciences (XAARS), Shihezi, Xinjiang Uyghur Region, China

Early monitoring of cotton Verticillium wilt (VW) is crucial for preventing significant yield losses and quality deterioration. Current hyperspectral approaches often overlook the bottomup disease progression and the impact of leaf stratification on VW detection. To address this, vertical spectral traits were examined to improve early diagnosis. A total of 551 in-situ leaf spectra were averaged from thousands of measurements, alongside corresponding RGB images from top, middle, and bottom leaf layers. Five severity levels (SL=0-4) were classified based on lesion coverage.Various vegetation indices and signal features were extracted for VW identification. Three feature selection methods, Relief-F, Lasso, and Random Forest (RF), were integrated with five machine learning models, including LightGBM, ANN, XGBoost, RF, and SVM. Results showed that spectral reflectance varied significantly by severity and layer, with the most pronounced variations in the bottom layer's visible spectrum. LightGBM with RF-selected features achieved the best performance and fastest training, with accuracies of 0.82, 0.81, and 0.91 for the top, middle, and bottom leaf layers, respectively. Early-stage detection (SL=0-2) was most effective in the lowest layer, showing 38% and 34% higher precision (SL=1) than the upper two. Critical spectral features varied with vertical leaf layers and disease severity, with blue and red-edge bands identified as most important. For assessing five disease severity levels, the most informative features for the top, middle, and bottom layers were AntGitelson, Blue Index (B), and PRI570. For detecting early symptoms (SL=1), the blue band was particularly effective, followed by water-related bands. At the initial infection stage, the most significant indicators for top, middle, and bottom layers were Blue/red index (BRI), B, and WSCT, respectively. This study deepens understanding of vertical leaf spectral dynamics and enables rapid, non-destructive in vivo detection of cotton Verticillium wilt, enhancing the applicability of portable hyperspectral devices and informing leaf-layer-aware precision disease management strategies.