A 1D-CNN model for the early detection of citrus Huanglongbing disease in the sieve plate of phloem tissue using micro-FTIR

Abstract

Among the most frequently diagnosed diseases in citrus, citrus Huanglongbing disease has caused severe economic losses to the citrus industry worldwide since there is no curable method and it spreads quickly. As callose accumulation in phloem is one of the early response events to Asian species Candidatus Liberibacter asiaticus (CLas) infection, the dynamic perception of the sieve plate region can be used as an indicator for the early diagnosis of citrus HLB disease. In this study, one-dimensional convolutional neural network (1D-CNN) models were established to achieve early detection of HLB disease based on spectral information in the sieve plate region using Fourier transform infrared microscopy (micro-FTIR) spectrometer. Partial least squares regression (PLSR) and the least squares support vector machine regression (LS-SVR) models are used for the prediction of callose based on the micro-FTIR information in the sieve plate region of the citrus midrib. Furthermore, an improved data augmentation method by superimposing Gaussian noise was proposed to expand the spectral amplitude. The proposed method has achieved 98.65 % classification accuracy, which was higher than that of other traditional algorithms such as the logistic model tree (LMT), linear discriminant analysis (LDA), Bayes (BS), support vector machine (SVM) and k-nearest neighbors (kNN), and also than that of the molecular detection qPCR (Quantitative real-time polymerase chain reaction) method. Finally, based on the established early detection model with laboratory samples, it can also be used to detect the citrus HLB in complex field samples by using model updating methods, and the overall detection accuracy of the model reached 91.21 %. Our approach has potential for the early diagnosis of citrus HLB disease from the microscopic scale, which would provide useful and precise guidelines to prevent and control citrus HLB disease.