Non-Destructive Early Detection and Quantitative Severity Stage Classification of Tomato Chlorosis Virus (ToCV) Infection in Young Tomato Plants Using Vis–NIR Spectroscopy

Early detection and spectral signature identification of tomato fungal diseases (Alternaria alternata, Alternaria solani, Botrytis cinerea, and Fusarium oxysporum) by RGB and hyperspectral image analysis and machine learning

Early identification of plant fungal diseases is critical for timely treatment, which can prevent significant agricultural losses. While molecular analysis offers high accuracy, it is often expensive and time-consuming. In contrast, image processing combined with machine learning provides a rapid and cost-effective alternative for disease diagnosis. This study presents a novel approach for detecting four common fungal diseases in tomatoes, Botrytis cinerea, Fusarium oxysporum, Alternaria alternata, and Alternaria solani, using both RGB (visible) and hyperspectral (400-950 nm) imaging of plant leaves over the first 11 days post-infection. Data sets were generated from leaf samples, and a range of statistical, texture, and shape features were extracted to train machine learning models. The spectral signatures of each disease were also developed for improved classification. The random forest model achieved the highest accuracy, with classification rates for RGB images of 65%, 71%, 75%, 77%, 83%, and 87% on days 1, 3, 5, 7, 9, and 11, respectively. For hyperspectral images, the classification accuracy increased from 86% on day 1 to 98% by day 11. Two- and three-dimensional spectral analyses clearly differentiated healthy plants from infected ones as early as day 3 for Botrytis cinerea. The Laplacian score method further highlighted key texture features, such as energy at 550 and 841 nm, entropy at 600 nm, correlation at 746 nm, and standard deviation at 905 nm, that contributed most significantly to disease detection. The method developed in this study offers a valuable and efficient tool for accelerating plant disease diagnosis and classification, providing a practical alternative to molecular techniques. .

Comparison of the Efficiency of Hyperspectral and Pulse Amplitude Modulation Imaging Methods in Pre-Symptomatic Virus Detection in Tobacco Plants

Early detection of pathogens can significantly reduce yield losses and improve the quality of agricultural products. This study compares the efficiency of hyperspectral (HS) imaging and pulse amplitude modulation (PAM) fluorometry to detect pathogens in plants. Reflectance spectra, normalized indices, and fluorescence parameters were studied in healthy and infected areas of leaves. Potato virus X with GFP fluorescent protein was used to assess the spread of infection throughout the plant. The study found that infection increased the reflectance of leaves in certain wavelength ranges. Analysis of the normalized reflectance indices (NRIs) revealed indices that were sensitive and insensitive to infection. NRI700/850 was optimal for virus detection; significant differences were detected on the 4th day after the virus arrived in the leaf. Maximum (Fv/Fm) and effective quantum yields of photosystem II (ΦPSII) and non-photochemical fluorescence quenching (NPQ) were almost unchanged at the early stage of infection. ΦPSII and NPQ in the transition state (a short time after actinic light was switched on) showed high sensitivity to infection. The higher sensitivity of PAM compared to HS imaging may be due to the possibility of assessing the physiological changes earlier than changes in leaf structure.

Tomato plant leaf disease segmentation and multiclass disease detection using hybrid optimization enabled deep learning

Production of crops is increasing day by day in agriculture sectors. The insecurity of food is a main reason of plant disease and is a main global issue that humans face these days. With the design of contemporary environmental agriculture, more focus is devised for yielding the crop and elevating its quality. The occurrence of crops has elevated in years and the kind of disease has become more and more complex. The disease in plants and the pernicious insects are the major risks in agriculture field. Thus, earlier discovery and treatment of this disease are imperative. The major design of Deep Learning (DL) model helped in detecting the plant disease and grants a dynamic tool with accurate results. This paper presents DL-assisted technique for detecting and classifying the tomato disease and used deep batch-normalized eLu Alex Net (DbneAlexnet) for classifying the tomato plant leaves. Initially, tomato plant leaf images are taken as an input from specific dataset represented and it is subjected to preprocessing phase to eliminate unwanted distortions using anisotropic filtering. Then, the segmentation is carried out using U-net, which is trained by Gradient-Golden search optimization (Gradient-GSO) Algorithm and it is incorporation of both Golden search optimization (GSO) and Gradient concept. Thereafter the segmented image is given to image augmentation process, where position augmentation and color augmentation are considered. Finally, the multiclass plant leaf disease is classified using DbneAlexnet and is trained using proposed Gradient Jaya- Golden search optimization (GJ-GSO). Here, the GJ-GSO is devised with the integration of Gradient concept, Jaya algorithm, and GSO algorithm. The proposed GJ-GSO-based DbneAlexnet outperformed highest accuracy of 92.4%, True positive rate (TPR) of 91.9%, True negative rate (TNR) of 92.2% and smallest False Positive Rate (FPR) of 0.078. Hence, the technique with unified segmentation and classification is effectual for identifying the plant disease and the empirical research verifies the benefits of the developed model.

Enhancing host-pathogen phenotyping dynamics: early detection of tomato bacterial diseases using hyperspectral point measurement and predictive modeling

Early diagnosis of plant diseases is needed to promote sustainable plant protection strategies. Applied predictive modeling over hyperspectral spectroscopy (HS) data can be an effective, fast, cost-effective approach for improving plant disease diagnosis. This study aimed to investigate the potential of HS point-of-measurement (POM) data for in-situ, non-destructive diagnosis of tomato bacterial speck caused by Pseudomonas syringae pv. tomato (Pst), and bacterial spot, caused by Xanthomonas euvesicatoria (Xeu), on leaves (cv. cherry). Bacterial artificial infection was performed on tomato plants at the same phenological stage. A sensing system composed by a hyperspectral spectrometer, a transmission optical fiber bundle with a slitted probe and a white light source were used for spectral data acquisition, allowing the assessment of 3478 spectral points. An applied predictive classification model was developed, consisting of a normalizing pre-processing strategy allied with a Linear Discriminant Analysis (LDA) for reducing data dimensionality and a supervised machine learning algorithm (Support Vector Machine - SVM) for the classification task. The predicted model achieved classification accuracies of 100% and 74% for Pst and Xeu test set assessments, respectively, before symptom appearance. Model predictions were coherent with host-pathogen interactions mentioned in the literature (e.g., changes in photosynthetic pigment levels, production of bacterial-specific molecules, and activation of plants' defense mechanisms). Furthermore, these results were coherent with visual phenotyping inspection and PCR results. The reported outcomes support the application of spectral point measurements acquired in-vivo for plant disease diagnosis, aiming for more precise and eco-friendly phytosanitary approaches.

Can Metabolomic Approaches Become a Tool for Improving Early Plant Disease Detection and Diagnosis with Modern Remote Sensing Methods? A Review

The various areas of ultra-sensitive remote sensing research equipment development have provided new ways for assessing crop states. However, even the most promising areas of research, such as hyperspectral remote sensing or Raman spectrometry, have not yet led to stable results. In this review, the main methods for early plant disease detection are discussed. The best proven existing techniques for data acquisition are described. It is discussed how they can be applied to new areas of knowledge. The role of metabolomic approaches in the application of modern methods for early plant disease detection and diagnosis is reviewed. A further direction for experimental methodological development is indicated. The ways to increase the efficiency of modern early plant disease detection remote sensing methods through metabolomic data usage are shown. This article provides an overview of modern sensors and technologies for assessing the biochemical state of crops as well as the ways to apply them in synergy with existing data acquisition and analysis technologies for early plant disease detection.

Nondestructive Detection of Pesticide Residue (Chlorpyrifos) on Bok Choi (Brassica rapa subsp. Chinensis) Using a Portable NIR Spectrometer Coupled with a Machine Learning Approach

The contamination of agricultural products, such as vegetables, by pesticide residues has received considerable attention worldwide. Pesticide residue on vegetables constitutes a potential risk to human health. In this study, we combined near infrared (NIR) spectroscopy with machine learning algorithms, including partial least-squares discrimination analysis (PLS-DA), support vector machine (SVM), artificial neural network (ANN), and principal component artificial neural network (PC-ANN), to identify pesticide residue (chlorpyrifos) on bok choi. The experimental set comprised 120 bok choi samples obtained from two small greenhouses that were cultivated separately. We performed pesticide and pesticide-free treatments with 60 samples in each group. The vegetables for pesticide treatment were fortified with 2 mL/L of chlorpyrifos 40% EC residue. We connected a commercial portable NIR spectrometer with a wavelength range of 908-1676 nm to a small single-board computer. We analyzed the pesticide residue on bok choi using UV spectrophotometry. The most accurate model correctly classified 100% of the samples used in the calibration set in terms of the content of chlorpyrifos residue on samples using SVM and PC-ANN with raw data spectra. Thus, we tested the model using an unknown dataset of 40 samples to verify the robustness of the model, which produced a satisfactory F1-score (100%). We concluded that the proposed portable NIR spectrometer coupled with machine learning approaches (PLS-DA, SVM, and PC-ANN) is appropriate for the detection of chlorpyrifos residue on bok choi.

Advanced Techniques for the Intelligent Diagnosis of Fish Diseases: A Review

Aquatic products, as essential sources of protein, have attracted considerable concern by producers and consumers. Precise fish disease prevention and treatment may provide not only healthy fish protein but also ecological and economic benefits. However, unlike intelligent two-dimensional diagnoses of plants and crops, one of the most serious challenges confronted in intelligent aquaculture diagnosis is its three-dimensional space. Expert systems have been applied to diagnose fish diseases in recent decades, allowing for restricted diagnosis of certain aquaculture. However, this method needs aquaculture professionals and specialists. In addition, diagnosis speed and efficiency are limited. Therefore, developing a new quick, automatic, and real-time diagnosis approach is very critical. The integration of image-processing and computer vision technology intelligently allows the diagnosis of fish diseases. This study comprehensively reviews image-processing technology and image-based fish disease detection methods, and analyzes the benefits and drawbacks of each diagnostic approach in different environments. Although it is widely acknowledged that there are many approaches for disease diagnosis and pathogen identification, some improvements in detection accuracy and speed are still needed. Constructing AR 3D images of fish diseases, standard and shared datasets, deep learning, and data fusion techniques will be helpful in improving the accuracy and speed of fish disease diagnosis.

Kiwi Plant Canker Diagnosis Using Hyperspectral Signal Processing and Machine Learning: Detecting Symptoms Caused by Pseudomonas syringae pv. actinidiae

Pseudomonas syringae pv. actinidiae (Psa) has been responsible for numerous epidemics of bacterial canker of kiwi (BCK), resulting in high losses in kiwi production worldwide. Current diagnostic approaches for this disease usually depend on visible signs of the infection (disease symptoms) to be present. Since these symptoms frequently manifest themselves in the middle to late stages of the infection process, the effectiveness of phytosanitary measures can be compromised. Hyperspectral spectroscopy has the potential to be an effective, non-invasive, rapid, cost-effective, high-throughput approach for improving BCK diagnostics. This study aimed to investigate the potential of hyperspectral UV-VIS reflectance for in-situ, non-destructive discrimination of bacterial canker on kiwi leaves. Spectral reflectance (325-1075 nm) of twenty plants were obtained with a handheld spectroradiometer in two commercial kiwi orchards located in Portugal, for 15 weeks, totaling 504 spectral measurements. Several modeling approaches based on continuous hyperspectral data or specific wavelengths, chosen by different feature selection algorithms, were tested to discriminate BCK on leaves. Spectral separability of asymptomatic and symptomatic leaves was observed in all multi-variate and machine learning models, including the FDA, GLM, PLS, and SVM methods. The combination of a stepwise forward variable selection approach using a support vector machine algorithm with a radial kernel and class weights was selected as the final model. Its overall accuracy was 85%, with a 0.70 kappa score and 0.84 F-measure. These results were coherent with leaves classified as asymptomatic or symptomatic by visual inspection. Overall, the findings herein reported support the implementation of spectral point measurements acquired in situ for crop disease diagnosis.

Current State of Hyperspectral Remote Sensing for Early Plant Disease Detection: A Review

The development of hyperspectral remote sensing equipment, in recent years, has provided plant protection professionals with a new mechanism for assessing the phytosanitary state of crops. Semantically rich data coming from hyperspectral sensors are a prerequisite for the timely and rational implementation of plant protection measures. This review presents modern advances in early plant disease detection based on hyperspectral remote sensing. The review identifies current gaps in the methodologies of experiments. A further direction for experimental methodological development is indicated. A comparative study of the existing results is performed and a systematic table of different plants' disease detection by hyperspectral remote sensing is presented, including important wave bands and sensor model information.

Early Detection of Plant Viral Disease Using Hyperspectral Imaging and Deep Learning

Early detection of grapevine viral diseases is critical for early interventions in order to prevent the disease from spreading to the entire vineyard. Hyperspectral remote sensing can potentially detect and quantify viral diseases in a nondestructive manner. This study utilized hyperspectral imagery at the plant level to identify and classify grapevines inoculated with the newly discovered DNA virus grapevine vein-clearing virus (GVCV) at the early asymptomatic stages. An experiment was set up at a test site at South Farm Research Center, Columbia, MO, USA (38.92 N, −92.28 W), with two grapevine groups, namely healthy and GVCV-infected, while other conditions were controlled. Images of each vine were captured by a SPECIM IQ 400–1000 nm hyperspectral sensor (Oulu, Finland). Hyperspectral images were calibrated and preprocessed to retain only grapevine pixels. A statistical approach was employed to discriminate two reflectance spectra patterns between healthy and GVCV vines. Disease-centric vegetation indices (VIs) were established and explored in terms of their importance to the classification power. Pixel-wise (spectral features) classification was performed in parallel with image-wise (joint spatial–spectral features) classification within a framework involving deep learning architectures and traditional machine learning. The results showed that: (1) the discriminative wavelength regions included the 900–940 nm range in the near-infrared (NIR) region in vines 30 days after sowing (DAS) and the entire visual (VIS) region of 400–700 nm in vines 90 DAS; (2) the normalized pheophytization index (NPQI), fluorescence ratio index 1 (FRI1), plant senescence reflectance index (PSRI), anthocyanin index (AntGitelson), and water stress and canopy temperature (WSCT) measures were the most discriminative indices; (3) the support vector machine (SVM) was effective in VI-wise classification with smaller feature spaces, while the RF classifier performed better in pixel-wise and image-wise classification with larger feature spaces; and (4) the automated 3D convolutional neural network (3D-CNN) feature extractor provided promising results over the 2D convolutional neural network (2D-CNN) in learning features from hyperspectral data cubes with a limited number of samples.