Molecular techniques used in plant disease diagnosis

Sapre, Swapnil; Gontia‐Mishra, Iti; Thakur, Vishwa Vijay; Sikdar, Sumana; Tiwari, Sharad

doi:10.1016/b978-0-12-821843-3.00001-5

Cited by 9 publications

(4 citation statements)

References 72 publications

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“…These manual procedures are carried out using either laboratory detection methods, biomarker-based detection methods, or imaging methods. Molecular methods such as Deoxyribonucleic Acid (barcoding, microarray, probe-based), Ribonucleic acid (sequencing-based, reverse transcriptase) and protein (immunosorbent assay, western blot) as well as serological methods are among the examples of laboratory detection methods [6]. Correspondingly, methods for detecting diseases using biomarkers include spectroscopic methods and crop metabolic and gaseous monitoring [7].…”

Section: Introductionmentioning

confidence: 99%

Computational Approaches Based On Image Processingfor Automated Disease IdentificationOn Chili Leaf Images: A Review

Aminuddin¹,

Joret²,

Zulkifli³

et al. 2023

EmAIT

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Chili, an important crop whosefruit is used as a spice, is significantly hampered by the existence of chili diseases.While these diseases pose a significant concern to farmers since they impair the supply of spices to the market, they can be managed and monitored to lessen their impact. Therefore, identifying chili diseases using a pertinent approach is of enormous importance. Over the years, the growth of computational approaches based on image processing has found its application in automated disease identification, leading to the availability of a reliable monitoring tool that produces promising findings for the chili. Numerous research papers on identifying chili diseases using the approaches have been published. Still, to the best knowledge of the author, there has not been a proper attempt to analyze these papers to describe the many steps of diagnosis, including pre-processing, segmentation, extraction of features, as well as identification techniques. Thus, a total of 50 researchpaperpublications on theidentificationof chilidiseases, with publication dates spanning from 2013 to 2021, arereviewed in this paper.Through the findings in this paper, it becomes feasible to comprehend the development trend for the application of computational approaches based on image processing in the identification of chili diseases, as well as the challenges and future directions that require attention from the present research community.

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Section: Introductionmentioning

confidence: 99%

Computational Approaches Based On Image Processingfor Automated Disease IdentificationOn Chili Leaf Images: A Review

Aminuddin¹,

Joret²,

Zulkifli³

et al. 2023

EmAIT

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“…Biotic stress is a type of stresses that plants experiences in their environment as a result of exposure to harmful microorganisms such as fungi, bacteria, viruses, and nematodes etc. , in which plants loses their ability to maintain normal growth [1,2]. Once a plant senses stress, a dozen of molecular and cellular processes are triggered, activating an intersecting network of morphological, physiological, and biochemical resistance mechanisms [3,4] biotic stress cause losses to many crops important in global food security such as maize, rice and wheat, where these losses are estimated at 31.2%, 37.4% and 28.2%, respectively [5,6].…”

Section: Introductionmentioning

confidence: 99%

The Effect of Plant Metabolism on Some Physiological Immune Responses Under Biotic Stress

Abdul-Ameer

2023

IOP Conf. Ser.: Earth Environ. Sci.

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This work is part of a larger research project studying the immune responses of a variety of plants. Once image-based (unpublished data) and another time, as in this study, biochemical parameters based. Plant models included three metabolically different plants, Vica faba L. (C3), Zea mays L. (C4), Mesembryanthemum L. (CAM). Pathogen models had Alternaria alternate and Pseudomonas syringe. All of which, along with the control treatment, represent nine plant-pathogen systems applied with three replicates of each studied species. To investigate the extent to which the immune response is transferred from infected leaves to uninfected leaves on the same plant, several physiological and biochemical immune responses were examined, including: two plant hormones, abscisic acid and Salicylic acid, and two active enzymes, Catalase enzyme and Peroxidase enzyme, two free radicals, ROS and H2O2. Results show that The studied hormones were significantly affected by the type of plant metabolism and the type of pathogen, sometimes by an increase and sometimes by a decrease in which ABA and SA increased in C3 and CAM plants when infected by Alternaria and varied when infected by pseudomonas syringe. At the same time, both ABA and SA decrease in C4 plants. The studied enzymes did not follow a specific pattern of increasing and decreasing response to a bacterial or fungal infection. Still, they differed significantly between plants of different metabolism according to the type of pathogen causing the infection. Infection of all three studied plants by Alternaria alternate and Pseudomonas syringae did not cause any significant changes at p≤ 0.05 in the free radical production of the leaves for both ROS and H2O2.

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“…Over the years, many different techniques have been developed for HLB diagnosis ( Valdés et al., 2016 ; Ghosh et al., 2022 ), but molecular techniques are currently the most widely used for the diagnosis of plant pathogenic bacteria, including those associated with HLB, as they have a higher sensitivity and specificity than others ( Sapre et al., 2021 ). Within the molecular detection techniques, the polymerase chain reaction (PCR) is the gold standard reference technique for HLB diagnosis ( Valdés et al., 2016 ; Morán et al., 2020 ).…”

Section: Introductionmentioning

confidence: 99%

Real-time on-site detection of the three ‘Candidatus Liberibacter’ species associated with HLB disease: a rapid and validated method

Morán,

Herrero-Cervera,

Carvajal-Rojas

et al. 2023

Front. Plant Sci.

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Huanglongbing (HLB) is a devastating disease that affects all commercial citrus species worldwide. The disease is associated with bacteria of three species of the genus ‘Candidatus Liberibacter’ transmitted by psyllid vectors. To date, HLB has no cure, so preventing its introduction into HLB-free areas is the best strategy to control its spread. For that, the use of accurate, sensitive, specific, and reliable detection methods is critical for good integrated management of this serious disease. This study presents a new real-time recombinase polymerase amplification (RPA) protocol able to detect the three ‘Ca. Liberibacter’ species associated with HLB in both plant and insect samples, validated according to European and Mediterranean Plant Protection Organization (EPPO) guidelines and tested on 365 samples from nine different geographic origins. This new protocol does not require nucleic acid purification or specialized equipment, making it ideal to be used under field conditions. It is based on specific primers and probe targeting a region of fusA gene, which shows a specificity of 94%–100%, both in silico and in vitro, for the ‘Ca. Liberibacter’ species associated with HLB. The analytical sensitivity of the new protocol is excellent, with a reliable detection limit in the order of 101 copies per microliter in HLB-infected plant and insect material. The repeatability and reproducibility of the new methods showed consistent results. Diagnostic parameters of the new RPA protocol were calculated and compared with the gold standard technique, a quantitative real-time PCR, in both crude extracts of citrus plants and insect vectors. The agreement between the two techniques was almost perfect according to the estimated Cohen’s kappa index, with a diagnostic sensitivity and specificity of 83.89% and 100%, respectively, and a relative accuracy of 91.59%. Moreover, the results are obtained in less than 35 min. All these results indicate the potential of this new RPA protocol to be implemented as a reliable on-site detection kit for HLB due to its simplicity, speed, and portability.

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Molecular techniques used in plant disease diagnosis

Cited by 9 publications

References 72 publications

Computational Approaches Based On Image Processingfor Automated Disease IdentificationOn Chili Leaf Images: A Review

Computational Approaches Based On Image Processingfor Automated Disease IdentificationOn Chili Leaf Images: A Review

The Effect of Plant Metabolism on Some Physiological Immune Responses Under Biotic Stress

Real-time on-site detection of the three ‘Candidatus Liberibacter’ species associated with HLB disease: a rapid and validated method

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