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Agriculture
Special Issues
Molecular Diagnosis and Control of Plant Diseases
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Molecular Diagnosis and Control of Plant Diseases

A special issue of Agriculture (ISSN 2077-0472). This special issue belongs to the section "Crop Protection, Diseases, Pests and Weeds".

Deadline for manuscript submissions: closed (25 January 2024) | Viewed by 6119

Special Issue Editors

Dr. Swarnalatha Moparthi

E-Mail Website
Guest Editor
Plant Disease and Insect Clinic, NC State University, Raleigh, NC, USA
Interests: pathogen detection; molecular diagnosis; fungal pathogens; phytobacteria; plant viruses; viroids; phytoplasmas; oomycetes; disease managment; early detection; sensitivity; PCR; qPCR;ELISA;RFLP; Artificial Intelligence
Dr. Abdul Kader Jailani Amirudeen

E-Mail Website
Guest Editor
Department of Plant Pathology, University of Florida, Quincy, FL, USA
Interests: plant virus; diagnostic; recombinase polymerase amplification; multiplex RT-qPCR; RPA-LFT; viral genomics; CRISPR-RPA; cucurbits; vegetable; plant bacteria; molecular characterization; plant viral expression vector; plant bodies

Special Issue Information

Dear Colleagues,

Plant pathogens cause significant losses by infecting the crops during the production stage and after harvest. The accurate and early diagnosis of plant disease is vital in managing the disease. In the changing climatic situations, numerous new pathogens and host reports are being made from across the globe. The diverse pathogens such as fungi, fungus-like organisms, bacteria, viruses, nematodes, viroids, phytoplasmas, insects, and weeds are being distributed continuously due to globalization and other anthropogenic activities. Disease diagnosis on the basis of symptoms may not be efficient to suppress these diseases as pathogens might become established well before the plant responds to the pathogen attack. Plant diseases can be coped with successfully if control procedures are introduced at an early stage of epidemic development. Recent advances in molecular biology, biotechnology, and information technology are being applied to the development of rapid, specific, and sensitive tools for the detection of phytopathogens. The scientific community is constantly making efforts to diagnose diseases in a timely manner using fast, accurate, and economical methods. This Special Issue invites authors to submit manuscripts on the development and use of immunological and nucleic acid hybridization-based methods, image sensors and artificial intelligence for pathogen detection in crop systems.

Dr. Swarnalatha Moparthi
Dr. Abdul Kader Jailani Amirudeen
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Agriculture is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • plant pathogens
  • management
  • diagnostic
  • field-based detection
  • plant bacteria
  • plant fungal
  • plant viruses
  • advanced molecular detection
  • isothermal
  • insects
  • high-throughput sequencing
  • CRISPR-based diagnosis phytoplasma
  • serological detection
  • viroids

Published Papers (4 papers)

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Research

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11 pages, 1101 KiB  
Article
Exploring Effective Strategies for ToBRFV Management in Tomato Production: Insights into Seed Transmission Dynamics and Innovative Control Approaches
by Hakan Fidan, Damla Ulusoy and Hande Nur Albezirgan
Agriculture 2024, 14(1), 108; https://doi.org/10.3390/agriculture14010108 - 08 Jan 2024
Viewed by 1574
Abstract
The tomato brown rugose fruit virus (ToBRFV), a formidable tobamovirus, poses a significant threat to tomato production globally. This comprehensive study is dedicated to establishing an integrated control strategy for ToBRFV, encompassing the entire tomato cultivation process from seed to harvest. Initial investigations [...] Read more.
The tomato brown rugose fruit virus (ToBRFV), a formidable tobamovirus, poses a significant threat to tomato production globally. This comprehensive study is dedicated to establishing an integrated control strategy for ToBRFV, encompassing the entire tomato cultivation process from seed to harvest. Initial investigations revealed a 0.8% seed transmission rate of ToBRFV, with viral presence detected in endosperms but not in seed embryos. Employing a multifaceted approach, infected seeds underwent a meticulous disinfection process. Gradual heating in a rotating thermal machine from 20 °C to 72 °C for 3 days resulted in a remarkable 0.3% contamination rate, rendering the virus non-infectious. Furthermore, ToBRFV-infected seeds underwent UV light treatment at 254 nm for 30 min, resulting in a 50% reduction in contamination rates. Chemical disinfectants, including 1% Tsunami 100 (comprising 30–60% acetic acid, 15.2% peroxyacetic acid, and 11.2% hydrogen peroxide) and 1% Biocon A (a combination of potassium peroxymonosulfate with buffer and organic acid), exhibited notable success. This study not only unravels the intricate dynamics of ToBRFV transmission and inactivation but also underscores the efficacy of integrated control measures. The findings provide valuable insights for the sustainable management of ToBRFV, contributing to the resilience of global tomato cultivation against this viral menace. Full article
(This article belongs to the Special Issue Molecular Diagnosis and Control of Plant Diseases)
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14 pages, 2645 KiB  
Article
Recombinase Polymerase Amplification Assay for Rapid Field Diagnosis of Stewart’s Wilt of Corn Pathogen Pantoea stewartii subsp. stewartii
by Lulu Cai, Qian Tian, Qingqing Meng, Xiaoyang Bao, Peidong Xu, Ji Liu, Wenjun Zhao and Hui Wang
Agriculture 2023, 13(10), 1982; https://doi.org/10.3390/agriculture13101982 - 12 Oct 2023
Viewed by 899
Abstract
Stewart’s vascular wilt and leaf blight of sweet corn is caused by the Gram-negative enteric bacterium Pantoea stewartii subsp. stewartii. Stewart’s wilt results in substantial yield losses worldwide warranting rapid and accurate disease diagnosis. Recombinase polymerase amplification (RPA) is an isothermal technique [...] Read more.
Stewart’s vascular wilt and leaf blight of sweet corn is caused by the Gram-negative enteric bacterium Pantoea stewartii subsp. stewartii. Stewart’s wilt results in substantial yield losses worldwide warranting rapid and accurate disease diagnosis. Recombinase polymerase amplification (RPA) is an isothermal technique that is tolerant to host plant-derived inhibitors and is, therefore, ideally suited for rapid in-field detection vis-à-vis traditional polymerase chain reaction-based molecular assays. An RPA assay coupled with a Lateral Flow Device (LFD) was developed for rapid, accurate, and sensitive real-time detection of P. stewartii subsp. stewartii directly from the infected host offering in-field pathogen detection, timely disease management, and satisfying quarantine and phytosanitary requirements. Twelve novel primer sets were designed against conserved genomic regions of P. stewartii subsp. Stewartii; however, only the primers for amplification of the intergenic spacer region between capsular polysaccharide genes cpsA and cpsB were discernibly unique and adequate for unambiguous identification of P. stewartii subsp. stewartii. The P. stewartii subsp. stewartii-specific primers were further validated in a simplex RPA assay for specificity against twenty-six bacterial species representing several Pantoea and other closely related bacterial species/subspecies/strains found in the same niche, and naturally or artificially infected plant samples. The integrated RPA/LFD assay was also optimized for rapid and sensitive on-site detection of P. stewartii subsp. stewartii with an empirical detection limit of 0.0005 pg μL−1 bacterial DNA and 1 × 102 CFU mL−1 (app. two bacterial cells used per RPA reaction) in minimally processed samples for accurate, low-cost, and point-of-need diagnosis of the quarantine pathogen P. stewartii subsp. stewartii. Full article
(This article belongs to the Special Issue Molecular Diagnosis and Control of Plant Diseases)
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16 pages, 2773 KiB  
Article
Characterisation of Pectinolytic Bacillus pumilus and Paenibacillus amyloliticus Strains, New Pathogens of Potato in Tunisia
by Anissa Yahyaoui, Maroua Oueslati, Agata Motyka-Pomagruk, Natalia Kaczynska, Wojciech Sledz, Belhassen Tarhouni, Mohamed Rabeh Hajlaoui, Ewa Lojkowska and Najla Sadfi-Zouaoui
Agriculture 2023, 13(6), 1275; https://doi.org/10.3390/agriculture13061275 - 20 Jun 2023
Cited by 1 | Viewed by 1555
Abstract
Soft rot disease in potato is a major problem in fields and warehouses all over the world. Although it is known that bacteria from the genera Pectobacterium and Dickeya are the main causative agents of soft rot diseases, recent studies indicate the involvement [...] Read more.
Soft rot disease in potato is a major problem in fields and warehouses all over the world. Although it is known that bacteria from the genera Pectobacterium and Dickeya are the main causative agents of soft rot diseases, recent studies indicate the involvement of pectinolytic Bacillus and Paenibacillus in this disease. In the present research, samples of potato with soft rot symptoms were collected from eight governorates of Tunisia. Two hundred and seventy bacterial isolates were acquired from tubers. Twenty of the isolated strains indicted pectinolytic activity by forming deep cavities on crystal violet pectate medium. All pectinolytic isolates were able to macerate potato tuber tissue. Phenotypic characterisation showed that these isolates were Gram-positive bacilli, exhibiting pectinolytic, cellulolytic, proteolytic and amylolytic activity. The majority of the isolates indicated swimming and swarming motility. The application of API test, MALDI-TOF MS and 16S rDNA sequencing allowed for the assignment of nineteen of the tested isolates to the species Bacillus pumilus and one to the species Paenibacillus amyloliticus. To the best of our knowledge, this is the first report of soft rot in potato caused by pectinolytic B. pumilus in Tunisia. Full article
(This article belongs to the Special Issue Molecular Diagnosis and Control of Plant Diseases)
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Review

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31 pages, 3895 KiB  
Review
Dissecting Diagnostic and Management Strategies for Plant Viral Diseases: What Next?
by B. Megala Devi, Samyuktha Guruprasath, Pooraniammal Balu, Anirudha Chattopadhyay, Siva Sudha Thilagar, Kanaga Vijayan Dhanabalan, Manoj Choudhary, Swarnalatha Moparthi and A. Abdul Kader Jailani
Agriculture 2024, 14(2), 284; https://doi.org/10.3390/agriculture14020284 - 09 Feb 2024
Viewed by 1506
Abstract
Recent advancements in molecular biology have revolutionized plant disease diagnosis and management. This review focuses on disease diagnosis through serological techniques, isothermal amplification methods, CRISPR-based approaches, and management strategies using RNA-based methods. Exploring high-throughput sequencing and RNA interference (RNAi) technologies like host-induced gene [...] Read more.
Recent advancements in molecular biology have revolutionized plant disease diagnosis and management. This review focuses on disease diagnosis through serological techniques, isothermal amplification methods, CRISPR-based approaches, and management strategies using RNA-based methods. Exploring high-throughput sequencing and RNA interference (RNAi) technologies like host-induced gene silencing (HIGS) and spray-induced gene silencing (SIGS), this review delves into their potential. Despite the precision offered by RNAi in pest and pathogen management, challenges such as off-target effects and efficient dsRNA delivery persist. This review discusses the significance of these strategies in preventing aphid-mediated plant virus transmission, emphasizing the crucial role of meticulous dsRNA design for effective viral RNA targeting while minimizing harm to plant RNA. Despite acknowledged challenges, including off-target effects and delivery issues, this review underscores the transformative potential of RNA-based strategies in agriculture. Envisaging reduced pesticide dependency and enhanced productivity, these strategies stand as key players in the future of sustainable agriculture. Full article
(This article belongs to the Special Issue Molecular Diagnosis and Control of Plant Diseases)
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