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Viruses
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Rapid and Accurate Detection of Plant Pathogens towards Improving Biovigilance-Based...
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Rapid and Accurate Detection of Plant Pathogens towards Improving Biovigilance-Based Crop Management Strategies

A special issue of Viruses (ISSN 1999-4915). This special issue belongs to the section "Viruses of Plants, Fungi and Protozoa".

Deadline for manuscript submissions: 30 April 2024 | Viewed by 2195

Special Issue Editors

Dr. Charith Raj Adkar-Purushothama

E-Mail Website
Guest Editor
Département de Biochimie et de Génomique Fonctionnelle, Faculté de Médecine et des Sciences de la Santé, Université de Sherbrooke, 3201 Rue Jean-Mignault, Sherbrooke, QC J1E 4K8, Canada
Interests: plant viruses; mechanisms
Dr. Satheesh Natarajan

E-Mail Website
Guest Editor
Healthcare Technology Innovation Centre, Indian Institute of Technology, Madras, Chennai, Tamil Nadu 600113, India
Interests: point of care diagnosis; antibody; aptamers; cell-free expression systems
Dr. Mamadou L. Fall

E-Mail Website
Guest Editor
Centre de Recherche et de Développement de Saint-Jean-sur-Richelieu, Agriculture et Agroalimentaire Canada, 430 Gouin, Saint-Jean-sur-Richelieu, QC J3B 3E6, Canada
Interests: plant virus epidemiology; dynamic simulation modeling; ecogenomic and quantitative epidemiology
Special Issues, Collections and Topics in MDPI journals
Prof. Dr. Jean Pierre Perreault

E-Mail Website
Guest Editor
Département de Biochimie et de Génomique Fonctionnelle, Faculté de Médecine et des Sciences de la Santé, Université de Sherbrooke, 3201 Rue Jean-Mignault, Sherbrooke, QC J1E 4K8, Canada
Interests: plant virus

Special Issue Information

Dear Colleagues,

Globalization and intensive agriculture coupled with climate change favour the rapid movement and evolution of plant pathogens. Though most of the phytopathogens such as fungi and bacteria can be controlled by pesticides, these chemicals are known to enter our food chain and also to alter the physiochemical and biological composition of the soil. On the other hand, there are no reliable control strategies for viral and viroid diseases. In this scenario, early detection and disease-monitoring tools are the keys to mitigating and preventing the spread of plant diseases.

In this Special Issue, we would like to focus on bringing together classical and novel diagnosis technologies for the rapid and accurate detection of phytopathogens, thus helping to improve biovigilance-based crop management strategies. Hence, we welcome both original research articles and review articles describing plant pathogen diagnosis and its importance in plant disease management.

Dr. Charith Raj Adkar-Purushothama
Dr. Satheesh Natarajan
Dr. Mamadou L. Fall
Prof. Dr. Jean Pierre Perreault
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. Viruses 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

  • on-site diagnosis
  • biovigilance
  • isothermal amplification
  • lateral flow assay

Published Papers (2 papers)

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Research

12 pages, 2288 KiB  
Article
Development and Application of a Duplex RT-RPA Assay for the Simultaneous Detection of Cymbidium mosaic virus and Odontoglossum ringspot virus
by Aiqing Sun, Lihua Wang, Yiping Zhang, Xiumei Yang, Yan Su and Xuewei Wu
Viruses 2024, 16(4), 543; https://doi.org/10.3390/v16040543 - 30 Mar 2024
Viewed by 642
Abstract
Cymbidium mosaic virus (CymMV) and Odontoglossum ringspot virus (ORSV) are among the world’s most serious and widespread orchid viruses; they often infect orchids, causing devastating losses to the orchid industry. Therefore, it is critical to establish a method that can rapidly and accurately [...] Read more.
Cymbidium mosaic virus (CymMV) and Odontoglossum ringspot virus (ORSV) are among the world’s most serious and widespread orchid viruses; they often infect orchids, causing devastating losses to the orchid industry. Therefore, it is critical to establish a method that can rapidly and accurately detect viruses in the field using simple instruments, which will largely reduce the further spread of viruses and improve the quality of the orchid industry and is suitable for mass promotion and application at grassroots agrotechnical service points. In this investigation, we established a rapid amplification method for virus detection at 39 °C for 35 min to detect the presence of CymMV and ORSV simultaneously, sensitively, and specifically in orchids. Primers for the capsid protein (CP)-encoding genes of both viruses were designed and screened, and the reaction conditions were optimized. The experimental amplification process was completed in just 35 min at 39 °C. There were no instances of nonspecific amplification observed when nine other viruses were present. The RPA approach had detection limits of 104 and 103 copies for pMD19T-CymMV and pMD19T-ORSV, respectively. Moreover, the duplex RT-RPA investigation confirmed sensitivity and accuracy via a comparison of detection results from 20 field samples with those of a gene chip. This study presents a precise and reliable detection method for CymMV and ORSV using RT-RPA. The results demonstrate the potential of this method for rapid virus detection. It is evident that this method could have practical applications in virus detection processes. Full article
(This article belongs to the Special Issue Rapid and Accurate Detection of Plant Pathogens towards Improving Biovigilance-Based Crop Management Strategies)
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19 pages, 2387 KiB  
Article
A Novel Tiled Amplicon Sequencing Assay Targeting the Tomato Brown Rugose Fruit Virus (ToBRFV) Genome Reveals Widespread Distribution in Municipal Wastewater Treatment Systems in the Province of Ontario, Canada
by Delaney Nash, Isaac Ellmen, Jennifer J. Knapp, Ria Menon, Alyssa K. Overton, Jiujun Cheng, Michael D. J. Lynch, Jozef I. Nissimov and Trevor C. Charles
Viruses 2024, 16(3), 460; https://doi.org/10.3390/v16030460 - 17 Mar 2024
Viewed by 1068
Abstract
Tomato Brown Rugose Fruit Virus (ToBRFV) is a plant pathogen that infects important Solanaceae crop species and can dramatically reduce tomato crop yields. The ToBRFV has rapidly spread around the globe due to its ability to escape detection by antiviral host genes which [...] Read more.
Tomato Brown Rugose Fruit Virus (ToBRFV) is a plant pathogen that infects important Solanaceae crop species and can dramatically reduce tomato crop yields. The ToBRFV has rapidly spread around the globe due to its ability to escape detection by antiviral host genes which confer resistance to other tobamoviruses in tomato plants. The development of robust and reproducible methods for detecting viruses in the environment aids in the tracking and reduction of pathogen transmission. We detected ToBRFV in municipal wastewater influent (WWI) samples, likely due to its presence in human waste, demonstrating a widespread distribution of ToBRFV in WWI throughout Ontario, Canada. To aid in global ToBRFV surveillance efforts, we developed a tiled amplicon approach to sequence and track the evolution of ToBRFV genomes in municipal WWI. Our assay recovers 95.7% of the 6393 bp ToBRFV RefSeq genome, omitting the terminal 5′ and 3′ ends. We demonstrate that our sequencing assay is a robust, sensitive, and highly specific method for recovering ToBRFV genomes. Our ToBRFV assay was developed using existing ARTIC Network resources, including primer design, sequencing library prep, and read analysis. Additionally, we adapted our lineage abundance estimation tool, Alcov, to estimate the abundance of ToBRFV clades in samples. Full article
(This article belongs to the Special Issue Rapid and Accurate Detection of Plant Pathogens towards Improving Biovigilance-Based Crop Management Strategies)
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