ReviewMicroorganisms2021
Metagenomics Approaches for the Detection and Surveillance of Emerging and Recurrent Plant Pathogens.
Review in Microorganisms, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
36 citing papers in PubMed.
- Ecological and genomic dynamics of the soil microbiome under sustained pressure from Phytophthora nicotianae, the causal agent of tobacco black shank disease.BMC microbiology · 2026Article
- Genomic insights intoMicrobiology spectrum · 2026Article
- Molecular Identification and RNA-Based Management of Fungal Plant Pathogens: From PCR to CRISPR/Cas9.International journal of molecular sciences · 2026Review
- Cultivation type, season, and soil nematode interactions affect wheat rhizosphere metabarcoding profiles.Frontiers in plant science · 2026Article
- Metagenomics and its impact on environmental and therapeutic microbiology.Archives of microbiology · 2025Review
- Low-Cost Heating Modalities Allow the Detection of Biomarkers for Plant Infection Using Rapid Evaporative Ionization Mass Spectrometry (REIMS) That Are Pathogen Specific.Analytical chemistry · 2025Article
- Advanced rDNA-Based Detection of Wheat Pathogens in Grain Samples Using Next-Generation Sequencing (NGS).Pathogens (Basel, Switzerland) · 2025Article
- Groundbreaking Technologies and the Biocontrol of Fungal Vascular Plant Pathogens.Journal of fungi (Basel, Switzerland) · 2025Review
- Unveiling viral threats to temperate pome fruits: characterization, transmission, and sustainable management strategies.Frontiers in microbiology · 2025Review
- Development and validation of a droplet digital PCR assay for sensitive detection and quantification ofFrontiers in plant science · 2025Article
- Genomics in plant pathogen identification and control.Frontiers in plant science · 2025Review
- High-Throughput Sequencing Methods for the Detection of Two Strawberry Viruses in Post-Entry Quarantine.Viruses · 2024Article
- Simulated High Throughput Sequencing Datasets: A Crucial Tool for Validating Bioinformatic Pathogen Detection Pipelines.Biology · 2024Article
- Seeing in the dark: a metagenomic approach can illuminate the drivers of plant disease.Frontiers in plant science · 2024Article
- PhytoPipe: a phytosanitary pipeline for plant pathogen detection and diagnosis using RNA-seq data.BMC bioinformatics · 2023Article
- Reference-Free Plant Disease Detection Using Machine Learning and Long-Read Metagenomic Sequencing.Applied and environmental microbiology · 2023Article
- Metagenomics: An Effective Approach for Exploring Microbial Diversity and Functions.Foods (Basel, Switzerland) · 2023Review
- Area Wide Monitoring of Plant and Honey Bee (Viruses · 2023Article
- Benchmarking and Validation of a Bioinformatics Workflow for Meat Species Identification Using 16S rDNA Metabarcoding.Foods (Basel, Switzerland) · 2023Article
- Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Globalization has a dramatic effect on the trade and movement of seeds, fruits and vegetables, with a corresponding increase in economic losses caused by the introduction of transboundary plant pathogens. Current diagnostic techniques provide a useful and precise tool to enact surveillance protocols regarding specific organisms, but this approach is strictly targeted, while metabarcoding and shotgun metagenomics could be used to simultaneously detect all known pathogens and potentially new ones. This review aims to present the current status of high-throughput sequencing (HTS) diagnostics of fungal and bacterial plant pathogens, discuss the challenges that need to be addressed, and provide direction for the development of methods for the detection of a restricted number of related taxa (specific surveillance) or all of the microorganisms present in a sample (general surveillance). HTS techniques, particularly metabarcoding, could be useful for the surveillance of soilborne, seedborne and airborne pathogens, as well as for identifying new pathogens and determining the origin of outbreaks. Metabarcoding and shotgun metagenomics still suffer from low precision, but this issue can be limited by carefully choosing primers and bioinformatic algorithms. Advances in bioinformatics will greatly accelerate the use of metagenomics to address critical aspects related to the detection and surveillance of plant pathogens in plant material and foodstuffs.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.