ArticleFrontiers in microbiology2017
Next Generation Sequencing for Detection and Discovery of Plant Viruses and Viroids: Comparison of Two Approaches.
Article in Frontiers in microbiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 91 papers, 1 of them a synthesis that pooled it.
What it found
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Who cites it
91 citing papers in PubMed, 1 synthesis or guideline pooled it, 199 citations in OpenAlex.
- Pooled it
- A Validation Study of a High-Throughput Sequencing Workflow for the Detection of Grapevine Viruses and Viroids.Pathogens (Basel, Switzerland) · 2026Article
- Identification and characterization of an endogenous pararetrovirus in Gentiana triflora plants.Archives of virology · 2026Article
- Validation of an In-House High-Throughput Total RNA Sequencing Test for the Detection of Plant Viruses and Viroids.Viruses · 2026Article
- Comprehensive virome analysis of potato crops in Bangladesh reveals diverse viral communities and the first report of potato virus V.Virology journal · 2026Article
- Diversity, recombination and misclassification in the family Geminiviridae: Insight from bioinformatics analysis.PloS one · 2026Article
- Evaluation of the influence of RNA extraction methods on the detection of citrus viruses and viroids.Virology journal · 2025Article
- Unveiling thePlants (Basel, Switzerland) · 2025Article
- Conventional and cutting-edge advances in plant virus detection: emerging trends and techniques.3 Biotech · 2025Review
- Expanding the evidence for cross-species viral transmission from trophic interactions of parasitoid wasps and their hosts.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Article
- A ribodepletion and tagging protocol to multiplex samples for RNA-seq based virus detection: application to the cassava virome.Virology journal · 2025Article
- Genomics in plant pathogen identification and control.Frontiers in plant science · 2025Review
- Prevalence, genetic diversity, and molecular detection of the apple hammerhead viroid in Germany.Frontiers in microbiology · 2025Article
- Comprehensive virome profiling of sugarcane and simplified duplex OneStep RT-PCR assay reveals the prevalence of sugarcane streak mosaic virus along with sugarcane yellow leaf virus in India.Journal, genetic engineering & biotechnology · 2024Article
- Conservation of molecular responses upon viral infection in the non-vascular plant Marchantia polymorpha.Nature communications · 2024Article
- Simulated High Throughput Sequencing Datasets: A Crucial Tool for Validating Bioinformatic Pathogen Detection Pipelines.Biology · 2024Article
- A Review of Probe-Based Enrichment Methods to Inform Plant Virus Diagnostics.International journal of molecular sciences · 2024Review
- Article
- Diagnosis and Characterization of Plant Viruses Using HTS to Support Virus Management and Tomato Breeding.Viruses · 2024Article
- Occurrence and Multiplex PCR Detection of Citrus Yellow Vein Clearing Virus in Korea.The plant pathology journal · 2024Article
31 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Next generation sequencing (NGS) technologies are becoming routinely employed in different fields of virus research. Different sequencing platforms and sample preparation approaches, in the laboratories worldwide, contributed to a revolution in detection and discovery of plant viruses and viroids. In this work, we are presenting the comparison of two RNA sequence inputs (small RNAs vs. ribosomal RNA depleted total RNA) for the detection of plant viruses by Illumina sequencing. This comparison includes several viruses, which differ in genome organization and viroids from both known families. The results demonstrate the ability for detection and identification of a wide array of known plant viruses/viroids in the tested samples by both approaches. In general, yield of viral sequences was dependent on viral genome organization and the amount of viral reads in the data. A putative novel
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