ArticleMicroorganisms2021
Use of High-Throughput Sequencing and Two RNA Input Methods to Identify Viruses Infecting Tomato Crops.
Article in Microorganisms, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 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.
The trial behind it
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Who cites it
9 citing papers in PubMed, 15 citations in OpenAlex.
- Pepino Mosaic Virus: A Globally Important Tomato Pathogen and a Rising Model in Molecular Virology.Molecular plant pathology · 2026Review
- Metagenomics Study of the Commercial Tomato Virome Focused on Virus Species of Epidemiological Interest.Viruses · 2025Article
- Transmission of tomato fruit blotch virus by the tomato russet mite: epidemiological implications for an emerging/re-emerging tomato disease.Scientific reports · 2025Article
- High-Throughput Sequencing Methods for the Detection of Two Strawberry Viruses in Post-Entry Quarantine.Viruses · 2024Article
- Article
- In-depth study of tomato and weed viromes reveals undiscovered plant virus diversity in an agroecosystem.Microbiome · 2023Article
- Genetic Differentiation and Migration Fluxes of Viruses from Melon Crops and Crop Edge Weeds.Journal of virology · 2022Article
- Side-by-Side Comparison of Post-Entry Quarantine and High Throughput Sequencing Methods for Virus and Viroid Diagnosis.Biology · 2022Article
- Special Issue "Plant Viruses: From Ecology to Control".Microorganisms · 2021Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
We used high-throughput sequencing to identify viruses on tomato samples showing virus-like symptoms. Samples were collected from crops in the Iberian Peninsula. Either total RNA or double-stranded RNA (dsRNA) were used as starting material to build the cDNA libraries. In total, seven virus species were identified, with pepino mosaic virus being the most abundant one. The dsRNA input provided better coverage and read depth but missed one virus species compared with the total RNA input. By performing in silico analyses, we determined a minimum sequencing depth per sample of 0.2 and 1.5 million reads for dsRNA and rRNA-depleted total RNA inputs, respectively, to detect even the less abundant viruses. Primers and TaqMan probes targeting conserved regions in the viral genomes were designed and/or used for virus detection; all viruses were detected by qRT-PCR/RT-PCR in individual samples, with all except one sample showing mixed infections. Three virus species (
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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.