ArticleVirology journal2019
Identification of emerging viral genomes in transcriptomic datasets of alfalfa (Medicago sativa L.).
Article in Virology journal, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 35 citations in OpenAlex.
- Transmission from seed to seedling and elimination of alfalfa viruses.Frontiers in plant science · 2024Article
- Alfalfa vein mottling virus, a novel potyvirid infecting Medicago sativa L.Virology journal · 2023Article
- Genetic diversity of viruses infecting cnidium plants (Virusdisease · 2023Article
- Article
- Exploring the tymovirales landscape through metatranscriptomics data.Archives of virology · 2022Article
- Article
- A Novel Flavi-like Virus in Alfalfa (Viruses · 2022Article
- Metatranscriptomics Analysis Reveals Diverse Viral RNA in Cutaneous Papillomatous Lesions of Cattle.Evolutionary bioinformatics online · 2022Article
- An Annotated List of Legume-Infecting Viruses in the Light of Metagenomics.Plants (Basel, Switzerland) · 2021Review
- Article
- RNA-seq reveals plant virus composition and diversity in alfalfa, thrips, and aphids in Beijing, China.Archives of virology · 2021Article
- Viromes of Ten Alfalfa Plants in Australia Reveal Diverse Known Viruses and a Novel RNA Virus.Pathogens (Basel, Switzerland) · 2020Article
- High-Throughput Sequencing for Deciphering the Virome of Alfalfa (Frontiers in microbiology · 2020Review
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPublicly available transcriptomic datasets have become a valuable tool for the discovery of new pathogens, particularly viruses. In this study, several coding-complete viral genomes previously not found or experimentally confirmed in alfalfa were identified in the plant datasets retrieved from the NCBI Sequence Read Archive.
methodsPublicly available Medicago spp. transcriptomic datasets were retrieved from the NCBI SRA database. The raw reads were first mapped to the reference genomes of Medicago sativa and Medigago truncatula followed by the alignment of the unmapped reads to the NCBI viral genome database and de novo assembly using the SPAdes tool. When possible, assemblies were experimentally confirmed using 5'/3' RACE and RT-PCRs.
resultsTwenty three different viruses were identified in the analyzed datasets, of which several represented emerging viruses not reported in alfalfa prior to this study. Among them were two strains of cnidium vein yellowing virus, lychnis mottle virus and Cactus virus X, for which coding-complete genomic sequences were obtained by a de novo assembly.
conclusionsThe results improve our knowledge of the diversity and host range of viruses infecting alfalfa, provide essential tools for their diagnostics and characterization and demonstrate the utility of transcriptomic datasets for the discovery of new pathogens.
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