ArticleNature communications2025
In-depth analysis of 17,115 rice transcriptomes reveals extensive viral diversity in rice plants.
Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Differences in Oropharyngeal Viromes Between Surviving and Deceased Malayan Pangolins in a Rescue Context.Microorganisms · 2026Article
- Predicting the evolutionary and functional landscapes of viruses with a unified nucleotide-protein language model: LucaVirus.National science review · 2026Article
- Differential Performance of Vector and Non-Vector Planthoppers on Virus-Infected vs. Mock-Infected Plants.Insects · 2026Article
- Genetic mechanisms underlying the structural elaboration and dissemination of viral internal ribosomal entry sites.Nucleic acids research · 2026Article
- Article
- Geographic genetic divergence and ecological viral communities shape the virome of Chilo suppressalis.Microbiome · 2026Article
- Panning for gold: incidentally sequenced DNA.Nature reviews. Microbiology · 2026Article
- Comprehensive characterization of non-retroviral endogenous viral elements in the rice pest Chilo suppressalis.BMC genomics · 2025Article
- A transcriptomic profiling across tissues, developmental stages, and types of Nicotiana tabacum.Scientific data · 2025Article
- Emerging Viral Threats in Rice: A Decade of Discovery and Implications for Crop Protection.Plant, cell & environment · 2025Review
- Article
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Authors and funding
7 authors.
Funding
Abstract
Rice viruses seriously threaten rice cultivation and cause significant economic losses, but they have not yet been systematically identified, with only 20 rice-infecting viruses reported. Here, we perform a large-scale analysis of 17,115 RNA-seq libraries spanning 24 Oryza species across 51 countries. Using de novo assembly and homology-based methods, we identify 810 complete or near-complete viruses, including 276 known viruses and 534 novel viruses. Given the high divergence and atypical genome organizations of novel viruses, more than a half of them are tentatively assigned to 1 new order, 61 new families, and at least 104 new genera. Utilizing homology-independent approaches, we additionally identify 49 divergent RNA-dependent RNA polymerases (RdRPs), which are confirmed by protein structural alignment. Furthermore, we analyze the metadata of related Sequence Read Archive (SRA) libraries and estimated viral abundance in each library, leading to the screening of 427 viruses closely associated with rice plants. Overall, our study vastly expands the viral diversity in rice plants, providing insights for the prevention and control of viral disease.
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Registered trials
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