characteristics.text: SAMN44033691
characteristics.characteristic: External Id
characteristics.text: University of Science and Technology of China
characteristics.characteristic: INSDC center name
characteristics.text: 2024-10-03T00:00:00Z
characteristics.characteristic: INSDC first public
characteristics.text: 2024-10-11T15:09:51.120Z
characteristics.characteristic: INSDC last update
characteristics.text: SRS22879526
characteristics.characteristic: INSDC secondary accession
characteristics.text: live
characteristics.characteristic: INSDC status
characteristics.text: MIMS.me
characteristics.characteristic: NCBI submission model
characteristics.text: MIGS/MIMS/MIMARKS.plant-associated
characteristics.characteristic: NCBI submission model
characteristics.text: MIMS.me.plant-associated.6.0
characteristics.characteristic: NCBI submission package
characteristics.text: SRS22879526
characteristics.characteristic: SRA accession
characteristics.text: not collected
characteristics.characteristic: collection_date
characteristics.text: 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 performed 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 identified 809 complete or near-complete viruses, including 274 known viruses and 535 novel viruses. Given the high divergence and atypical genome organizations of novel viruses, more than a half of novel viruses were tentatively assigned to new genera, new families and even new orders. Utilizing homology-independent approaches, we additionally identified 50 divergent RdRPs, which were confirmed by protein structural prediction and comparison. Furthermore, we analyzed the metadata of related SRA libraries from other organisms, and estimated viral abundance in each library, leading to the screening of rice-infecting viruses and rice associated viruses. Our further analysis shows that these viruses distributed in various plants, including wild rice plants, other crops and weeds, highlighting the potential threats of these plants on cultivated rice via virus transmission. Overall, our study vastly expended the viral diversity in rice plants, providing new insights for the prevention and control of viral disease.
characteristics.characteristic: description
characteristics.text: not collected
characteristics.characteristic: env_broad_scale
characteristics.text: not collected
characteristics.characteristic: env_local_scale
characteristics.text: not collected
characteristics.characteristic: env_medium
characteristics.text: not collected
characteristics.characteristic: geo_loc_name
characteristics.text: not collected
characteristics.characteristic: host
characteristics.text: Oryza
characteristics.characteristic: isolation_source
characteristics.text: not collected
characteristics.characteristic: lat_lon
characteristics.text: plant metagenome
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_1297885
characteristics.characteristic: organism
characteristics.text: Virome characterization from 17,115 Rice Transcriptomes Reveals Extensive Viral Diversity in Rice Plants
characteristics.characteristic: title