ArticlePLoS pathogens2011
Widespread endogenization of genome sequences of non-retroviral RNA viruses into plant genomes.
Article in PLoS pathogens, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 94 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
94 citing papers in PubMed, 197 citations in OpenAlex.
- Genome-wide identification of rhabdoviral sequences in alfalfa (Medicago sativa L.).Virus genes · 2026Article
- Locust cGAS-like Receptors Recognize Derivatives of a Gypsy Retrotransposon to Synergize with RNAi Against Viral Invasion.Insects · 2026Article
- Mycoviruses diversity in the black kōji mold, Aspergillus luchuensis (section Nigri) isolated from liquor-production environments in Japan.Virus research · 2026Article
- Characterization of the Alfalfa Pollen Virome.Viruses · 2026Article
- Metaviromic insights into the viral community associated with Dendrobium catenatum.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2026Article
- A novel tobamo-like mycovirus with filamentous particles replicates in plant cells.Journal of virology · 2025Article
- Cryptic infection of a giant virus in a unicellular green alga.Science (New York, N.Y.) · 2025Article
- detectEVE: Fast, Sensitive and Precise Detection of Endogenous Viral Elements in Genomic Data.Molecular ecology resources · 2025Article
- A Hypovirulence-Associated Partitivirus and Re-Examination of Horizontal Gene Transfer Between Partitiviruses and Cellular Organisms.International journal of molecular sciences · 2025Article
- Endogenous nege-like viral elements in arthropod genomes reveal virus-host coevolution and ancient history of two plant virus families.Journal of virology · 2024Article
- Latent infection of an active giant endogenous virus in a unicellular green alga.bioRxiv : the preprint server for biology · 2024Article
- New lineages of RNA viruses from clinical isolates ofmSphere · 2024Article
- Study of Endogenous Viruses in the Strawberry Plants.Viruses · 2024Article
- Replication of single viruses across the kingdoms, Fungi, Plantae, and Animalia.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- A novel approach to exploring the dark genome and its application to mapping of the vertebrate virus fossil record.Genome biology · 2024Article
- Article
- Endogenous viral elements: insights into data availability and accessibility.Virus evolution · 2024Article
- Revisiting the origins of the Sobemovirus genus: A case for ancient origins of plant viruses.PLoS pathogens · 2024Article
- Article
- Endogenous viral elements reveal associations between a non-retroviral RNA virus and symbiotic dinoflagellate genomes.Communications biology · 2023Article
34 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Non-retroviral RNA virus sequences (NRVSs) have been found in the chromosomes of vertebrates and fungi, but not plants. Here we report similarly endogenized NRVSs derived from plus-, negative-, and double-stranded RNA viruses in plant chromosomes. These sequences were found by searching public genomic sequence databases, and, importantly, most NRVSs were subsequently detected by direct molecular analyses of plant DNAs. The most widespread NRVSs were related to the coat protein (CP) genes of the family Partitiviridae which have bisegmented dsRNA genomes, and included plant- and fungus-infecting members. The CP of a novel fungal virus (Rosellinia necatrix partitivirus 2, RnPV2) had the greatest sequence similarity to Arabidopsis thaliana ILR2, which is thought to regulate the activities of the phytohormone auxin, indole-3-acetic acid (IAA). Furthermore, partitivirus CP-like sequences much more closely related to plant partitiviruses than to RnPV2 were identified in a wide range of plant species. In addition, the nucleocapsid protein genes of cytorhabdoviruses and varicosaviruses were found in species of over 9 plant families, including Brassicaceae and Solanaceae. A replicase-like sequence of a betaflexivirus was identified in the cucumber genome. The pattern of occurrence of NRVSs and the phylogenetic analyses of NRVSs and related viruses indicate that multiple independent integrations into many plant lineages may have occurred. For example, one of the NRVSs was retained in Ar. thaliana but not in Ar. lyrata or other related Camelina species, whereas another NRVS displayed the reverse pattern. Our study has shown that single- and double-stranded RNA viral sequences are widespread in plant genomes, and shows the potential of genome integrated NRVSs to contribute to resolve unclear phylogenetic relationships of plant species.
Indexed as
Identifiers
What OpenQuestion holds
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.