ArticleScientific reports2018
Characterization of viral RNA splicing using whole-transcriptome datasets from host species.
Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed, 12 citations in OpenAlex.
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- An updated database of virus circular RNAs provides new insights into the biogenesis mechanism of the molecule.Emerging microbes & infections · 2023Article
- Blood RNA alternative splicing events as diagnostic biomarkers for infectious disease.Cell reports methods · 2023Article
- Metagenomic analysis reveals novel dietary-related viruses in the gut virome of marmosets hybrids (Callithrix jacchus x Callithrix penicillata), Brazil.Virus research · 2023Article
- Selective ablation of 3' RNA ends and processive RTs facilitate direct cDNA sequencing of full-length host cell and viral transcripts.Nucleic acids research · 2022Article
- Identification of a Novel Densovirus in Aphid, and Uncovering the Possible Antiviral Process During Its Infection.Frontiers in immunology · 2022Article
- Principal component analysis of coronaviruses reveals their diversity and seasonal and pandemic potential.PloS one · 2020Article
- Reference gene and small RNA data from multiple tissues of Davidia involucrata Baill.Scientific data · 2019Article
Corrections and comments
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Authors and funding
15 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RNA alternative splicing (AS) is an important post-transcriptional mechanism enabling single genes to produce multiple proteins. It has been well demonstrated that viruses deploy host AS machinery for viral protein productions. However, knowledge on viral AS is limited to a few disease-causing viruses in model species. Here we report a novel approach to characterizing viral AS using whole transcriptome dataset from host species. Two insect transcriptomes (Acheta domesticus and Planococcus citri) generated in the 1,000 Insect Transcriptome Evolution (1KITE) project were used as a proof of concept using the new pipeline. Two closely related densoviruses (Acheta domesticus densovirus, AdDNV, and Planococcus citri densovirus, PcDNV, Ambidensovirus, Densovirinae, Parvoviridae) were detected and analyzed for AS patterns. The results suggested that although the two viruses shared major AS features, dramatic AS divergences were observed. Detailed analysis of the splicing junctions showed clusters of AS events occurred in two regions of the virus genome, demonstrating that transcriptome analysis could gain valuable insights into viral splicing. When applied to large-scale transcriptomics projects with diverse taxonomic sampling, our new method is expected to rapidly expand our knowledge on RNA splicing mechanisms for a wide range of viruses.
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