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Journal Articles Cell Year : 2023

Mining metatranscriptomes reveals a vast world of viroid-like circular RNAs

Abstract

Viroids and viroid-like covalently closed circular (ccc) RNAs are minimal replicators that typically encode no proteins and hijack cellular enzymes for replication. The extent and diversity of viroid-like agents are poorly understood. We developed a computational pipeline to identify viroid-like cccRNAs and applied it to 5,131 metatranscriptomes and 1,344 plant transcriptomes. The search yielded 11,378 viroid-like cccRNAs spanning 4,409 species-level clusters, a 5-fold increase compared to the previously identified viroid-like elements. Within this diverse collection, we discovered numerous putative viroids, satellite RNAs, retrozymes, and ribozy-like viruses. Diverse ribozyme combinations and unusual ribozymes within the cccRNAs were identified. Self-cleaving ribozymes were identified in ambiviruses, some mito-like viruses and capsid-encoding satellite virus-like cccRNAs. The broad presence of viroid-like cccRNAs in diverse transcriptomes and ecosystems implies that their host range is far broader than currently known, and matches to CRISPR spacers suggest that some cccRNAs replicate in prokaryotes.
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Licence : CC BY NC ND - Attribution - NonCommercial - NoDerivatives

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pasteur-03970755 , version 1 (02-02-2023)

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Attribution - NonCommercial - NoDerivatives

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Benjamin D Lee, Uri Neri, Simon Roux, Yuri I Wolf, Antonio Pedro Camargo, et al.. Mining metatranscriptomes reveals a vast world of viroid-like circular RNAs. Cell, 2023, 186 (3), pp.646-661.e4. ⟨10.1016/j.cell.2022.12.039⟩. ⟨pasteur-03970755⟩

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