The initiation of RNA interference (RNAi) in plants.

Curr Opin Plant Biol

Donald Danforth Plant Science Center, St. Louis, MO, 63132, USA; Division of Biological Sciences, University of Missouri-Columbia, 65211, USA. Electronic address:

Published: June 2021

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The viral protein mutations can modify virus-host interactions during virus evolution, and thus alter the extent of infection or pathogenicity. Studies indicate that nucleocapsid (N) protein of SARS-CoV-2 participates in viral genome assembly, intracellular signal regulation and immune interference. However, its biological function in viral evolution is not well understood.

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Advancements in high-throughput sequencing and associated bioinformatics methods have significantly expanded the RNA virus repertoire, including novel viruses with highly divergent genomes encoding "orphan" proteins that apparently lack homologous sequences. This absence of homologs in routine sequence similarity search complicates their taxonomic classification and raises a fundamental question: Do these orphan viral genomes represent viruses? In 2022, an orphan viral genome encoding a large polyprotein was identified in alfalfa () and thrips (), and named Snake River alfalfa virus (SRAV). SRAV was initially proposed as an uncommon flavi-like virus identified in a plant host distantly related to family .

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