Nonhomologous RNA recombination during negative-strand synthesis of flock house virus RNA.
During sequential replicative passages of viral RNA from the nodavirus flock house virus, spontaneous deletion of RNA sequences occurred frequently. Families of deleted RNA molecules were derived from both segments of the bipartite viral genome and found to contain single, double, or triple deletions. These deletions were attributed to template switching by the flock house virus RNA replicase, resulting in recombination between distant sequences and excision of the intervening nucleotides. From sequence analysis of the recombination junctions, we concluded that the process of template switching was influenced by both the primary sequence and the secondary structure of the RNA and that it occurred predominantly during synthesis of RNA negative strands.
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Department of Microbiology, University of Alabama, Birmingham 35294-0005.
Ball
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D000818:Animals; D001483:Base Sequence; D002460:Cell Line; D004331:Drosophila melanogaster; D006860:Hydrogen Bonding; D007304:Insect Viruses / Q000235:genetics*; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D012328:RNA Viruses / Q000235:genetics*; D012367:RNA, Viral / Q000235:genetics*; D012194:RNA-Directed DNA Polymerase; D011995:Recombination, Genetic; D016415:Sequence Alignment; D017384:Sequence Deletion; D014162:Transfection; D014779:Virus Replication
D012367:RNA, Viral; D012194:RNA-Directed DNA Polymerase