title: A stochastic model of translation with -1 programmed ribosomal frameshifting.
abstract: Many viruses produce multiple proteins from a single mRNA sequence by encoding overlapping genes. One mechanism to decode both genes, which reside in alternate reading frames, is -1 programmed ribosomal frameshifting. Although recognized for over 25 years, the molecular and physical mechanism of -1 frameshifting remains poorly understood. We have developed a mathematical model that treats mRNA translation and associated -1 frameshifting as a stochastic process in which the transition probabilities are based on the energetics of local molecular interactions. The model predicts both the location and efficiency of -1 frameshift events in HIV-1. Moreover, we compute -1 frameshift efficiencies upon mutations in the viral mRNA sequence and variations in relative tRNA abundances, predictions that are directly testable in experiment.
authors: Program in Applied Mathematics, University of Arizona, Tucson, AZ 85721, USA.
authors: Brenae L
authors: BL
authors: Bailey
authors: Koen
authors: K
authors: Visscher
authors: Joseph
authors: J
authors: Watkins
mesh_terms: D018965:Frameshifting, Ribosomal / Q000235:genetics / Q000502:physiology*; D015497:HIV-1 / Q000235:genetics; D008954:Models, Biological; D012333:RNA, Messenger / Q000235:genetics; D012367:RNA, Viral / Q000235:genetics; D013269:Stochastic Processes
chemical_list: D012333:RNA, Messenger; D012367:RNA, Viral