title: Effects of ribosomes on the kinetics of Qβ replication.
abstract: Bacteriophage Qβ utilizes some host cell translation factors during replication. Previously, we constructed a kinetic model that explains replication of long RNA molecules by Qβ replicase. Here, we expanded the previous kinetic model to include the effects of ribosome concentration on RNA replication. The expanded model quantitatively explained single- and double-strand formation kinetics during replication with various ribosome concentrations for two artificial long RNAs. This expanded model and the knowledge obtained in this study provide useful frameworks to understand the precise replication mechanism of Qβ replicase with ribosomes and to design amplifiable RNA genomes in translation-coupling systems.
authors.affiliation: Japan Science and Technology Agency (JST), ERATO, Yomo Dynamical Micro-scale Reaction Environment Project, Yamadaoka 1-5, Suita, Osaka, Japan.
authors.forename: Kimihito
authors.initials: K
authors.lastname: Usui
authors.affiliation: Japan Science and Technology Agency (JST), ERATO, Yomo Dynamical Micro-scale Reaction Environment Project, Yamadaoka 1-5, Suita, Osaka, Japan; Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan.
authors.forename: Norikazu
authors.initials: N
authors.lastname: Ichihashi
authors.affiliation: Japan Science and Technology Agency (JST), ERATO, Yomo Dynamical Micro-scale Reaction Environment Project, Yamadaoka 1-5, Suita, Osaka, Japan.
authors.forename: Yasuaki
authors.initials: Y
authors.lastname: Kazuta
authors.affiliation: Japan Science and Technology Agency (JST), ERATO, Yomo Dynamical Micro-scale Reaction Environment Project, Yamadaoka 1-5, Suita, Osaka, Japan; Graduate School of Engineering, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan.
authors.forename: Tomoaki
authors.initials: T
authors.lastname: Matsuura
authors.affiliation: Japan Science and Technology Agency (JST), ERATO, Yomo Dynamical Micro-scale Reaction Environment Project, Yamadaoka 1-5, Suita, Osaka, Japan; Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan; Graduate School of Frontier Biosciences, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan. Electronic address: yomo@ist.osaka-u.ac.jp.
authors.forename: Tetsuya
authors.initials: T
authors.lastname: Yomo
mesh_terms: D017908:Allolevivirus / Q000201:enzymology / Q000235:genetics* / Q000378:metabolism; D016679:Genome, Viral / Q000235:genetics*; D007700:Kinetics; D008957:Models, Genetic; D011777:Q beta Replicase / Q000235:genetics / Q000378:metabolism; D012367:RNA, Viral / Q000235:genetics*; D012269:Ribosomal Proteins / Q000235:genetics / Q000378:metabolism; D012270:Ribosomes / Q000235:genetics* / Q000378:metabolism; D014779:Virus Replication
chemical_list: D012367:RNA, Viral; D012269:Ribosomal Proteins; C015494:ribosomal protein S1; D011777:Q beta Replicase
keywords: Double-stranded RNA; Qβ replicase; Ribosomal protein S1; Ribosome