title: A study of the human bocavirus replicative genome structures.
abstract: The complete genomes of two human bocavirus 4 (HBoV4) isolates recovered in 2011 in Novosibirsk, Russia have been determined. A set of primers was designed based on the determined and previously published HBoV sequences; this primer pair was able to detect all possible HBoV replicative intermediates. This primer set was used to assay all HBoV genotypes and detected only those structures that correspond to an episomal form of this viral genome. Also, for the first time, head-to-tail nucleotide sequences have been determined for HBoV4. Secondary structures of the terminal noncoding regions (NCRs) of episomal forms have been computed for all HBoV genotypes, as well as for the canine bocavirus. Conserved secondary structures in episomal NCRs, which are likely to play an important part in the replication of bocaviruses, were found. NCR heterogeneity in the genomes of individual HBoV isolates has been shown for the first time.
authors.affiliation: Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, 8 Lavrentiev Avenue, Novosibirsk 630090, Russia. Electronic address: i_babkin@mail.ru.
authors.forename: Igor V
authors.initials: IV
authors.lastname: Babkin
authors.affiliation: Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, 8 Lavrentiev Avenue, Novosibirsk 630090, Russia; Laboratory of Nanobiotechnologies, Novosibirsk State University, 2 Pirogova Str., Novosibirsk 630090, Russia.
authors.forename: Alexander I
authors.initials: AI
authors.lastname: Tyumentsev
authors.affiliation: Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, 8 Lavrentiev Avenue, Novosibirsk 630090, Russia.
authors.forename: Artem Yu
authors.initials: AY
authors.lastname: Tikunov
authors.affiliation: Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, 8 Lavrentiev Avenue, Novosibirsk 630090, Russia.
authors.forename: Elena V
authors.initials: EV
authors.lastname: Zhirakovskaia
authors.affiliation: Laboratory of Nanobiotechnologies, Novosibirsk State University, 2 Pirogova Str., Novosibirsk 630090, Russia.
authors.forename: Sergei V
authors.initials: SV
authors.lastname: Netesov
authors.affiliation: Laboratory of Molecular Microbiology, Institute of Chemical Biology and Fundamental Medicine, 8 Lavrentiev Avenue, Novosibirsk 630090, Russia.
authors.forename: Nina V
authors.initials: NV
authors.lastname: Tikunova
mesh_terms: D016000:Cluster Analysis; D017124:Conserved Sequence; D004279:DNA, Viral / Q000737:chemistry / Q000235:genetics*; D016679:Genome, Viral; D056661:Human bocavirus / Q000235:genetics / Q000302:isolation & purification / Q000502:physiology*; D006801:Humans; D008958:Models, Molecular; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D010322:Parvoviridae Infections / Q000821:virology; D010802:Phylogeny; D010957:Plasmids; D012426:Russia; D017422:Sequence Analysis, DNA; D017385:Sequence Homology; D014779:Virus Replication
chemical_list: D004279:DNA, Viral
keywords: Complete genome; Human bocavirus; Parvoviruses; Virus replication