title: The complete genome sequencing of Prevotella intermedia strain OMA14 and a subsequent fine-scale, intra-species genomic comparison reveal an unusual amplification of conjugative and mobile transposons and identify a novel Prevotella-lineage-specific repeat.
abstract: Prevotella intermedia is a pathogenic bacterium involved in periodontal diseases. Here, we present the complete genome sequence of a clinical strain, OMA14, of this bacterium along with the results of comparative genome analysis with strain 17 of the same species whose genome has also been sequenced, but not fully analysed yet. The genomes of both strains consist of two circular chromosomes: the larger chromosomes are similar in size and exhibit a high overall linearity of gene organizations, whereas the smaller chromosomes show a significant size variation and have undergone remarkable genome rearrangements. Unique features of the Pre. intermedia genomes are the presence of a remarkable number of essential genes on the second chromosomes and the abundance of conjugative and mobilizable transposons (CTns and MTns). The CTns/MTns are particularly abundant in the second chromosomes, involved in its extensive genome rearrangement, and have introduced a number of strain-specific genes into each strain. We also found a novel 188-bp repeat sequence that has been highly amplified in Pre. intermedia and are specifically distributed among the Pre. intermedia-related species. These findings expand our understanding of the genetic features of Pre. intermedia and the roles of CTns and MTns in the evolution of bacteria.
authors.affiliation: Division of Microbiology and Oral Infection, Department of Molecular Microbiology and Immunity, Nagasaki University Graduate School of Biomedical Sciences, Nagasaki 852-8588, Japan mnaito@nagasaki-u.ac.jp.
authors.forename: Mariko
authors.initials: M
authors.lastname: Naito
authors.affiliation: Department of Bacteriology, Faculty of Medical Sciences, Kyushu University, Higashi-ku, Fukuoka 812-8582, Japan.
authors.forename: Yoshitoshi
authors.initials: Y
authors.lastname: Ogura
authors.affiliation: Department of Biological Information, Tokyo Institute of Technology, Meguro-ku, Tokyo 152-8550, Japan.
authors.forename: Takehiko
authors.initials: T
authors.lastname: Itoh
authors.affiliation: Division of Microbiology and Oral Infection, Department of Molecular Microbiology and Immunity, Nagasaki University Graduate School of Biomedical Sciences, Nagasaki 852-8588, Japan.
authors.forename: Mikio
authors.initials: M
authors.lastname: Shoji
authors.affiliation: Department of Oral Microbiology, Tsurumi University, School of Dental Medicine, Tsurumi-ku, Yokohama 230-8501, Japan.
authors.forename: Masaaki
authors.initials: M
authors.lastname: Okamoto
authors.affiliation: Department of Bacteriology, Faculty of Medical Sciences, Kyushu University, Higashi-ku, Fukuoka 812-8582, Japan.
authors.forename: Tetsuya
authors.initials: T
authors.lastname: Hayashi
authors.affiliation: Division of Microbiology and Oral Infection, Department of Molecular Microbiology and Immunity, Nagasaki University Graduate School of Biomedical Sciences, Nagasaki 852-8588, Japan.
authors.forename: Koji
authors.initials: K
authors.lastname: Nakayama
mesh_terms: D055028:Comparative Genomic Hybridization; D004251:DNA Transposable Elements; D019143:Evolution, Molecular; D005784:Gene Amplification; D016680:Genome, Bacterial; D023281:Genomics; D018713:Prevotella intermedia / Q000235:genetics*; D012091:Repetitive Sequences, Nucleic Acid
chemical_list: D004251:DNA Transposable Elements
keywords: Prevotella intermedia; complete genome sequence; conjugative transposon; mobilizable transposon; repeat sequence