title: Single cell genomics of uncultured, health-associated Tannerella BU063 (Oral Taxon 286) and comparison to the closely related pathogen Tannerella forsythia.
abstract: The uncultivated bacterium Tannerella BU063 (oral taxon 286) is the closest relative to the periodontal pathogen Tannerella forsythia, but is not disease-associated itself. Using a single cell genomics approach, we isolated 12 individual BU063 cells by flow cytometry, and we amplified and sequenced their genomes. Comparative analyses of the assembled genomic scaffolds and their gene contents allowed us to study the diversity of this taxon within the oral community of a single human donor that provided the sample. Eight different BU063 genotypes were represented, all about 5% divergent at the nucleotide level. There were 2 pairs of cells and one group of three that were more highly identical, and may represent clonal populations. We did pooled assemblies on the nearly identical genomes to increase the assembled genomic coverage. The presence of a set of 66 "core" housekeeping genes showed that two of the single cell assemblies and the assembly derived from the three putatively identical cells were essentially complete. As expected, the genome of BU063 is more similar to Tannerella forsythia than any other known genome, although there are significant differences, including a 44% difference in gene content, changes in metabolic pathways, loss of synteny, and an 8-9% difference in GC content. Several identified virulence genes of T. forsythia are not found in BU063 including karilysin, prtH, and bspA. The absence of these genes may explain the lack of periodontal pathogenesis by this species and provides a new foundation to further understand the genome evolution and mechanisms of bacterial-host interaction in closely related oral microbes with different pathogenicity potential.
authors.affiliation: Division of Oral Biology, College of Dentistry, The Ohio State University, Columbus, Ohio, United States of America.
authors.forename: Clifford J
authors.initials: CJ
authors.lastname: Beall
authors.affiliation: Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America ; Genome Science and Technology Program, University of Tennessee, Knoxville, Tennessee, United States of America.
authors.forename: Alisha G
authors.initials: AG
authors.lastname: Campbell
authors.affiliation: Division of Oral Biology, College of Dentistry, The Ohio State University, Columbus, Ohio, United States of America.
authors.forename: Daniel M
authors.initials: DM
authors.lastname: Dayeh
authors.affiliation: Division of Pediatric Dentistry and Community Oral Health, College of Dentistry, The Ohio State University, Columbus, Ohio, United States of America.
authors.forename: Ann L
authors.initials: AL
authors.lastname: Griffen
authors.affiliation: Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America ; Genome Science and Technology Program, University of Tennessee, Knoxville, Tennessee, United States of America.
authors.forename: Mircea
authors.initials: M
authors.lastname: Podar
authors.affiliation: Division of Oral Biology, College of Dentistry, The Ohio State University, Columbus, Ohio, United States of America.
authors.forename: Eugene J
authors.initials: EJ
authors.lastname: Leys
mesh_terms: D001426:Bacterial Proteins / Q000378:metabolism; D041963:Bacteroidetes / Q000302:isolation & purification / Q000472:pathogenicity / Q000502:physiology*; D001482:Base Composition / Q000235:genetics; D016000:Cluster Analysis; D019295:Computational Biology; D017124:Conserved Sequence / Q000235:genetics; D005798:Genes, Bacterial / Q000235:genetics; D059646:Genome Size; D023281:Genomics / Q000379:methods*; D006262:Health; D006801:Humans; D017422:Sequence Analysis, DNA; D059010:Single-Cell Analysis / Q000379:methods*; D026801:Synteny / Q000235:genetics; D014774:Virulence / Q000235:genetics
chemical_list: D001426:Bacterial Proteins