title: Genome analysis of F. nucleatum sub spp vincentii and its comparison with the genome of F. nucleatum ATCC 25586.
abstract: We present the draft genome sequence and its analysis for Fusobacterium nucleatum sub spp. vincentii (FNV), and compare that genome with F. nucleatum ATCC 25586 (FN). A total of 441 FNV open reading frames (ORFs) with no orthologs in FN have been identified. Of these, 118 ORFs have no known function and are unique to FNV, whereas 323 ORFs have functional orthologs in other organisms. In addition to the excretion of butyrate, H2S and ammonia-like FN, FNV has the additional capability to excrete lactate and aminobutyrate. Unlike FN, FNV is likely to incorporate galactopyranose, galacturonate, and sialic acid into its O-antigen. It appears to transport ferrous iron by an anaerobic ferrous transporter. Genes for eukaryotic type serine/threonine kinase and phosphatase, transpeptidase E-transglycosylase Pbp1A are found in FNV but not in FN. Unique ABC transporters, cryptic phages, and three types of restriction-modification systems have been identified in FNV. ORFs for ethanolamine utilization, thermostable carboxypeptidase, gamma glutamyl-transpeptidase, and deblocking aminopeptidases are absent from FNV. FNV, like FN, lacks the classical catalase-peroxidase system, but thioredoxin/glutaredoxin enzymes might alleviate oxidative stress. Genes for resistance to antibiotics such as acriflavin, bacitracin, bleomycin, daunorubicin, florfenicol, and other general multidrug resistance are present. These capabilities allow Fusobacteria to survive in a mixed culture in the mouth.
authors.affiliation: Integrated Genomics Inc., Chicago, Illinois 60612, USA.
authors.forename: Vinayak
authors.initials: V
authors.lastname: Kapatral
authors.forename: Natalia
authors.initials: N
authors.lastname: Ivanova
authors.forename: Iain
authors.initials: I
authors.lastname: Anderson
authors.forename: Gary
authors.initials: G
authors.lastname: Reznik
authors.forename: Anamitra
authors.initials: A
authors.lastname: Bhattacharyya
authors.forename: Warren L
authors.initials: WL
authors.lastname: Gardner
authors.forename: Natalia
authors.initials: N
authors.lastname: Mikhailova
authors.forename: Alla
authors.initials: A
authors.lastname: Lapidus
authors.forename: Niels
authors.initials: N
authors.lastname: Larsen
authors.forename: Mark
authors.initials: M
authors.lastname: D'Souza
authors.forename: Theresa
authors.initials: T
authors.lastname: Walunas
authors.forename: Robert
authors.initials: R
authors.lastname: Haselkorn
authors.forename: Ross
authors.initials: R
authors.lastname: Overbeek
authors.forename: Nikos
authors.initials: N
authors.lastname: Kyrpides
mesh_terms: D018528:ATP-Binding Cassette Transporters / Q000378:metabolism; D000596:Amino Acids / Q000096:biosynthesis; D001426:Bacterial Proteins / Q000096:biosynthesis / Q000378:metabolism; D001435:Bacteriophages / Q000235:genetics; D002244:Carbon / Q000378:metabolism; D002455:Cell Division / Q000235:genetics; D004260:DNA Repair / Q000235:genetics; D004261:DNA Replication / Q000235:genetics; D004251:DNA Transposable Elements; D024881:Drug Resistance, Bacterial / Q000235:genetics; D004734:Energy Metabolism / Q000235:genetics; D016967:Fusobacterium nucleatum / Q000201:enzymology / Q000235:genetics* / Q000378:metabolism / Q000472:pathogenicity; D016680:Genome, Bacterial; D006360:Heat-Shock Proteins; D008055:Lipids / Q000096:biosynthesis; D008070:Lipopolysaccharides / Q000737:chemistry / Q000378:metabolism; D008565:Membrane Proteins / Q000235:genetics; D010452:Peptide Biosynthesis / Q000235:genetics; D010447:Peptide Hydrolases / Q000378:metabolism; D010770:Phosphotransferases / Q000378:metabolism; D012329:RNA, Bacterial / Q000235:genetics; D012335:RNA, Ribosomal / Q000235:genetics; D012343:RNA, Transfer / Q000235:genetics; D015398:Signal Transduction / Q000235:genetics; D013045:Species Specificity
chemical_list: D018528:ATP-Binding Cassette Transporters; D000596:Amino Acids; D001426:Bacterial Proteins; D004251:DNA Transposable Elements; D006360:Heat-Shock Proteins; D008055:Lipids; D008070:Lipopolysaccharides; D008565:Membrane Proteins; D012329:RNA, Bacterial; D012335:RNA, Ribosomal; D002244:Carbon; D012343:RNA, Transfer; D010770:Phosphotransferases; D010447:Peptide Hydrolases