Genome analysis of F. nucleatum sub spp vincentii and its comparison with the genome of F. nucleatum ATCC 25586.
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.
Kapatral
Vinayak
V
Integrated Genomics Inc., Chicago, Illinois 60612, USA.
Ivanova
Natalia
N
Anderson
Iain
I
Reznik
Gary
G
Bhattacharyya
Anamitra
A
Gardner
Warren L
WL
Mikhailova
Natalia
N
Lapidus
Alla
A
Larsen
Niels
N
D'Souza
Mark
M
Walunas
Theresa
T
Haselkorn
Robert
R
Overbeek
Ross
R
Kyrpides
Nikos
N
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
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