Genome Sequence of Fusobacterium nucleatum Subspecies Polymorphum - a Genetically Tractable Fusobacterium

被引:54
作者
Karpathy, Sandor E. [1 ,2 ]
Qin, Xiang [1 ]
Gioia, Jason [3 ]
Jiang, Huaiyang [1 ]
Liu, Yamei [4 ]
Petrosino, Joseph F. [1 ,3 ]
Yerrapragada, Shailaja [1 ]
Fox, George E. [4 ]
Haake, Susan Kinder [5 ]
Weinstock, George M. [1 ,2 ,3 ]
Highlander, Sarah K. [1 ,3 ]
机构
[1] Baylor Coll Med, Human Genome Sequencing Ctr, Houston, TX 77030 USA
[2] Univ Texas Houston, Sch Med, Dept Microbiol & Mol Genet, Houston, TX USA
[3] Baylor Coll Med, Dept Mol Virol & Microbiol, Houston, TX 77030 USA
[4] Univ Houston, Dept Biol & Biochem, Houston, TX USA
[5] Univ Calif Los Angeles, Sch Dent, Los Angeles, CA 90024 USA
来源
PLOS ONE | 2007年 / 2卷 / 08期
关键词
D O I
10.1371/journal.pone.0000659
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Fusobacterium nucleatum is a prominent member of the oral microbiota and is a common cause of human infection. F. nucleatum includes five subspecies: polymorphum, nucleatum, vincentii, fusiforme, and animalis. F. nucleatum subsp. polymorphum ATCC 10953 has been well characterized phenotypically and, in contrast to previously sequenced strains, is amenable to gene transfer. We sequenced and annotated the 2,429,698 bp genome of F. nucleatum subsp. polymorphum ATCC 10953. Plasmid pFN3 from the strain was also sequenced and analyzed. When compared to the other two available fusobacterial genomes (F. nucleatum subsp. nucleatum, and F. nucleatum subsp. vincentii) 627 open reading frames unique to F. nucleatum subsp. polymorphum ATCC 10953 were identified. A large percentage of these mapped within one of 28 regions or islands containing five or more genes. Seventeen percent of the clustered proteins that demonstrated similarity were most similar to proteins from the clostridia, with others being most similar to proteins from other gram-positive organisms such as Bacillus and Streptococcus. A ten kilobase region homologous to the Salmonella typhimurium propanediol utilization locus was identified, as was a prophage and integrated conjugal plasmid. The genome contains five composite ribozyme/transposons, similar to the Cd/St IStrons described in Clostridium difficile. IStrons are not present in the other fusobacterial genomes. These findings indicate that F. nucleatum subsp. polymorphum is proficient at horizontal gene transfer and that exchange with the Firmicutes, particularly the Clostridia, is common.
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