Complete genome sequence of Ilyobacter polytropus type strain (CuHbu1 T )

to the fusobacterial family Fusobacteriaceae . The species is of interest because its members are able to ferment quite a number of sugars and organic acids. I. polytropus has a broad versatility in using various fermentation pathways. Also, its members do not degrade poly- β -hydroxybutyrate but only the monomeric 3-hydroxybutyrate. This is the first completed genome sequence of a member of the genus Ilyobacter and the second sequence from the family Fusobacteriaceae . The 3,132,314 bp long genome with its 2,934 protein-coding and 108 RNA genes consists of two chromosomes (2 and 1 Mbp long) and one plasmid, and is a part of the G enomic E ncyclopedia of B acteria and A rchaea project.

[1]  G. Garrity.  Bergey’s Manual® of Systematic Bacteriology , 2012, Springer New York.

[2]  H. Klenk,et al.  En route to a genome-based classification of Archaea and Bacteria? , 2010, Systematic and applied microbiology.

[3]  Natalia N. Ivanova,et al.  GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes , 2010, Nature Methods.

[4]  George M. Garrity,et al.  NamesforLife BrowserTool takes expertise out of the database and puts it right in the browser , 2010 .

[5]  I-Min A. Chen,et al.  The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata , 2007, Nucleic Acids Res..

[6]  Cliff,et al.  Complete genome sequence of Sebaldella termitidis type strain ( NCTC 11300 T ) , 2010 .

[7]  Miriam L. Land,et al.  Trace: Tennessee Research and Creative Exchange Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification Recommended Citation Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification , 2022 .

[8]  Natalia N. Ivanova,et al.  A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea , 2009, Nature.

[9]  Lynne A. Goodwin,et al.  Complete genome sequence of Leptotrichia buccalis type strain (C-1013-bT) , 2009, Standards in genomic sciences.

[10]  I-Min A. Chen,et al.  IMG ER: a system for microbial genome annotation expert review and curation , 2009, Bioinform..

[11]  Alexandros Stamatakis,et al.  How Many Bootstrap Replicates Are Necessary? , 2009, RECOMB.

[12]  Lynne A. Goodwin,et al.  Complete genome sequence of Kytococcus sedentarius type strain (541 T ) , 2009 .

[13]  J. Rougemont,et al.  A rapid bootstrap algorithm for the RAxML Web servers. , 2008, Systematic biology.

[14]  E. Birney,et al.  Velvet: algorithms for de novo short read assembly using de Bruijn graphs. , 2008, Genome research.

[15]  Chris F. Taylor,et al.  The minimum information about a genome sequence (MIGS) specification , 2008, Nature Biotechnology.

[16]  Nikos Kyrpides,et al.  The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata , 2007, Nucleic Acids Res..

[17]  J. Chun,et al.  EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. , 2007, International journal of systematic and evolutionary microbiology.

[18]  Eoin L. Brodie,et al.  Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB , 2006, Applied and Environmental Microbiology.

[19]  P. Janssen,et al.  Ilyobacter delafieldii sp. nov., a metabolically restricted anaerobic bacterium fermenting PHB , 1990, Archives of Microbiology.

[20]  B. Schink,et al.  A new 3-hydroxybutyrate fermenting anaerobe, Ilyobacter polytropus, gen. nov. sp. nov., possessing various fermentation pathways , 1984, Archives of Microbiology.

[21]  B. Schink.  Fermentation of tartrate enantiomers by anaerobic bacteria, and description of two new species of strict anaerobes, Ruminococcus pasteurii and Ilyobacter tartaricus , 1984, Archives of Microbiology.

[22]  Nikos Kyrpides,et al.  Genome Sequence and Analysis of the Oral Bacterium Fusobacterium nucleatum Strain ATCC 25586 , 2002, Journal of bacteriology.

[23]  Ilyobacter insuetus sp. nov., a fermentative bacterium specialized in the degradation of hydroaromatic compounds. , 2002, International journal of systematic and evolutionary microbiology.

[24]  Christopher J. Lee,et al.  Multiple sequence alignment using partial order graphs , 2002, Bioinform..

[25]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[26]  Wei Qian,et al.  Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. , 2000, Molecular biology and evolution.

[27]  K. Novak.  The complete genome sequence… , 1998, Nature Medicine.

[28]  M. Aguirre,et al.  Validation of the publication of new names and new combinations previously effectively published outside the IJSB. , 1996, International journal of systematic bacteriology.

[29]  O. Kandler,et al.  Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[30]  John R. King,et al.  Recovery of Poly-β-Hydroxybutyrate from Estuarine Microflora , 1978 .

[31]  S. T. Cowan.  Bergey's Manual of Determinative Bacteriology , 1948, Nature.

[32]  J. Brown.  Bergey's Manual of Determinative Bacteriology (5th ed.) , 1939 .