Complete genome sequence of Cellulophaga algicola type strain (IC166 T )

GEBA Cellulophaga algicola Bowman 2000 belongs to the family Flavobacteriaceae within the phylum ' Bacteroidetes ' and was isolated from Melosira collected from the Eastern Antarctic coastal zone. The species is of interest because its members produce a wide range of extracellular enzymes capable of degrading proteins and polysaccharides with temperature optima of 20-30°C. This is the first completed genome sequence of a member of the genus Cellulophaga . The 4,888,353 bp long genome with its 4,285 protein-coding and 62 RNA genes consists of one circular chromosome and is a part of the G enomic E ncyclopedia of B acteria and A rchaea project.

[1]  W. Wade,et al.  Bergey’s Manual of Systematic Bacteriology , 2012 .

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

[3]  Anton Güntsch,et al.  The DNA bank network: the start from a german initiative. , 2011, Biopreservation and biobanking.

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

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

[6]  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..

[7]  N. Kyrpides,et al.  Complete genome sequence of Coraliomargarita akajimensis type strain ( 04 OKA 010-24 T ) , 2010 .

[8]  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 .

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

[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]  C. Jeon,et al.  Cellulophaga tyrosinoxydans sp. nov., a tyrosinase-producing bacterium isolated from seawater. , 2009, International journal of systematic and evolutionary microbiology.

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

[17]  O. White,et al.  Environmental Genome Shotgun Sequencing of the Sargasso Sea , 2004, Science.

[18]  V. Mikhailov,et al.  Cellulophaga pacifica sp. nov. , 2004, International journal of systematic and evolutionary microbiology.

[19]  I. Kato,et al.  Isolation and Characterization of a Fucoidan-Degrading Marine Bacterium , 2003, Marine Biotechnology.

[20]  Y. Nakagawa,et al.  Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. , 2002, International journal of systematic and evolutionary microbiology.

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

[22]  G. Sandmann,et al.  Carotenoid biosynthesis and biotechnological application. , 2001, Archives of biochemistry and biophysics.

[23]  J. Bowman.  Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov. , 2000, International journal of systematic and evolutionary microbiology.

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

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

[26]  J. E. Johansen,et al.  Description of Cellulophaga baltica gen. nov., sp. nov. and Cellulophaga fucicola gen. nov., sp. nov. and reclassification of [Cytophaga] lytica to Cellulophaga lytica gen. nov., comb. nov. , 1999, International journal of systematic bacteriology.

[27]  Nichols,et al.  Developments with antarctic microorganisms: culture collections, bioactivity screening, taxonomy, PUFA production and cold-adapted enzymes , 1999, Current opinion in biotechnology.

[28]  P. Vandamme,et al.  Cutting a gordian knot: Emended classification and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom nov (basonym, Cytophaga aquatilis Strohl and Tait 1978). , 1996 .

[29]  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.

[30]  Strain Cip,et al.  Validation of the publication of new names and new combinations previously effectively published outside the IJSB. List No. 40. , 1992, International journal of systematic bacteriology.

[31]  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.

[32]  Martin F. Porter,et al.  An algorithm for suffix stripping , 1997, Program.