Complete genome sequence of Weeksella virosa type strain (9751 T )

virosa Holmes et al. 1987 is the sole member and type species of the genus Weeksella which belongs to the family Flavobacteriaceae of the phylum Bacteroidetes . Twenty-nine isolates, collected from clinical specimens provided the basis for the taxon description. While the species seems to be a saprophyte of the mucous membranes of healthy man and warm-blooded animals a causal relationship with disease has been reported in a few in-stances. Except for the ability to produce indole and to hydrolyze Tween and proteins such as casein and gelatin, this aerobic, non-motile, non-pigmented bacterial species is metabolically inert in most traditional biochemical tests. The 2,272,954 bp long genome with its 2,105 pro-tein-coding and 76 RNA genes consists of one circular chromosome and is a part of the G enomic E ncyclopedia of B acteria and A rchaea project. Author Statement (i.e., a direct report exists in the literature); NAS: Non-traceable Author Statement (i.e., not directly observed for the living, isolated sample, but based on a general-ly accepted property for the species, or anecdotal evidence). These evidence codes are from of the Gene Ontology project [36]. If the evidence code is IDA, then the property was directly observed by one of the authors or an expert mentioned in the acknowledgements.

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

[7]  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..

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

[13]  E. F. Rangel,et al.  Study on the bacterial midgut microbiota associated to different Brazilian populations of Lutzomyia longipalpis (Lutz & Neiva) (Diptera: Psychodidae). , 2008, Neotropical entomology.

[14]  C. Medaglia,et al.  Lymphoepithelioma-like carcinoma of the urinary bladder in a cow associated with bovine papillomavirus type-2. , 2008, Journal of comparative pathology.

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

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

[17]  A. Ventosa,et al.  Aerococcus suis sp. nov., isolated from clinical specimens from swine. , 2007, International journal of systematic and evolutionary microbiology.

[18]  M. Vaneechoutte,et al.  Description of Wautersiella falsenii gen. nov., sp. nov., to accommodate clinical isolates phenotypically resembling members of the genera Chryseobacterium and Empedobacter. , 2006, International journal of systematic and evolutionary microbiology.

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

[20]  Y. Nakagawa,et al.  An Introduction to the Family Flavobacteriaceae , 2006 .

[21]  J. Fry,et al.  Culturable phylogenetic diversity of the phylum 'Bacteroidetes' from river epilithon and coastal water and description of novel members of the family Flavobacteriaceae: Epilithonimonas tenax gen. nov., sp. nov. and Persicivirga xylanidelens gen. nov., sp. nov. , 2006, International journal of systematic and evolutionary microbiology.

[22]  B. Hoste,et al.  Chryseobacterium joostei sp. nov., isolated from the dairy environment. , 2003, International journal of systematic and evolutionary microbiology.

[23]  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.

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

[25]  W. Leung,et al.  Oral colonization of aerobic and facultatively anaerobic gram-negative rods and cocci in irradiated, dentate, xerostomic individuals. , 2001, Oral microbiology and immunology.

[26]  Y. Nakagawa,et al.  Polyamine distribution profiles in the eighteen genera phylogenetically located within the Flavobacterium-Flexibacter-Cytophaga complex. , 2001, Microbios.

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

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

[29]  D. D. de Luis,et al.  A case of spontaneous peritonitis caused by Weeksella virosa. , 1998, European journal of gastroenterology & hepatology.

[30]  P. Jooste,et al.  The incidence of Weeksella‐ and Bergeyella‐like bacteria in the food environment , 1998, Journal of applied microbiology.

[31]  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 .

[32]  C. W. Moss,et al.  Phenotypic characteristics, fatty acid composition, and isoprenoid quinone content of CDC group IIg bacteria , 1995, Journal of clinical microbiology.

[33]  Peter Vandamme,et al.  New perspectives in the classification of the flavobacteria: description of Chryseobacterium gen. nov., Bergeyella gen-nov, and Empedobacter nom-rev. , 1994 .

[34]  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.

[35]  R. del Busto,et al.  Response of Weeksella virosa peritonitis to imipenem/cilastin. , 1991, Advances in peritoneal dialysis. Conference on Peritoneal Dialysis.

[36]  J. Gil,et al.  Microbiological characteristics of Weeksella virosa (formerly CDC group IIf) isolated from the human genitourinary tract , 1990, Journal of clinical microbiology.

[37]  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.

[38]  T. J. Britz,et al.  The taxonomic relationship of certain environmental flavobacteria to the genus Weeksella. , 1989, The Journal of applied bacteriology.

[39]  C. Mardy,et al.  Incidence of vaginal Weeksella virosa (formerly group IIf). , 1988, Journal of clinical pathology.

[40]  A. Steigerwalt,et al.  Weeksella virosa gen. no v., sp. nov. (Formerly group IIf), found in human clinical specimens , 1986 .

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