Strain identifier

BacDive ID: 5244

Type strain: Yes

Species: Biostraticola tofi

Strain Designation: BF36, BF 36

Strain history: CIP <- 2007, DSMZ <- E. Stackebrandt, DSMZ, Braunschweig, Germany: strain BF 36

NCBI tax ID(s): 466109 (species)

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General

@ref: 8191

BacDive-ID: 5244

DSM-Number: 19580

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, motile

description: Biostraticola tofi BF36 is a facultative anaerobe, mesophilic, motile bacterium that was isolated from biofilm of tufa deposit in hardwater creek.

NCBI tax id

  • NCBI tax id: 466109
  • Matching level: species

strain history

@refhistory
8191<- E. Stackebrandt <- A. Frühling <- E. Brambilla, DSMZ
123556CIP <- 2007, DSMZ <- E. Stackebrandt, DSMZ, Braunschweig, Germany: strain BF 36

doi: 10.13145/bacdive5244.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Pectobacteriaceae
  • genus: Biostraticola
  • species: Biostraticola tofi
  • full scientific name: Biostraticola tofi Verbarg et al. 2008

@ref: 8191

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Pectobacteriaceae

genus: Biostraticola

species: Biostraticola tofi

full scientific name: Biostraticola tofi Verbarg et al. 2008

strain designation: BF36, BF 36

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes97.671
6948099.884negative
123556nonegativeoval-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8191TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
40058MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
123556CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
8191positivegrowth28mesophilic
40058positivegrowth25mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123556
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no96.624

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol+builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose+builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose+builds acid from17108
68371erythritol-builds acid from17113
68369malate+assimilation25115
68369adipate-assimilation17128
68369decanoate-assimilation27689
68369gluconate+assimilation24265
68369maltose-assimilation17306
68369N-acetylglucosamine+assimilation59640
68369D-mannitol+assimilation16899
68369D-mannose+assimilation16024
68369L-arabinose+assimilation30849
68369D-glucose+assimilation17634
68369gelatin-hydrolysis5291
68369urea-hydrolysis16199
68369arginine-hydrolysis29016
68369D-glucose+fermentation17634
68369tryptophan-energy source27897
68369nitrate-reduction17632
123556nitrate-reduction17632
123556nitrite-reduction16301

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12355635581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68369cytochrome oxidase-1.9.3.1
68369gelatinase-
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
123556oxidase-
123556catalase+1.11.1.6
123556urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123556-++--+----++-+------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
8191--+--+/--++++++-+--+---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123556+/--++++---++++-+--+---+----+----+------------+-++/-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
8191biofilm of tufa deposit in hardwater creekWesterhöfer Bach, Harz MountainsGermanyDEUEurope
123556Biofilm layer, tufa depositWesterhöfer Riuulet, Harz mountainsGermanyDEUEurope2006

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#River (Creek)
#Environmental#Biofilm
#Environmental#Terrestrial#Geologic

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
81911Risk group (German classification)
1235561Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8191
  • description: Biostraticola tofi partial 16S rRNA gene, type strain BF36T
  • accession: AM774412
  • length: 1418
  • database: ena
  • NCBI tax ID: 466109

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Biostraticola tofi DSM 19580GCA_004343195contigncbi466109
66792Biostraticola tofi strain DSM 19580466109.3wgspatric466109
66792Biostraticola tofi DSM 195802791354869draftimg466109

GC content

  • @ref: 8191
  • GC-content: 54.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.28no
anaerobicno98.091no
halophileno91.483no
spore-formingno95.204no
glucose-utilyes93.145yes
aerobicno51.965no
flagellatedno53.375no
thermophileno98.631yes
motileyes91.576no
glucose-fermentyes88.502yes

External links

@ref: 8191

culture collection no.: DSM 19580, CIP 109699

straininfo link

  • @ref: 74734
  • straininfo: 358872

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18324435Biostraticola tofi gen. nov., spec. nov., a novel member of the family Enterobacteriaceae.Verbarg S, Fruhling A, Cousin S, Brambilla E, Gronow S, Lunsdorf H, Stackebrandt ECurr Microbiol10.1007/s00284-008-9133-92008Bacterial Typing Techniques, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Enterobacteriaceae/chemistry/*classification/genetics/*isolation & purification, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Water MicrobiologyGenetics
Phylogeny33464391Bruguierivorax albus gen. nov. sp. nov. Isolated from Mangrove Sediment and Proposal of Bruguierivoracaceae fam. nov.Li M, Liu K, Liu Y, Gao C, Yi XCurr Microbiol10.1007/s00284-020-02311-w2021Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Enterobacteriaceae, *Fatty Acids, Gammaproteobacteria, *Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny33528350Acerihabitans arboris gen. nov., sp. nov., a new member of the family Pectobacteriaceae isolated from sap drawn from Acer pictum.Lee SD, Kim IS, Choe H, Kim JSInt J Syst Evol Microbiol10.1099/ijsem.0.0046742021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8191Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19580)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19580
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
40058Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7472
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
74734Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID358872.1StrainInfo: A central database for resolving microbial strain identifiers
123556Curators of the CIPCollection of Institut Pasteur (CIP 109699)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109699