Strain identifier

BacDive ID: 5577

Type strain: Yes

Species: Flavobacterium reichenbachii

Strain Designation: WB3.2-61

Strain history: CIP <- 2008, DSMZ <- Dr. Tindall, Germany: strain WB3.2-61

NCBI tax ID(s): 362418 (species)

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General

@ref: 15954

BacDive-ID: 5577

DSM-Number: 21791

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped

description: Flavobacterium reichenbachii WB3.2-61 is an aerobe, Gram-negative, motile bacterium that was isolated from water of a hardwater creek.

NCBI tax id

  • NCBI tax id: 362418
  • Matching level: species

strain history

@refhistory
15954<- Z. Ali, DSMZ; WB 3.2-61 <- O. Päuker and E. Brambilla, DSMZ
122150CIP <- 2008, DSMZ <- Dr. Tindall, Germany: strain WB3.2-61

doi: 10.13145/bacdive5577.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Flavobacterium
  • species: Flavobacterium reichenbachii
  • full scientific name: Flavobacterium reichenbachii Ali et al. 2009

@ref: 15954

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium reichenbachii

full scientific name: Flavobacterium reichenbachii Ali et al. 2009

strain designation: WB3.2-61

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
29215negative6.75 µm1 µmrod-shapedyesgliding
122150negativerod-shapedno
69480negative98.227
69480no91

pigmentation

  • @ref: 29215
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15954R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
36126MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
122150CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperature
15954positivegrowth24
29215positivegrowth06-30
29215positiveoptimum20-26
36126positivegrowth25

culture pH

@refabilitytypepH
29215positivegrowth5.8-8.0
29215positiveoptimum6.2

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29215aerobe
122150obligate aerobe

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 100

halophily

  • @ref: 29215
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2921522599arabinose+carbon source
2921522653asparagine+carbon source
2921535391aspartate+carbon source
2921517057cellobiose+carbon source
2921528757fructose+carbon source
2921533984fucose+carbon source
2921524175galacturonate+carbon source
2921517234glucose+carbon source
2921517716lactose+carbon source
2921517306maltose+carbon source
2921537684mannose+carbon source
2921551850methyl pyruvate+carbon source
29215506227N-acetylglucosamine+carbon source
2921518257ornithine+carbon source
2921526271proline+carbon source
2921526986threonine+carbon source
2921553423tween 40+carbon source
2921516704uridine+carbon source
292154853esculin+hydrolysis
12215017632nitrate-reduction
12215016301nitrite-reduction

metabolite production

  • @ref: 122150
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29215catalase+1.11.1.6
29215gelatinase+
29215cytochrome oxidase+1.9.3.1
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
122150oxidase+
122150catalase+1.11.1.6
122150urease-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
122150-+++-+++--++-+++++--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15954water of a hardwater creekHarz Mountains, Westerhöfer Bach, Westerhof, 40 km north of GöttingenGermanyDEUEurope
122150Environment, Hard water, riverWesterhöfer Bach, Harz mountainsGermanyDEUEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #River (Creek)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
159541Risk group (German classification)
1221501Risk group (French classification)

Sequence information

16S sequences

  • @ref: 15954
  • description: Flavobacterium reichenbachii partial 16S rRNA gene, type strain WB 3.2-61T
  • accession: AM177616
  • length: 1501
  • database: nuccore
  • NCBI tax ID: 362418

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium reichenbachii DSM 21791GCA_002217435scaffoldncbi362418
66792Flavobacterium reichenbachii strain DSM 21791362418.11wgspatric362418

GC content

@refGC-contentmethod
1595434.3high performance liquid chromatography (HPLC)
2921534.3

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno98.227no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.157yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes87.015yes
69480spore-formingspore-formingAbility to form endo- or exosporesno85.122no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno98.424yes
69480flagellatedmotile2+Ability to perform flagellated movementno91yes

External links

@ref: 15954

culture collection no.: DSM 21791, CIP 109866, WB 3.2-61

straininfo link

  • @ref: 75059
  • straininfo: 363446

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19622646Flavobacterium rivuli sp. nov., Flavobacterium subsaxonicum sp. nov., Flavobacterium swingsii sp. nov. and Flavobacterium reichenbachii sp. nov., isolated from a hard water rivulet.Ali Z, Cousin S, Fruhling A, Brambilla E, Schumann P, Yang Y, Stackebrandt EInt J Syst Evol Microbiol10.1099/ijs.0.008771-02009DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Flavobacterium/chemistry/classification/genetics/*isolation & purification, Fresh Water/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny20693364Flavobacterium banpakuense sp. nov., isolated from leaf-and-branch compost.Kim JJ, Jin HM, Lee HJ, Jeon CO, Kanaya E, Koga Y, Takano K, Kanaya SInt J Syst Evol Microbiol10.1099/ijs.0.022467-02010Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/isolation & purification, Japan, Molecular Sequence Data, *Phylogeny, Pigmentation, Plant Leaves, Plant Stems, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny25563922Flavobacterium palustre sp. nov., isolated from wetland soil.Feng H, Zeng Y, Huang YInt J Syst Evol Microbiol10.1099/ijs.0.0000542015Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, *WetlandsGenetics
Phylogeny29498618Flavobacterium fluviatile sp. nov., isolated from a freshwater creek.Chen WM, Su CL, Young CC, Sheu SYInt J Syst Evol Microbiol10.1099/ijsem.0.0026592018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Fresh Water/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, Vitamin K 2/analogs & derivatives/chemistry, *Water MicrobiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15954Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21791)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21791
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
29215Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2563628776041
36126Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7659
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)
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
75059Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID363446.1StrainInfo: A central database for resolving microbial strain identifiers
122150Curators of the CIPCollection of Institut Pasteur (CIP 109866)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109866