Strain identifier

BacDive ID: 13921

Type strain: Yes

Species: Thauera butanivorans

Strain Designation: Bu B1211, BUB-1211

Strain history: CIP <- 2003, IAM <- I. Koumura: strain BUB-1211

NCBI tax ID(s): 1219356 (strain), 86174 (species)

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General

@ref: 715

BacDive-ID: 13921

DSM-Number: 2080

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

description: Thauera butanivorans Bu B1211 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from activated sludge, oil refining plant.

NCBI tax id

NCBI tax idMatching level
86174species
1219356strain

strain history

@refhistory
715<- IAM <- J. Takahashi (Pseudomonas butanovora)
67770IAM 12574 <-- I. Komura BuB-1211 (=AJ 11079).
117080CIP <- 2003, IAM <- I. Koumura: strain BUB-1211

doi: 10.13145/bacdive13921.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Rhodocyclales
  • family: Zoogloeaceae
  • genus: Thauera
  • species: Thauera butanivorans
  • full scientific name: Thauera butanivorans (ex Takahashi et al. 1980) Dubbels et al. 2009

  • synonyms

    • @ref: 20215
    • synonym: Pseudomonas butanovora

@ref: 715

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Rhizobiales

family: Zoogloeaceae

genus: Thauera

species: Thauera butanivorans

full scientific name: Thauera butanivorans (ex Takahashi et al. 1980) Dubbels et al. 2009

strain designation: Bu B1211, BUB-1211

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
28891negative1.75 µm0.7 µmrod-shapedyes
69480yes99.349
69480negative100
117080negativerod-shapedyes

pigmentation

  • @ref: 117080
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
715MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457)yeshttps://mediadive.dsmz.de/medium/457Name: MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457; with strain-specific modifications) Composition: Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Yeast extract Distilled water
715REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a)yeshttps://mediadive.dsmz.de/medium/220aName: REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a) Composition: Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
39959MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
117080CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
715positivegrowth28mesophilic
715positivegrowth30mesophilic
39959positivegrowth30mesophilic
67770positivegrowth30mesophilic
117080positivegrowth10-41
117080nogrowth5psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
28891aerobe
117080obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.984

compound production

  • @ref: 715
  • compound: protein

halophily

@refsaltgrowthtested relationconcentration
117080NaClpositivegrowth0-2 %
117080NaClnogrowth4 %
117080NaClnogrowth6 %
117080NaClnogrowth8 %
117080NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2889116236ethanol+carbon source
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate+assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
11708016947citrate+carbon source
1170804853esculin-hydrolysis
11708017632nitrate+reduction
11708016301nitrite+reduction
11708017632nitrate+respiration

antibiotic resistance

  • @ref: 117080
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11708035581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
117080oxidase+
117080beta-galactosidase-3.2.1.23
117080alcohol dehydrogenase+1.1.1.1
117080gelatinase-
117080amylase-
117080DNase-
117080caseinase-3.4.21.50
117080catalase+1.11.1.6
117080tween esterase+
117080lecithinase-
117080lipase-
117080lysine decarboxylase-4.1.1.18
117080ornithine decarboxylase-4.1.1.17
117080protease-
117080tryptophan deaminase-
117080urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117080--+--+-----+--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
715+--------------+-++++

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117080-------------------------------+--------------+-+++--+-------+-------------+---++------++-+++++++--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
715activated sludge, oil refining plantJapanJPNAsia
59094Sludge,activated,oil refining plantJapanJPNAsia
67770Activated sludge from an oil refining plant
117080Environment, Activated sludgeJapanJPNAsia

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Activated sludge

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
7151Risk group (German classification)
1170801Risk group (French classification)

Sequence information

16S sequences

  • @ref: 715
  • description: Thauera butanivorans gene for 16S rRNA, strain: IAM 12574
  • accession: AB021377
  • length: 1502
  • database: ena
  • NCBI tax ID: 1219356

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thauera butanivorans NBRC 1030421219356.5wgspatric1219356
66792Thauera butanivorans NBRC 1030422731957639draftimg1219356
67770Thauera butanivorans NBRC 103042GCA_001591165contigncbi1219356

GC content

@refGC-contentmethod
71567.3
6777067.3thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.966no
gram-positiveno98.621no
anaerobicno96.484no
aerobicyes82.154yes
halophileno90.099no
spore-formingno95.452no
thermophileno99.062yes
glucose-utilno87.248yes
flagellatedyes84.544no
glucose-fermentno89.233yes

External links

@ref: 715

culture collection no.: DSM 2080, ATCC 43655, IAM 12574, CCUG 51053, JCM 20651, NBRC 103042, CIP 107886

straininfo link

  • @ref: 83095
  • straininfo: 46846

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism11889098Two distinct alcohol dehydrogenases participate in butane metabolism by Pseudomonas butanovora.Vangnai AS, Arp DJ, Sayavedra-Soto LAJ Bacteriol10.1128/JB.184.7.1916-1924.20022002Alcohol Dehydrogenase/classification/*metabolism, Alcohol Oxidoreductases/biosynthesis/classification/genetics/*metabolism, Alcohols/pharmacology, Butanes/*metabolism, *Gene Expression Regulation, Bacterial/drug effects, Gene Silencing/drug effects, PQQ Cofactor, Pseudomonas/drug effects/genetics/*metabolism, Quinolones/metabolism, Quinones/metabolism, RNA, Messenger/biosynthesis/drug effects, Time FactorsPathogenicity
Phylogeny19528200Thauera butanivorans sp. nov., a C2-C9 alkane-oxidizing bacterium previously referred to as 'Pseudomonas butanovora'.Dubbels BL, Sayavedra-Soto LA, Bottomley PJ, Arp DJInt J Syst Evol Microbiol10.1099/ijs.0.000638-02009Alkanes/*metabolism, Bacterial Typing Techniques, DNA, Bacterial/analysis, Fatty Acids/analysis, Genes, rRNA, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Pseudomonas/classification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/microbiology, Species Specificity, Thauera/*classification/genetics/isolation & purification/physiologyGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
715Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2080)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2080
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
28891Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2533128776041
39959Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5446
59094Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51053)https://www.ccug.se/strain?id=51053
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
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
83095Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46846.1StrainInfo: A central database for resolving microbial strain identifiers
117080Curators of the CIPCollection of Institut Pasteur (CIP 107886)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107886