Strain identifier

BacDive ID: 4990

Type strain: Yes

Species: Obesumbacterium proteus

Strain Designation: 42

Strain history: CIP <- 1982, ATCC <- NCIB, Hafnia protea <- Schaefer Brewing Corporation: strain 42, Flavobacterium proteus

NCBI tax ID(s): 1354268 (strain), 82983 (species)

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General

@ref: 1219

BacDive-ID: 4990

DSM-Number: 2777

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Obesumbacterium proteus 42 is an aerobe, mesophilic, motile bacterium that was isolated from ale yeast.

NCBI tax id

NCBI tax idMatching level
82983species
1354268strain

strain history

@refhistory
1219<- NCIB (Hafnia protea) <- Schaefer Brewing Corp., strain 42 (Flavobacterium proteus)
121973CIP <- 1982, ATCC <- NCIB, Hafnia protea <- Schaefer Brewing Corporation: strain 42, Flavobacterium proteus

doi: 10.13145/bacdive4990.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Hafniaceae
  • genus: Obesumbacterium
  • species: Obesumbacterium proteus
  • full scientific name: Obesumbacterium proteus (Shimwell and Grimes 1936) Shimwell 1963 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Flavobacterium proteum

@ref: 1219

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Hafniaceae

genus: Obesumbacterium

species: Obesumbacterium proteus

full scientific name: Obesumbacterium proteus (Shimwell and Grimes 1936) Shimwell 1963

strain designation: 42

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.829
6948099.989negative
121973nonegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1219REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
33864MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121973CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
1219positivegrowth30mesophilic
33864positivegrowth30mesophilic
44475positivegrowth30mesophilic
121973positivegrowth22-37
121973nogrowth5psychrophilic
121973nogrowth10psychrophilic
121973nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44475aerobe
121973facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.593

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-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
68371glycerol+builds acid from17754
68368L-arabinose+fermentation30849
68368amygdalin-fermentation27613
68368melibiose-fermentation28053
68368sucrose-fermentation17992
68368L-rhamnose-fermentation62345
68368sorbitol-fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol+fermentation16899
68368D-glucose+fermentation17634
68368gelatin-hydrolysis5291
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368citrate-assimilation16947
68368ornithine+degradation18257
68368lysine+degradation25094
68368arginine-hydrolysis29016
121973mannitol-fermentation29864
121973citrate-carbon source16947
121973esculin+hydrolysis4853
121973glucose+fermentation17234
121973lactose-fermentation17716
121973nitrate+reduction17632
121973nitrite-reduction16301
121973malonate+assimilation15792
121973sodium thiosulfate-builds gas from132112

antibiotic resistance

  • @ref: 121973
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12197335581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
12197315688acetoin+
12197317234glucose+

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
68368cytochrome oxidase+1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase+4.1.1.17
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
121973oxidase-
121973beta-galactosidase+3.2.1.23
121973alcohol dehydrogenase-1.1.1.1
121973gelatinase-
121973catalase+1.11.1.6
121973lipase-
121973lysine decarboxylase+4.1.1.18
121973ornithine decarboxylase+4.1.1.17
121973phenylalanine ammonia-lyase-4.3.1.24
121973tryptophan deaminase-
121973urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44475C12:08.812
    44475C13:00.313
    44475C14:010.514
    44475C15:00.515
    44475C16:023.616
    44475C17:00.517
    44475C12:0 ALDE ?210.915
    44475C13:0 3OH/C15:1 i I/H0.314.469
    44475C14:0 3OH/C16:1 ISO I15.715.485
    44475C16:1 ω5c0.315.908
    44475C16:1 ω7c16.615.819
    44475C17:0 CYCLO15.516.888
    44475C18:1 ω7c /12t/9t3.817.824
    44475Unidentified0.913.939
    44475Unidentified0.315.171
    44475Unidentified0.518.556
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121973-++--+----++-+------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1219+-++-----+-++------++

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121973+---+----++++--------+---------+--------------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121973+++++-----------++-++---+------+-+---------------+------+--++-----------+--+---++-+---+--+---++----

Isolation, sampling and environmental information

isolation

@refsample typegeographic location
1219ale yeast
44475Ale yeastSchaefer Brewing Corp.
121973Ale yeast

isolation source categories

  • Cat1: #Host
  • Cat2: #Yeast

taxonmaps

  • @ref: 69479
  • File name: preview.99_934.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_106;97_324;98_734;99_934&stattab=map
  • Last taxonomy: Yersiniaceae
  • 16S sequence: AJ233422
  • Sequence Identity:
  • Total samples: 27485
  • soil counts: 2075
  • aquatic counts: 4333
  • animal counts: 18887
  • plant counts: 2190

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
12191Risk group (German classification)
1219731Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Obesumbacterium proteus 16S rRNA gene (strain DSM 2777)
  • accession: AJ233422
  • length: 1490
  • database: ena
  • NCBI tax ID: 82983

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Obesumbacterium proteus DSM 2777GCA_001586165completencbi82983
66792Obesumbacterium proteus ATCC 12841GCA_001655035contigncbi1354268
66792Obesumbacterium proteus ATCC 128411354268.4wgspatric1354268
66792Obesumbacterium proteus strain DSM 277782983.10completepatric82983
66792Obesumbacterium proteus DSM 27772687453374completeimg82983
66792Obesumbacterium proteus ATCC 128412802429663draftimg1354268

GC content

  • @ref: 1219
  • GC-content: 48.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes54.447no
gram-positiveno97.991no
anaerobicno94.765yes
aerobicyes82.683yes
halophileno91.468no
spore-formingno94.123no
glucose-utilyes93.96no
motileyes90.658no
thermophileno99.327no
glucose-fermentyes93.31no

External links

@ref: 1219

culture collection no.: DSM 2777, ATCC 12841, NCIB 8771, CCUG 2078, CIP 82.93, LMG 3054, NCIMB 8771

straininfo link

  • @ref: 74485
  • straininfo: 13734

literature

  • topic: Phylogeny
  • Pubmed-ID: 20023064
  • title: Orbus hercynius gen. nov., sp. nov., isolated from faeces of wild boar, is most closely related to members of the orders 'Enterobacteriales' and Pasteurellales.
  • authors: Volkmann M, Skiebe E, Kerrinnes T, Faber F, Lepka D, Pfeifer Y, Holland G, Bannert N, Wilharm G
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.019026-0
  • year: 2009
  • mesh: Animals, Base Composition, DNA, Bacterial/genetics, Fatty Acids/metabolism, Feces/*microbiology, Gammaproteobacteria/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sus scrofa/*microbiology
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1219Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2777)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2777
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
33864Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11369
44475Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 2078)https://www.ccug.se/strain?id=2078
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)
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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
74485Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13734.1StrainInfo: A central database for resolving microbial strain identifiers
121973Curators of the CIPCollection of Institut Pasteur (CIP 82.93)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2082.93