Strain identifier

BacDive ID: 143604

Type strain: Yes

Species: Eubacterium sulci

Strain history: <- CCUG <- G Sundqvist, Umea, Sweden <- ATCC <- EP Cato <- WEC Moore

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 47154

BacDive-ID: 143604

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, rod-shaped

description: Eubacterium sulci CCUG 20560 is an anaerobe, rod-shaped bacterium that was isolated from Human gingival sulcus.

NCBI tax id

NCBI tax idMatching level
143393species
888727strain

strain history

  • @ref: 67771
  • history: <- CCUG <- G Sundqvist, Umea, Sweden <- ATCC <- EP Cato <- WEC Moore

doi: 10.13145/bacdive143604.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Eubacteriaceae
  • genus: Eubacterium
  • species: Eubacterium sulci
  • full scientific name: Eubacterium sulci (Cato et al. 1985) Jalava and Eerola 1999
  • synonyms

    • @ref: 20215
    • synonym: Fusobacterium sulci

@ref: 47154

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Eubacteriaceae

genus: Eubacterium

species: Eubacterium sulci

type strain: yes

Morphology

cell morphology

@refcell shapemotilitygram stainconfidence
67771rod-shapedno
67771negative
69480no91.471

colony morphology

  • @ref: 47154
  • incubation period: 3 days

Culture and growth conditions

culture temp

  • @ref: 67771
  • growth: positive
  • type: growth
  • temperature: 37

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
47154anaerobe
67771anaerobe
69480anaerobe91.932

spore formation

  • @ref: 67771
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source
6838129016arginine-hydrolysis
6838116988D-ribose-builds acid from
6838116899D-mannitol-builds acid from
6838130911sorbitol-builds acid from
6838117716lactose-builds acid from
6838127082trehalose-builds acid from
6838116634raffinose-builds acid from
6838117992sucrose-builds acid from
6838130849L-arabinose-builds acid from
6838118333D-arabitol-builds acid from
6838140585alpha-cyclodextrin-builds acid from
68381606565hippurate-hydrolysis
6838128087glycogen-builds acid from
6838127941pullulan-builds acid from
6838117306maltose-builds acid from
6838128053melibiose-builds acid from
683816731melezitose-builds acid from
68381320055methyl beta-D-glucopyranoside-builds acid from
6838116443D-tagatose-builds acid from
6838116199urea-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6838035581indoleno
6838115688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6838115688acetoin-
6838035581indole-

enzymes

@refvalueactivityec
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase-
68381alkaline phosphatase-3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase-3.5.3.6
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase-3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

fatty acid profile

  • @reffatty acidpercentageECL
    47154C14:04.214
    47154C16:01416
    47154C18:01.318
    47154C13:0 3OH/C15:1 i I/H0.714.469
    47154C14:0 2OH0.715.205
    47154C14:0 ISO 3OH5.315.117
    47154C15:0 ANTEISO6.714.711
    47154C15:0 ISO31.914.621
    47154C17:0 anteiso1.516.722
    47154C17:0 iso3.216.629
    47154C17:1 ISO I/C16:0 DMA9.716.481
    47154C18:1 ω7c DMA318.282
    47154C18:1 ω9c217.769
    47154C18:2 ω6,9c/C18:0 ANTE5.417.724
    47154Unidentified1.517.105
    47154unknown 13.5661.813.566
    47154unknown 14.9663.914.966
    47154unknown 18.1773.318.177
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG
  • @reffatty acidpercentageECL
    47154C14:04.414
    47154C16:019.816
    47154C15:0 ANTEISO8.414.711
    47154C15:0 ISO51.314.621
    47154C17:0 iso7.816.629
    47154C17:1 ISO I/C16:0 DMA316.481
    47154C18:2 ω6,9c/C18:0 ANTE5.417.724
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
47154-------------------+---------

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
47154--------------------------------

Isolation, sampling and environmental information

isolation

@refsample type
47154Human gingival sulcus
67771From human gingival sulcus

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Gingiva
#Infection#Patient
#Host Body-Site#Other#Wound

taxonmaps

  • @ref: 69479
  • File name: preview.99_4005.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_184;96_2034;97_2452;98_3034;99_4005&stattab=map
  • Last taxonomy: Clostridiales Family XIII. Incertae Sedis
  • 16S sequence: NR_025289
  • Sequence Identity:
  • Total samples: 83120
  • soil counts: 945
  • aquatic counts: 1208
  • animal counts: 80513
  • plant counts: 454

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67771Fusobacterium sulci 16S ribosomal RNA, partialAJ0069631453nuccore888727
67771Eubacterium sulci ATCC 35585 16S ribosomal RNA, partial sequenceNR_0252891453nuccore888727

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Eubacterium sulci ATCC 35585GCA_000526055contigncbi888727
66792Eubacterium sulci ATCC 35585888727.210completepatric888727
66792Eubacterium sulci ATCC 35585888727.3wgspatric888727
66792Eubacterium sulci ATCC 355852558860286draftimg888727
66792Eubacterium sulci ATCC 355852687453170completeimg888727
66792Eubacterium sulci ATCC 35585GCA_001189495completencbi888727

GC content

  • @ref: 67771
  • GC-content: 39.0

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno70no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes57.904yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes91.932yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no97.16yes
69480spore-formingspore-formingAbility to form endo- or exosporesno69.645yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno89.03yes
69480flagellatedmotile2+Ability to perform flagellated movementno91.471yes

External links

@ref: 47154

culture collection no.: CCUG 20560, ATCC 35585, KCTC 15025, VPI D45A.29A

straininfo link

  • @ref: 98949
  • straininfo: 41173

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10555315Phylogenetic analysis of Fusobacterium alocis and Fusobacterium sulci based on 16S rRNA gene sequences: proposal of Filifactor alocis (Cato, Moore and Moore) comb. nov. and Eubacterium sulci (Cato, Moore and Moore) comb. nov.Jalava J, Eerola EInt J Syst Bacteriol10.1099/00207713-49-4-13751999Animals, Cats, DNA, Ribosomal/genetics, Eubacterium/*classification/genetics, Fusobacterium/*classification/*genetics, Fusobacterium Infections/microbiology, *Genes, rRNA, Humans, Molecular Sequence Data, *Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/*genetics, Sequence Analysis, DNA, Terminology as TopicPathogenicity
Enzymology22405584Antimicrobial activity of Streptococcus salivarius K12 on bacteria involved in oral malodour.Masdea L, Kulik EM, Hauser-Gerspach I, Ramseier AM, Filippi A, Waltimo TArch Oral Biol10.1016/j.archoralbio.2012.02.0112012Actinobacteria/*growth & development/isolation & purification, Administration, Oral, Bacterial Proteins/pharmacology, Bacteriocins/pharmacology, Eubacterium/growth & development/isolation & purification, Gram-Positive Bacteria/growth & development/isolation & purification, Halitosis/*microbiology/*prevention & control, Humans, In Vitro Techniques, Linear Models, Microbial Sensitivity Tests, Probiotics/*pharmacology, Streptococcus/*physiologyPhylogeny

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
47154Curators of the CCUGhttps://www.ccug.se/strain?id=20560Culture Collection University of Gothenburg (CCUG) (CCUG 20560)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68380Automatically annotated from API rID32A
68381Automatically annotated from API rID32STR
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
98949Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID41173.1