Strain identifier

BacDive ID: 2237

Type strain: Yes

Species: Suttonella indologenes

Strain history: CIP <- 1980, NCTC <- 1970, O.P. Bijsterveld, Utrecht, Germany, Kingella indologenes

NCBI tax ID(s): 13276 (species)

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General

@ref: 3252

BacDive-ID: 2237

DSM-Number: 8309

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative

description: Suttonella indologenes DSM 8309 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from angular conjunctivitis.

NCBI tax id

  • NCBI tax id: 13276
  • Matching level: species

strain history

@refhistory
3252<- NCTC; NCTC 10717 <- O. P. van Bijsterveld; (Moraxella sp.)
67770R. Sakazaki <-- ATCC 25869 <-- O. P. van Bijsteveld (Moraxella sp.).
120097CIP <- 1980, NCTC <- 1970, O.P. Bijsterveld, Utrecht, Germany, Kingella indologenes

doi: 10.13145/bacdive2237.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Cardiobacteriales
  • family: Cardiobacteriaceae
  • genus: Suttonella
  • species: Suttonella indologenes
  • full scientific name: Suttonella indologenes (Snell and Lapage 1976) Dewhirst et al. 1990

  • synonyms

    • @ref: 20215
    • synonym: Kingella indologenes

@ref: 3252

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Cardiobacteriales

family: Cardiobacteriaceae

genus: Suttonella

species: Suttonella indologenes

full scientific name: Suttonella indologenes (Snell and Lapage 1976) Dewhirst et al. 1990

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.999
120097negativerod-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3252COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
36498MEDIUM 4 - Columbia agar with 20 % sterile defibrinated horse serumyesHorse serum (200.000 ml);Columbia agar (39.000 g);Distilled water make up to (1000.000 ml)
120097CIP Medium 4yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=4

culture temp

@refgrowthtypetemperaturerange
36498positivegrowth30mesophilic
3252positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120097
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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
12009717632nitrate-reduction
12009716301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleyes
12009735581indoleyes

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
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-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
120097oxidase+
120097catalase-1.11.1.6
120097urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44515C12:06.212
    44515C14:01314
    44515C16:014.316
    44515C12:0 3OH2.813.455
    44515C13:0 ISO 2OH0.713.814
    44515C14:0 3OH/C16:1 ISO I2.415.485
    44515C16:1 ω7c30.815.819
    44515C18:1 ω7c /12t/9t27.817.824
    44515C18:2 ω6,9c/C18:0 ANTE1.917.724
  • 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
44515-+++-+----+---------
120097-+++-+----+----+----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
3252-+------+-+-+----+--+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
3252angular conjunctivitisUtrechtNetherlandsNLDEurope52.08335.1167
44515Angular conjunctivitis
67770Angular conjunctivitis
120097Angular conjunctivitis

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host Body-Site#Organ#Eye

taxonmaps

  • @ref: 69479
  • File name: preview.99_139542.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_183;96_53691;97_69240;98_92807;99_139542&stattab=map
  • Last taxonomy: Suttonella indologenes subclade
  • 16S sequence: LC050182
  • Sequence Identity:
  • Total samples: 1243
  • soil counts: 50
  • aquatic counts: 21
  • animal counts: 1169
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
32522Risk group (German classification)
1200971Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Suttonella indologenes strain ATCC 25869 16S ribosomal RNA gene, partial sequenceM350151474ena13276
20218Suttonella indologenes 16S rRNA gene, partialAJ247267448ena13276
67770Suttonella indologenes gene for 16S ribosomal RNA, partial cds, strain: JCM 1478LC0501821447ena13276

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Suttonella indologenes strain NCTC1071713276.5wgspatric13276
66792Suttonella indologenes NCTC 107172831780769draftimg13276
67770Suttonella indologenes NCTC10717GCA_900460215contigncbi13276

GC content

@refGC-contentmethod
325249.0Buoyant density centrifugation (BD)
6777048.7thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.912no
gram-positiveno98.633no
anaerobicno97.91no
halophileyes67.053no
spore-formingno98.359no
glucose-utilyes63.596yes
aerobicno90.28no
flagellatedno94.474no
thermophileno98.576no
glucose-fermentno68.801no

External links

@ref: 3252

culture collection no.: DSM 8309, ATCC 25869, NCTC 10717, CCUG 2341, JCM 1478, CCM 3592, CIP 80.20

straininfo link

  • @ref: 71799
  • straininfo: 92519

literature

  • topic: Phylogeny
  • Pubmed-ID: 34228610
  • title: Ostreibacterium oceani gen. nov., sp. nov., isolated from oyster, and description of Ostreibacteriaceae fam. nov.
  • authors: Wang CN, Wang FQ, Liu Y, Wang MY, Du ZJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.004855
  • year: 2021
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/isolation & purification, Ostreidae/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3252Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8309)https://www.dsmz.de/collection/catalogue/details/culture/DSM-8309
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
36498Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11113
44515Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 2341)https://www.ccug.se/strain?id=2341
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
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
71799Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92519.1StrainInfo: A central database for resolving microbial strain identifiers
120097Curators of the CIPCollection of Institut Pasteur (CIP 80.20)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2080.20