Strain identifier

BacDive ID: 10456

Type strain: Yes

Species: Conchiformibius steedae

Strain Designation: 4

Strain history: CIP <- 1990, ATCC <- D.A. Kuhn: strain 4

NCBI tax ID(s): 1121352 (strain), 153493 (species)

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General

@ref: 1130

BacDive-ID: 10456

DSM-Number: 2580

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

description: Conchiformibius steedae 4 is a mesophilic, Gram-negative bacterium that was isolated from dog.

NCBI tax id

NCBI tax idMatching level
153493species
1121352strain

strain history

@refhistory
1130<- ATCC <- D.A. Kuhn, 4
67770IAM 14972 <-- ATCC 27409 <-- D. A. Kuhn 4.
123302CIP <- 1990, ATCC <- D.A. Kuhn: strain 4

doi: 10.13145/bacdive10456.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Neisseriaceae
  • genus: Conchiformibius
  • species: Conchiformibius steedae
  • full scientific name: Conchiformibius steedae corrig. (Kuhn and Gregory 1979) Xie and Yokota 2005

  • synonyms

    @refsynonym
    20215Simonsiella steedae
    20215Conchiformibium steedae

@ref: 1130

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Neisseriaceae

genus: Conchiformibius

species: Conchiformibius steedae

full scientific name: Conchiformibius steedae (Kuhn and Gregory 1979) Xie and Yokota 2005

strain designation: 4

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.954

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1130COLUMBIA BLOOD AGAR (DSMZ Medium 429)yeshttps://mediadive.dsmz.de/medium/429Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429) Composition: Horse blood 40.0 g/l Columbia agar base
1130SIMONSIELLA MEDIUM (DSMZ Medium 303)yeshttps://mediadive.dsmz.de/medium/303Name: SIMONSIELLA MEDIUM (DSMZ Medium 303) Composition: Trypticase 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Yeast extract 4.0 g/l Phytone 3.0 g/l K2HPO4 2.5 g/l Horse serum Distilled water
40643MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
1130TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)yeshttps://mediadive.dsmz.de/medium/545Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 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
123302CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
1130positivegrowth37mesophilic
40643positivegrowth37mesophilic
50146positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no99
69480no99.979

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    50146C12:0512
    50146C14:014.914
    50146C16:018.816
    50146C18:01.718
    50146C12:0 3OH3.313.455
    50146C13:0 ISO 2OH2.613.814
    50146C16:1 ω7c30.415.819
    50146C18:1 ω7c /12t/9t16.717.824
    50146C18:1 ω9c2.217.769
    50146C18:2 ω6,9c/C18:0 ANTE4.317.724
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

Isolation, sampling and environmental information

isolation

@refsample type
1130dog
50146Dog
67770Dog oral cavity
123302Animal, Dog

isolation source categories

  • Cat1: #Host
  • Cat2: #Mammals
  • Cat3: #Canidae (Dog)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
11301Risk group (German classification)
1233021Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Conchiformibius steedae gene for 16S rRNA, strain: IAM 14972AB0872611479ena153493
20218Simonsiella steedae strain ATCC27409T 16S ribosomal RNA gene, partial sequenceAF3281531463ena153493
20218Conchiformibius steedae gene for 16S rRNA, partial sequence, strain: NBRC 102457AB6817991466ena153493

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Conchiformibius steedae DSM 2580GCA_014054725completencbi153493
66792Conchiformibius steedae DSM 25801121352.3wgspatric1121352
66792Conchiformibius steedae strain DSM 2580153493.11completepatric153493
66792Conchiformibius steedae DSM 25802556921602draftimg1121352
67770Conchiformibius steedae DSM 2580GCA_000620925scaffoldncbi1121352
66792Conchiformibius steedae DSM 2580GCA_023547005completencbi1121352

GC content

  • @ref: 1130
  • GC-content: 50.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
flagellatedno94.948no
gram-positiveno98.248no
anaerobicno97.638no
aerobicno90.038no
halophileno76.183no
spore-formingno97.325no
motileno87.244no
glucose-fermentno87.96no
thermophileno97.13yes
glucose-utilyes62.867no

External links

@ref: 1130

culture collection no.: DSM 2580, ATCC 27409, CCUG 30555, IAM 14972, JCM 21443, NBRC 102457, CIP 103435, ICPB 3604, LMG 7830, CIP 108876

straininfo link

  • @ref: 79733
  • straininfo: 4974

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1130Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2580)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2580
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
40643Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15232
50146Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30555)https://www.ccug.se/strain?id=30555
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/
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
79733Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4974.1StrainInfo: A central database for resolving microbial strain identifiers
123302Curators of the CIPCollection of Institut Pasteur (CIP 103435)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103435