Strain identifier

BacDive ID: 2233

Type strain: Yes

Species: Cardiobacterium hominis

Strain Designation: 6573

Strain history: CIP <- 1970, NCTC <- 1965, I.J. Slotnick: strain 6573

NCBI tax ID(s): 638300 (strain), 2718 (species)

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General

@ref: 3256

BacDive-ID: 2233

DSM-Number: 8339

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

description: Cardiobacterium hominis 6573 is a microaerophile, mesophilic, Gram-negative bacterium that was isolated from human blood.

NCBI tax id

NCBI tax idMatching level
2718species
638300strain

strain history

@refhistory
3256<- ATCC <- I.J. Slotnik; 6573
119942CIP <- 1970, NCTC <- 1965, I.J. Slotnick: strain 6573

doi: 10.13145/bacdive2233.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Cardiobacteriales
  • family: Cardiobacteriaceae
  • genus: Cardiobacterium
  • species: Cardiobacterium hominis
  • full scientific name: Cardiobacterium hominis Slotnick and Dougherty 1964 (Approved Lists 1980)

@ref: 3256

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Cardiobacteriales

family: Cardiobacteriaceae

genus: Cardiobacterium

species: Cardiobacterium hominis

full scientific name: Cardiobacterium hominis Slotnick and Dougherty 1964

strain designation: 6573

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.997

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3256COLUMBIA 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
36055MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
119942CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
3256positivegrowth37mesophilic
36055positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 3256
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
69481no100
69480no99.992

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837717634D-glucose+builds acid from
6837715824D-fructose+builds acid from
6837717306maltose+builds acid from
6837718257ornithine-degradation

enzymes

@refvalueactivityec
68377gamma-glutamyltransferase+2.3.2.2
68377beta-galactosidase-3.2.1.23
68377alkaline phosphatase-3.1.3.1
68377ornithine decarboxylase-4.1.1.17

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
3256++++--+---++-
3256-++++--+---++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
3256human bloodFloridaUSAUSANorth America
44581Human blood,endocarditis
119942Human, Blood, endocarditisMemphisUnited States of AmericaUSANorth America1965

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Fluids#Blood

taxonmaps

  • @ref: 69479
  • File name: preview.99_4915.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_183;96_2419;97_2945;98_3680;99_4915&stattab=map
  • Last taxonomy: Cardiobacterium hominis subclade
  • 16S sequence: M35014
  • Sequence Identity:
  • Total samples: 30253
  • soil counts: 801
  • aquatic counts: 1693
  • animal counts: 27456
  • plant counts: 303

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
32562Risk group (German classification)
1199422Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Cardiobacterium hominis strain ATCC 15826 16S ribosomal RNA, partial sequence
  • accession: M35014
  • length: 1470
  • database: ena
  • NCBI tax ID: 2718

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cardiobacterium hominis NCTC10426GCA_900637305completencbi2718
66792Cardiobacterium hominis ATCC 15826GCA_000160655scaffoldncbi638300
66792Cardiobacterium hominis ATCC 15826638300.3wgspatric638300
66792Cardiobacterium hominis strain NCTC104262718.61completepatric2718
66792Cardiobacterium hominis ATCC 15826645951819draftimg638300

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno95.302no
gram-positiveno98.528no
anaerobicno97.856yes
aerobicno93.919yes
halophileno62.627no
spore-formingno97.25no
thermophileno98.119yes
glucose-utilyes69.315no
motileno85.689no
glucose-fermentno57.769no

External links

@ref: 3256

culture collection no.: DSM 8339, ATCC 15826, NCTC 10426, CCUG 2711, CIP 70.70, CCM 2654, LMG 3916

straininfo link

  • @ref: 71795
  • straininfo: 1681

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
3256Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8339)https://www.dsmz.de/collection/catalogue/details/culture/DSM-8339
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
36055Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/10545
44581Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 2711)https://www.ccug.se/strain?id=2711
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
68377Automatically annotated from API NH
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
71795Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1681.1StrainInfo: A central database for resolving microbial strain identifiers
119942Curators of the CIPCollection of Institut Pasteur (CIP 70.70)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2070.70