Strain identifier

BacDive ID: 4970

Type strain: Yes

Species: Klebsiella pneumoniae subsp. ozaenae

Strain Designation: D5050

Strain history: CIP <- 1952, I. Orskov, Statens Serum Inst., Copenhagen, Denmark: strain D5050 <- E.P. Snijders, Amsterdam, The Netherlands

NCBI tax ID(s): 1218098 (strain), 574 (subspecies)

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General

@ref: 6400

BacDive-ID: 4970

DSM-Number: 16358

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, rod-shaped

description: Klebsiella pneumoniae subsp. ozaenae D5050 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from human nose.

NCBI tax id

NCBI tax idMatching level
1218098strain
574subspecies

strain history

@refhistory
6400<- NCTC <- E. P. Snijders
67770Y. Kosako 82058 <-- R. Sakazaki <-- ATCC 11296 <-- Walter Reed Army Med. Center, AMC 35-E-5.
121887CIP <- 1952, I. Orskov, Statens Serum Inst., Copenhagen, Denmark: strain D5050 <- E.P. Snijders, Amsterdam, The Netherlands

doi: 10.13145/bacdive4970.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Klebsiella
  • species: Klebsiella pneumoniae subsp. ozaenae
  • full scientific name: Klebsiella pneumoniae subsp. ozaenae (Abel 1893) Ørskov 1984

  • synonyms

    @refsynonym
    20215Bacillus ozaenae
    20215Klebsiella ozaenae

@ref: 6400

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Klebsiella

species: Klebsiella pneumoniae subsp. ozaenae

full scientific name: Klebsiella pneumoniae subsp. ozaenae (Abel 1893) Ørskov 1984

strain designation: D5050

type strain: yes

Morphology

cell morphology

  • @ref: 121887
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 121887
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6400CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
6400NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
36529MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121887CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121887CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
121887CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
6400positivegrowth28mesophilic
36529positivegrowth30mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 121887
  • oxygen tolerance: facultative anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836830849L-arabinose+fermentation
6836827613amygdalin+fermentation
6836828053melibiose+fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose+fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol+fermentation
6836816899D-mannitol+fermentation
6836817634D-glucose+fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine+degradation
6836829016arginine-hydrolysis
12188717632nitrate+reduction
12188716301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
12188735581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

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
121887oxidase-
121887alcohol dehydrogenase-1.1.1.1
121887catalase+1.11.1.6
121887lysine decarboxylase+4.1.1.18
121887ornithine decarboxylase-4.1.1.17
121887urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121887-+++-++-+-++++-++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
6400+-+-+------+++-+-+++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
6400human noseSumatraIndonesiaIDNAsia
67770Nose
121887Human, NoseSumatraIndonesiaIDNAsia1931

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Organ#Nose

taxonmaps

  • @ref: 69479
  • File name: preview.99_10.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_7;98_9;99_10&stattab=map
  • Last taxonomy: Klebsiella pneumoniae
  • 16S sequence: Y17654
  • Sequence Identity:
  • Total samples: 47492
  • soil counts: 1141
  • aquatic counts: 3887
  • animal counts: 41102
  • plant counts: 1362

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
64002Risk group (German classification)
1218872Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Klebsiella pneumoniae subsp. ozaenae 16S rRNA gene, strain ATCC11296T, partialY176541452ena574
6400Klebsiella pneumoniae subsp. ozaenae 16S ribosomal RNA gene, partial sequenceAF1309821436ena574

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Klebsiella pneumoniae subsp. ozaenae NCTC5050GCA_900461485contigncbi574
66792Klebsiella pneumoniae subsp. ozaenae ATCC 11296GCA_000826585scaffoldncbi574
66792Klebsiella pneumoniae subsp. ozaenae ATCC 11296574.3wgspatric574
66792Klebsiella pneumoniae subsp. ozaenae NBRC 1056831218098.3wgspatric1218098
66792Klebsiella pneumoniae subsp. ozaenae strain NCTC5050574.22wgspatric574
66792Klebsiella pneumoniae ozaenae NBRC 1056832731957711draftimg1218098
66792Klebsiella pneumoniae ozaenae ATCC 112962645728049draftimg574
67770Klebsiella pneumoniae subsp. ozaenae NBRC 105683GCA_001598715contigncbi1218098

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno84.611no
gram-positiveno97.516no
anaerobicno96.405no
aerobicyes88.163no
halophileno88.98no
spore-formingno92.734no
thermophileno99.625no
glucose-utilyes94.718no
flagellatedno92.431no
glucose-fermentyes91.64no

External links

@ref: 6400

culture collection no.: DSM 16358, ATCC 11296, NCTC 5050, CCUG 15938, CCM 5972, JCM 1663, BCRC 17592, CCM 5792, CECT 851, CIP 52.211, LMG 3113, LMG 3118, NBRC 105683, VTT E-97790

straininfo link

  • @ref: 74466
  • straininfo: 92695

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6400Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16358)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16358
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
36529Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14890
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/
68368Automatically annotated from API 20E
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
74466Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92695.1StrainInfo: A central database for resolving microbial strain identifiers
121887Curators of the CIPCollection of Institut Pasteur (CIP 52.211)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2052.211