Strain identifier

BacDive ID: 4958

Type strain: No

Species: Klebsiella pneumoniae subsp. pneumoniae

Strain Designation: C37, LRA 024 11 73

Strain history: CIP <- 1992, R. Mercier, bioMérieux, La Balme-les-Grottes, France: strain LRA 024 11 73 <- NCTC <- E.W. Taylor, Bacterium aerogenes type I

NCBI tax ID(s): 72407 (subspecies)

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General

@ref: 9133

BacDive-ID: 4958

DSM-Number: 30102

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

description: Klebsiella pneumoniae subsp. pneumoniae C37 is a mesophilic, Gram-negative human pathogen that was isolated from water.

NCBI tax id

  • NCBI tax id: 72407
  • Matching level: subspecies

strain history

@refhistory
9133<- ATCC; ATCC 13882 <- NCTC; NCTC 8172 (Klebsiella aerogenes) <- E.W. Taylor; C37
67770IAM 12351 <-- ATCC 13882 <-- NCTC 8172 ("Klebsiella aerogenes") <-- E. Taylor C37.
121882CIP <- 1992, R. Mercier, bioMérieux, La Balme-les-Grottes, France: strain LRA 024 11 73 <- NCTC <- E.W. Taylor, Bacterium aerogenes type I

doi: 10.13145/bacdive4958.20230509.8.1

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. pneumoniae
  • full scientific name: Klebsiella pneumoniae subsp. pneumoniae (Schroeter 1886) Ørskov 1984

@ref: 9133

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Klebsiella

species: Klebsiella pneumoniae subsp. pneumoniae

full scientific name: Klebsiella pneumoniae subsp. pneumoniae (Schroeter 1886) Ørskov 1984

strain designation: C37, LRA 024 11 73

type strain: no

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.97

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
35571MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
9133TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yesName: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/92
9133COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693
121882CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
9133positivegrowth37mesophilic
35571positivegrowth30mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.932

compound production

  • @ref: 9133
  • compound: bacteriocin

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
6837418257ornithine-degradation
6837429016arginine-hydrolysis
6837425094lysine+degradation
6837416199urea+hydrolysis
6837418403L-arabitol-builds acid from
6837418024D-galacturonic acid+builds acid from
68374Potassium 5-ketogluconate-builds acid from
6837416899D-mannitol+builds acid from
6837417306maltose+builds acid from
6837415963ribitol+builds acid from
6837418394palatinose+builds acid from
6837415792malonate+assimilation
6837427897tryptophan-energy source
6837417634D-glucose+builds acid from
6837417992sucrose+builds acid from
6837430849L-arabinose+builds acid from
6837418333D-arabitol+builds acid from
6837427082trehalose+builds acid from
6837462345L-rhamnose+builds acid from
6837417268myo-inositol+builds acid from
6837417057cellobiose+builds acid from
6837430911sorbitol+builds acid from

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleno
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-test
6837435581indole-
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
68374L-aspartate arylamidase+3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase+3.2.1.22
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase+3.2.1.23
68374N-acetyl-beta-glucosaminidase-3.2.1.52
68374beta-glucuronidase-3.2.1.31
68374beta-glucosidase+3.2.1.21
68374lipase-
68374urease+3.5.1.5
68374lysine decarboxylase+4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase-4.1.1.17
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

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121882--------------------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
9133+-+-+-+--+-+++++++++-
9133+-+-+-+--+-+++++++++-

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
49246--++-+--++++++-+--+++++-++++++-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
9133water
49246Water
67770Water
121882LondonUnited KingdomGBREurope1950

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

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: X93214
  • Sequence Identity:
  • Total samples: 47492
  • soil counts: 1141
  • aquatic counts: 3887
  • animal counts: 41102
  • plant counts: 1362

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
9133yesyes2Risk group (German classification)
1218822Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Klebsiella pneumoniae gene for 16S rRNA, partial sequence, strain: NBRC 13541AB6804311465ena573
20218K.pneumoniae 16S rRNA geneX932141458ena573

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Klebsiella pneumoniae C37GCA_017291375contigncbi573
66792Klebsiella pneumoniae NCTC8172GCA_900451575contigncbi573
66792Klebsiella pneumoniae strain NCTC8172573.20119wgspatric573

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno97.124no
anaerobicno95.491no
halophileno89.936no
spore-formingno93.135no
glucose-utilyes94.091no
flagellatedno92.757no
aerobicyes90.233no
thermophileno99.547no
motileno84.159no
glucose-fermentyes90.829no

External links

@ref: 9133

culture collection no.: DSM 30102, ATCC 13882, IFO 13541, NBRC 13541, NCIB 8267, NCTC 8172, CCUG 28450, NCDC 388-68, JCM 20507, IAM 12351, CIP 103582

straininfo link

  • @ref: 74454
  • straininfo: 280314

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9133Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 30102)https://www.dsmz.de/collection/catalogue/details/culture/DSM-30102
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
35571Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15395
49246Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 28450)https://www.ccug.se/strain?id=28450
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
68374Automatically annotated from API ID32E
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
74454Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID280314.1StrainInfo: A central database for resolving microbial strain identifiers
121882Curators of the CIPCollection of Institut Pasteur (CIP 103582)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103582