Strain identifier

BacDive ID: 5099

Type strain: Yes

Species: Klebsiella terrigena

Strain Designation: 84, L84

Strain history: CIP <- 1980, H. Leclerc, Lille, France: strain CUETM 77-176 <- F. Gavini, Lille, France: strain L84

NCBI tax ID(s): 1354274 (strain), 577 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 1203

BacDive-ID: 5099

DSM-Number: 2687

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

description: Klebsiella terrigena 84 is an aerobe, mesophilic, Gram-negative human pathogen that was isolated from drinking water.

NCBI tax id

NCBI tax idMatching level
577species
1354274strain

strain history

@refhistory
1203<- CIP <- H. Leclerc, CUETM 77.176 <- F. Gavini, strain 84
67770Y. Kosako 82083 <-- R. Sakazaki 496 <-- H. Leclerc CUETM 77-176 <-- F. Gavini L84.
123478CIP <- 1980, H. Leclerc, Lille, France: strain CUETM 77-176 <- F. Gavini, Lille, France: strain L84

doi: 10.13145/bacdive5099.20230509.8.1

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 terrigena
  • full scientific name: Klebsiella terrigena Izard et al. 1981
  • synonyms

    • @ref: 20215
    • synonym: Raoultella terrigena

@ref: 1203

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Raoultella

species: Raoultella terrigena

full scientific name: Raoultella terrigena (Izard et al. 1981) Drancourt et al. 2001

strain designation: 84, L84

type strain: yes

Morphology

cell morphology

  • @ref: 123478
  • gram stain: negative
  • cell shape: oval-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1203NUTRIENT 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
37714MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
123478CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
1203positivegrowth30mesophilic
37714positivegrowth30mesophilic
45682positivegrowth30-37mesophilic
67770positivegrowth37mesophilic
123478positivegrowth5-37
123478nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
45682aerobe
123478facultative 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
6836825094lysine+degradation
6836829016arginine-hydrolysis
12347829864mannitol+fermentation
12347816947citrate+carbon source
12347817234glucose+fermentation
12347817716lactose-fermentation
12347817632nitrate+reduction
12347816301nitrite+reduction
12347815792malonate+assimilation
123478132112sodium thiosulfate-builds gas from
12347817234glucose+degradation
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

antibiotic resistance

  • @ref: 123478
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleno
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12347835581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6837435581indole-
6836815688acetoin+
6836835581indole-
12347815688acetoin+
12347817234glucose-

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
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
123478oxidase-
123478beta-galactosidase+3.2.1.23
123478alcohol dehydrogenase-1.1.1.1
123478gelatinase-
123478catalase+1.11.1.6
123478lysine decarboxylase+4.1.1.18
123478ornithine decarboxylase-4.1.1.17
123478phenylalanine ammonia-lyase-4.3.1.24
123478tryptophan deaminase-
123478urease-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
123478-++--+----+-++-++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1203+-+++----+-+++++++++-
45682+-+------+-+++++++++-
1203+-+-+----+-+++++++++-
1203+-+-+----+-+++++++++-

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
45682--+--++-++++++-+--+++++-+++++---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123478++++++++++++++++-++++++++++----++++-++---+++---+++++++++++-+++++++++----+-++--+++-----+--+--+++----

Isolation, sampling and environmental information

isolation

@refsample type
1203drinking water
45682Drinking water
67770Drinking water
123478Environment, Drinking water

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Freshwater

taxonmaps

  • @ref: 69479
  • File name: preview.99_4984.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_7;98_78;99_4984&stattab=map
  • Last taxonomy: Enterobacteriaceae
  • 16S sequence: Y17658
  • Sequence Identity:
  • Total samples: 248
  • soil counts: 9
  • aquatic counts: 40
  • animal counts: 175
  • plant counts: 24

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
1203yes, in single casesyes, in single cases1Risk group (German classification)
1234782Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Klebsiella terrigena strain ATCC 33257T 16S ribosomal RNA gene, partial sequenceAF1294421436ena577
20218Klebsiella terrigena 16S rRNA gene, strain ATCC33257T, partialY176581454ena577
20218Raoultella terrigena strain CCM3568 clone L-8 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequenceEU623230377ena577
20218Raoultella terrigena strain CCM3568 clone M-2 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequenceEU623231388ena577
20218Raoultella terrigena strain CCM3568 clone M-6 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequenceEU623232376ena577
20218Raoultella terrigena strain CCM3568 clone M-8 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequenceEU623233376ena577
20218Raoultella terrigena strain CCM3568 clone L-6 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Ile and tRNA-Ala genes, complete sequenceEU623234540ena577
20218Raoultella terrigena strain CCM3568 clone L-1 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Ile and tRNA-Ala genes, complete sequenceEU623235542ena577
20218Raoultella terrigena strain CCM3568 clone S-6 16S-23S ribosomal RNA intergenic spacer, partial sequenceEU623236232ena577
20218Raoultella terrigena strain CCM3568 clone S-7 16S-23S ribosomal RNA intergenic spacer, partial sequenceEU623237232ena577
20218Raoultella terrigena strain CCM3568 clone S-8 16S-23S ribosomal RNA intergenic spacer, partial sequenceEU623238232ena577
20218Raoultella terrigena gene for 16S rRNA, partial sequence, strain: NBRC 14941AB6807141467ena577
67770Raoultella terrigena gene for 16S ribosomal RNA, partial sequence, strain: JCM 1687LC0609191464ena577

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Raoultella terrigena NCTC13038GCA_900706855contigncbi577
66792Raoultella terrigena strain NBRC 14941577.22wgspatric577
66792Raoultella terrigena strain NCTC13038577.12wgspatric577
67770Raoultella terrigena NBRC 14941GCA_006539725contigncbi577

GC content

@refGC-contentmethod
120356.7
6777056.7thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno97.051no
anaerobicno97.874yes
halophileno88.93no
spore-formingno93.869no
glucose-utilyes93.879no
thermophileno99.688no
motileno73.473no
flagellatedno94.256no
aerobicyes88.657yes
glucose-fermentyes88.689no

External links

@ref: 1203

culture collection no.: DSM 2687, ATCC 33257, CIP 80.07, CCUG 12372 Bb, CIP 80-07, JCM 1687, CUETM 77.176, BCRC 14805, CCUG 12372, CECT 4519, CIP 80.7, CUETM 77-176, IFO 14941, LMG 3222, NBRC 14941, NCTC 13038, NCIMB 12053

straininfo link

  • @ref: 74593
  • straininfo: 13691

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism17144313Removal of two waterborne pathogenic bacterial strains by activated carbon particles prior to and after charge modification.Busscher HJ, Dijkstra RJ, Engels E, Langworthy DE, Collias DI, Bjorkquist DW, Mitchell MD, Van der Mei HCEnviron Sci Technol10.1021/es061282r2006Bacteria/*metabolism, Bacterial Adhesion, Carbon/chemistry, Cocos, Diatomaceous Earth/chemistry, Escherichia coli/*metabolism, Microscopy, Electron, Scanning, Spectrometry, X-Ray Emission, Surface Properties, Time Factors, Water, Water Purification/*methods, Water SupplyEnzymology
Phylogeny20053705Antiserum against Raoultella terrigena ATCC 33257 identifies a large number of Raoultella and Klebsiella clinical isolates as serotype O12.Mertens K, Muller-Loennies S, Stengel P, Podschun R, Hansen DS, Mamat UInnate Immun10.1177/17534259093500572010Antibodies, Bacterial/*blood, Cloning, Molecular, Cross Reactions/immunology, DNA, Bacterial/isolation & purification, Gene Knockout Techniques, Klebsiella pneumoniae/*classification/*immunology, O Antigens/chemistry/genetics/*immunology, Serotyping, Species Specificity, Water Microbiology, Water SupplyEnzymology
Enzymology21132347Evaluation of molecular techniques for identification and enumeration of Raoultella terrigena ATCC 33257 in water purifier efficacy testing.Saha R, Bechanko R, Bestervelt LL, Donofrio RSJ Ind Microbiol Biotechnol10.1007/s10295-010-0917-02010DNA Gyrase/genetics, DNA Primers, Enterobacteriaceae/genetics/*isolation & purification, Polymerase Chain Reaction/*methods, Real-Time Polymerase Chain Reaction, *Water PurificationPhylogeny
Enzymology26092758Genetic, biochemical characterization and mutagenesis of the chromosomal class A beta-lactamase of Raoultella (formerly Klebsiella) terrigena.Walckenaer E, Delmas J, Leflon-Guibout V, Bonnet R, Nicolas-Chanoine MHPathol Biol (Paris)10.1016/j.patbio.2015.05.0022015Amino Acid Sequence, Amino Acid Substitution, Anti-Bacterial Agents/pharmacology, Bacterial Proteins/*genetics/metabolism, Ceftazidime/pharmacology, Chromosomes, Bacterial, Cloning, Molecular, DNA Transposable Elements, Drug Resistance, Multiple, Bacterial/genetics, Enterobacteriaceae/classification/*enzymology/genetics, Escherichia coli, Genes, Bacterial, Molecular Sequence Data, Mutagenesis, Site-Directed, Promoter Regions, Genetic, Sequence Alignment, Sequence Homology, Amino Acid, beta-Lactam Resistance/*genetics, beta-Lactamases/classification/*genetics/metabolism, beta-Lactams/pharmacologyMetabolism
Metabolism26330553Bacteriophage-mediated Glucosylation Can Modify Lipopolysaccharide O-Antigens Synthesized by an ATP-binding Cassette (ABC) Transporter-dependent Assembly Mechanism.Mann E, Ovchinnikova OG, King JD, Whitfield CJ Biol Chem10.1074/jbc.M115.6608032015ATP-Binding Cassette Transporters/*metabolism, Bacteriophages/genetics/*physiology, Carbohydrate Conformation, Carbohydrate Sequence, Enterobacteriaceae, Glycosylation, Molecular Sequence Data, O Antigens/biosynthesis/chemistry/*metabolismGenetics
Metabolism26934919The Klebsiella pneumoniae O12 ATP-binding Cassette (ABC) Transporter Recognizes the Terminal Residue of Its O-antigen Polysaccharide Substrate.Mann E, Mallette E, Clarke BR, Kimber MS, Whitfield CJ Biol Chem10.1074/jbc.M116.7193442016ATP-Binding Cassette Transporters/genetics/*metabolism, Bacterial Proteins/genetics/*metabolism, Klebsiella pneumoniae/genetics/*metabolism, *Mutation, O Antigens/genetics/*metabolism
Metabolism31848694High 2,3-butanediol production from glycerol by Raoultella terrigena CECT 4519.Ripoll V, Rodriguez A, Ladero M, Santos VEBioprocess Biosyst Eng10.1007/s00449-019-02266-82019*Batch Cell Culture Techniques, *Bioreactors, Butylene Glycols/*metabolism, Enterobacteriaceae/*metabolism, Glycerol/*metabolismBiotechnology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1203Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2687)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2687
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
37714Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11098
45682Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 12372 Bb)https://www.ccug.se/strain?id=12372
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
74593Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13691.1StrainInfo: A central database for resolving microbial strain identifiers
123478Curators of the CIPCollection of Institut Pasteur (CIP 80.7)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2080.7