Name: Klebsiella grimontii 06D021
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 157757

Type strain:

Species: Klebsiella grimontii

Strain Designation: 06D021

Culture col. no.: DSM 105630, CIP 111401

Strain history: CIP <- 2017, S. Brisse, Inst. Pasteur, Paris, France: strain 06D021, Klebsiella grimontae <- 1997, Lille Hosp., Lille, France

NCBI tax ID(s): 2058152 (species)

SI-ID 402485

DSM 105630, CIP 111401

Special Collections

Other strains from Klebsiella grimontii

Section

Klebsiella grimontii 06D021 is a Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from Wound or Soft tissue infection.

colony-forming
Gram-negative
rod-shaped
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Enterobacterales*
	Family	*Enterobacteriaceae*
	Genus	*Klebsiella*
	Species	**Klebsiella grimontii**
	Full Scientific Name (LPSN)	Klebsiella grimontii Passet and Brisse 2018

Information on morphological and physiological properties Morphology

[Ref.: #65311]	Gram stain	negative
[Ref.: #119742]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99

[Ref.: #65311]	Cell shape	rod-shaped
[Ref.: #119742]	Cell shape	rod-shaped

[Ref.: #65311]	Motility	no
[Ref.: #119742]	Motility	no

[Ref.: #65311]	Colony color	white
[Ref.: #65311]	Colony shape	circular

Information on culture and growth conditions Culture and growth conditions

[Ref.: #64328]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #64328]

Culture medium growth

[Ref.: #64328]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64328]

Culture medium composition

expand / minimize

[Ref.: #64328]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #64328]

Culture medium growth

[Ref.: #64328]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64328]

Culture medium composition

expand / minimize

[Ref.: #119742]

Culture medium

CIP Medium 72

[Ref.: #119742]

Culture medium growth

[Ref.: #119742]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #64328]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65311]

Ability of spore formation

[Ref.: #65311]	Observation	cells are capsulated
[Ref.: #65311]	Observation	The strain was previously named SB73 and assigned to phylogenetic group Ko6/ bla OXY -6 [9]. It is melezitose-negative.

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #68368]	D-glucose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	D-mannitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	L-arabinose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	L-rhamnose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	melibiose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	sorbitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	tryptophan ChEBI	+	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #65311]	acetoin ChEBI	yes
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	yes	* from API 20E

	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #65311]	acetoin ChEBI	+
[Ref.: #68368]	acetoin ChEBI	+		* from API 20E
[Ref.: #68368]	indole ChEBI		+	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #65311]	beta-galactosidase	+	3.2.1.23
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68368]	cytochrome oxidase	-	1.9.3.1	* from API 20E
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #65311]	lysine decarboxylase	+	4.1.1.18
[Ref.: #65311]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #65311]	urease	-	3.5.1.5
[Ref.: #68368]	urease	-	3.5.1.5	* from API 20E
	Only first 10 entries are displayed. Click here to see all.

API® 20E:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #64328]	17894	+	-	+	-	+	-	-	-	+	+	-	+	+	+	+	+	+	+	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #64328]	17893	+	-	-	-	+	-	-	-	+	+	-	+	+	+	+	+	+	+	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #64328]	Sample type/isolated from	Wound or Soft tissue infection
[Ref.: #64328]	Geographic location (country and/or sea, region)	Lille
[Ref.: #64328]	Country	France
[Ref.: #64328]	Country ISO 3 Code	FRA
[Ref.: #64328]	Continent	Europe

[Ref.: #65311]	Sample type/isolated from	soft-tissue infection culture
[Ref.: #65311]	Sampling date	1997
[Ref.: #65311]	Geographic location (country and/or sea, region)	Lille
[Ref.: #65311]	Country	France
[Ref.: #65311]	Country ISO 3 Code	FRA
[Ref.: #65311]	Continent	Europe

[Ref.: #119742]	Sample type/isolated from	Human, Soft tissue infections
[Ref.: #119742]	Geographic location (country and/or sea, region)	Lille
[Ref.: #119742]	Country	France
[Ref.: #119742]	Country ISO 3 Code	FRA
[Ref.: #119742]	Continent	Europe
[Ref.: #119742]	Isolation date	1997-07-22
* marker position based on {}

Isolation sources categories

#Engineered	#Laboratory	-
#Infection	-	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ871861 (>99% sequence identity) for Enterobacteriaceae from Microbeatlas

Aquatic Samples	233
Soil Samples	121
Animal Samples	3440
Plant Samples	216
Total Samples	4010

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #119742]

Biosafety level

Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #64328]	Klebsiella oxytoca partial 16S rRNA gene, strain SB73	AJ871861	1454	GenBank ENA	2058152 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Klebsiella grimontii 06D021	GCA_900200035	contig	GenBank ENA	2058152 tax ID	*

[Ref.: #65311]

GC-content

55.4 mol%

genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Klebsiella grimontii 06D021 NCBI: GCA_900200035.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	99	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.755	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	53.655	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.521	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	99.25	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	75.823	yes

Availability in culture collections External links

[Ref.: #64328]

Culture collection no.

DSM 105630, CIP 111401

[Ref.: #110617]

SI-ID 402485

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Klebsiella indica sp. nov., isolated from the surface of a tomato.	Gujarati S, Chaudhari D, Hagir A, Khairnar M, Shouche Y, Rahi P	Int J Syst Evol Microbiol	10.1099/ijsem.0.004168	2020	*
Phylogeny	Description of Klebsiella grimontii sp. nov.	Passet V, Brisse S	Int J Syst Evol Microbiol	10.1099/ijsem.0.002517	2017	*

References

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#64328

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105630

#65311

Virginie Passet, Sylvain Brisse: Description of Klebsiella grimontii sp. nov.. IJSEM 68: 377 - 381 2018 ( DOI 10.1099/ijsem.0.002517 , PubMed 29205126 )

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#68368

Automatically annotated from API 20E .

#69479

João 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.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#110617

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID402485.1 )

#119742 Collection of Institut Pasteur ; Curators of the CIP; CIP 111401
* These data were automatically processed and therefore are not curated

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