Name: Chitinimonas koreensis R2A43-10
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1993

Type strain:

Species: Chitinimonas koreensis

Strain Designation: R2A43-10, R2A 43-10

Culture col. no.: DSM 17726, KACC 11467, CIP 109380

Strain history: CIP <- 2006, DSMZ <- KACC <- K.Y. Kim, Korea: strain R2A 43-10

NCBI tax ID(s): 1121278 (strain), 356302 (species)

SI-ID 297145

DSM 17726, KACC 11467, CIP 109380

Section

Chitinimonas koreensis R2A43-10 is a microaerophile, mesophilic, Gram-negative bacterium that forms irregular colonies and was isolated from greenhouse soil cultivated with cucumber.

colony-forming
Gram-negative
motile
mesophilic
microaerophile
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	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Burkholderiaceae*
	Genus	*Chitinimonas*
	Species	**Chitinimonas koreensis**
	Full Scientific Name (LPSN)	Chitinimonas koreensis Kim et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #23159]	Gram stain	negative
[Ref.: #120473]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #23159]	Motility	yes
[Ref.: #120473]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %96.01

[Ref.: #120473]	Cell shape	rod-shaped

[Ref.: #23159]

Colony shape

irregular

[Ref.: #23159]	Pigment production	no
[Ref.: #23159]	Pigment name	no pigments

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6922]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #6922]

Culture medium growth

[Ref.: #6922]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6922]

Culture medium composition

expand / minimize

[Ref.: #36999]

Culture medium

MEDIUM 372 - for Aquabacterium

[Ref.: #36999]

Culture medium growth

[Ref.: #36999]

Culture medium composition

expand / minimize

[Ref.: #120473]

Culture medium

CIP Medium 372

[Ref.: #120473]

Culture medium growth

[Ref.: #120473]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6922]	growth	28 °C
[Ref.: #23159]	growth	10-40 °C
[Ref.: #36999]	growth	30 °C

[Ref.: #6922]	Temperature range	mesophilic
[Ref.: #36999]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #23159]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #120473]

Oxygen tolerance

microaerophile

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.991

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #23159]		NaCl		growth	0-1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23159]	2-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #23159]	3-hydroxybutyrate ChEBI	+	assimilation
[Ref.: #23159]	4-hydroxybutyrate ChEBI	-	assimilation
[Ref.: #23159]	adipate ChEBI	-	assimilation
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #23159]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #23159]	casein	+	hydrolysis
[Ref.: #23159]	chitin ChEBI	+	hydrolysis
[Ref.: #23159]	D-glucose ChEBI	+	assimilation
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #23159]	D-mannitol ChEBI	-	assimilation
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #23159]	D-mannose ChEBI	+	assimilation
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #23159]	D-ribose ChEBI	-	assimilation
[Ref.: #23159]	D-sorbitol ChEBI	-	assimilation
[Ref.: #23159]	decanoate ChEBI	-	assimilation
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #23159]	dna ChEBI	-	hydrolysis
[Ref.: #23159]	gelatin ChEBI	+	hydrolysis
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #23159]	glucose ChEBI	-	fermentation
[Ref.: #23159]	glycogen ChEBI	+	assimilation
[Ref.: #23159]	itaconate ChEBI	-	assimilation
[Ref.: #23159]	L-alanine ChEBI	-	assimilation
[Ref.: #23159]	L-arabinose ChEBI	-	assimilation
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #23159]	L-histidine ChEBI	+	assimilation
[Ref.: #23159]	L-proline ChEBI	+	assimilation
[Ref.: #23159]	L-rhamnose ChEBI	-	assimilation
[Ref.: #23159]	L-serine ChEBI	+	assimilation
[Ref.: #23159]	lactate ChEBI	-	assimilation
[Ref.: #23159]	malate ChEBI	+	assimilation
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #23159]	malonate ChEBI	-	assimilation
[Ref.: #23159]	maltose ChEBI	+	assimilation
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #23159]	myo-inositol ChEBI	-	assimilation
[Ref.: #23159]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #23159]	nitrate ChEBI	+	reduction
[Ref.: #120473]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #120473]	nitrite ChEBI	-	reduction
[Ref.: #23159]	phenylacetate ChEBI	-	assimilation
[Ref.: #23159]	potassium gluconate ChEBI	-	assimilation
[Ref.: #23159]	sodium acetate ChEBI	-	assimilation
[Ref.: #23159]	sodium citrate ChEBI	-	assimilation
[Ref.: #23159]	starch ChEBI	+	hydrolysis
[Ref.: #23159]	suberic acid ChEBI	-	assimilation
[Ref.: #23159]	sucrose ChEBI	+	assimilation
[Ref.: #23159]	tryptophan ChEBI	-	energy source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #23159]	tyrosine ChEBI	+	hydrolysis
[Ref.: #23159]	urea ChEBI	-	hydrolysis
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #23159]	valerate ChEBI	+	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #23159]	indole ChEBI	no
[Ref.: #120473]	indole ChEBI	no
[Ref.: #68369]	indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #23159]		indole ChEBI	-
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #23159]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #23159]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #23159]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #23159]	alpha-fucosidase	-	3.2.1.51
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #23159]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #23159]	alpha-glucosidase	-	3.2.1.20
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #23159]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #23159]	arginine dihydrolase	-	3.5.3.6
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #23159]	beta-galactosidase		3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #23159]	beta-glucosidase	-	3.2.1.21
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #23159]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #23159]	catalase	+	1.11.1.6
[Ref.: #120473]	catalase	+	1.11.1.6
[Ref.: #23159]	cystine arylamidase	-	3.4.11.3
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #23159]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #23159]	esterase (C 4)	+
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #23159]	esterase lipase (C 8)	+
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #120473]	gelatinase	+
[Ref.: #68369]	gelatinase	+		* from API 20NE
[Ref.: #23159]	leucine arylamidase	+	3.4.11.1
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #23159]	lipase (C 14)	-
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #23159]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #23159]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #120473]	oxidase	+/-
[Ref.: #23159]	trypsin	-	3.4.21.4
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #23159]	tryptophan deaminase	-	4.1.99.1
[Ref.: #23159]	urease	-	3.5.1.5
[Ref.: #120473]	urease	-	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #23159]	valine arylamidase	-
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #6922]	25280	+	-	-	-	-	+/-	+	+	+	-	-	-	-	+	-	-	-	+	-	-	+
[Ref.: #6922]	25272	+	-	-	-	-	-	+	-	+	-	-	-	-	+	-	-	-	+	-	-	+

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #120473]	11826	-	+	+	+	+	+	+	+	-	-	+	+	-	-	-	+	-	-	-	-

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

[Ref.: #6922]	Sample type/isolated from	greenhouse soil cultivated with cucumber
[Ref.: #6922]	Country	Republic of Korea
[Ref.: #6922]	Country ISO 3 Code	KOR
[Ref.: #6922]	Continent	Asia

[Ref.: #120473]	Sample type/isolated from	Environment, Greenhouse soil cultivated with cucumber
[Ref.: #120473]	Geographic location (country and/or sea, region)	Sangju Province
[Ref.: #120473]	Country	Republic of Korea
[Ref.: #120473]	Country ISO 3 Code	KOR
[Ref.: #120473]	Continent	Asia

[Ref.: #23159]	Geographic location (country and/or sea, region)	Sangju Province
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Greenhouse
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ256728 (>99% sequence identity) for Chitinimonas koreensis subclade from Microbeatlas

Aquatic Samples	395
Soil Samples	370
Animal Samples	1310
Plant Samples	311
Total Samples	2386

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

[Ref.: #6922]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #120473]	Biosafety level	1	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.: #6922]	Chitinimonas koreensis strain R2A43-10 16S ribosomal RNA gene, partial sequence	DQ256728	1494	ENA	356302 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chitinimonas koreensis DSM 17726	GCA_000428465	scaffold	GenBank	1121278 tax ID	*
[Ref.: #66792]	Chitinimonas koreensis DSM 17726	1121278.3	wgs	PATRIC	1121278 tax ID	*
[Ref.: #66792]	Chitinimonas koreensis DSM 17726	2524614556	draft	JGI IMG/M	1121278 tax ID	*
[Ref.: #66792]	Chitinimonas koreensis R2A43-10	GCA_014353015	complete	GenBank	356302 tax ID	*

[Ref.: #23159]

GC-content

65.0 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Chitinimonas koreensis DSM 17726 DSM 17726 NCBI: GCA_000428465.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chitinimonas koreensis R2A43-10 NCBI: GCA_014353015.1
[Ref.: #69480]	flagellated	yes	73.741	no
[Ref.: #69480]	gram-positive	no	98.93	yes
[Ref.: #69480]	anaerobic	no	98.888	no
[Ref.: #69480]	aerobic	yes	77.465	no
[Ref.: #69480]	halophile	no	97.807	yes
[Ref.: #69480]	spore-forming	no	94.623	no
[Ref.: #69480]	thermophile	no	99.436	no
[Ref.: #69480]	glucose-util	yes	88.617	yes
[Ref.: #69480]	motile	yes	88.804	yes
[Ref.: #69480]	glucose-ferment	no	90.052	yes

Availability in culture collections External links

[Ref.: #6922]

Culture collection no.

DSM 17726, KACC 11467, CIP 109380

[Ref.: #71640]

SI-ID 297145

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chitinimonas naiadis sp. nov., Isolated from a Freshwater River.	Padakandla SR, Chae JC	J Microbiol Biotechnol	10.4014/jmb.1703.03075	2017	*
Phylogeny	Chitinimonas prasina sp. nov., isolated from lake water.	Li Y, Zhu H, Lai Q, Lei X, Chen Z, Zhang H, Tian Y, Zheng W, Zheng T	Int J Syst Evol Microbiol	10.1099/ijs.0.061234-0	2014	*
Phylogeny	Chitinimonas koreensis sp. nov., isolated from greenhouse soil in Korea.	Kim BY, Weon HY, Yoo SH, Chen WM, Kwon SW, Go SJ, Stackebrandt E	Int J Syst Evol Microbiol	10.1099/ijs.0.64163-0	2006	*

References

#6922

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17726

#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 )

#23159

Byung-Yong Kim, Hang-Yeon Weon, Seung-Hee Yoo, Wen-Ming Chen, Soon-Wo Kwon, Seung-Joo Go, Erko Stackebrandt: Chitinimonas koreensis sp. nov., isolated from greenhouse soil in Korea. IJSEM 56: 1761 - 1764 2006 ( DOI 10.1099/ijs.0.64163-0 , PubMed 16902004 )

#36999 ; Curators of the CIP;

#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) .

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#71640

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-ID297145.1 )

#120473 Collection of Institut Pasteur ; Curators of the CIP; CIP 109380
* These data were automatically processed and therefore are not curated

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Chitinimonas koreensis DSM 17726 DSM 17726

Chitinimonas koreensis R2A43-10

Change proposal

Change proposal