Name: Paracoccus koreensis Ch05
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 134117

Type strain:

Species: Paracoccus koreensis

Strain Designation: Ch05

Culture col. no.: KCTC 12238, IAM 15216, JCM 21670, NBRC 102292, CIP 108862

Strain history: CIP <- 2005, IAM <- ST Lee, KAIST: strain Ch05

NCBI tax ID(s): 290306 (species)

SI-ID 132665

KCTC 12238, IAM 15216, DSM 18402, NBRC 102292, JCM 21670, CIP 108862

Special Collections

Section

Paracoccus koreensis Ch05 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Granules used in the wastewater-treatment plant of a beer-brewing factory in Chung-Won.

Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria

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	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Paracoccaceae*
	Genus	*Paracoccus*
	Species	**Paracoccus koreensis**
	Full Scientific Name (LPSN)	Paracoccus koreensis La et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31414]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #120481]	Gram stain	negative

[Ref.: #31414]	Cell length	1.25 µm

[Ref.: #31414]	Cell width	0.75 µm

[Ref.: #31414]	Cell shape	rod-shaped
[Ref.: #120481]	Cell shape	rod-shaped

[Ref.: #31414]	Motility	no
[Ref.: #120481]	Motility	no

[Ref.: #31414]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #38345]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #38345]

Culture medium growth

[Ref.: #38345]

Culture medium composition

expand / minimize

[Ref.: #120481]

Culture medium

CIP Medium 566

[Ref.: #120481]

Culture medium growth

[Ref.: #120481]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #31414]		growth	15-37 °C
[Ref.: #31414]		optimum	26 °C
[Ref.: #38345]		growth	30 °C
[Ref.: #67770]		growth	30 °C
[Ref.: #67771]		growth	30 °C
[Ref.: #120481]		growth	25-41 °C
[Ref.: #120481]	no	growth	5 °C
[Ref.: #120481]	no	growth	10 °C

	pH	Kind of pH		pH
[Ref.: #31414]			optimum	7
[Ref.: #31414]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31414]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe
[Ref.: #120481]	Oxygen tolerance	obligate aerobe

[Ref.: #31414]

Ability of spore formation

	Salt	Tested relation		Salt conc.
[Ref.: #120481]	NaCl		growth	0-4	%
[Ref.: #120481]	NaCl	no	growth	6	%
[Ref.: #120481]	NaCl	no	growth	8	%
[Ref.: #120481]	NaCl	no	growth	10	%

[Ref.: #31414]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: Q-10
[Ref.: #67771]	Observation	quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31414]	alanine ChEBI	+	carbon source
[Ref.: #120481]	esculin ChEBI	-	hydrolysis
[Ref.: #31414]	glycogen ChEBI	+	carbon source
[Ref.: #31414]	histidine ChEBI	+	carbon source
[Ref.: #120481]	nitrate ChEBI	+	reduction
[Ref.: #120481]	nitrate ChEBI	-	respiration
[Ref.: #120481]	nitrite ChEBI	+	reduction
[Ref.: #31414]	proline ChEBI	+	carbon source
[Ref.: #31414]	ribose ChEBI	+	carbon source
[Ref.: #31414]	sorbitol ChEBI	+	carbon source
[Ref.: #31414]	valerate ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #120481]		indole ChEBI	yes

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #120481]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #120481]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #120481]	amylase	-
[Ref.: #120481]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #120481]	caseinase	-	3.4.21.50
[Ref.: #31414]	catalase	+	1.11.1.6
[Ref.: #120481]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #31414]	cytochrome oxidase	+	1.9.3.1
[Ref.: #120481]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #120481]	gelatinase	-
[Ref.: #120481]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #120481]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #120481]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #120481]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #120481]	oxidase	+
[Ref.: #120481]	protease	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #120481]	tryptophan deaminase	+
[Ref.: #120481]	tween esterase	-
[Ref.: #120481]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #120481]	11514	-	+	+	+	-	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #67770]	Sample type/isolated from	Granules used in the wastewater-treatment plant of a beer-brewing factory in Chung-Won
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From granule sludge
[Ref.: #67771]	Geographic location (country and/or sea, region)	Chungjoo
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia

[Ref.: #120481]	Sample type/isolated from	Environment, Granules in the treatment of wastewater from a beer-brewing factory
[Ref.: #120481]	Geographic location (country and/or sea, region)	Chungjoo
[Ref.: #120481]	Country	Republic of Korea
[Ref.: #120481]	Country ISO 3 Code	KOR
[Ref.: #120481]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AB187584 (>99% sequence identity) for Paracoccus koreensis subclade from Microbeatlas

Aquatic Samples	31
Soil Samples	54
Animal Samples	21
Plant Samples	4
Total Samples	110

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

[Ref.: #120481]

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.: #31414]	Paracoccus koreensis gene for 16S rRNA, partial sequence, strain:Ch05	AB187584	1386	GenBank ENA	290306 tax ID
[Ref.: #124043]	Paracoccus koreensis gene for 16S rRNA, partial sequence, strain: NBRC 102292.	AB681748	1388	GenBank ENA	290306 tax ID	*

[Ref.: #31414]	GC-content	69 mol%
[Ref.: #67771]	GC-content	69.0 mol%
[Ref.: #67770]	GC-content	69 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #31414]

Culture collection no.

KCTC 12238, IAM 15216, JCM 21670, NBRC 102292, CIP 108862

[Ref.: #91719]

SI-ID 132665

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paracoccus koreensis sp. nov., isolated from anaerobic granules in an upflow anaerobic sludge blanket (UASB) reactor.	La HJ, Im WT, Ten LN, Kang MS, Shin DY, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.63494-0	2005	*

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 )

#31414

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27721 (see below)

#38345 ; Curators of the CIP;
#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 .

#91719

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-ID132665.1 )

#120481 Collection of Institut Pasteur ; Curators of the CIP; CIP 108862

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

#27721

IJSEM 1657 2005 ( DOI 10.1099/ijs.0.63494-0 , PubMed 16014497 )

* These data were automatically processed and therefore are not curated

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