Paracoccus kondratievae (CIP 108054, VKM B-2222, NCIMB 13773)

Name: Paracoccus kondratievae (CIP 108054, VKM B-2222, NCIMB 13773)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 135083

Type strain

Strain Designation GB

Culture col. no. CIP 108054 VKM B-2222 NCIMB 13773 GB

NCBI tax ID(s) 135740

Special Collections CIP

History 2003, N.V. Doronina, VKM, Moscow, Russia: strain GB CIP <- 2003, N.V. Doronina, VKM, Moscow, Russia: strain GB

Links

Paracoccus kondratievae GB is an obligate aerobe, Gram-negative, rod-shaped bacterium of the family Paracoccaceae.

Gram-negative rod-shaped obligate aerobe genome sequence Bacteria

Name and taxonomic classification

SI-ID 100844

NCIMB 13773,VKM B-2222,CIP 108054

@ref 20215

Last LPSN update 2026-02-09 11:32:21

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Paracoccaceae

Genus Paracoccus

Species Paracoccus kondratievae

Full scientific name Paracoccus kondratievae Doronina and Trotsenko 2001

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
33877	negative	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Composition	Medium link
33877	MEDIUM 72- for trypto casein soja agar	Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
33877	CIP Medium 573		Medium recipe at CIP
33877	CIP Medium 72		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
33877	positive	growth	40
33877	positive	growth	25-41
33877	negative	growth	5
33877	negative	growth	10

Physiology and metabolism

Oxygen tolerance

33877

Oxygen toleranceobligate aerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
33877	NaCl	positive	growth	0-8 %
33877	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
33877	4853 ChEBI	esculin	-	hydrolysis
33877	17632 ChEBI	nitrate	+	reduction
33877	17632 ChEBI	nitrate	+	respiration
33877	16301 ChEBI	nitrite	+	reduction

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
33877	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
33877	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
33877	15688 ChEBI	acetoin	-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
33877	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
33877	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
33877	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
33877	caseinase	-	3.4.21.50
33877	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
33877	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
33877	gelatinase	-
33877	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
33877	lipase	-
68382	lipase (C 14)	-		from API zym
33877	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
33877	ornithine decarboxylase	-	4.1.1.17
33877	oxidase	+
33877	protease	-
68382	trypsin	-	3.4.21.4	from API zym
33877	tryptophan deaminase	-
33877	tween esterase	-
33877	urease	+	3.5.1.5
68382	valine arylamidase	+		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
33877	-	+	+	+	-	+	+	-	-	-	+	+	-	-	-	-	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
33877	not determinedn.d.	+	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	+	+	+	-	+	+	+	+	-	-	+	+	-	+	-	-	-	-	-	-	-	-	+	+	-	-	-	-	+	+	+	+	-	+	+	-	-	-	-	-	-	-	-	-	-	+	-	+	-	+	-	-	-	+	+	-	+	+	-	-	-	-	+	+	+	+	+	+	+	+	+	-	-

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
33877		Krasnodar region	Russia	RUS	Europe
33877	Plant, Maize rhizosphere	Krasnodar region	Russian Federation	RUS	Europe	2000

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
33877	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
124043	ASM2792224v1 assembly for Paracoccus kondratievae VKM B-2222	contig	GCA_027922245	135740.11	135740	59.8
124043	ASM4268392v1 assembly for Paracoccus kondratievae VKM B-2222	contig	GCA_042683925		135740	8.84

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Stress	Paracoccus kondratievae produces poly(3-hydroxybutyrate) under elevated temperature conditions.	Moanis R, Geeraert H, Van den Brande N, Hennecke U, Peeters E.	Environ Microbiol Rep	10.1111/1758-2229.13260	2024
Enzymology	Mechanism of soil bacteria (Cupriavidus sp. LA-1) for degrading natural pterin and lumazine pigments	Doi Y, Maeda N, Takaya N.	Commun Biol		2025
Metabolism	In vivo creation of plasmid pCRT01 and its use for the construction of carotenoid-producing Paracoccus spp. strains that grow efficiently on industrial wastes.	Maj A, Dziewit L, Drewniak L, Garstka M, Krucon T, Piatkowska K, Gieczewska K, Czarnecki J, Furmanczyk E, Lasek R, Baj J, Bartosik D.	Microb Cell Fact	10.1186/s12934-020-01396-z	2020
	Degradation of dibutyl phthalate by Paenarthrobacter sp. Shss isolated from Saravan landfill, Hyrcanian Forests, Iran.	Shariati S, Ebenau-Jehle C, Pourbabaee AA, Alikhani HA, Rodriguez-Franco M, Agne M, Jacoby M, Geiger R, Shariati F, Boll M.	Biodegradation	10.1007/s10532-021-09966-7	2022
Genetics	Thermal Endurance by a Hot-Spring-Dwelling Phylogenetic Relative of the Mesophilic Paracoccus.	Mondal N, Roy C, Chatterjee S, Sarkar J, Dutta S, Bhattacharya S, Chakraborty R, Ghosh W.	Microbiol Spectr	10.1128/spectrum.01606-22	2022
Pathogenicity	Reconsidering plasmid maintenance factors for computational plasmid design.	Yano H, Shintani M, Tomita M, Suzuki H, Oshima T.	Comput Struct Biotechnol J	10.1016/j.csbj.2018.12.001	2019
Enzymology	Convenient broad-host-range unstable vectors for studying stabilization cassettes in diverse bacteria.	Bartosik AA, Glabski K, Kulinska A, Lewicka E, Godziszewska J, Markowska A, Jagura-Burdzy G.	BMC Microbiol	10.1186/s12866-016-0674-y	2016
Metabolism	Methylotrophic autotrophy in Beijerinckia mobilis.	Dedysh SN, Smirnova KV, Khmelenina VN, Suzina NE, Liesack W, Trotsenko YA.	J Bacteriol	10.1128/jb.187.11.3884-3888.2005	2005
Phylogeny	The methanol dehydrogenase gene, mxaF, as a functional and phylogenetic marker for proteobacterial methanotrophs in natural environments.	Lau E, Fisher MC, Steudler PA, Cavanaugh CM.	PLoS One	10.1371/journal.pone.0056993	2013
Genetics	Maintenance and genetic load of plasmid pKON1 of Paracoccus kondratievae, containing a highly efficient toxin-antitoxin module of the hipAB family.	Czarnecki J, Dziewit L, Kowalski L, Ochnio M, Bartosik D	Plasmid	10.1016/j.plasmid.2015.02.003	2015
Phylogeny	Emended description of Paracoccus kondratievae.	Doronina NV, Trotsenko YA, Kuznetzov BB, Tourova TP	Int J Syst Evol Microbiol	10.1099/00207713-52-2-679	2002
Metabolism	Paracoccus niistensis sp. nov., isolated from forest soil, India.	Dastager SG, Deepa CK, Li WJ, Tang SK, Pandey A.	Antonie Van Leeuwenhoek	10.1007/s10482-010-9515-4	2011
Phylogeny	Paracoccus binzhouensis sp. nov., isolated from activated sludge.	Wang F, Gong XF, Meng D, Liu YL, Gu PF, Fan XY, Huang ZS, Du ZJ, Li Q	Arch Microbiol	10.1007/s00203-021-02286-7	2021

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 )
#33877	Collection of Institut Pasteur ; Curators of the CIP; CIP 108054
#68382	Automatically annotated from API zym .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Paracoccus kondratievae (CIP 108054, VKM B-2222, NCIMB 13773)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_027922245

Genome-based predictions

Literature

Literature

References

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