Pseudomonas umsongensis (DSM 16611, KACC 10847, LMG 21317)

Name: Pseudomonas umsongensis (DSM 16611, KACC 10847, LMG 21317)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13099

Type strain

Strain Designation Ps 3-10

Culture col. no. DSM 16611 KACC 10847 LMG 21317 CCUG 54631 Ps 3-10 3 more

NCBI tax ID(s) 198618

Special Collections DSMZ CCUG JCM CIP

History <- S. W. Kwon; Ps 3-10 KACC 10847 <-- S.-W. Kwon Ps 3-10. CIP <- 2005, KACC <- Nat. Inst. Agricult. Biotechn., Korea: strain Ps 3-10

Links

Pseudomonas umsongensis Ps 3-10 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from agricultural soil.

Gram-negative motile rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 86037

LMG 21317,KACC 10847,DSM 16611,CCUG 54631,BCRC 17504,CCRC 17504,CIP 108618,CFBP 7189

@ref 20215

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

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Pseudomonas

Species Pseudomonas umsongensis

Full scientific name Pseudomonas umsongensis Kwon et al. 2003

BacDive ID	Other strains from **Pseudomonas umsongensis** (2)	Type strain
12923	P. umsongensis 53-18, DSM 50222, ATCC 17484, ICPB 2727-110
13098	P. umsongensis B2, DSM 6376

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
123722	negative	rod-shaped
125439	negative		99.2
125438			90.376
125438	negative		98.5

Pigmentation

@ref	Production	Name
123722		Pyocyanin

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6521	CASO AGAR (MERCK 105458) (DSMZ Medium 220)	Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
33259	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123722	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6521	positive	growth	30	mesophilic
33259	positive	growth	30	mesophilic
60270	positive	growth	30	mesophilic
67770	positive	growth	30	mesophilic
123722	positive	growth	5-37
123722	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
60270	aerobe
123722	obligate aerobe
125438	aerobe	93.148
125439	obligate aerobe	97.5

Spore formation

@ref	Spore formation	Confidence
125439		99

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123722	NaCl	positive	growth	0-4 %
123722	NaCl		growth	6 %
123722	NaCl		growth	8 %
123722	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	+	hydrolysis	from API 20NE
123722	16947 ChEBI	citrate	+	carbon source
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	+	assimilation	from API 20NE
123722	4853 ChEBI	esculin	-	hydrolysis
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
123722	17632 ChEBI	nitrate	+	reduction
123722	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
123722	16301 ChEBI	nitrite	-	reduction
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
123722	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
123722	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
123722	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
123722	amylase	-
68369	arginine dihydrolase	+	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
123722	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123722	caseinase	-	3.4.21.50
123722	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
123722	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
123722	gelatinase	-
68369	gelatinase	-		from API 20NE
123722	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
123722	lipase	-
68382	lipase (C 14)	-		from API zym
123722	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
123722	ornithine decarboxylase	-	4.1.1.17
123722	oxidase	+
123722	protease	-
68382	trypsin	+	3.4.21.4	from API zym
123722	tryptophan deaminase	-
123722	tween esterase	-
123722	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
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
123722	-	-	+	+	-	+	+	-	+	-	+	-	-	-	-	-	-	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
6521	+	-	-	+	-	-	-	-	+	+	+	-	-	-	+	+	-	+	+	+	+
6521	+	-	-	+	-	-	-	-	+	+	+	+	+	+	+	+	-	+	+	+	+

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
123722	not determinedn.d.	+	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	+	+	+	+	-	+	+	+	+	-	+	-	+	+	+	+	+	-	-	+	-	+	+	+	+	+	+	+	+	+	+	+	+	+	+	+	+	-	+	-	+	+	+	+	+	+	+	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	-
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
6521	agricultural soil	Umsong region	Republic of Korea	KOR	Asia
60270	Soil,agricultural		Republic of Korea	KOR	Asia
67770	Soil of Umsong Region in Korea
123722	Environment, Soil	Umsong Region	Republic of Korea	KOR	Asia	2000

Taxonmaps

69479

Global distribution of 16S sequence AF468450 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	124
Soil Samples	197
Animal Samples	162
Plant Samples	153
Total Samples	636

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6521	1	Risk group (German classification) According to TRBA 466
123722	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2639762618 annotated assembly for Pseudomonas umsongensis BS3657	chromosome	GCA_900105285	198618.3	2639762618	198618	78.57
66792	Pseudomonas umsongensis strain DSM 16611	contig		198618.7		198618	76.4
67770	ASM223610v1 assembly for Pseudomonas umsongensis DSM 16611	contig	GCA_002236105	198618.6	2917099900	198618	66.55

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6521	Pseudomonas sp. Ps 3-10 16S ribosomal RNA gene, partial sequence	AF468450	1455		198618

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudomonas umsongensis DSM 16611
NCBI: GCA_002236105

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.00	no
125439	motility	BacteriaNetⓘ	yes	87.90	no
125439	gram_stain	BacteriaNetⓘ	negative	99.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas umsongensis LMG 21317
NCBI: GCA_900105285.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	no
125438	anaerobic	anaerobicⓘ	no	98.40	yes
125438	aerobic	aerobicⓘ	yes	93.15	yes
125438	spore-forming	spore-formingⓘ	no	85.12	no
125438	thermophilic	thermophileⓘ	no	98.49	no
125438	flagellated	motile2+ⓘ	yes	90.38	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Genome analysis of the metabolically versatile Pseudomonas umsongensis GO16: the genetic basis for PET monomer upcycling into polyhydroxyalkanoates.	Narancic T, Salvador M, Hughes GM, Beagan N, Abdulmutalib U, Kenny ST, Wu H, Saccomanno M, Um J, O'Connor KE, Jimenez JI.	Microb Biotechnol	10.1111/1751-7915.13712	2021
Metabolism	Aerobic and oxygen-limited naphthalene-amended enrichments induced the dominance of Pseudomonas spp. from a groundwater bacterial biofilm.	Benedek T, Szentgyorgyi F, Szabo I, Farkas M, Duran R, Kriszt B, Tancsics A.	Appl Microbiol Biotechnol	10.1007/s00253-020-10668-y	2020
	Characterization of Rhizosphere Microbial Diversity and Selection of Plant-Growth-Promoting Bacteria at the Flowering and Fruiting Stages of Rapeseed.	Wang M, Sun H, Xu Z.	Plants (Basel)	10.3390/plants13020329	2024
Genetics	Draft Genome Sequence of the Type Strain Pseudomonas umsongensis DSM 16611.	Furmanczyk EM, Kaminski MA, Dziembowski A, Lipinski L, Sobczak A	Genome Announc	10.1128/genomeA.01038-17	2017
Phylogeny	Pseudomonas koreensis sp. nov., Pseudomonas umsongensis sp. nov. and Pseudomonas jinjuensis sp. nov., novel species from farm soils in Korea.	Kwon SW, Kim JS, Park IC, Yoon SH, Park DH, Lim CK, Go SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.02326-0	2003

References

#6521	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16611
#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 )
#33259	; Curators of the CIP;
#60270	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54631
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#123722	Collection of Institut Pasteur ; Curators of the CIP; CIP 108618
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Pseudomonas umsongensis (DSM 16611, KACC 10847, LMG 21317)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API 20NE

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900105285

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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