Pseudomonas putida (DSM 6899, ATCC 700007, JCM 31910)

Name: Pseudomonas putida (DSM 6899, ATCC 700007, JCM 31910)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 12904

Type strain

Strain Designation F1, PpF1

Culture col. no. DSM 6899 ATCC 700007 JCM 31910 F1 PpF1 3 more

NCBI tax ID(s) 303

Special Collections DSMZ JCM

History DSMZ <- D.T. Gibson JCM <-- DSM 6899 <-- D. T. Gibson; F1.

Links

Pseudomonas putida F1 is a human pathogen of the family Pseudomonadaceae.

human pathogen genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 46948

ATCC 700007,DSM 6899,BCRC 17059,CCRC 17059,LMG 24210,VTT E-022152

@ref 20215

Last LPSN update 2026-05-29 08:27:55

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Pseudomonas

Species Pseudomonas putida

Full scientific name Pseudomonas putida (Trevisan 1889) Migula 1895 (Approved Lists 1980)

Synonyms (2)

Arthrobacter siderocapsulatus
"Bacillus putidus"

BacDive ID	Other strains from **Pseudomonas putida** (130)	Type strain
12871	P. putida 90, A 3.12, DSM 291, ATCC 12633, DSM 50202, ... (type strain)
12872	P. putida 1593, DSM 295
12873	P. putida C-1, DSM 437, ATCC 23974, DSM 50253
12874	P. putida 77, DSM 1693, ATCC 8209, CCM 380, IFO 3738, ...
12875	P. putida 12/5, DSM 1868
12876	P. putida PaW 340, DSM 2112
12877	P. putida DSM 3226
12880	P. putida mt-2 PaW1, pWWO, DSM 3931, ATCC 33015, NCIB ...
12881	P. putida MT20, pWW20, DSM 3932, NCIB 12186
12882	P. putida MT15, pWW15, DSM 3936, NCIB 12184
12883	P. putida PaW611, pWW53-4, DSM 3937
12884	P. putida PaW701, pWW60-1, DSM 3938, NCIB 12198
12885	P. putida KF439, pKF439, DSM 4011
12886	P. putida PaW736, pWW60-22, DSM 4302, NCIB 12199
12887	P. putida MT53, pWW53, DSM 4303, NCIB 12187
12888	P. putida CAM, PpG1, DSM 4475
12889	P. putida NAH, PpG7, DSM 4476
12890	P. putida NIC, PpG25, DSM 4477
12891	P. putida PpG2100, SAL, DSM 4478
12892	P. putida PaW 130, DSM 5169
12893	P. putida PaW 95, DSM 5170
12894	P. putida CLB250, DSM 5232
12895	P. putida DSM 84, IMG 1513
12896	P. putida mt-2 KT2440, DSM 6125, ATCC 47054, CCUG 56301, ...
12898	P. putida S-832, DSM 6883
12899	P. putida S-313, DSM 6884
12900	P. putida BG1, DSM 6413
12901	P. putida DSM 6521, ATCC 11172, NCIB 8251, JCM 13061, ...
12902	P. putida pUTK9, DSM 6701, RB 1351
12903	P. putida US2, DSM 6755
12906	P. putida PS, DSM 7189
12907	P. putida Strain G, BKM-BN1123, DSM 7286, BKM BN-1123, ...
12908	P. putida Strain A, DSM 7314, NCIMB 11286, VKM B-1122, ...
12909	P. putida MM1, DSM 9278
12910	P. putida RW20-3b, DSM 11738
12911	P. putida GS1, DSM 12264
12912	P. putida 2-2L, DSM 12585
12913	P. putida PNP1, DSM 12448
12914	P. putida U, DSM 12735, ATCC 17514, NCIMB 10015, CCUG ...
12915	P. putida DSM 13624, IMI 358533
12918	P. putida TM1, DSM 16845
12919	P. putida 50-3-3, IBPM B-20, DSM 46608, CCEB 520, CIP ...
12920	P. putida Berlin 33/2, DSM 50026, CIP 103281
12921	P. putida cl-B, DSM 50198, ATCC 17453, ICPB 2563-77, ...
12922	P. putida 53-2, DSM 50208, ATCC 17485, ICPB 2789-111, ...
12924	P. putida DSM 50257, ATCC 6876, DSM 60118, NCPPB 244, ...
12925	P. putida MT-I1, DSM 21680
12926	P. putida WB, DSM 23849
103269	P. putida STI11318, NCIB 11287, VKM Ac-1135
24382	P. putida 160, DSM 50194, ATCC 17529, ICPB 2440-133
24383	P. putida MS of E.E. Snell, DSM 50204, ATCC 17457, ...
24384	P. putida S16, DSM 28022
24385	P. putida B6-2, DSM 28064
130567	P. putida SQ1, DSM 100120
130999	P. putida Z2, DSM 16527
131000	P. putida TEC1, DSM 26234
131001	P. putida TEC1 407.1-delta 2, DSM 26250
131002	P. putida TEC1 407.3-delta2, DSM 26251
131003	P. putida TEC1 407-delta1, DSM 26252
131888	P. putida S13.1.2, DSM 102034
132784	P. putida TEC1 91-delta 1, DSM 26253
134429	P. putida AmMs 106, CIP 104063, ATCC 49128
134979	P. putida CIP 55.5, ATCC 795, IAM 1505, NCDO 754, NCIMB ...
135611	P. putida CIP 59.25, ATCC 12842, NCIMB 8865, JCM 13060, ...
135612	P. putida A3/9, CIP 59.26, NCIMB 8248
135753	P. putida CIP 108916, LMG 1246, ATCC 17430, NCIMB 10534, ...
135983	P. putida CIP 52.195
135984	P. putida CIP 52.196
136153	P. putida CIP 52.193
136154	P. putida CIP 52.197
136155	P. putida CIP 52.198
137196	P. putida CIP 52.194
137217	P. putida CIP 52.190
137776	P. putida 25300, 642-85, CIP 101794
137973	P. putida 340-86, CIP 102341
138643	P. putida 776.85, CIP 101936
138858	P. putida MD 7.3, CIP 59.19, NCIMB 8729
139223	P. putida CIP 52.189
141228	P. putida CCUG 264
141276	P. putida CCUG 553, LMG 2189
141504	P. putida CCUG 2471
141507	P. putida CCUG 2479
141521	P. putida CCUG 2525, NRRL B-2022
142893	P. putida CCUG 15619
143393	P. putida CCUG 18875
144913	P. putida CCUG 27052
145592	P. putida CCUG 28920
145805	P. putida CCUG 29643
146210	P. putida CCUG 30612
146426	P. putida CCUG 31110
146710	P. putida CCUG 32007
147231	P. putida CCUG 33113
147438	P. putida CCUG 33582
147515	P. putida CCUG 33721
147793	P. putida CCUG 34242
148510	P. putida CCUG 35570
149198	P. putida CCUG 37253
150737	P. putida CCUG 42126
153432	P. putida CCUG 49576
153483	P. putida CCUG 49716
153616	P. putida CCUG 50315
153618	P. putida CCUG 50317
154720	P. putida CCUG 54971
155478	P. putida CCUG 57833
156241	P. putida CCUG 60837
156461	P. putida CCUG 61918
161309	P. putida JCM 13062, ATCC 11250, CCM 3656, KCTC 1645, ...
161475	P. putida JCM 14351, ATCC 598, NRRL B-251
162298	P. putida JCM 18798
162685	P. putida JCM 20004, IAM 1002
162686	P. putida JCM 20005, IAM 1003
162700	P. putida JCM 20028, IAM 1049
162701	P. putida JCM 20029, IAM 1050
162713	P. putida JCM 20048, IAM 1094
162723	P. putida JCM 20066, IAM 1128
162741	P. putida JCM 20089, IAM 1177
162752	P. putida JCM 20102, IAM 1200
162760	P. putida JCM 20111, IAM 1218
162761	P. putida JCM 20112, ATCC 17464, IAM 1219
162768	P. putida JCM 20120, IAM 1235
162775	P. putida JCM 20129, IAM 1250
162804	P. putida JCM 20188, ATCC 4359, IAM 1506
162815	P. putida JCM 20228, IAM 1629
165987	P. putida JCM 9045
166071	P. putida JCM 9800
166073	P. putida JCM 9802
174606	P. putida Thor-Nr. 1021, DSM 115323
174607	P. putida 116234, DSM 116234
174608	P. putida 116510, DSM 116510
176535	P. putida NiuAA7, DSM 114486

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.482

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
2881	MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457)	Medium recipe at MediaDive	Name: MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457) Composition: Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water
2881	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
2881	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
2881	positive	growth	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	94.388

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
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	+	assimilation	from API 20NE
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
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

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

Metabolite tests

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

Enzymes

@ref	Value	Activity	Ec
68369	arginine dihydrolase	+	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
68369	gelatinase	-		from API 20NE
68369	urease	-	3.5.1.5	from API 20NE

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
2881	-	-	-	+	-	-	-	-	+	-	+	-	-	-	+	+	-	+	+	+	+
2881	-	-	-	+	-	-	-	-	+	-	+	-	-	-	+	+	-	+	+	+	+

Isolation, sampling and environmental information

Isolation

@ref	Country	Country ISO 3 Code	Continent
2881	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Pathogenicity animal	Biosafety level	Biosafety level comment
2881			2	Risk group (German 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	ASM1686v1 assembly for Pseudomonas putida F1	complete	GCA_000016865	351746.6	640427132	351746	24.59

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Pseudomonas putida DNA for 16S rRNA, partial sequence	D87108	889		303
67770	Pseudomonas putida ribosomal RNA	L37365	1368		303

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas putida F1
PATRIC: 351746.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.48	no
125438	anaerobic	anaerobicⓘ	no	99.08	no
125438	spore-forming	spore-formingⓘ	no	86.82	no
125438	aerobic	aerobicⓘ	yes	94.39	no
125438	thermophilic	thermophileⓘ	no	98.99	no
125438	flagellated	motile2+ⓘ	yes	89.05	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Resuscitation of Pulsed Electric Field-Treated Staphylococcus aureus and Pseudomonas putida in a Rich Nutrient Medium.	Emanuel E, Dubrovin I, Pogreb R, Pinhasi GA, Cahan R.	Foods	10.3390/foods10030660	2021
Metabolism	Comparison of mcl-Poly(3-hydroxyalkanoates) synthesis by different Pseudomonas putida strains from crude glycerol: citrate accumulates at high titer under PHA-producing conditions.	Poblete-Castro I, Binger D, Oehlert R, Rohde M.	BMC Biotechnol	10.1186/s12896-014-0110-z	2014
Phylogeny	Assessment of bacterial bph gene in Amazonian dark earth and their adjacent soils.	Brossi MJ, Mendes LW, Germano MG, Lima AB, Tsai SM.	PLoS One	10.1371/journal.pone.0099597	2014
	Spectroscopic and Microscopic Characterization of Microbial Biofouling on Aircraft Fuel Tanks.	Gomez-Bolivar J, Warburton MP, Mumford AD, Mujica-Alarcon JF, Anguilano L, Onwukwe U, Barnes J, Chronopoulou M, Ju-Nam Y, Thornton SF, Rolfe SA, Ojeda JJ.	Langmuir	10.1021/acs.langmuir.3c02803	2024
	Study on the Degradation of a Semi-Synthetic Lignin-Acrylic Acid Hydrogel with Common Bacteria Found in Natural Attenuation Processes.	Jimenez-Torres HD, Hernandez-Olmos SL, Reynaga-Delgado E, Orozco-Guareno E.	Polymers (Basel)	10.3390/polym15122588	2023
	Microbial monoterpene transformations-a review.	Marmulla R, Harder J.	Front Microbiol	10.3389/fmicb.2014.00346	2014
	Drosophila attraction, colonization, contagion, and mortality by Pseudomonas spp. and toxicity of their biosurfactants	Tsipa A, Pettemereidi M, Varnava C, Ungor I, Fragkou E, Apidianakis Y.	Appl Microbiol Biotechnol		2025
	Advances in bacteriophage-mediated strategies for combating polymicrobial biofilms.	Glizniewicz M, Milek D, Olszewska P, Czajkowski A, Serwin N, Cecerska-Heryc E, Dolegowska B, Grygorcewicz B.	Front Microbiol	10.3389/fmicb.2023.1320345	2023
Enzymology	Isolation of Polyvalent Bacteriophages by Sequential Multiple-Host Approaches.	Yu P, Mathieu J, Li M, Dai Z, Alvarez PJ.	Appl Environ Microbiol	10.1128/aem.02382-15	2016
	Comparative proteomic analysis reveals mechanistic insights into Pseudomonas putida F1 growth on benzoate and citrate.	Mandalakis M, Panikov N, Dai S, Ray S, Karger BL.	AMB Express	10.1186/2191-0855-3-64	2013
Enzymology	Distribution, diversity, and activities of sulfur dioxygenases in heterotrophic bacteria.	Liu H, Xin Y, Xun L.	Appl Environ Microbiol	10.1128/aem.03281-13	2014
Pathogenicity	Proteomics reveals a core molecular response of Pseudomonas putida F1 to acute chromate challenge.	Thompson DK, Chourey K, Wickham GS, Thieman SB, VerBerkmoes NC, Zhang B, McCarthy AT, Rudisill MA, Shah M, Hettich RL.	BMC Genomics	10.1186/1471-2164-11-311	2010
Metabolism	Expression of Fap amyloids in Pseudomonas aeruginosa, P. fluorescens, and P. putida results in aggregation and increased biofilm formation.	Dueholm MS, Sondergaard MT, Nilsson M, Christiansen G, Stensballe A, Overgaard MT, Givskov M, Tolker-Nielsen T, Otzen DE, Nielsen PH.	Microbiologyopen	10.1002/mbo3.81	2013
Genetics	Microfluidic-based mini-metagenomics enables discovery of novel microbial lineages from complex environmental samples.	Yu FB, Blainey PC, Schulz F, Woyke T, Horowitz MA, Quake SR.	Elife	10.7554/elife.26580	2017
Genetics	Genomic Reclassification and Phenotypic Characterization of Pseudomonas putida Strains Deposited in Japanese Culture Collections.	Morohoshi T, Yaguchi N, Someya N.	Microbes Environ	10.1264/jsme2.me23019	2023
Metabolism	Involvement of type VI secretion system in secretion of iron chelator pyoverdine in Pseudomonas taiwanensis.	Chen WJ, Kuo TY, Hsieh FC, Chen PY, Wang CS, Shih YL, Lai YM, Liu JR, Yang YL, Shih MC.	Sci Rep	10.1038/srep32950	2016
Phylogeny	Gene Expression during BTEX Biodegradation by a Microbial Consortium Acclimatized to Unleaded Gasoline and a Pseudomonas putida Strain (HM346961) Isolated from It.	Morlett-Chavez JA, Ascacio-Martinez JA, Haskins WE, Acuna-Askar K, Barrera-Saldana HA	Pol J Microbiol	10.5604/01.3001.0010.7836	2017
Enzymology	Enhancement of the conversion of toluene by Pseudomonas putida F-1 using organic cosolvents.	Rodriguez M Jr, Klasson KT, Davison BH	Appl Biochem Biotechnol	10.1385/abab:91-93:1-9:195	2001

References

#2881	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 6899
#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 )
#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 .
#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 )
#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 )

Content

About us

Pseudomonas putida (DSM 6899, ATCC 700007, JCM 31910)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000016865

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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