Pseudomonas putida (CIP 55.5, ATCC 795, IAM 1505)

Name: Pseudomonas putida (CIP 55.5, ATCC 795, IAM 1505)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134979

Type strain

Culture col. no. CIP 55.5 ATCC 795 IAM 1505 NCDO 754 NCIMB 8176 5 more

NCBI tax ID(s) 303

Special Collections CCUG JCM CIP

History IAM 1505 <-- ATCC 795 <-- B. W. Hammer ("Pseudomonas cyanogena"). CIP <- 1955, NCIB, Pseudomonas mildenbergii <- ATCC <- B.W. Hammer, Pseudomonas cyanogena

Links

Pseudomonas putida CIP 55.5 is an obligate aerobe, mesophilic, Gram-negative prokaryote of the family Pseudomonadaceae.

Gram-negative motile rod-shaped obligate aerobe mesophilic genome sequence

Name and taxonomic classification

SI-ID 45460

ATCC 795,NRRL B-21,NRRL B-252,CCUG 2082,NCIB 8176,IFO 3773,IAM 1505,NCDO 754,NCIMB 8176,CIP 55.5,LMD 52.46,NCCB 52046,NBRC 3773,BCRC 11016,CCRC 11016,NCIM 2175,CDBB 93,JCM 20187

@ref 20215

Last LPSN update 2025-12-16 10:02:11

Domain Pseudomonadati

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
12904	P. putida F1, PpF1, DSM 6899, ATCC 700007, JCM 31910, ...
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
100159	P. putida ST033293(HKI),
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
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	Cell shape	Confidence
125439	negative		99.5
125439			92.1
125438	negative		99
33684	negative	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Composition	Medium link
33684	MEDIUM 3 - Columbia agar	Columbia agar (39.000 g);distilled water (1000.000 ml)
33684	CIP Medium 72		Medium recipe at CIP
33684	CIP Medium 3		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
33684	positive	growth	30	mesophilic
67770	positive	growth	25	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
33684	obligate aerobe
125438	aerobe	92.118
125439	obligate aerobe	92.3

Spore formation

@ref	Spore formation	Confidence
125439		99.5

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
33684	17632 ChEBI	nitrate	+	reduction
33684	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
33684	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
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
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
33684	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
33684	oxidase	+
68382	trypsin	+	3.4.21.4	from API zym
33684	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
33684	-	+	+	+	-	+	-	-	+	-	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Dairy product
#Host Body Product	#Fluids	#Milk

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
33684		Iowa	USA	USA	North America
44479	Blue milk	Iowa	USA	USA	North America
67770	Blue milk
33684	Food, Blue milk	Iowa	United States of America	USA	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
33684	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
67770	ASM593054v1 assembly for Pseudomonas putida NRRL B-252	contig	GCA_005930545	303.611	303	60.95
124043	PDT001638956.1 assembly for Pseudomonas putida JCM 20187	contig	GCA_029748605		303	28

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudomonas putida NRRL B-252
NCBI: GCA_005930545

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.50	no
125439	motility	BacteriaNetⓘ	yes	92.10	no
125439	gram_stain	BacteriaNetⓘ	negative	99.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	92.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas putida NRRL B-252
NCBI: GCA_005930545.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	99.10	yes
125438	aerobic	aerobicⓘ	yes	92.12	yes
125438	spore-forming	spore-formingⓘ	no	87.47	no
125438	thermophilic	thermophileⓘ	no	98.99	yes
125438	flagellated	motile2+ⓘ	yes	87.72	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Biochemical-genetic characterization and distribution of OXA-22, a chromosomal and inducible class D beta-lactamase from Ralstonia (Pseudomonas) pickettii.	Nordmann P, Poirel L, Kubina M, Casetta A, Naas T.	Antimicrob Agents Chemother	10.1128/aac.44.8.2201-2204.2000	2000
	Polyphenols as Inhibitors of Antibiotic Resistant Bacteria-Mechanisms Underlying Rutin Interference with Bacterial Virulence.	Ivanov M, Novovic K, Malesevic M, Dinic M, Stojkovic D, Jovcic B, Sokovic M.	Pharmaceuticals (Basel)	10.3390/ph15030385	2022
Metabolism	Isolation of Bdellovibrio sp. from soil samples in Mexico and their potential applications in control of pathogens.	Oyedara OO, De Luna-Santillana EJ, Olguin-Rodriguez O, Guo X, Mendoza-Villa MA, Menchaca-Arredondo JL, Elufisan TO, Garza-Hernandez JA, Garcia Leon I, Rodriguez-Perez MA.	Microbiologyopen	10.1002/mbo3.382	2016
Enzymology	Cloning, sequencing, and expression in Escherichia coli of the D-hydantoinase gene from Pseudomonas putida and distribution of homologous genes in other microorganisms.	LaPointe G, Viau S, LeBlanc D, Robert N, Morin A.	Appl Environ Microbiol	10.1128/aem.60.3.888-895.1994	1994
Metabolism	Extracellular nuclease activity of fish spoilage bacteria, fish pathogens, and related species.	Sadovski AY, Levin RE.	Appl Microbiol	10.1128/am.17.6.787-789.1969	1969
Enzymology	NADP(+)-dependent D-threonine dehydrogenase from Pseudomonas cruciviae IFO 12047.	Misono H, Kato I, Packdibamrung K, Nagata S, Nagasaki S.	Appl Environ Microbiol	10.1128/aem.59.9.2963-2968.1993	1993
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
	Interesterification of butter fat by partially purified extracellular lipases from Pseudomonas putida, Aspergillus niger and Rhizopus oryzae.	Pabai F, Kermasha S, Morin A	World J Microbiol Biotechnol	10.1007/BF00361014	1995

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 )
#33684	Collection of Institut Pasteur ; Curators of the CIP; CIP 55.5
#44479	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 2082
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68382	Automatically annotated from API zym .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 putida (CIP 55.5, ATCC 795, IAM 1505)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_005930545

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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