Stutzerimonas stutzeri (DSM 10701, JM300, IAM 15110)

Name: Stutzerimonas stutzeri (DSM 10701, JM300, IAM 15110)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13001

Type strain

Strain Designation JM300

Culture col. no. DSM 10701 JM300 IAM 15110 JCM 21571

NCBI tax ID(s) 316

Special Collections DSMZ JCM

History DSMZ <- E. Moore, GBF Braunschweig <- G. J. Stewart <- B. A. Bryan JCM <-- IAM 15110 <-- DSM 10701 <-- E. Moore <-- G. J. Stewart <-- B. A. Bryan.

Links

Stutzerimonas stutzeri JM300 is a bacterium that was isolated from anaerobic enrichment from soil.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 48860

DSM 10701,JCM 21571,IAM 15110

@ref 20215

Last LPSN update 2026-05-29 08:27:56

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Stutzerimonas

Species Stutzerimonas stutzeri

Full scientific name Stutzerimonas stutzeri (Lehmann and Neumann 1896) Lalucat et al. 2022

Synonyms (2)

"Bacterium stutzeri"
Pseudomonas stutzeri

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.5
125439	negative	98.652

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
4044	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
4044	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
4044	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

Culture temp

@ref	Growth	Type	Temperature (°C)
4044	positive	growth	28
4044	positive	growth	30
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	91.652

Spore formation

@ref	Spore formation	Confidence
125439		99.852

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
4044	+	-	-	-	-	-	-	-	+	-	+	+	-	+	+	+	-	+	+	-	+
4044	+	-	-	-	-	-	-	-	+	-	+	+	-	+	+	+	-	+	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Laboratory	#Lab enrichment
#Environmental	#Terrestrial	#Soil
#Condition	#Anoxic (anaerobic)	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
4044	anaerobic enrichment from soil	California	USA	USA	North America
67770	Soil	CA	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
4044	yes, in single cases	1	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	ASM27916v1 assembly for Stutzerimonas stutzeri DSM 10701	complete	GCA_000279165	1123519.7	2519899778	1123519	74.58

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Pseudomonas stutzeri 16S rRNA gene, partial sequence	U58661	1344		316
20218	P.stutzeri 16S ribosomal RNA gene	X98607	1492		316

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM27916v1 assembly for Stutzerimonas stutzeri DSM 10701
BV-BRC: 1123519.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	82.76	no
125439	gram_stain	BacteriaNetⓘ	negative	98.65	no
125439	motility	BacteriaNetⓘ	yes	87.02	no
125439	spore_formation	BacteriaNetⓘ	no	99.85	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas stutzeri DSM 10701 DSM 10701
NCBI: GCA_000279165.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	no
125438	anaerobic	anaerobicⓘ	no	97.83	no
125438	aerobic	aerobicⓘ	yes	91.65	no
125438	spore-forming	spore-formingⓘ	no	89.12	no
125438	thermophilic	thermophileⓘ	no	97.47	yes
125438	flagellated	motile2+ⓘ	yes	88.39	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Decolorization and biodegradation of textile di-azo dye Acid Blue 113 by Pseudomonas stutzeri AK6.	Joshi AU, Hinsu AT, Kotadiya RJ, Rank JK, Andharia KN, Kothari RK.	3 Biotech	10.1007/s13205-020-02205-5	2020
Phylogeny	Comparative Genomics of Pseudomonas stutzeri Complex: Taxonomic Assignments and Genetic Diversity.	Li X, Yang Z, Wang Z, Li W, Zhang G, Yan H.	Front Microbiol	10.3389/fmicb.2021.755874	2021
Genetics	Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation.	Harada M, Ito K, Nakajima N, Yamamura S, Tomita M, Suzuki H, Amachi S.	G3 (Bethesda)	10.1534/g3.118.200978	2019
	Use of Taguchi design for optimization of diesel-oil biodegradation using consortium of Pseudomonas stutzeri, Cellulosimicrobium cellulans, Acinetobacter baumannii and Pseudomonas balearica isolated from tarball in Terengganu Beach, Malaysia.	Nkem BM, Halimoon N, Yusoff FM, Johari WLW.	J Environ Health Sci Eng	10.1007/s40201-022-00812-3	2022
Genetics	Comparative Genomic Analysis of Three Pseudomonas Species Isolated from the Eastern Oyster (Crassostrea virginica) Tissues, Mantle Fluid, and the Overlying Estuarine Water Column.	Pathak A, Stothard P, Chauhan A.	Microorganisms	10.3390/microorganisms9030490	2021
	Lighting the Path: Raman Spectroscopy's Journey Through the Microbial Maze.	Salbreiter M, Frempong SB, Even S, Wagenhaus A, Girnus S, Rosch P, Popp J.	Molecules	10.3390/molecules29245956	2024
Metabolism	First Glimpse into the Genomic Characterization of People from the Imperial Roman Community of Casal Bertone (Rome, First-Third Centuries AD).	De Angelis F, Romboni M, Veltre V, Catalano P, Martinez-Labarga C, Gazzaniga V, Rickards O.	Genes (Basel)	10.3390/genes13010136	2022
Genetics	Complete genome sequencing and comparative genome characterization of the lignocellulosic biomass degrading bacterium Pseudomonas stutzeri MP4687 from cattle rumen.	Patel M, Patel HM, Vohra N, Dave S.	Biotechnol Rep (Amst)	10.1016/j.btre.2020.e00530	2020
	Investigation and Assessment for an effective approach to the reclamation of Polycyclic Aromatic Hydrocarbon (PAHs) contaminated site: SIN Bagnoli, Italy.	Guarino C, Zuzolo D, Marziano M, Conte B, Baiamonte G, Morra L, Benotti D, Gresia D, Stacul ER, Cicchella D, Sciarrillo R.	Sci Rep	10.1038/s41598-019-48005-7	2019
Phylogeny	Siamese Networks for Clinically Relevant Bacteria Classification Based on Raman Spectroscopy.	Contreras J, Mostafapour S, Popp J, Bocklitz T.	Molecules	10.3390/molecules29051061	2024
Genetics	Comparative genomics of Stutzerimonas balearica (Pseudomonas balearica): diversity, habitats, and biodegradation of aromatic compounds.	Salva-Serra F, Perez-Pantoja D, Donoso RA, Jaen-Luchoro D, Fernandez-Juarez V, Engstrom-Jakobsson H, Moore ERB, Lalucat J, Bennasar-Figueras A.	Front Microbiol	10.3389/fmicb.2023.1159176	2023
	Complete genome sequence of Pseudomonas stutzeri strain RCH2 isolated from a Hexavalent Chromium [Cr(VI)] contaminated site.	Chakraborty R, Woo H, Dehal P, Walker R, Zemla M, Auer M, Goodwin LA, Kazakov A, Novichkov P, Arkin AP, Hazen TC.	Stand Genomic Sci	10.1186/s40793-017-0233-7	2017
	Draft Genome of the Nitrogen-Fixing Bacterium Pseudomonas stutzeri Strain KOS6 Isolated from Industrial Hydrocarbon Sludge.	Grigoryeva TV, Laikov AV, Naumova RP, Manolov AI, Larin AK, Karpova IY, Semashko TA, Alexeev DG, Kostryukova ES, Muller R, Govorun VM.	Genome Announc	10.1128/genomea.00072-12	2013
Metabolism	[Isolation and characterization of the salt-tolerant aerobic denitrifying bacterial strain A-13].	Han Y, Zhang W, Zhuang Z, Zhou Z, Xu X, Li M.	Wei Sheng Wu Xue Bao		2013
Enzymology	Identification of 76 novel B1 metallo-beta-lactamases through large-scale screening of genomic and metagenomic data.	Berglund F, Marathe NP, Osterlund T, Bengtsson-Palme J, Kotsakis S, Flach CF, Larsson DGJ, Kristiansson E.	Microbiome	10.1186/s40168-017-0353-8	2017
	Characterization of the endophytic bacterial community of Bituminaria bituminosa plant grown in vitro and its interaction with the plant extract.	Chiellini C, De Leo M, Longo V, Pieracci Y, Pistelli L.	Front Plant Sci	10.3389/fpls.2022.1076573	2022
	Determining Roles of Accessory Genes in Denitrification by Mutant Fitness Analyses.	Vaccaro BJ, Thorgersen MP, Lancaster WA, Price MN, Wetmore KM, Poole FL, Deutschbauer A, Arkin AP, Adams MW, Adams MW.	Appl Environ Microbiol	10.1128/aem.02602-15	2016
Metabolism	Soil HONO emissions at high moisture content are driven by microbial nitrate reduction to nitrite: tackling the HONO puzzle.	Wu D, Horn MA, Behrendt T, Muller S, Li J, Cole JA, Xie B, Ju X, Li G, Ermel M, Oswald R, Frohlich-Nowoisky J, Hoor P, Hu C, Liu M, Andreae MO, Poschl U, Cheng Y, Su H, Trebs I, Weber B, Sorgel M.	ISME J	10.1038/s41396-019-0379-y	2019
Metabolism	The HigB/HigA toxin/antitoxin system of Pseudomonas aeruginosa influences the virulence factors pyochelin, pyocyanin, and biofilm formation.	Wood TL, Wood TK.	Microbiologyopen	10.1002/mbo3.346	2016
Genetics	Phylogenomics and systematics in Pseudomonas.	Gomila M, Pena A, Mulet M, Lalucat J, Garcia-Valdes E.	Front Microbiol	10.3389/fmicb.2015.00214	2015
	Highly different levels of natural transformation are associated with genomic subgroups within a local population of Pseudomonas stutzeri from soil.	Sikorski J, Teschner N, Wackernagel W.	Appl Environ Microbiol	10.1128/aem.68.2.865-873.2002	2002
Enzymology	Pseudomonas stutzeri nitrite reductase gene abundance in environmental samples measured by real-time PCR.	Gruntzig V, Nold SC, Zhou J, Tiedje JM.	Appl Environ Microbiol	10.1128/aem.67.2.760-768.2001	2001
	Clonal population structure of Pseudomonas stutzeri, a species with exceptional genetic diversity.	Rius N, Fuste MC, Guasp C, Lalucat J, Loren JG.	J Bacteriol	10.1128/jb.183.2.736-744.2001	2001
Metabolism	Expression of nirK and nirS genes in two strains of Pseudomonas stutzeri harbouring both types of NO-forming nitrite reductases.	Wittorf L, Jones CM, Bonilla-Rosso G, Hallin S	Res Microbiol	10.1016/j.resmic.2018.04.010	2018
Genetics	Genome sequence of Pseudomonas stutzeri strain JM300 (DSM 10701), a soil isolate and model organism for natural transformation.	Busquets A, Pena A, Gomila M, Bosch R, Nogales B, Garcia-Valdes E, Lalucat J, Bennasar A	J Bacteriol	10.1128/JB.01257-12	2012
Metabolism	Posttranslational modification of myxobacterial carrier protein domains in Pseudomonas sp. by an intrinsic phosphopantetheinyl transferase.	Gross F, Gottschalk D, Muller R	Appl Microbiol Biotechnol	10.1007/s00253-004-1836-7	2005
	Impact of mutS inactivation on foreign DNA acquisition by natural transformation in Pseudomonas stutzeri.	Meier P, Wackernagel W	J Bacteriol	10.1128/JB.187.1.143-154.2005	2005
Metabolism	DNA restriction is a barrier to natural transformation in Pseudomonas stutzeri JM300.	Berndt C, Meier P, Wackernagel W	Microbiology (Reading)	10.1099/mic.0.26033-0	2003
Enzymology	Cyclohexadienyl dehydrogenase from Pseudomonas stutzeri exemplifies a widespread type of tyrosine-pathway dehydrogenase in the TyrA protein family.	Xie G, Bonner CA, Jensen RA	Comp Biochem Physiol C Toxicol Pharmacol	10.1016/s0742-8413(99)00090-0	2000
Genetics	The potential for intraspecific horizontal gene exchange by natural genetic transformation: sexual isolation among genomovars of Pseudomonas stutzeri.	Lorenz MG, Sikorski J	Microbiology (Reading)	10.1099/00221287-146-12-3081	2000
Genetics	Type IV pilus genes pilA and pilC of Pseudomonas stutzeri are required for natural genetic transformation, and pilA can be replaced by corresponding genes from nontransformable species.	Graupner S, Frey V, Hashemi R, Lorenz MG, Brandes G, Wackernagel W	J Bacteriol	10.1128/JB.182.8.2184-2190.2000	2000
Metabolism	Natural genetic transformation of Pseudomonas stutzeri in a non-sterile soil.	Sikorski J, Graupner S, Lorenz MG, Wackernagel W	Microbiology (Reading)	10.1099/00221287-144-2-569	1998
Phylogeny	The naturally transformable marine bacterium WJT-1C formally identified as "Vibrio" is a pseudomonad.	Frischer ME, Williams HG, Bennison B, Drake GR, Balkwill DL, Paul JH	Curr Microbiol	10.1007/s002849900115	1996
	Inducible cell lysis system for the study of natural transformation and environmental fate of DNA released by cell death.	Kloos DU, Stratz M, Guttler A, Steffan RJ, Timmis KN	J Bacteriol	10.1128/jb.176.23.7352-7361.1994	1994
Enzymology	Structure and regulation of the carAB operon in Pseudomonas aeruginosa and Pseudomonas stutzeri: no untranslated region exists.	Kwon DH, Lu CD, Walthall DA, Brown TM, Houghton JE, Abdelal AT	J Bacteriol	10.1128/jb.176.9.2532-2542.1994	1994
Enzymology	Isolation, sequencing and mutational analysis of a gene cluster involved in nitrite reduction in Paracoccus denitrificans.	de Boer AP, Reijnders WN, Kuenen JG, Stouthamer AH, van Spanning RJ	Antonie Van Leeuwenhoek	10.1007/BF00871635	1994
Enzymology	Characterization of the structural gene encoding a copper-containing nitrite reductase and homology of this gene to DNA of other denitrifiers.	Ye RW, Fries MR, Bezborodnikov SG, Averill BA, Tiedje JM	Appl Environ Microbiol	10.1128/aem.59.1.250-254.1993	1993
Enzymology	Isolation and characterization of a nitrite reductase gene and its use as a probe for denitrifying bacteria.	Smith GB, Tiedje JM	Appl Environ Microbiol	10.1128/aem.58.1.376-384.1992	1992
Enzymology	Purification of cytochrome cd1 nitrite reductase from Pseudomonas stutzeri JM300 and reconstitution with native and synthetic heme d1.	Weeg-Aerssens E, Wu WS, Ye RW, Tiedje JM, Chang CK	J Biol Chem	S0021-9258(20)89474-5	1991
Metabolism	Exchange of chromosomal markers by natural transformation between the soil isolate, Pseudomonas stutzeri JM300, and the marine isolate, Pseudomonas stutzeri strain ZoBell.	Stewart GJ, Sinigalliano CD	Antonie Van Leeuwenhoek	10.1007/BF00582115	1991
Metabolism	Steady-state nitric oxide concentrations during denitrification.	Goretski J, Zafiriou OC, Hollocher TC	J Biol Chem	S0021-9258(19)38430-3	1990
Phylogeny	Genome organization of Pseudomonas stutzeri and resulting taxonomic and evolutionary considerations.	Ginard M, Lalucat J, Tummler B, Romling U	Int J Syst Bacteriol	10.1099/00207713-47-1-132	1997
Phylogeny	Pseudomonas songnenensis sp. nov., isolated from saline and alkaline soils in Songnen Plain, China.	Zhang L, Pan Y, Wang K, Zhang X, Zhang S, Fu X, Zhang C, Jiang J.	Antonie Van Leeuwenhoek	10.1007/s10482-014-0365-3	2015
Phylogeny	Pseudomonas zhaodongensis sp. nov., isolated from saline and alkaline soils.	Zhang L, Pan Y, Wang K, Zhang X, Zhang C, Zhang S, Fu X, Jiang J.	Int J Syst Evol Microbiol	10.1099/ijs.0.000057	2015

References

#4044	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10701
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#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 )
#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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Stutzerimonas stutzeri (DSM 10701, JM300, IAM 15110)

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

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000279165

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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