Name: Pseudomonas marincola DSM 23972
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13162

Type strain:

Species: Pseudomonas marincola

Culture col. no.: DSM 23972, JCM 14761, NRIC 0729, CCUG 59022, KMM 3042

Strain history: M. Uchino <-- L. A. Romanenko KMM 3042.

NCBI tax ID(s): 437900 (species)

SI-ID 343440

JCM 14761, LMG 24752

Section

Pseudomonas marincola DSM 23972 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from deep-sea brittle star.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pseudomonadales*
	Family	*Pseudomonadaceae*
	Genus	*Pseudomonas*
	Species	**Pseudomonas marincola**
	Full Scientific Name (LPSN)	Pseudomonas marincola Romanenko et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32381]	Gram stain	negative

[Ref.: #32381]	Cell length	2.15 µm

[Ref.: #32381]	Cell width	0.5 µm

[Ref.: #32381]	Cell shape	rod-shaped

[Ref.: #32381]	Motility	yes

[Ref.: #32381]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17463]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #17463]

Culture medium growth

[Ref.: #17463]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17463]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17463]	growth	28 °C
[Ref.: #32381]	growth	05-37 °C
[Ref.: #32381]	optimum	26.5 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #17463]	Temperature range	mesophilic
[Ref.: #32381]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32381]			optimum	7.5
[Ref.: #32381]			growth	5.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32381]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32381]		NaCl		growth	0-8	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32381]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #32381]	4-hydroxybenzoate ChEBI	+	carbon source
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #32381]	alanine ChEBI	+	carbon source
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #32381]	decanoate ChEBI	+	carbon source
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #32381]	itaconate ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #32381]	lactate ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #32381]	proline ChEBI	+	carbon source
[Ref.: #32381]	propionate ChEBI	+	carbon source
[Ref.: #32381]	sodium citrate ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #32381]		hydrogen sulfide ChEBI	yes
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE, API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #32381]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #32381]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #61805]	8567	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+	+	+	+
[Ref.: #17463]	23028	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	+	+	+	+

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #61805]	4469	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #17463]	Sample type/isolated from	deep-sea brittle star
[Ref.: #17463]	Country	Fiji
[Ref.: #17463]	Country ISO 3 Code	FJI
[Ref.: #17463]	Continent	Australia and Oceania

[Ref.: #61805]	Sample type/isolated from	Ophiuran specimen collected at 480m depth
[Ref.: #61805]	Sampling date	2007
[Ref.: #61805]	Geographic location (country and/or sea, region)	Fiji Sea
[Ref.: #61805]	Country	Pacific Ocean

[Ref.: #67770]	Sample type/isolated from	Ophiuran specimen collected from the Fiji Sea at a depth of 480 m
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Echinodermata

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB301071 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	584
Soil Samples	204
Animal Samples	856
Plant Samples	51
Total Samples	1695

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #17463]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #17463]	Pseudomonas marincola gene for 16S rRNA, partial sequence	AB301071	1438	ENA	437900 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pseudomonas marincola JCM 14761	GCA_900116605	scaffold	GenBank	437900 tax ID
[Ref.: #66792]	Pseudomonas marincola strain JCM 14761	437900.12	wgs	PATRIC	437900 tax ID	*

[Ref.: #17463]	GC-content	57.9 mol%	high performance liquid chromatography (HPLC)
[Ref.: #32381]	GC-content	57.9 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudomonas marincola strain JCM 14761 PATRIC: 437900.12
[Ref.: #69480]	gram-positive	no	98.524	no
[Ref.: #69480]	anaerobic	no	98.79	yes
[Ref.: #69480]	halophile	no	60.784	no
[Ref.: #69480]	spore-forming	no	97.342	no
[Ref.: #69480]	glucose-util	yes	70.662	yes
[Ref.: #69480]	aerobic	yes	95.545	no
[Ref.: #69480]	flagellated	yes	85.766	no
[Ref.: #69480]	motile	yes	91.547	yes
[Ref.: #69480]	thermophile	no	99.583	yes
[Ref.: #69480]	glucose-ferment	no	90.71	yes

Availability in culture collections External links

[Ref.: #17463]

Culture collection no.

DSM 23972, JCM 14761, NRIC 0729, CCUG 59022, KMM 3042

[Ref.: #82370]

SI-ID 343440

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudomonas glareae sp. nov., a marine sediment-derived bacterium with antagonistic activity.	Romanenko LA, Tanaka N, Svetashev VI, Mikhailov VV	Arch Microbiol	10.1007/s00203-015-1103-6	2015	*
Phylogeny	Pseudomonas taeanensis sp. nov., isolated from a crude oil-contaminated seashore.	Lee DH, Moon SR, Park YH, Kim JH, Kim H, Parales RE, Kahng HY	Int J Syst Evol Microbiol	10.1099/ijs.0.018093-0	2010	*
Phylogeny	Pseudomonas marincola sp. nov., isolated from marine environments.	Romanenko LA, Uchino M, Tebo BM, Tanaka N, Frolova GM, Mikhailov VV	Int J Syst Evol Microbiol	10.1099/ijs.0.65406-0	2008	*

References

#17463

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23972

#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 )

#32381

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28608 (see below)

#61805 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59022

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#82370

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID343440.1 )

#28608

IJSEM 706 2008 ( DOI 10.1099/ijs.0.65406-0 , PubMed 18319482 )

* These data were automatically processed and therefore are not curated

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Pseudomonas marincola strain JCM 14761

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