Name: Pseudomonas sagittaria CC-OPY-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24439

Type strain:

Species: Pseudomonas sagittaria

Strain Designation: CC-OPY-1

Culture col. no.: DSM 27945, BCRC 80399, JCM 18195

Strain history: C.-C. Young CC-OPY-1.

NCBI tax ID(s): 1135990 (species)

SI-ID 399979

DSM 27945

Section

Pseudomonas sagittaria CC-OPY-1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from oil-contaminated soil.

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 sagittaria**
	Full Scientific Name (LPSN)	Pseudomonas sagittaria Lin et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30834]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.996

[Ref.: #30834]	Cell length	1.75 µm

[Ref.: #30834]	Cell width	0.6 µm

[Ref.: #30834]	Cell shape	rod-shaped

[Ref.: #30834]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %98.863

[Ref.: #30834]

Pigment production

yes

Multimedia content

[Ref.: #21142]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21142]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #21142]

Culture medium growth

[Ref.: #21142]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21142]

Culture medium composition

expand / minimize

[Ref.: #21142]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #21142]

Culture medium growth

[Ref.: #21142]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21142]

Culture medium composition

expand / minimize

[Ref.: #21142]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #21142]

Culture medium growth

[Ref.: #21142]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21142]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #21142]	growth	28 °C
[Ref.: #30834]	growth	25-37 °C
[Ref.: #30834]	optimum	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #21142]	Temperature range	mesophilic
[Ref.: #30834]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30834]			optimum	7
[Ref.: #30834]			growth	5.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30834]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.903

[Ref.: #21142]

Name of produced compound

siderophore

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30834]		NaCl		growth	0-5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30834]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[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.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #30834]	L-arabitol ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #30834]	maltose ChEBI	+	carbon source
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #30834]	mannose ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #30834]	rhamnose ChEBI	+	carbon source
[Ref.: #30834]	ribitol ChEBI	+	carbon source
[Ref.: #30834]	sucrose ChEBI	+	carbon source
[Ref.: #30834]	trehalose 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.: #30834]		indole ChEBI	yes
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #30834]		indole ChEBI	+
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #30834]	acid phosphatase	+	3.1.3.2
[Ref.: #30834]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #30834]	catalase	+	1.11.1.6
[Ref.: #30834]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

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.: #21142]	25218	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+
[Ref.: #21142]	23281	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+

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

[Ref.: #21142]	Sample type/isolated from	oil-contaminated soil
[Ref.: #21142]	Geographic location (country and/or sea, region)	Kaohsiung City
[Ref.: #21142]	Country	Taiwan
[Ref.: #21142]	Country ISO 3 Code	TWN
[Ref.: #21142]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Oil-contaminated soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Taichung
[Ref.: #67770]	Country	Taiwan
[Ref.: #67770]	Country ISO 3 Code	TWN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Contamination	#Oil (Fuel)
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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

[Ref.: #21142]

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.: #21142]	Pseudomonas sagittaria strain CC-OPY-1 16S ribosomal RNA gene, partial sequence	JQ277453	1535	ENA	1135990 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pseudomonas sagittaria JCM 18195	GCA_900115715	scaffold	GenBank	1135990 tax ID
[Ref.: #66792]	Pseudomonas sagittaria strain JCM 18195	1135990.3	wgs	PATRIC	1135990 tax ID	*
[Ref.: #66792]	Pseudomonas sagittaria JCM 18195	2663762798	draft	JGI IMG/M	1135990 tax ID	*

[Ref.: #30834]

GC-content

68.4 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Pseudomonas sagittaria JCM 18195 NCBI: GCA_900115715.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudomonas sagittaria strain JCM 18195 PATRIC: 1135990.3
[Ref.: #69480]	motile	yes	90.371	yes
[Ref.: #69480]	flagellated	yes	88.97	no
[Ref.: #69480]	gram-positive	no	98.434	yes
[Ref.: #69480]	anaerobic	no	98.787	yes
[Ref.: #69480]	aerobic	yes	91.287	yes
[Ref.: #69480]	halophile	no	66.359	no
[Ref.: #69480]	spore-forming	no	95.566	no
[Ref.: #69480]	glucose-util	yes	73.992	no
[Ref.: #69480]	thermophile	no	99.177	yes
[Ref.: #69480]	glucose-ferment	no	91.217	yes

Availability in culture collections External links

[Ref.: #21142]

Culture collection no.

DSM 27945, BCRC 80399, JCM 18195

[Ref.: #88317]

SI-ID 399979

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudomonas sagittaria sp. nov., a siderophore-producing bacterium isolated from oil-contaminated soil.	Lin SY, Hameed A, Liu YC, Hsu YH, Lai WA, Chen WM, Shen FT, Young CC	Int J Syst Evol Microbiol	10.1099/ijs.0.045567-0	2012	*
Phylogeny	Pseudomonas oryzae sp. nov. isolated from a paddy soil in South China.	Yu Z, Chang M, Wu M, Yang G, Zhou S, Zhuang L	Arch Microbiol	10.1007/s00203-013-0930-6	2013	*
Phylogeny	Pseudomonas guangdongensis sp. nov., isolated from an electroactive biofilm, and emended description of the genus Pseudomonas Migula 1894.	Yang G, Han L, Wen J, Zhou S	Int J Syst Evol Microbiol	10.1099/ijs.0.054676-0	2013	*
Phylogeny	Pseudomonas oryzagri sp. nov., isolated from a rice field soil.	Huq MA, Lee SY, Ma J, Rahman MM, Rahman MS, Park JH, Akter S	Int J Syst Evol Microbiol	10.1099/ijsem.0.005534	2022	*
Phylogeny	Isolation of Pseudomonas aromaticivorans sp. nov from a hydrocarbon-contaminated groundwater capable of degrading benzene-, toluene-, m- and p-xylene under microaerobic conditions.	Banerjee S, Bedics A, Toth E, Kriszt B, Soares AR, Boka K, Tancsics A	Front Microbiol	10.3389/fmicb.2022.929128	2022	*

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 )

#21142

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27945

#30834

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 #27164 (see below)

#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 .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#88317

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-ID399979.1 )

#27164

IJSEM 2410 2013 ( DOI 10.1099/ijs.0.045567-0 , PubMed 23178721 )

* These data were automatically processed and therefore are not curated

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Pseudomonas sagittaria JCM 18195

Pseudomonas sagittaria strain JCM 18195

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