Name: Pseudomonas composti C2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24434

Type strain:

Species: Pseudomonas composti

Strain Designation: C2

Culture col. no.: DSM 25648, CCUG 59231, CECT 7516

Strain history: <- CECT <- J. F. Fernández-Garayzábal, Departamento Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, Madrid; C2 <- A. Gibello and A. I. Vela, Departamento Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, Madrid

NCBI tax ID(s): 658457 (species)

SI-ID 377457

CECT 7516, CCUG 59231, LMG 28942, DSM 25648

Other strains from Pseudomonas composti

P. composti C5, DSM 25649, CECT 7517
P. composti CCUG 59195, CECT C2-B

Section

Pseudomonas composti C2 is an aerobe, mesophilic, motile bacterium that was isolated from compost made with vegetable and animal waste.

motile
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 composti**
	Full Scientific Name (LPSN)	Pseudomonas composti Gibello et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.997

[Ref.: #69480]	Motility	yes Confidence in %99.18

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21137]

Culture medium

REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)

[Ref.: #21137]

Culture medium growth

[Ref.: #21137]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21137]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21137]			growth	28 °C
[Ref.: #61878]			growth	30 °C

[Ref.: #21137]	Temperature range	mesophilic
[Ref.: #61878]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #61878]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.908

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[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]	esculin ChEBI	-	hydrolysis	* 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.: #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.: #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.: #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.: #68369]	arginine dihydrolase	+	3.5.3.6	* from API 20NE
[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.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[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.: #21137]	24675	-	-	-	+	-	-	-	-	+	-	+	+	-	-	+	+	-	+	+	-	+
[Ref.: #61878]	8576	-	-	-	+	-	-	-	-	+	-	+	+	-	-	+	+	-	+	+	-	+
[Ref.: #21137]	22917	-	-	-	+	-	-	-	-	+	-	+	+	-	-	+	+	-	+	+	-	+

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.: #61878]	4472	-	+	+	+	-	+	-	-	+	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #21137]	Sample type/isolated from	compost made with vegetable and animal waste
[Ref.: #21137]	Geographic location (country and/or sea, region)	Province of Cuenca
[Ref.: #21137]	Country	Spain
[Ref.: #21137]	Country ISO 3 Code	ESP
[Ref.: #21137]	Continent	Europe

[Ref.: #61878]	Sample type/isolated from	Compost
[Ref.: #61878]	Sampling date	2009-02-01
[Ref.: #61878]	Geographic location (country and/or sea, region)	Madrid
[Ref.: #61878]	Country	Spain
[Ref.: #61878]	Country ISO 3 Code	ESP
[Ref.: #61878]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	#Composting
#Host	#Other	#Decomposing animal
#Host	#Plants	#Decomposing plant
#Engineered	#Waste	#Solid animal waste

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FN429930 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	69
Soil Samples	8
Animal Samples	56
Plant Samples	32
Total Samples	165

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

[Ref.: #21137]

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.: #21137]	Pseudomonas composti partial 16S rRNA gene, type strain C2, culture collection CECT:7516	FN429930	1425	ENA	658457 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudomonas composti CCUG 59231	GCA_900115475	scaffold	GenBank	658457 tax ID	*
[Ref.: #66792]	Pseudomonas composti strain CCUG 59231	658457.4	wgs	PATRIC	658457 tax ID	*
[Ref.: #66792]	Pseudomonas composti CECT 7516	2663762774	draft	JGI IMG/M	658457 tax ID	*

[Ref.: #21137]

GC-content

61.5 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 composti CCUG 59231 NCBI: GCA_900115475.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudomonas composti CCUG 59231 NCBI: GCA_900115475.1
[Ref.: #69480]	motile	yes	91.367	no
[Ref.: #69480]	flagellated	yes	92.561	no
[Ref.: #69480]	gram-positive	no	98.573	no
[Ref.: #69480]	anaerobic	no	98.284	yes
[Ref.: #69480]	aerobic	yes	94.662	no
[Ref.: #69480]	halophile	no	77.925	no
[Ref.: #69480]	spore-forming	no	95.5	no
[Ref.: #69480]	glucose-ferment	no	90.622	no
[Ref.: #69480]	thermophile	no	99.76	yes
[Ref.: #69480]	glucose-util	yes	91.44	yes

Availability in culture collections External links

[Ref.: #21137]

Culture collection no.

DSM 25648, CCUG 59231, CECT 7516

[Ref.: #88313]

SI-ID 377457

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudomonas composti sp. nov., isolated from compost samples.	Gibello A, Vela AI, Martin M, Mengs G, Alonso PZ, Garbi C, Fernandez-Garayzabal JF	Int J Syst Evol Microbiol	10.1099/ijs.0.027086-0	2011	*

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 )

#21137

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25648

#61878 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59231

#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) .

#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) .

#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 )

#88313

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-ID377457.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Pseudomonas composti in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Pseudomonas composti CCUG 59231

Pseudomonas composti CCUG 59231

Change proposal

Change proposal