Name: Pseudomonas synxantha DSM 18928
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13065

Type strain:

Species: Pseudomonas synxantha

Culture col. no.: DSM 18928, ATCC 9890, CIP 59.22, LMG 2335, NCDO 757, NCIMB 8178, NCTC 10969, CCUG 50208, NCTC 10696, LMG 2190, NRRL B-780, JCM 11599, CCEB 293, IAM 12356, IFO 3913, NBRC 3913

Strain history: CIP <- 1959, NCIB, Pseudomonas fluorescens <- 1950 ATCC, R.S. Breed, Cornell Univ., New-York, USA, Flavobacterium synthaxum

NCBI tax ID(s): 1215118 (strain), 47883 (species)

SI-ID 92404

LMG 2190, ATCC 9890, IAM 12356, IFO 3906, IFO 3913, LMG 2335, NCDO 757, NCIB 8178, NCTC 10696, NRRL B-780, NCIMB 8178, CIP 59.22, JCM 11599, NBRC 3913, CFBP 5591, NBRC 3906, BCRC 11022, CCRC 11022, CCUG 50208, CCUG 561, KCTC 12499, NRRL B-1645, DSM 18928, CGMCC 1.3353

Other strains from Pseudomonas synxantha

P. synxantha G, DSM 13080
P. synxantha CCUG 54472

Section

Pseudomonas synxantha DSM 18928 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from cream.

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 synxantha**
	Full Scientific Name (LPSN)	Pseudomonas synxantha (Ehrenberg 1840) Holland 1920 (Approved Lists 1980)

Synonym

"Vibrio synxanthus"

Information on morphological and physiological properties Morphology

[Ref.: #123400]	Gram stain	negative

[Ref.: #123400]	Cell shape	rod-shaped

[Ref.: #123400]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7789]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)

[Ref.: #7789]

Culture medium growth

[Ref.: #7789]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7789]

Culture medium composition

expand / minimize

[Ref.: #37601]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #37601]

Culture medium growth

[Ref.: #37601]

Culture medium composition

expand / minimize

[Ref.: #123400]

Culture medium

CIP Medium 3

[Ref.: #123400]

Culture medium growth

[Ref.: #123400]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #123400]

Culture medium

CIP Medium 72

[Ref.: #123400]

Culture medium growth

[Ref.: #123400]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7789]	growth	30 °C
[Ref.: #37601]	growth	30 °C
[Ref.: #58786]	growth	28 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #7789]	Temperature range	mesophilic
[Ref.: #37601]	Temperature range	mesophilic
[Ref.: #58786]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #58786]	Oxygen tolerance	aerobe
[Ref.: #123400]	Oxygen tolerance	obligate aerobe

[Ref.: #123400]

Ability of spore formation

	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.: #123400]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #123400]	nitrite ChEBI	-	reduction
[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.: #123400]		indole 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.: #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.: #123400]	catalase	+	1.11.1.6
[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.: #123400]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123400]	urease	+	3.5.1.5
[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.: #7789]	23021	+	-	-	+	-	-	+	-	+	+	+	+	+	-	+	+	-	+	+	-	+
[Ref.: #7789]	25443	+	-	-	+	-	-	+	-	+	+	+	+	+	-	+	+	-	+	+	-	+

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.: #123400]	12955	-	+	+	+	-	+	-	-	+	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #7789]	Sample type/isolated from	cream
[Ref.: #7789]	Geographic location (country and/or sea, region)	Iowa
[Ref.: #7789]	Country	USA
[Ref.: #7789]	Country ISO 3 Code	USA
[Ref.: #7789]	Continent	North America

[Ref.: #58786]	Sample type/isolated from	Cream

[Ref.: #67770]	Sample type/isolated from	Cream

[Ref.: #123400]	Sample type/isolated from	Food, Milk
[Ref.: #123400]	Geographic location (country and/or sea, region)	Iowa
[Ref.: #123400]	Country	United States of America
[Ref.: #123400]	Country ISO 3 Code	USA
[Ref.: #123400]	Continent	North America
* marker position based on {}

Isolation sources categories

#Engineered

#Food production

#Dairy product

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence D84025 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	1631
Soil Samples	874
Animal Samples	3216
Plant Samples	2451
Total Samples	8172

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

[Ref.: #7789]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123400]	Biosafety level	1	Risk group (French classification)

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.: #67770]	Pseudomonas synxantha gene for 16S rRNA, partial sequence, strain: NBRC 3913	AB680171	1462	ENA	47883 tax ID
[Ref.: #7789]	Pseudomonas synxantha 16S rRNA gene, complete sequence	D84025	1527	ENA	47883 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pseudomonas synxantha NBRC 3913	GCA_002091795	contig	GenBank	1215118 tax ID
[Ref.: #67770]	Pseudomonas synxantha DSM 18928	GCA_001439725	contig	GenBank	47883 tax ID
[Ref.: #67770]	Pseudomonas synxantha LMG 2190	GCA_900105675	chromosome	GenBank	47883 tax ID
[Ref.: #66792]	Pseudomonas synxantha strain DSM 18928	47883.4	wgs	PATRIC	47883 tax ID	*
[Ref.: #66792]	Pseudomonas synxantha strain NCTC10696	47883.23	complete	PATRIC	47883 tax ID	*
[Ref.: #66792]	Pseudomonas synxantha LMG 2190	2667527385	draft	JGI IMG/M	47883 tax ID	*

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 synxantha NCTC10696 NCBI: GCA_901482615.1
[Ref.: #69480]	flagellated	yes	77.303	no
[Ref.: #69480]	gram-positive	no	97.98	no
[Ref.: #69480]	anaerobic	no	98.205	yes
[Ref.: #69480]	aerobic	yes	92.012	no
[Ref.: #69480]	halophile	no	93.344	no
[Ref.: #69480]	spore-forming	no	94.495	no
[Ref.: #69480]	thermophile	no	99.896	yes
[Ref.: #69480]	glucose-util	yes	94.396	no
[Ref.: #69480]	motile	yes	90.056	no
[Ref.: #69480]	glucose-ferment	no	90.575	yes

Availability in culture collections External links

[Ref.: #7789]

Culture collection no.

DSM 18928, ATCC 9890, CIP 59.22, LMG 2335, NCDO 757, NCIMB 8178, NCTC 10969, CCUG 50208, NCTC 10696, LMG 2190, NRRL B-780, JCM 11599, CCEB 293, IAM 12356, IFO 3913, NBRC 3913

[Ref.: #82275]

SI-ID 92404

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudomonas lactucae sp. nov., a pathogen causing bacterial rot of lettuce in Japan.	Sawada H, Fujikawa T, Satou M	Int J Syst Evol Microbiol	10.1099/ijsem.0.004917	2021	*
Phylogeny	Pseudomonas haemolytica sp. nov., isolated from raw milk and skimmed milk concentrate.	Hofmann K, Huptas C, Doll EV, Scherer S, Wenning M	Int J Syst Evol Microbiol	10.1099/ijsem.0.004043	2020	*
Phylogeny	Pseudomonas carnis sp. nov., isolated from meat.	Lick S, Krockel L, Wibberg D, Winkler A, Blom J, Bantleon A, Goesmann A, Kalinowski J	Int J Syst Evol Microbiol	10.1099/ijsem.0.003928	2020	*
Metabolism	Regulation of pyrimidine nucleotide biosynthesis in Pseudomonas synxantha.	West TP	Antonie Van Leeuwenhoek	10.1007/s10482-007-9164-4	2007	*

References

#7789

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18928

#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 )

#37601 ; Curators of the CIP;
#58786 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 50208

#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) .

#82275

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-ID92404.1 )

#123400 Collection of Institut Pasteur ; Curators of the CIP; CIP 59.22
* These data were automatically processed and therefore are not curated

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Pseudomonas synxantha NCTC10696

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