Name: Pseudomonas bubulae FL-M/Ps 38
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159168

Type strain:

Species: Pseudomonas bubulae

Strain Designation: FL-M/Ps 38, TH39

Culture col. no.: DSM 107390, LMG 30830

Strain history: <- L. Kröckel, Max Rubner Institut, Federal Research Institute of Nutrition and Food, Department of Microbiology and Biotechnology; TH39 <-

NCBI tax ID(s): 2316085 (species)

SI-ID 404885

DSM 107390

Other strains from Pseudomonas bubulae

P. bubulae TH26, DSM 107389, LMG 30831

Section

Pseudomonas bubulae FL-M/Ps 38 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from refrigerated minced beef .

colony-forming
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 bubulae**
	Full Scientific Name (LPSN)	Pseudomonas bubulae Lick et al. 2020

Information on morphological and physiological properties Morphology

[Ref.: #69535]	Gram stain	negative

[Ref.: #69535]	Cell length	1.9 µm

[Ref.: #69535]	Cell width	0.7 µm

[Ref.: #69535]	Cell shape	rod-shaped

[Ref.: #69535]	Motility	yes

[Ref.: #69535]	Colony size	0.5-1.0 mm
[Ref.: #69535]	Colony color	ivory
[Ref.: #69535]	Colony shape	circular
[Ref.: #69535]	Incubation period	1 day
[Ref.: #69535]	Cultivation medium used	Standard-I agar or Caso agar with glucose.

Multimedia content

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Caption:

DSM 107390 on medium 1 at 28 °C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

Standard-I agar or Caso agar with glucose.

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #65991]			growth	28 °C
[Ref.: #69535]			growth	2-33 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #69535]			growth	5.5-8.5

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

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Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #69535]		NaCl		growth	6	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #69535]	2-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #69535]	5-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #69535]	alpha-cyclodextrin ChEBI	-	carbon source
[Ref.: #69535]	amygdalin ChEBI	-	assimilation
[Ref.: #69535]	arbutin ChEBI	-	assimilation
[Ref.: #68369]	arginine ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #69535]	D-arabinose ChEBI	+	assimilation
[Ref.: #69535]	D-arabitol ChEBI	-	assimilation
[Ref.: #69535]	D-fructose ChEBI	+	assimilation
[Ref.: #69535]	D-fucose ChEBI	+	assimilation
[Ref.: #69535]	D-galactose ChEBI	+	assimilation
[Ref.: #69535]	D-glucose ChEBI	-	builds acid from
[Ref.: #69535]	D-glucose ChEBI	+	assimilation
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	fermentation	* from API 20NE
[Ref.: #69535]	D-lyxose ChEBI	-	assimilation
[Ref.: #69535]	D-mannitol ChEBI	+	assimilation
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #69535]	D-mannose ChEBI	+	assimilation
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #69535]	D-ribose ChEBI	+	assimilation
[Ref.: #69535]	D-sorbitol ChEBI	-	assimilation
[Ref.: #69535]	D-tagatose ChEBI	-	assimilation
[Ref.: #69535]	D-xylose ChEBI	+	assimilation
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #69535]	dextrin ChEBI	-	carbon source
[Ref.: #69535]	dodecanoate ChEBI	+	assimilation
[Ref.: #69535]	erythritol ChEBI	-	assimilation
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #69535]	esculin ferric citrate	-	assimilation
[Ref.: #69535]	esculin hydrolysate	-	hydrolysis
[Ref.: #69535]	gelatin ChEBI	-	hydrolysis
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #69535]	gentiobiose ChEBI	-	assimilation
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #69535]	glycerol ChEBI	+	assimilation
[Ref.: #69535]	glycogen ChEBI	-	assimilation
[Ref.: #69535]	glycogen ChEBI	-	carbon source
[Ref.: #69535]	inulin ChEBI	-	assimilation
[Ref.: #69535]	L-arabinose ChEBI	+	assimilation
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #69535]	L-arabitol ChEBI	-	assimilation
[Ref.: #69535]	L-fucose ChEBI	+	assimilation
[Ref.: #69535]	L-malate ChEBI	+	assimilation
[Ref.: #69535]	L-sorbose ChEBI	-	assimilation
[Ref.: #69535]	L-xylose ChEBI	-	assimilation
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #69535]	maltose ChEBI	-	assimilation
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #69535]	melezitose ChEBI	-	assimilation
[Ref.: #69535]	methyl alpha-D-glucopyranoside ChEBI	-	assimilation
[Ref.: #69535]	methyl beta-D-xylopyranoside ChEBI	-	assimilation
[Ref.: #69535]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #69535]	myo-inositol ChEBI	-	assimilation
[Ref.: #69535]	N-acetyl-D-glucosamine ChEBI	-	assimilation
[Ref.: #69535]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #69535]	potassium gluconate ChEBI	-	assimilation
[Ref.: #69535]	potassium gluconate ChEBI	+	assimilation
[Ref.: #69535]	raffinose ChEBI	-	assimilation
[Ref.: #69535]	ribitol ChEBI	-	assimilation
[Ref.: #69535]	salicin ChEBI	-	assimilation
[Ref.: #69535]	sodium citrate ChEBI	+	assimilation
[Ref.: #69535]	starch ChEBI	-	assimilation
[Ref.: #69535]	tryptophan ChEBI	-	energy source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #69535]	turanose ChEBI	-	assimilation
[Ref.: #69535]	tween 40 ChEBI	-	carbon source
[Ref.: #69535]	tween 80 ChEBI	-	carbon source
[Ref.: #68369]	urea ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #69535]	xylitol ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #69535]		indole ChEBI	no
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #69535]		indole ChEBI	-
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #69535]	acid phosphatase	+	3.1.3.2
[Ref.: #69535]	alkaline phosphatase	-	3.1.3.1
[Ref.: #69535]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #69535]	alpha-fucosidase	-	3.2.1.51
[Ref.: #69535]	alpha-galactosidase	-	3.2.1.22
[Ref.: #69535]	alpha-glucosidase	-	3.2.1.20
[Ref.: #69535]	alpha-mannosidase	-	3.2.1.24
[Ref.: #69535]	arginine dihydrolase	+	3.5.3.6
[Ref.: #68369]	arginine dihydrolase	+	3.5.3.6	* from API 20NE
[Ref.: #69535]	beta-galactosidase	-	3.2.1.23
[Ref.: #69535]	beta-glucosidase	-	3.2.1.21
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #69535]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #69535]	esterase (C 4)	-
[Ref.: #69535]	esterase Lipase (C 8)	-
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #69535]	leucine arylamidase	+	3.4.11.1
[Ref.: #69535]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #69535]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #69535]	trypsin	-	3.4.21.4
[Ref.: #69535]	tryptophan deaminase	-	4.1.99.1
[Ref.: #69535]	urease	-	3.5.1.5
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE
[Ref.: #69535]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #69535]

Fatty acid	Percentage
C16:0	29.17
C16:1 w7c/ C15:0 iso 2OH	29.17
C18:1 w7c	14.31
C17:0 cyclo	8.2
C10:0 3OH	4.06
C12:0	3.91
C12:0 3OH	3.85
C12:0 2OH	3.41

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.: #65991]	24729	-	-	+	+	+	-	-	-	+	+	+	+	-	-	+	+	-	+	+	-	+

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

[Ref.: #65991]	Sample type/isolated from	refrigerated minced beef (processing meat to be used for Bologna-type sausage production)
[Ref.: #65991]	Geographic location (country and/or sea, region)	Bavaria, Oberfranken, Kulmbach (50° 6' 33.5'' N, 11° 26' 4.9'' E)
[Ref.: #65991]	Country	Germany
[Ref.: #65991]	Country ISO 3 Code	DEU
[Ref.: #65991]	Continent	Europe
[Ref.: #65991]	Geographic location	50.1093°/11.4347°

[Ref.: #69535]	Sample type/isolated from	refrigerated raw beef
[Ref.: #69535]	Country	Germany
[Ref.: #69535]	Country ISO 3 Code	DEU
[Ref.: #69535]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Meat
#Condition	#Psychrophilic (<10°C)	-

What are isolation sources categories?

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Global distribution of 16S sequence KX186949 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	830
Soil Samples	460
Animal Samples	1081
Plant Samples	571
Total Samples	2942

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.: #65991]	Pseudomonas fragi strain TH39 16S ribosomal RNA gene, partial sequence	KX186949	1431	ENA	2316085 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #69535]	Pseudomonas bubulae Pseudomonas parafragi	GCA_900618535	contig	GenBank	2316085 tax ID
[Ref.: #69535]	genome sequence	UYJA00000000		GenBank	2316085 tax ID
[Ref.: #66792]	Pseudomonas bubulae TH39	2917077041	draft	JGI IMG/M	2316085 tax ID	*

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GC-content

58.2 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

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Culture collection no.

DSM 107390, LMG 30830

[Ref.: #111671]

SI-ID 404885

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudomonas bubulae sp. nov., isolated from beef.	Lick S, Krockel L, Wibberg D, Winkler A, Blom J, Goesmann A, Kalinowski J	Int J Syst Evol Microbiol	10.1099/ijsem.0.003751	2020	*

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 )

#65991

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 107390

#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 .

#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 .

#69535

Sonja Lick, Lothar Kröckel, Daniel Wibberg, Annika Winkler, Jochen Blom, Alexander Goesmann and Jörn Kalinowski: Pseudomonas bubulae sp. nov., isolated from beef. IJSEM 70: 2020 ( DOI 10.1099/ijsem.0.003751 )

#111671

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-ID404885.1 )

* These data were automatically processed and therefore are not curated

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