Name: Pseudomonas reidholzensis ID3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140983

Type strain:

Species: Pseudomonas reidholzensis

Strain Designation: ID3

Culture col. no.: LMG 29328, CCOS 865, CIP 111525

Strain history: CIP <- 2017, CCOS <- M. Opoku, ZHAW, Wädenswil, Switzerland: strain ID3

NCBI tax ID(s): 1785162 (species)

Section

Pseudomonas reidholzensis ID3 is an aerobe, chemoorganotroph, Gram-negative bacterium that was isolated from soil sample of Reidholz forest between the cities Wädenswil and Richterswil, Switzerland.

Gram-negative
motile
rod-shaped
aerobe
chemoorganotroph
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 reidholzensis**
	Full Scientific Name (LPSN)	Pseudomonas reidholzensis Frasson et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43871]	Gram stain	negative
[Ref.: #122151]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.99

[Ref.: #43871]	Cell length	1.0-2.2 µm

[Ref.: #43871]	Cell width	0.5-0.9 µm

[Ref.: #43871]	Cell shape	rod-shaped
[Ref.: #122151]	Cell shape	rod-shaped

[Ref.: #43871]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %95.887

[Ref.: #43871]	Pigment production	yes
[Ref.: #43871]	Pigment name	Fluorescent pigment

Information on culture and growth conditions Culture and growth conditions

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Culture medium

King's medium B

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Culture medium growth

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Culture medium

LB (Luria-Bertani) MEDIUM

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

CIP Medium 72

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #43871]			growth	4-37 °C
[Ref.: #43871]			optimum	25-30 °C

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Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43871]

Oxygen tolerance

aerobe

[Ref.: #43871]

Nutrition type

chemoorganotroph

[Ref.: #43871]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.963

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43871]		NaCl		growth	0-6	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43871]	2-oxoglutarate ChEBI	+	carbon source
[Ref.: #43871]	4-hydroxy-L-proline ChEBI	+	carbon source
[Ref.: #43871]	4-hydroxyphenylacetic acid ChEBI	-	carbon source
[Ref.: #43871]	4-hydroxyphenylacetic acid ChEBI	-	growth
[Ref.: #43871]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #43871]	beta-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #43871]	bromosuccinate ChEBI	+	carbon source
[Ref.: #43871]	cis-aconitate ChEBI	+	carbon source
[Ref.: #43871]	citrate ChEBI	+	carbon source
[Ref.: #43871]	D-alanine ChEBI	+	carbon source
[Ref.: #43871]	D-arabitol ChEBI	-	carbon source
[Ref.: #43871]	D-galacturonic acid ChEBI	-	carbon source
[Ref.: #43871]	D-gluconate ChEBI	+	carbon source
[Ref.: #43871]	D-glucuronate ChEBI	-	carbon source
[Ref.: #43871]	D-mannitol ChEBI	-	carbon source
[Ref.: #43871]	D-saccharate ChEBI	+	carbon source
[Ref.: #43871]	D-serine ChEBI	-	carbon source
[Ref.: #43871]	decanoate ChEBI	+	carbon source
[Ref.: #43871]	DL-carnitine ChEBI	+	carbon source
[Ref.: #43871]	esculin ChEBI	+	hydrolysis
[Ref.: #43871]	ethanolamine ChEBI	+	carbon source
[Ref.: #43871]	gamma-aminobutyric acid ChEBI	+	carbon source
[Ref.: #43871]	glucose ChEBI	+	carbon source
[Ref.: #43871]	glucose ChEBI	+	oxidation
[Ref.: #43871]	glucuronamide ChEBI	+	carbon source
[Ref.: #43871]	glycerol ChEBI	+	carbon source
[Ref.: #43871]	inosine ChEBI	-	carbon source
[Ref.: #43871]	L-alaninamide ChEBI	+	carbon source
[Ref.: #43871]	L-alanine 4-nitroanilide	+	carbon source
[Ref.: #43871]	L-arabinose ChEBI	-	carbon source
[Ref.: #43871]	L-aspartate ChEBI	+	carbon source
[Ref.: #43871]	L-glutamate ChEBI	+	carbon source
[Ref.: #43871]	L-histidine ChEBI	+	carbon source
[Ref.: #43871]	L-leucine ChEBI	+	carbon source
[Ref.: #43871]	L-proline ChEBI	+	carbon source
[Ref.: #43871]	L-pyroglutamic acid ChEBI	-	carbon source
[Ref.: #43871]	L-pyroglutamic acid ChEBI	-	growth
[Ref.: #43871]	L-serine ChEBI	+	carbon source
[Ref.: #43871]	lactate ChEBI	+	carbon source
[Ref.: #43871]	malate ChEBI	+	carbon source
[Ref.: #43871]	melibiose ChEBI	+	oxidation
[Ref.: #43871]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #43871]	methylmalonic acid ChEBI	-	carbon source
[Ref.: #43871]	N-acetylglucosamine ChEBI	-	carbon source
[Ref.: #43871]	nitrate ChEBI	-	reduction
[Ref.: #43871]	phenylacetate ChEBI	-	assimilation
[Ref.: #43871]	potassium gluconate ChEBI	+	carbon source
[Ref.: #43871]	propionate ChEBI	+	carbon source
[Ref.: #43871]	putrescine ChEBI	+	carbon source
[Ref.: #43871]	quinate ChEBI	+	carbon source
[Ref.: #43871]	skimmed milk	-	hydrolysis
[Ref.: #43871]	sodium citrate ChEBI	+	carbon source
[Ref.: #43871]	succinate ChEBI	+	carbon source
[Ref.: #43871]	sucrose ChEBI	-	carbon source
[Ref.: #43871]	sucrose ChEBI	+	growth
[Ref.: #43871]	tween 80 ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #43871]	acid phosphatase	+	3.1.3.2
[Ref.: #43871]	arginine dihydrolase	+	3.5.3.6
[Ref.: #43871]	catalase	+	1.11.1.6
[Ref.: #43871]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43871]	esterase (C 4)	+
[Ref.: #43871]	gelatinase	+
[Ref.: #43871]	leucine arylamidase	+	3.4.11.1
[Ref.: #43871]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43871]	tryptophan deaminase	+	4.1.99.1

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43871]

Fatty acid	Percentage
C16:1ω7c / C16:1ω6c	36.64
C16:0	34.23
C18:1ω7c	16.87
C17:0 cyclo	5.11
C10:0 3OH	0.62
C14:0	0.6
C18:0	0.59
C17:0	0.52
C17:1ω8c	0.35
C12:0 2OH	0.3
C17:0 iso	0

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

[Ref.: #43871]	Sample type/isolated from	soil sample of Reidholz forest between the cities Wädenswil and Richterswil, Switzerland
[Ref.: #43871]	Geographic location (country and/or sea, region)	Reidholz forest
[Ref.: #43871]	Country	Switzerland
[Ref.: #43871]	Country ISO 3 Code	CHE
[Ref.: #43871]	Continent	Europe
[Ref.: #43871]	Geographic location	47.2167°/8.6833°
[Ref.: #43871]	Enrichment culture	King's B medium

[Ref.: #122151]	Sample type/isolated from	Environment, Forest soil
[Ref.: #122151]	Geographic location (country and/or sea, region)	Reidholz Forest, Wädenswil
[Ref.: #122151]	Country	Switzerland
[Ref.: #122151]	Country ISO 3 Code	CHE
[Ref.: #122151]	Continent	Europe
[Ref.: #122151]	Isolation date	2014-06-30
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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Global distribution of 16S sequence LT009707 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	543
Soil Samples	368
Animal Samples	799
Plant Samples	423
Total Samples	2133

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

[Ref.: #122151]

Biosafety level

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.: #43871]	16S rRNA gene sequence	LT009707		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudomonas reidholzensis CCOS 865	GCA_900536025	contig	GenBank	1785162 tax ID	*
[Ref.: #66792]	Pseudomonas reidholzensis strain CCOS 865	1785162.3	wgs	PATRIC	1785162 tax ID	*

[Ref.: #43871]

GC-content

63.8 mol%

high performance liquid chromatography (HPLC)

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 reidholzensis strain CCOS 865 PATRIC: 1785162.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudomonas reidholzensis strain CCOS 865 PATRIC: 1785162.3
[Ref.: #69480]	motile	yes	92.821	yes
[Ref.: #69480]	gram-positive	no	98.602	yes
[Ref.: #69480]	anaerobic	no	97.994	yes
[Ref.: #69480]	aerobic	yes	92.276	no
[Ref.: #69480]	halophile	no	87.133	no
[Ref.: #69480]	spore-forming	no	95.541	yes
[Ref.: #69480]	thermophile	no	99.896	yes
[Ref.: #69480]	glucose-util	yes	90.798	no
[Ref.: #69480]	flagellated	yes	84.064	no
[Ref.: #69480]	glucose-ferment	no	87.02	no

Availability in culture collections External links

[Ref.: #43871]

Culture collection no.

LMG 29328, CCOS 865, CIP 111525

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudomonas wadenswilerensis sp. nov. and Pseudomonas reidholzensis sp. nov., two novel species within the Pseudomonas putida group isolated from forest soil.	Frasson D, Opoku M, Picozzi T, Torossi T, Balada S, Smits THM, Hilber U	Int J Syst Evol Microbiol	10.1099/ijsem.0.002035	2017	*
Genetics	High-Quality Draft Genome Sequence of Pseudomonas reidholzensis Strain CCOS 865(T).	Rutz D, Frasson D, Sievers M, Blom J, Rezzonico F, Pothier JF, Smits THM	Microbiol Resour Announc	10.1128/MRA.01502-18	2019	*

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 )

#43871

David Frasson, Michael Opoku, Tara Picozzi, Tanja Torossi, Stefanie Balada, Theo H. M. Smits, Urs Hilber: Pseudomonas wadenswilerensis sp. nov. and Pseudomonas reidholzensis sp. nov., two novel species within the Pseudomonas putida group isolated from forest soil. IJSEM 67: 2853 - 2861 2017 ( DOI 10.1099/ijsem.0.002035 , PubMed 28820109 )

#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) .

#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 )

#122151 Collection of Institut Pasteur ; Curators of the CIP; CIP 111525
* These data were automatically processed and therefore are not curated

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Pseudomonas reidholzensis strain CCOS 865

Pseudomonas reidholzensis strain CCOS 865

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