Name: Pseudomonas arsenicoxydans VC-1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 23213

Type strain:

Species: Pseudomonas arsenicoxydans

Strain Designation: VC-1

Culture col. no.: DSM 27171, CCUG 58201, CECT 7543

Strain history: <- CCUG <- R. Roselló-Mora, CSIC-UIB, Islas Baleares, Spain <- V. L. Campos et al., Microbiology Department, Concéption University, Chile

NCBI tax ID(s): 702115 (species)

SI-ID 371225

CECT 7543, CCUG 58201, CCM 8423, DSM 27171

Special Collections

DSMZ
CCUG

Section

When using BacDive for research please cite our paper

Pseudomonas arsenicoxydans VC-1 is an aerobe, mesophilic bacterium that was isolated from sediment.

aerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pseudomonadales*
	Family	*Pseudomonadaceae*
	Genus	*Pseudomonas*
	Species	**Pseudomonas arsenicoxydans**
	Full Scientific Name (LPSN)	Pseudomonas arsenicoxydans Campos et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #125438]	Gram stain	negative Confidence in %98.982
[Ref.: #125439]	Gram stain	negative Confidence in %93.6

[Ref.: #125438]	Motility	yes Confidence in %92.12

Multimedia content

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)

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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

REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)

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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

	Temperatures	Kind of temperature		Temperature
[Ref.: #19110]			growth	28 °C
[Ref.: #61627]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #61627]	Oxygen tolerance	aerobe
[Ref.: #125438]	Oxygen tolerance	aerobe Confidence in %91.904
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %98

[Ref.: #125439]

Ability of spore formation

no Confidence in %95.4

	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.: #68369]	arginine dihydrolase	+	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[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.: #19110]	27587	-	-	-	+	-	-	-	-	+	+	+	+	+	-	+	+	-	+	+	-	+

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

[Ref.: #19110]	Sample type/isolated from	sediment
[Ref.: #19110]	Geographic location (country and/or sea, region)	Atacama Desert, Camarones Valley
[Ref.: #19110]	Country	Chile
[Ref.: #19110]	Country ISO 3 Code	CHL
[Ref.: #19110]	Continent	Middle and South America
[Ref.: #19110]	Geographic location	-18.9500°/-69.5000°

[Ref.: #61627]	Sample type/isolated from	Sediment
[Ref.: #61627]	Geographic location (country and/or sea, region)	Atacama Desert,Camarones River
[Ref.: #61627]	Country	Chile
[Ref.: #61627]	Country ISO 3 Code	CHL
[Ref.: #61627]	Continent	Middle and South America
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FN645213 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	8731
Soil Samples	16904
Animal Samples	11521
Plant Samples	5158
Total Samples	42314

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

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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.: #19110]	Pseudomonas arsenicoxydans partial 16S rRNA gene, type strain VC-1T	FN645213	1435	GenBank ENA	702115 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudomonas arsenicoxydans CECT 7543	GCA_900103875	chromosome	GenBank ENA	702115 tax ID	*
[Ref.: #66792]	Pseudomonas arsenicoxydans strain CECT 7543	702115.3	complete	PATRIC	702115 tax ID	*
[Ref.: #66792]	Pseudomonas arsenicoxydans CECT 7543	2636416065	draft	JGI IMG/M	702115 tax ID	*

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas arsenicoxydans strain CECT 7543 PATRIC: 702115.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	98.982	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	97.287	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	85.895	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	91.904	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	98	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	92.12	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudomonas arsenicoxydans CECT 7543 IMG: 2636416065
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	95.4
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	73.7
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	93.6
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	98

Availability in culture collections External links

[Ref.: #19110]

Culture collection no.

DSM 27171, CCUG 58201, CECT 7543

[Ref.: #87441]

SI-ID 371225

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudomonas arsenicoxydans sp nov., an arsenite-oxidizing strain isolated from the Atacama desert.	Campos VL, Valenzuela C, Yarza P, Kampfer P, Vidal R, Zaror C, Mondaca MA, Lopez-Lopez A, Rossello-Mora R	Syst Appl Microbiol	10.1016/j.syapm.2010.02.007	2010	*

References

#19110

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27171

#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 )

#61627 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 58201

#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 .

#87441

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-ID371225.1 )

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Pseudomonas arsenicoxydans strain CECT 7543

Pseudomonas arsenicoxydans CECT 7543

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