Name: Vogesella fluminis Npb-07
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 131263

Type strain:

Species: Vogesella fluminis

Strain Designation: Npb-07

Culture col. no.: DSM 100851, BCRC 80377, KCTC 23713, LMG 26669

Strain history: <- LMG <- W.-M. Chen, National Kaohsiung Marine University, Taiwan; Npb-07

NCBI tax ID(s): 1069161 (species)

SI-ID 378086

LMG 26669, BCRC 80377, KCTC 23713, DSM 100851

Section

Vogesella fluminis Npb-07 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from freshwater river.

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	*Betaproteobacteria*
	Order	*Neisseriales*
	Family	*Chromobacteriaceae*
	Genus	*Vogesella*
	Species	**Vogesella fluminis**
	Full Scientific Name (LPSN)	Vogesella fluminis Sheu et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30966]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #30966]	Cell length	1.15 µm

[Ref.: #30966]	Cell width	0.4 µm

[Ref.: #30966]	Cell shape	rod-shaped

[Ref.: #30966]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.821

[Ref.: #30966]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22490]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)

[Ref.: #22490]

Culture medium growth

[Ref.: #22490]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22490]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #22490]	growth	28 °C
[Ref.: #30966]	growth	10-37 °C
[Ref.: #30966]	optimum	25 °C

[Ref.: #22490]	Temperature range	mesophilic
[Ref.: #30966]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30966]			optimum	6.5
[Ref.: #30966]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30966]

Oxygen tolerance

aerobe

[Ref.: #30966]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.999

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30966]		NaCl		growth	0-1	%
[Ref.: #30966]		NaCl		optimum	0.5	%

	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.: #30966]	glucose ChEBI	+	carbon source
[Ref.: #30966]	glutamate ChEBI	+	carbon source
[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.: #30966]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #30966]	proline ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	+	energy source	* from API 20NE
[Ref.: #30966]	tween 40 ChEBI	+	carbon source
[Ref.: #30966]	tween 80 ChEBI	+	carbon source
[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	yes	* from API 20NE

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

	Enzyme	Enzyme activity	EC number
[Ref.: #30966]	acid phosphatase	+	3.1.3.2
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #30966]	catalase	+	1.11.1.6
[Ref.: #30966]	cytochrome oxidase	+	1.9.3.1
[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.: #22490]	23520	+	+	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	+	-	-	+

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

[Ref.: #22490]	Sample type/isolated from	freshwater river
[Ref.: #22490]	Geographic location (country and/or sea, region)	near Pingtung, Beishi River
[Ref.: #22490]	Country	Taiwan
[Ref.: #22490]	Country ISO 3 Code	TWN
[Ref.: #22490]	Continent	Asia
[Ref.: #22490]	Geographic location	22.3703°/120.5920°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#River (Creek)

What are isolation sources categories?

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

[Ref.: #22490]

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.: #22490]	Vogesella fluminis strain Npb-07 16S ribosomal RNA gene, partial sequence	JN315669	1409	ENA	1069161 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Vogesella fluminis KCTC 23713	GCA_014652335	contig	GenBank	1069161 tax ID	*
[Ref.: #66792]	Vogesella fluminis strain KCTC 23713	1069161.3	wgs	PATRIC	1069161 tax ID	*

[Ref.: #22490]

GC-content

65.3 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: Vogesella fluminis strain KCTC 23713 PATRIC: 1069161.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Vogesella fluminis strain KCTC 23713 PATRIC: 1069161.3
[Ref.: #69480]	motile	yes	93.204	yes
[Ref.: #69480]	flagellated	yes	93.555	no
[Ref.: #69480]	gram-positive	no	98.595	yes
[Ref.: #69480]	anaerobic	no	96.285	yes
[Ref.: #69480]	aerobic	yes	75.646	yes
[Ref.: #69480]	halophile	no	93.252	yes
[Ref.: #69480]	spore-forming	no	95.131	yes
[Ref.: #69480]	thermophile	no	96.452	yes
[Ref.: #69480]	glucose-util	yes	79.683	no
[Ref.: #69480]	glucose-ferment	no	89.986	yes

Availability in culture collections External links

[Ref.: #22490]

Culture collection no.

DSM 100851, BCRC 80377, KCTC 23713, LMG 26669

[Ref.: #89707]

SI-ID 378086

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Vogesella fluminis sp. nov., isolated from a freshwater river, and emended description of the genus Vogesella.	Sheu SY, Chen JC, Young CC, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.048629-0	2013	*

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 )

#22490

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100851

#30966

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27296 (see below)

#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 .

#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 )

#89707

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-ID378086.1 )

#27296

IJSEM 3043 2013 ( DOI 10.1099/ijs.0.048629-0 , PubMed 23396722 )

* These data were automatically processed and therefore are not curated

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Vogesella fluminis strain KCTC 23713

Vogesella fluminis strain KCTC 23713

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