Name: Defluviicoccus vanus CIP 107350
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133635

Type strain:

Species: Defluviicoccus vanus

Culture col. no.: CIP 107350, NCIMB 13612, Ben 114

Strain history: CIP <- 2002, A.M. Maszenan, Nanyang Techn. Univ., Singapore: strain Pilson, Ben 114T <- Pilson, Czech Republic

NCBI tax ID(s): 111831 (species)

SI-ID 60939

NCIMB 13612, CIP 107350

Other strains from Defluviicoccus vanus

D. vanus

Section

Defluviicoccus vanus CIP 107350 is an aerobe, Gram-negative, coccus-shaped bacterium that was isolated from wastewater.

coccus-shaped
Gram-negative
aerobe
16S sequence
Bacteria

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	*Alphaproteobacteria*
	Order	*Rhodospirillales*
	Family	*Geminicoccaceae*
	Genus	*Defluviicoccus*
	Species	**Defluviicoccus vanus**
	Full Scientific Name (LPSN)	Defluviicoccus vanus corrig. Maszenan et al. 2005

Synonym

Defluvicoccus vanus

Information on morphological and physiological properties Morphology

[Ref.: #29869]	Gram stain	negative
[Ref.: #40691]	Gram stain	negative

[Ref.: #29869]	Cell length	2.75 µm

[Ref.: #29869]	Cell width	2.75 µm

[Ref.: #29869]	Cell shape	coccus-shaped
[Ref.: #40691]	Cell shape	coccus-shaped

[Ref.: #29869]	Motility	no
[Ref.: #40691]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #40691]

Culture medium

MEDIUM 404 - for Defluvicoccus vanus

[Ref.: #40691]

Culture medium growth

[Ref.: #40691]

Culture medium composition

expand / minimize

[Ref.: #40691]

Culture medium

CIP Medium 404

[Ref.: #40691]

Culture medium growth

[Ref.: #40691]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #29869]		growth	20-30 °C
[Ref.: #29869]		optimum	25 °C
[Ref.: #40691]		growth	25 °C
[Ref.: #40691]		growth	25 °C
[Ref.: #40691]	no	growth	10 °C
[Ref.: #40691]	no	growth	30 °C
[Ref.: #40691]	no	growth	37 °C

[Ref.: #29869]	Temperature range	mesophilic
[Ref.: #40691]	Temperature range	mesophilic
[Ref.: #40691]	Temperature range	psychrophilic
[Ref.: #40691]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29869]			optimum	7.75
[Ref.: #29869]			growth	5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29869]

Oxygen tolerance

aerobe

[Ref.: #29869]

Ability of spore formation

[Ref.: #29869]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29869]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #29869]	acetate ChEBI	+	carbon source
[Ref.: #29869]	arabinose ChEBI	+	carbon source
[Ref.: #29869]	aspartate ChEBI	+	carbon source
[Ref.: #29869]	fructose ChEBI	+	carbon source
[Ref.: #29869]	glucose ChEBI	+	carbon source
[Ref.: #29869]	glutamate ChEBI	+	carbon source
[Ref.: #29869]	lactate ChEBI	+	carbon source
[Ref.: #29869]	malate ChEBI	+	carbon source
[Ref.: #29869]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #29869]	nitrate ChEBI	+	reduction
[Ref.: #40691]	nitrate ChEBI	-	reduction
[Ref.: #40691]	nitrite ChEBI	-	reduction
[Ref.: #29869]	propionate ChEBI	+	carbon source
[Ref.: #29869]	putrescine ChEBI	+	carbon source
[Ref.: #29869]	pyruvate ChEBI	+	carbon source
[Ref.: #29869]	quinate ChEBI	+	carbon source
[Ref.: #29869]	ribitol ChEBI	+	carbon source
[Ref.: #29869]	sorbitol ChEBI	+	carbon source
[Ref.: #29869]	succinate ChEBI	+	carbon source
[Ref.: #29869]	threonine ChEBI	+	carbon source
[Ref.: #29869]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #40691]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #29869]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #29869]	alkaline phosphatase	+	3.1.3.1
[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.: #40691]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #29869]	catalase	+	1.11.1.6
[Ref.: #40691]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #40691]	gamma-glutamyltransferase	-	2.3.2.2
[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.: #40691]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #29869]	urease	+	3.5.1.5
[Ref.: #40691]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #40691]	10286	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #29869]	Sample type/isolated from	wastewater

[Ref.: #40691]	Sample type/isolated from	Environment, Sewage treatment plant, activated biomass
[Ref.: #40691]	Geographic location (country and/or sea, region)	Pilson
[Ref.: #40691]	Country	Czech Republic
[Ref.: #40691]	Country ISO 3 Code	CZE
[Ref.: #40691]	Continent	Europe

[Ref.: #40691]	Geographic location (country and/or sea, region)	Pilson
[Ref.: #40691]	Country	Czech Republic
[Ref.: #40691]	Country ISO 3 Code	CZE
[Ref.: #40691]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Wastewater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF179678 (>99% sequence identity) for Defluviicoccus vanus subclade from Microbeatlas

Aquatic Samples	1134
Soil Samples	304
Animal Samples	65
Plant Samples	12
Total Samples	1515

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

[Ref.: #40691]

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.: #29869]	Defluvicoccus vanus strain Ben 114 16S ribosomal RNA gene, partial sequence	AF179678	1452	GenBank	111831 tax ID

[Ref.: #29869]

GC-content

66 mol%

Availability in culture collections External links

[Ref.: #29869]

Culture collection no.

CIP 107350, NCIMB 13612, Ben 114

[Ref.: #91536]

SI-ID 60939

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Defluvicoccus vanus gen. nov., sp. nov., a novel Gram-negative coccus/coccobacillus in the 'Alphaproteobacteria' from activated sludge.	Maszenan AM, Seviour RJ, Patel BKC, Janssen PH, Wanner J	Int J Syst Evol Microbiol	10.1099/ijs.0.02332-0	2005	*

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 )

#29869

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 #26243 (see below)

#40691 Collection of Institut Pasteur ; Curators of the CIP; CIP 107350

#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 .

#91536

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-ID60939.1 )

#26243

IJSEM 2105 2005 ( DOI 10.1099/ijs.0.02332-0 , PubMed 16166717 )

* These data were automatically processed and therefore are not curated

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