Name: Vicingus serpentipes ANORD5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158595

Type strain:

Species: Vicingus serpentipes

Strain Designation: ANORD5

Culture col. no.: NCIMB 15042, MTCC 12686, DSM 103558, CECT 30270

Strain history: <- J. Wiese, GEOMAR Helmholtz Centre for Ocean Research, Kiel, Germany; ANORD5

NCBI tax ID(s): 1926625 (species)

SI-ID 405650

DSM 103558

Section

Vicingus serpentipes ANORD5 is an aerobe, chemoheterotroph, Gram-negative bacterium that was isolated from biofilm of a stone.

Gram-negative
motile
rod-shaped
aerobe
chemoheterotroph
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Cryomorphaceae*
	Genus	*Vicingus*
	Species	**Vicingus serpentipes**
	Full Scientific Name (LPSN)	Vicingus serpentipes Wiese et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65308]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.996

[Ref.: #65308]	Cell length	1.2-2.2 µm
[Ref.: #65308]	Cell length	0.2-0.8 µm

[Ref.: #65308]	Cell width	0.4-0.5 µm

[Ref.: #65308]	Cell shape	rod-shaped
[Ref.: #65308]	Cell shape	coccus-shaped

[Ref.: #65308]	Motility	yes

[Ref.: #65308]	Flagellum arrangement	gliding

[Ref.: #65308]	Colony size	1-2 mm
[Ref.: #65308]	Colony color	yellow
[Ref.: #65308]	Incubation period	3 days
[Ref.: #65308]	Cultivation medium used	marine broth

[Ref.: #65308]	Pigment production	yes
[Ref.: #65308]	Pigment name	carotinoid pigments
[Ref.: #65308]	Pigment production	no
[Ref.: #65308]	Pigment name	flexirubin-type pigments

Multimedia content

[Ref.: #67695]

Caption:

Micrograph of Vicingus serpentides DSM 103558

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Intellectual property rights:

Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65308]

Culture medium

marine broth

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Culture medium growth

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Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #67695]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #67695]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #65308]	growth	5-30 °C
[Ref.: #65308]	optimum	20-30 °C
[Ref.: #67695]	growth	28 °C

[Ref.: #67695]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #65308]			optimum	7-8.5
[Ref.: #65308]			growth	6.5-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65308]

Oxygen tolerance

aerobe

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Nutrition type

chemoheterotroph

[Ref.: #69480]	Ability of spore formation	no Confidence in %99.995
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65308]		NaCl		growth	1-6	%
[Ref.: #65308]		NaCl		optimum	1-2	%

[Ref.: #65308]

Observation

Cells were motile by gliding and produced threads of slime

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65308]	casein	+	hydrolysis
[Ref.: #65308]	fructose ChEBI	+	assimilation
[Ref.: #65308]	galactose ChEBI	+	assimilation
[Ref.: #65308]	gelatin ChEBI	+	hydrolysis
[Ref.: #65308]	glucose ChEBI	+	assimilation
[Ref.: #65308]	maltose ChEBI	+	assimilation
[Ref.: #65308]	starch ChEBI	+	hydrolysis
[Ref.: #65308]	sucrose ChEBI	+	assimilation
[Ref.: #65308]	trehalose ChEBI	+	assimilation

	Enzyme	Enzyme activity	EC number
[Ref.: #65308]	acid phosphatase	+	3.1.3.2
[Ref.: #65308]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65308]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65308]	alpha-fucosidase	-	3.2.1.51
[Ref.: #65308]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65308]	alpha-glucosidase	-	3.2.1.20
[Ref.: #65308]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65308]	arginine decarboxylase	-	4.1.1.19
[Ref.: #65308]	arginine dihydrolase	-	3.5.3.6
[Ref.: #65308]	beta-galactosidase	-	3.2.1.23
[Ref.: #65308]	beta-glucosidase	-	3.2.1.21
[Ref.: #65308]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65308]	catalase	+	1.11.1.6
[Ref.: #65308]	cystine arylamidase	+	3.4.11.3
[Ref.: #65308]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65308]	esterase (C 4)	+
[Ref.: #65308]	esterase Lipase (C 8)	+
[Ref.: #65308]	leucine arylamidase	+	3.4.11.1
[Ref.: #65308]	lipase	-
[Ref.: #65308]	lysine decarboxylase	-	4.1.1.18
[Ref.: #65308]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #65308]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65308]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #65308]	trypsin	-	3.4.21.4
[Ref.: #65308]	tryptophan deaminase	-	4.1.99.1
[Ref.: #65308]	urease	-	3.5.1.5
[Ref.: #65308]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	ubiquinone biosynthesis	85.71	6 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	tryptophan metabolism	73.68	28 of 38
[Ref.: #66794]	histidine metabolism	72.41	21 of 29
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	purine metabolism	71.28	67 of 94
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	lysine metabolism	66.67	28 of 42
[Ref.: #66794]	molybdenum cofactor biosynthesis	66.67	6 of 9
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	lipid metabolism	64.52	20 of 31
[Ref.: #66794]	citric acid cycle	64.29	9 of 14
[Ref.: #66794]	photosynthesis	64.29	9 of 14
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	alanine metabolism	62.07	18 of 29
[Ref.: #66794]	phenylalanine metabolism	61.54	8 of 13
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	threonine metabolism	60	6 of 10
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	myo-inositol biosynthesis	50	5 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	Entner Doudoroff pathway	50	5 of 10
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	polyamine pathway	47.83	11 of 23
[Ref.: #66794]	glutamate and glutamine metabolism	46.43	13 of 28
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	vitamin B1 metabolism	38.46	5 of 13
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	oxidative phosphorylation	35.16	32 of 91
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	formaldehyde oxidation	33.33	1 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	arginine metabolism	33.33	8 of 24
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	degradation of pentoses	32.14	9 of 28
[Ref.: #66794]	carotenoid biosynthesis	31.82	7 of 22
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	propanol degradation	28.57	2 of 7
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	ascorbate metabolism	27.27	6 of 22
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	butanoate fermentation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	phenol degradation	25	5 of 20
[Ref.: #66794]	chlorophyll metabolism	22.22	4 of 18
[Ref.: #66794]	arachidonic acid metabolism	22.22	4 of 18
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #65308]	Sample type/isolated from	biofilm of a stone
[Ref.: #65308]	Sampling date	2013-08-22
[Ref.: #65308]	Geographic location (country and/or sea, region)	Nordstrand, North Sea
[Ref.: #65308]	Country	Germany
[Ref.: #65308]	Country ISO 3 Code	DEU
[Ref.: #65308]	Continent	Europe
[Ref.: #65308]	Geographic location	54.4861°/8.8124°
[Ref.: #65308]	Enrichment culture	marine broth
[Ref.: #65308]	Enrichment culture composition	supplemented with Difco-Agar 15 g l-1

[Ref.: #67695]	Sample type/isolated from	surface of a stone
[Ref.: #67695]	Geographic location (country and/or sea, region)	Northsea (Nordstrand, Germany) (54° 29.166' N, 8°48.746' E)
[Ref.: #67695]	Country	Germany
[Ref.: #67695]	Country ISO 3 Code	DEU
[Ref.: #67695]	Continent	Europe
[Ref.: #67695]	Geographic location	54.4833°/8.8000°
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Geologic
#Environmental	#Biofilm	-

What are isolation sources categories?

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.: #65308]	16S rRNA gene sequence	KX499499		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Vicingus serpentipes NCIMB 15042	GCA_007993035	contig	GenBank	1926625 tax ID	*
[Ref.: #66792]	Vicingus serpentipes strain NCIMB 15042	1926625.3	wgs	PATRIC	1926625 tax ID	*

[Ref.: #67695]

GC-content

31 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: Vicingus serpentipes strain NCIMB 15042 PATRIC: 1926625.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Vicingus serpentipes strain NCIMB 15042 PATRIC: 1926625.3
[Ref.: #69480]	motile	no	87.732	no
[Ref.: #69480]	gram-positive	no	99.127	no
[Ref.: #69480]	anaerobic	no	97.53	yes
[Ref.: #69480]	aerobic	yes	84.508	yes
[Ref.: #69480]	halophile	no	75.219	no
[Ref.: #69480]	spore-forming	no	93.448	no
[Ref.: #69480]	glucose-util	yes	87.342	yes
[Ref.: #69480]	flagellated	no	95.631	yes
[Ref.: #69480]	thermophile	no	90.505	no
[Ref.: #69480]	glucose-ferment	no	89.522	no

Availability in culture collections External links

[Ref.: #67695]

Culture collection no.

NCIMB 15042, MTCC 12686, DSM 103558, CECT 30270

[Ref.: #111321]

SI-ID 405650

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Croceimicrobium hydrocarbonivorans gen. nov., sp. nov., a novel marine bacterium isolated from a bacterial consortium that degrades polyethylene terephthalate.	Liu R, Lai Q, Gu L, Yan P, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.004770	2021	*
Phylogeny	Vicingus serpentipes gen. nov., sp. nov., a new member of the Flavobacteriales from the North Sea.	Wiese J, Saha M, Wenzel-Storjohann A, Weinberger F, Schmaljohann R, Imhoff JF	Int J Syst Evol Microbiol	10.1099/ijsem.0.002509	2017	*
Phylogeny	Acidiluteibacter ferrifornacis gen. nov., sp. nov., a new member of the Flavobacteriales from Tielu Harbour, Hainan, PR China.	Gui X, Wu S, Huang F, Wang Y, He R, Zhao J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004480	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 )

#65308

Jutta Wiese, Mahasweta Saha, Arlette Wenzel-Storjohann, Florian Weinberger, Rolf Schmaljohann, Johannes F. Imhoff: Vicingus serpentipes gen. nov., sp. nov., a new member of the Flavobacteriales from the North Sea. IJSEM 68: 333 - 340 2018 ( DOI 10.1099/ijsem.0.002509 , PubMed 29205136 )

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67695

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103558

#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 )

#111321

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-ID405650.1 )

* These data were automatically processed and therefore are not curated

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Vicingus serpentipes strain NCIMB 15042

Vicingus serpentipes strain NCIMB 15042

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