Name: Vagococcus fluvialis M-29c
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5262

Type strain:

Species: Vagococcus fluvialis

Strain Designation: M-29c

Culture col. no.: DSM 5731, ATCC 49515, NCDO 2497, CCUG 32704, CIP 102976, LMG 9464

Strain history: CIP <- 1987, NCFB, Lactococcus sp. <- H. Hashimoto: strain M-29 C, Streptococcus lactis

NCBI tax ID(s): 2738 (species)

SI-ID 5032

LMG 9464, ATCC 49515, CIP 102976, NCFB 2497, NCDO 2497, CCUG 32704, DSM 5731, NCIMB 13038, CCM 4304

Other strains from Vagococcus fluvialis

V. fluvialis M-128f, DSM 5732, NCDO 2499
V. fluvialis ENDO-EH, DSM 21402
V. fluvialis CIP 65.27
V. fluvialis CIP 102977, DSM 18578
V. fluvialis
V. fluvialis CCUG 33393
V. fluvialis CCUG 38909
V. fluvialis CCUG 38910
V. fluvialis CCUG 42871

Section

Vagococcus fluvialis M-29c is an aerobe, mesophilic, Gram-positive human pathogen that was isolated from chicken faeces.

Gram-positive
oval-shaped
aerobe
human pathogen
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	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Enterococcaceae*
	Genus	*Vagococcus*
	Species	**Vagococcus fluvialis**
	Full Scientific Name (LPSN)	Vagococcus fluvialis Collins et al. 1990

Information on morphological and physiological properties Morphology

[Ref.: #119413]	Gram stain	positive

[Ref.: #119413]	Cell shape	oval-shaped

[Ref.: #119413]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #2312]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #2312]

Culture medium growth

[Ref.: #2312]

Culture medium link

Medium recipe at MediaDive

[Ref.: #2312]

Culture medium composition

expand / minimize

[Ref.: #38745]

Culture medium

MEDIUM 29- Brain heart agar

[Ref.: #38745]

Culture medium growth

[Ref.: #38745]

Culture medium composition

expand / minimize

[Ref.: #119413]

Culture medium

CIP Medium 29

[Ref.: #119413]

Culture medium growth

[Ref.: #119413]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #2312]	growth	30 °C
[Ref.: #38745]	growth	37 °C
[Ref.: #51141]	growth	30 °C

[Ref.: #2312]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #51141]	Oxygen tolerance	aerobe
[Ref.: #119413]	Oxygen tolerance	facultative anaerobe

[Ref.: #2312]	Murein short key	A11.31
[Ref.: #2312]	Murein types	A4alpha L-Lys-D-Asp

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	amygdalin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	arbutin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	cellobiose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-glucose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannitol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-ribose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	gentiobiose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycerol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycogen ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-rhamnose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	lactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	maltose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	melibiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	myo-inositol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	N-acetylglucosamine ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #119413]	nitrate ChEBI	-	reduction
[Ref.: #119413]	nitrite ChEBI	-	reduction
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	raffinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	salicin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	starch ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	sucrose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	trehalose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	turanose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #119413]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[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.: #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.: #119413]	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.: #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.: #119413]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #119413]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 50CH acid:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #119413]	9114	not determinedn.d.	+	-	-	-	+	-	-	-	-	+/-	+	+/-	+/-	-	-	-	-	+	+/-	-	+	+	+	+	+	+	+	+	-	-	+	+	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	+/-

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.: #119413]	7286	-	-	+	+	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #2312]	Sample type/isolated from	chicken faeces
[Ref.: #2312]	Country	Japan
[Ref.: #2312]	Country ISO 3 Code	JPN
[Ref.: #2312]	Continent	Asia

[Ref.: #51141]	Sample type/isolated from	Chicken feces

[Ref.: #119413]	Sample type/isolated from	Animal, Chicken, feces
* marker position based on {}

Isolation sources categories

#Host	#Birds	#Chicken
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence Y18098 (>99% sequence identity) for Vagococcus fluvialis from Microbeatlas

Aquatic Samples	1703
Soil Samples	1044
Animal Samples	6217
Plant Samples	253
Total Samples	9217

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

[Ref.: #2312]	Pathogenicity (human)	yes
[Ref.: #2312]	Pathogenicity (animal)	yes
[Ref.: #2312]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #119413]	Biosafety level	1	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.: #20218]	Vagococcus fluvialis strain CCUG 32704 16S-23S ribosomal RNA intergenic spacer, partial sequence	JQ697980	232	ENA	2738 tax ID	*
[Ref.: #20218]	Vagococcus fluvialis 16S rRNA gene	Y18098	1469	ENA	2738 tax ID	*
[Ref.: #20218]	Vagococcus fluvialis 16S ribosomal RNA	X54258	1484	ENA	2738 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Vagococcus fluvialis NCDO 2497	GCA_003987575	contig	GenBank	2738 tax ID	*
[Ref.: #66792]	Vagococcus fluvialis DSM 5731	GCA_003337315	scaffold	GenBank	2738 tax ID	*
[Ref.: #66792]	Vagococcus fluvialis strain DSM 5731	2738.3	wgs	PATRIC	2738 tax ID	*
[Ref.: #66792]	Vagococcus fluvialis DSM 5731	2770939496	draft	JGI IMG/M	2738 tax ID	*

[Ref.: #2312]

GC-content

33.6 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Vagococcus fluvialis DSM 5731 NCBI: GCA_003337315.1
[Ref.: #69480]	motile	yes	51.949	no
[Ref.: #69480]	flagellated	no	78.962	no
[Ref.: #69480]	gram-positive	yes	83.627	no
[Ref.: #69480]	anaerobic	no	95.41	yes
[Ref.: #69480]	aerobic	no	91.988	yes
[Ref.: #69480]	halophile	yes	74.416	no
[Ref.: #69480]	spore-forming	no	77.626	no
[Ref.: #69480]	glucose-util	yes	90.114	no
[Ref.: #69480]	thermophile	no	98.954	yes
[Ref.: #69480]	glucose-ferment	yes	80.732	no

Availability in culture collections External links

[Ref.: #2312]

Culture collection no.

DSM 5731, ATCC 49515, NCDO 2497, CCUG 32704, CIP 102976, LMG 9464

[Ref.: #74752]

SI-ID 5032

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Vagococcus xieshaowenii sp. nov., isolated from snow finch (Montifringilla taczanowskii) cloacal content.	Ge Y, Yang J, Lai XH, Zhang G, Jin D, Lu S, Wang B, Huang Y, Huang Y, Ren Z, Zhang X, Xu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004061	2020	*
Phylogeny	Vagococcus penaei sp. nov., isolated from spoilage microbiota of cooked shrimp (Penaeus vannamei).	Jaffres E, Prevost H, Rossero A, Joffraud JJ, Dousset X	Int J Syst Evol Microbiol	10.1099/ijs.0.012872-0	2009	*
Phylogeny	16S ribosomal ribonucleic acid sequence analyses of lactococci and related taxa. Description of Vagococcus fluvialis gen. nov., sp. nov.	Collins MD, Ash C, Farrow JA, Wallbanks S, Williams AM	J Appl Bacteriol	10.1111/j.1365-2672.1989.tb02516.x	1989	*

References

#2312

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5731

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#38745 ; Curators of the CIP;
#51141 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 32704

#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) .

#68371

Automatically annotated from API 50CH acid .

#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 .

#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) .

#74752

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-ID5032.1 )

#119413 Collection of Institut Pasteur ; Curators of the CIP; CIP 102976
* These data were automatically processed and therefore are not curated

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Vagococcus fluvialis DSM 5731

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