Name: Carnobacterium funditum pf3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2264

Type strain:

Species: Carnobacterium funditum

Strain Designation: pf3

Culture col. no.: CCUG 34644, IFO 15549, DSM 5970, ACAM 312, ATCC 49836, JCM 12499, CIP 106503, LMG 13519, LMG 14461, NBRC 15549, NCFB 3002, NCIMB 13247

Strain history: CIP <- 2000, CCUG <- B. Phillips, NCFB, Reading, UK <- DSMZ <- P.D. Franzmann: strain Pf3

NCBI tax ID(s): 1449337 (strain), 2752 (species)

SI-ID 8235

LMG 14461, ATCC 49836, CCUG 34644, DSM 5970, IFO 15549, LMG 13519, NCFB 3002, NCIMB 13247, CIP 106503, CECT 5893, NBRC 15549, JCM 12499

Other strains from Carnobacterium funditum

C. funditum pf2, DSM 5971

Section

Carnobacterium funditum pf3 is a facultative anaerobe, psychrophilic, Gram-positive bacterium that was isolated from water.

Gram-positive
rod-shaped
facultative anaerobe
psychrophilic
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	*Carnobacteriaceae*
	Genus	*Carnobacterium*
	Species	**Carnobacterium funditum**
	Full Scientific Name (LPSN)	Carnobacterium funditum Franzmann et al. 1993

Information on morphological and physiological properties Morphology

[Ref.: #119490]	Gram stain	positive

[Ref.: #119490]	Cell shape	rod-shaped

[Ref.: #119490]	Motility	no

[Ref.: #52229]

Incubation period

2-4 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #2397]

Culture medium

TSBY SALT MEDIUM (DSMZ Medium 466)

[Ref.: #2397]

Culture medium growth

[Ref.: #2397]

Culture medium link

Medium recipe at MediaDive

[Ref.: #2397]

Culture medium composition

expand / minimize

[Ref.: #39543]

Culture medium

MEDIUM 297 - for Carnobacterium alberfunditum

[Ref.: #39543]

Culture medium growth

[Ref.: #39543]

Culture medium composition

expand / minimize

[Ref.: #119490]

Culture medium

CIP Medium 297

[Ref.: #119490]

Culture medium growth

[Ref.: #119490]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #2397]		growth	20 °C
[Ref.: #39543]		growth	22 °C
[Ref.: #52229]		growth	16-18 °C
[Ref.: #67770]		growth	20 °C
[Ref.: #119490]		growth	5-30 °C
[Ref.: #119490]	no	growth	37 °C
[Ref.: #119490]	no	growth	41 °C

[Ref.: #2397]	Temperature range	psychrophilic
[Ref.: #39543]	Temperature range	psychrophilic
[Ref.: #52229]	Temperature range	psychrophilic
[Ref.: #67770]	Temperature range	psychrophilic
[Ref.: #119490]	Temperature range	mesophilic
[Ref.: #119490]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #119490]

Oxygen tolerance

facultative anaerobe

	Salt	Tested relation		Salt conc.
[Ref.: #119490]	NaCl		growth	2-4	%
[Ref.: #119490]	NaCl	no	growth	0	%
[Ref.: #119490]	NaCl	no	growth	6	%
[Ref.: #119490]	NaCl	no	growth	8	%
[Ref.: #119490]	NaCl	no	growth	10	%

[Ref.: #2397]	Murein short key	A31
[Ref.: #2397]	Murein types	A1gamma m-Dpm-direct

	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.: #119490]	citrate ChEBI	-	carbon source
[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-fructose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-galactose 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-mannose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-ribose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-sorbitol 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.: #119490]	esculin ChEBI	+	hydrolysis
[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.: #119490]	hippurate ChEBI	-	hydrolysis
[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.: #119490]	nitrate ChEBI	-	builds gas from
[Ref.: #119490]	nitrate ChEBI	-	reduction
[Ref.: #119490]	nitrite ChEBI	-	builds gas from
[Ref.: #119490]	nitrite ChEBI	-	reduction
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 5-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.: #119490]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #119490]	alcohol dehydrogenase	-	1.1.1.1
[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.: #119490]	amylase	-
[Ref.: #119490]	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.: #119490]	caseinase	-	3.4.21.50
[Ref.: #119490]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #119490]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #119490]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #119490]	gelatinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #119490]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #119490]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #119490]	oxidase	-
[Ref.: #119490]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #119490]	tryptophan deaminase	-
[Ref.: #119490]	tween esterase	-
[Ref.: #119490]	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.: #119490]	10578	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.: #119490]	9561	-	+	+	-	-	+	-	-	-	+	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #2397]	Sample type/isolated from	water
[Ref.: #2397]	Geographic location (country and/or sea, region)	Vestfold Hills, Ace Lake, depth 24 m
[Ref.: #2397]	Continent	Australia and Oceania

[Ref.: #52229]	Sample type/isolated from	Water
[Ref.: #52229]	Geographic location (country and/or sea, region)	Vestfold Hills,Ace Lake
[Ref.: #52229]	Country	Antarctica
[Ref.: #52229]	Country ISO 3 Code	ATA
[Ref.: #52229]	Continent	Australia and Oceania

[Ref.: #67770]	Sample type/isolated from	Water
[Ref.: #67770]	Geographic location (country and/or sea, region)	Ace Lake
[Ref.: #67770]	Country	Antarctica
[Ref.: #67770]	Country ISO 3 Code	ATA
[Ref.: #67770]	Continent	Antarctica

[Ref.: #119490]	Sample type/isolated from	Environment, Water
[Ref.: #119490]	Geographic location (country and/or sea, region)	Ace lake, Vestfold hills
[Ref.: #119490]	Country	Antarctica
[Ref.: #119490]	Country ISO 3 Code	ATA
[Ref.: #119490]	Continent	Antarctica
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC145584 (>99% sequence identity) for Carnobacterium from Microbeatlas

Aquatic Samples	90
Soil Samples	45
Animal Samples	304
Plant Samples	12
Total Samples	451

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

[Ref.: #2397]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119490]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Carnobacterium funditum gene for 16S ribosomal RNA, partial sequence, strain: JCM 12499	LC145584	1505	ENA	2752 tax ID
[Ref.: #20218]	Carnobacterium funditum large 16S-23S rRNA intergenic spacer, tRNA-Ile and tRNA-Ala genes, complete sequence	AY170831	427	ENA	2752 tax ID	*
[Ref.: #20218]	Carnobacterium funditum medium 16S-23S rRNA intergenic spacer and tRNA-Ala gene, complete sequence	AY170832	310	ENA	2752 tax ID	*
[Ref.: #20218]	Carnobacterium funditum small 16S-23S rRNA intergenic spacer, complete sequence	AY170833	204	ENA	2752 tax ID	*
[Ref.: #20218]	Carnobacterium funditum strain pf3 16S ribosomal RNA gene, partial sequence	S86170	1521	ENA	2752 tax ID	*
[Ref.: #20218]	Carnobacterium funditum gene for 16S rRNA, partial sequence, strain: NBRC 15549	AB680899	1484	ENA	2752 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Carnobacterium funditum DSM 5970 pf3	GCA_000744185	contig	GenBank	1449337 tax ID	*
[Ref.: #66792]	Carnobacterium funditum DSM 5970 strain pf3	1449337.3	wgs	PATRIC	1449337 tax ID	*
[Ref.: #66792]	Carnobacterium funditum pf3, DSM 5970	2574179782	draft	JGI IMG/M	2752 tax ID	*

[Ref.: #2397]

GC-content

33.8 mol%

thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Carnobacterium funditum DSM 5970 strain pf3 PATRIC: 1449337.3
[Ref.: #69480]	motile	yes	55.019	no
[Ref.: #69480]	gram-positive	yes	90.952	no
[Ref.: #69480]	anaerobic	no	93.463	no
[Ref.: #69480]	halophile	yes	86.16	no
[Ref.: #69480]	spore-forming	no	83.516	no
[Ref.: #69480]	glucose-util	yes	89.286	no
[Ref.: #69480]	thermophile	no	98.826	yes
[Ref.: #69480]	aerobic	no	94.444	no
[Ref.: #69480]	flagellated	no	90.685	no
[Ref.: #69480]	glucose-ferment	yes	86.035	no

Availability in culture collections External links

[Ref.: #2397]

Culture collection no.

CCUG 34644, IFO 15549, DSM 5970, ACAM 312, ATCC 49836, JCM 12499, CIP 106503, LMG 13519, LMG 14461, NBRC 15549, NCFB 3002, NCIMB 13247

[Ref.: #71823]

SI-ID 8235

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Carnobacterium iners sp. nov., a psychrophilic, lactic acid-producing bacterium from the littoral zone of an Antarctic pond.	Snauwaert I, Hoste B, De Bruyne K, Peeters K, De Vuyst L, Willems A, Vandamme P	Int J Syst Evol Microbiol	10.1099/ijs.0.042861-0	2012	*
Phylogeny	Psychrotrophic, lactic acid-producing bacteria from anoxic waters in Ace Lake, Antarctica; Carnobacterium funditum sp. nov. and Carnobacterium alterfunditum sp. nov.	Franzmann PD, Hopfl P, Weiss N, Tindall BJ	Arch Microbiol	10.1007/BF00262994	1991	*

References

#2397

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5970

#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 )

#39543 ; Curators of the CIP;
#52229 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 34644

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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) .

#71823

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-ID8235.1 )

#119490 Collection of Institut Pasteur ; Curators of the CIP; CIP 106503
* These data were automatically processed and therefore are not curated

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Carnobacterium funditum DSM 5970 strain pf3

Change proposal

Change proposal