Name: Companilactobacillus farciminis Rv4 na
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 6455

Type strain:

Species: Companilactobacillus farciminis

Strain Designation: Rv4 na, Rv4na

Culture col. no.: DSM 20184, ATCC 29644, NCIB 11717, CCUG 30671, JCM 1097, BCRC 14043, CECT 571, CIP 103136, KCTC 3681, LMG 9200, NBRC 107150, NCFB 2330, NCIMB 11717, NRRL B-4566, VTT E-991267, NCDO 2330, IMET 11462

Strain history: CIP <- 1988, DSM <- G. Reuter: strain Rv4na

NCBI tax ID(s): 1612 (species)

SI-ID 3284

LMG 9200, ATCC 29644, JCM 1097, NCFB 2330, NCIMB 11717, CCUG 30671, NCIB 11717, CIP 103136, NCDO 2330, IMET 11462, CCRC 14043, CECT 571, KCTC 3681, NRRL B-4566, BCRC 14043, VTT E-991267, DSM 20184

Special Collections

Other strains from Companilactobacillus farciminis

Section

When using BacDive for research please cite our paper

Companilactobacillus farciminis Rv4 na is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from sausage.

Gram-positive
rod-shaped
facultative anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Lactobacillaceae*
	Genus	*Companilactobacillus*
	Species	**Companilactobacillus farciminis**
	Full Scientific Name (LPSN)	Companilactobacillus farciminis (Reuter 1983 ex Reuter 1970) Zheng et al. 2020

Synonym

Lactobacillus farciminis

Information on morphological and physiological properties Morphology

[Ref.: #119281]	Gram stain	positive
[Ref.: #125438]	Gram stain	positive Confidence in %94.428

[Ref.: #119281]	Cell shape	rod-shaped

[Ref.: #119281]	Motility	no
[Ref.: #125438]	Motility	no Confidence in %93

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8460]

Culture medium

MRS MEDIUM (DSMZ Medium 11)

[Ref.: #8460]

Culture medium growth

[Ref.: #8460]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8460]

Culture medium composition

expand / minimize

[Ref.: #38122]

Culture medium

MEDIUM 40- for Lactobacillus and Leuconostoc

[Ref.: #38122]

Culture medium growth

[Ref.: #38122]

Culture medium composition

expand / minimize

[Ref.: #119281]

Culture medium

CIP Medium 41

[Ref.: #119281]

Culture medium growth

[Ref.: #119281]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119281]

Culture medium

CIP Medium 40

[Ref.: #119281]

Culture medium growth

[Ref.: #119281]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #8460]		growth	30 °C
[Ref.: #38122]		growth	30 °C
[Ref.: #67770]		growth	30 °C
[Ref.: #119281]		growth	15-37 °C
[Ref.: #119281]	no	growth	10 °C
[Ref.: #119281]	no	growth	45 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #119281]	Oxygen tolerance	facultative anaerobe
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %97.9

[Ref.: #8460]	Murein short key	A11.31
[Ref.: #8460]	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]	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.: #68371]	galactitol 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]	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.: #119281]	nitrate ChEBI	-	reduction
[Ref.: #119281]	nitrate ChEBI	+	respiration
[Ref.: #119281]	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]	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.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #119281]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #119281]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #119281]	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.: #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.: #119281]	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.: #119281]	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.: #119281]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #119281]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[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.: #8460]	15349	-	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	-	-	-	-	-	+	+	-	+	+	+	+	+	+	-	+	+	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-
[Ref.: #119281]	9177	not determinedn.d.	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	-	-	-	-	-	+	+	-	+/-	+/-	+/-	+/-	+/-	+	-	+	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-

API® Biotype100:

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

	API ID	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
[Ref.: #119281]	337	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.: #119281]	7385	-	+	-	-	-	+	+	-	-	-	+	+	-	-	-	+	+	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	palmitate biosynthesis	81.82	18 of 22
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	photosynthesis	71.43	10 of 14
[Ref.: #66794]	starch degradation	70	7 of 10
[Ref.: #66794]	vitamin B1 metabolism	69.23	9 of 13
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	purine metabolism	67.02	63 of 94
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	alanine metabolism	62.07	18 of 29
[Ref.: #66794]	glutamate and glutamine metabolism	60.71	17 of 28
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	histidine metabolism	58.62	17 of 29
[Ref.: #66794]	oxidative phosphorylation	58.24	53 of 91
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	chorismate metabolism	55.56	5 of 9
[Ref.: #66794]	NAD metabolism	55.56	10 of 18
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	arginine metabolism	54.17	13 of 24
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	tetrahydrofolate metabolism	50	7 of 14
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	degradation of sugar alcohols	50	8 of 16
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	pyrimidine metabolism	48.89	22 of 45
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	lysine metabolism	45.24	19 of 42
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	lipid metabolism	41.94	13 of 31
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	isoprenoid biosynthesis	38.46	10 of 26
[Ref.: #66794]	degradation of pentoses	35.71	10 of 28
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	leucine metabolism	30.77	4 of 13
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	citric acid cycle	28.57	4 of 14
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	tryptophan metabolism	26.32	10 of 38
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	degradation of sugar acids	24	6 of 25
[Ref.: #66794]	sulfate reduction	23.08	3 of 13
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	22.22	2 of 9
[Ref.: #66794]	tyrosine metabolism	21.43	3 of 14
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
[Ref.: #66794]	heme 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.: #8460]	Sample type/isolated from	sausage

[Ref.: #50208]	Sample type/isolated from	Sausage

[Ref.: #67770]	Sample type/isolated from	Sausage

[Ref.: #119281]	Sample type/isolated from	Food, Sausage
* marker position based on {}

Isolation sources categories

#Engineered

#Food production

#Meat

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC063168 (>99% sequence identity) for Lactobacillaceae from Microbeatlas

Aquatic Samples	342
Soil Samples	237
Animal Samples	2894
Plant Samples	234
Total Samples	3707

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

[Ref.: #8460]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119281]	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]	Lactobacillus farciminis gene for 16S ribosomal RNA, partial sequence, strain: JCM 1097	LC063168	1528	GenBank ENA	936140 tax ID
[Ref.: #124043]	Lactobacillus farciminis gene for 16S rRNA, partial sequence, strain: NBRC 107150.	AB626064	1492	GenBank ENA	1612 tax ID	*
[Ref.: #20218]	Lactobacillus farciminis strain ATCC 29644 16S ribosomal RNA gene, partial sequence	M58817	1515	GenBank ENA	1612 tax ID	*
[Ref.: #20218]	Lactobacillus farciminis gene for 16S ribosomal RNA, partial sequence	AB840589	1515	GenBank ENA	1612 tax ID	*
[Ref.: #20218]	Lactobacillus farciminis 16S-23S ribosomal RNA small intergenic spacer region, complete sequence	AF500490	194	GenBank ENA	936140 tax ID	*
[Ref.: #20218]	Lactobacillus farciminis 16S-23S ribosomal RNA large intergenic spacer region; and tRNA-Ile and tRNA-Ala genes, complete sequence	AF500491	388	GenBank ENA	936140 tax ID	*
[Ref.: #20218]	Lactobacillus farciminis partial 23S rRNA gene and 16S-23S IGS, strain DSM 20184	AJ616017	663	GenBank ENA	936140 tax ID	*
[Ref.: #20218]	Lactobacillus farciminis gene for 16S rRNA, partial sequence, strain: JCM 1097	AB289103	682	GenBank ENA	936140 tax ID	*
[Ref.: #20218]	Lactobacillus farciminis gene for 16S ribosomal RNA, partial sequence	D31688	177	GenBank ENA	936140 tax ID	*

Genome sequence information:

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

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Companilactobacillus farciminis KCTC 3681 = DSM 20184	GCA_000184535	scaffold	GenBank ENA	936140 tax ID
[Ref.: #67770]	Companilactobacillus farciminis KCTC 3681 = DSM 20184	GCA_001434775	contig	GenBank ENA	936140 tax ID
[Ref.: #67770]	Companilactobacillus farciminis ATCC 29644	GCA_004354695	contig	GenBank ENA	1612 tax ID
[Ref.: #66792]	Lactobacillus farciminis KCTC 3681 = DSM 20184	936140.5	wgs	PATRIC	936140 tax ID	*
[Ref.: #66792]	Lactobacillus farciminis KCTC 3681 = DSM 20184 strain KCTC3681	936140.9	plasmid	PATRIC	936140 tax ID	*
[Ref.: #66792]	Lactobacillus farciminis strain ATCC 29644	1612.42	wgs	PATRIC	1612 tax ID	*

[Ref.: #8460]	GC-content	36.3 mol%
[Ref.: #67770]	GC-content	36 mol%
[Ref.: #67770]	GC-content	36.4 mol%	genome sequence analysis

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Companilactobacillus farciminis KCTC 3681 = DSM 20184 DSM 20184 NCBI: GCA_002706745.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	94.428	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	85.986	yes
[Ref.: #125438]	aerobic	aerobicⓘ	no	93.877	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	86.513	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	95.471	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	93	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Companilactobacillus farciminis KCTC 3681 = DSM 20184 NCBI: GCA_002706745
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	74.5
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	66.6
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	88.1
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	97.9

Availability in culture collections External links

[Ref.: #8460]

Culture collection no.

DSM 20184, ATCC 29644, NCIB 11717, CCUG 30671, JCM 1097, BCRC 14043, CECT 571, CIP 103136, KCTC 3681, LMG 9200, NBRC 107150, NCFB 2330, NCIMB 11717, NRRL B-4566, VTT E-991267, NCDO 2330, IMET 11462

[Ref.: #75928]

SI-ID 3284

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Companilactobacillus pabuli sp. nov., a lactic acid bacterium isolated from animal feed.	Jung JY, Kang HK, Jin HM, Han SS, Kwon YC, Eun JJ, Kim SC, Seo MJ, Ryu BG, Chung EJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.004670	2021	*
Phylogeny	Lactobacillus zhachilii sp. nov., a lactic acid bacterium isolated from Zha-Chili.	Zhang Z, Hou Q, Wang Y, Li W, Zhao H, Sun Z, Guo Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.003362	2019	*
Pathogenicity	Structure and biological activities of a hexosamine-rich cell wall polysaccharide isolated from the probiotic Lactobacillus farciminis.	Maes E, Sadovskaya I, Leveque M, Elass-Rochard E, Payre B, Grard T, Theodorou V, Guerardel Y, Mercier-Bonin M	Glycoconj J	10.1007/s10719-018-09854-y	2019	*
Phylogeny	Lactobacillus formosensis sp. nov., a lactic acid bacterium isolated from fermented soybean meal.	Chang CH, Chen YS, Lee TT, Chang YC, Yu B	Int J Syst Evol Microbiol	10.1099/ijs.0.070938-0	2014	*
Metabolism	A C69-family cysteine dipeptidase from Lactobacillus farciminis JCM1097 possesses strong Gly-Pro hydrolytic activity.	Sakamoto T, Otokawa T, Kono R, Shigeri Y, Watanabe K	J Biochem	10.1093/jb/mvt069	2013	*
Phylogeny	Lactobacillus heilongjiangensis sp. nov., isolated from Chinese pickle.	Gu CT, Li CY, Yang LJ, Huo GC	Int J Syst Evol Microbiol	10.1099/ijs.0.053355-0	2013	*
Metabolism	In vitro characterization of aggregation and adhesion properties of viable and heat-killed forms of two probiotic Lactobacillus strains and interaction with foodborne zoonotic bacteria, especially Campylobacter jejuni.	Tareb R, Bernardeau M, Gueguen M, Vernoux JP	J Med Microbiol	10.1099/jmm.0.049965-0	2013	*
Genetics	Genome sequence of Lactobacillus farciminis KCTC 3681.	Nam SH, Choi SH, Kang A, Kim DW, Kim RN, Kim A, Kim DS, Park HS	J Bacteriol	10.1128/JB.00003-11	2011	*
Phylogeny	Lactobacillus versmoldensis sp. nov., isolated from raw fermented sausage.	Krockel L, Schillinger U, Franz CMAP, Bantleon A, Ludwig W	Int J Syst Evol Microbiol	10.1099/ijs.0.02387-0	2003	*
Phylogeny	Lactobacillus kimchii sp. nov., a new species from kimchi.	Yoon JH, Kang SS, Mheen TI, Ahn JS, Lee HJ, Kim TK, Park CS, Kho YH, Kang KH, Park YH	Int J Syst Evol Microbiol	10.1099/00207713-50-5-1789	2000	*
Phylogeny	Lactobacillus alimentarius sp. nov., nom rev. and Lactobacillus farciminis sp. nov., nom. rev.	Reuter G	Syst Appl Microbiol	10.1016/S0723-2020(83)80055-1	1983	*

References

#8460

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20184

#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 )

#38122 ; Curators of the CIP;
#50208 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30671

#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 )

#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 .

#75928

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-ID3284.1 )

#119281 Collection of Institut Pasteur ; Curators of the CIP; CIP 103136

#124043

Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Companilactobacillus farciminis KCTC 3681 = DSM 20184 DSM 20184

Companilactobacillus farciminis KCTC 3681 = DSM 20184

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