Name: Limosilactobacillus fermentum 28
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 6458

Type strain:

Species: Limosilactobacillus fermentum

Strain Designation: 28, Bb28

Culture col. no.: DSM 20052, ATCC 14931, NCDO 1750, CCUG 30138, LMG 6902, JCM 1173, BCRC 12190, CECT 4007, CIP 102980, IFO 15885, KCTC 3112, NBRC 15885, NCIMB 11840, NRIC 1752, NRRL B-4524, VTT E-93489

Strain history: CIP <- 1987, NCFB <- 1964, M.E. Sharpe, Reading, UK <- S. Orla-Jensen : strain 28, Betabacterium longum

NCBI tax ID(s): 525325 (strain), 1613 (species)

SI-ID 3285

LMG 9846, ATCC 11739, DSM 20055, NCFB 928, LMG 6902, ATCC 14931, DSM 20052, JCM 1173, NCFB 1750, NCIMB 11840, NCIB 11840, CCUG 30138, NCDO 1750, CIP 105933, NCDO 928, JCM 1137, CIP 102980, CIP 102981, CCRC 12194, CECT 562, CCRC 12190, CECT 4007, IFO 15885, KCTC 3112, NCIMB 700928, LMD 46.38, HAMBI 74, VTT E-93489, CCRC 14056, HAMBI 68, VTT E-82167, KCTC 3547, NBRC 15885, NRRL B-4524, NCCB 46038, CCM 7192, BCC 4307, BCRC 12190, BCRC 12194, BCRC 14056, CCT 4398, CCT 2571, CCT 3434, JCM 12530, NRRL B-1840, KCTC 5049, CGMCC 1.1880, VTT E-98167

Special Collections

Other strains from Limosilactobacillus fermentum

Section

When using BacDive for research please cite our paper

Limosilactobacillus fermentum 28 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from fermented beets.

Gram-positive
rod-shaped
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	*Limosilactobacillus*
	Species	**Limosilactobacillus fermentum**
	Full Scientific Name (LPSN)	Limosilactobacillus fermentum (Beijerinck 1901) Zheng et al. 2020

	Synonym	Lactobacillus fermentum
	Synonym	Lactobacillus cellobiosus

Information on morphological and physiological properties Morphology

[Ref.: #119329]	Gram stain	positive
[Ref.: #125438]	Gram stain	positive Confidence in %92.921

[Ref.: #119329]	Cell shape	rod-shaped

[Ref.: #119329]	Motility	no
[Ref.: #125438]	Motility	no Confidence in %91.5

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8455]

Culture medium

MRS MEDIUM (DSMZ Medium 11)

[Ref.: #8455]

Culture medium growth

[Ref.: #8455]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8455]

Culture medium composition

expand / minimize

[Ref.: #38114]

Culture medium

MEDIUM 40- for Lactobacillus and Leuconostoc

[Ref.: #38114]

Culture medium growth

[Ref.: #38114]

Culture medium composition

expand / minimize

[Ref.: #119329]

Culture medium

CIP Medium 40

[Ref.: #119329]

Culture medium growth

[Ref.: #119329]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119329]

Culture medium

CIP Medium 41

[Ref.: #119329]

Culture medium growth

[Ref.: #119329]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #8455]		growth	37 °C
[Ref.: #38114]		growth	37 °C
[Ref.: #49932]		growth	37 °C
[Ref.: #67770]		growth	37 °C
[Ref.: #119329]		growth	15-45 °C
[Ref.: #119329]	no	growth	10 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #49932]	Oxygen tolerance	anaerobe
[Ref.: #119329]	Oxygen tolerance	facultative anaerobe
[Ref.: #125439]	Oxygen tolerance	anaerobe Confidence in %93.2

[Ref.: #125438]

Ability of spore formation

no Confidence in %90.864

[Ref.: #8455]	Murein short key	A21.04
[Ref.: #8455]	Murein types	A4ß L-Orn-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-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-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]	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.: #119329]	nitrate ChEBI	-	reduction
[Ref.: #119329]	nitrate ChEBI	+	respiration
[Ref.: #119329]	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]	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]	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.

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #119329]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #119329]	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.: #119329]	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.: #119329]	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.: #119329]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #119329]	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.: #8455]	15724	-	-	-	-	-	+	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #8455]	15261	-	-	-	-	-	+	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #8455]	15260	-	-	-	-	-	+	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #8455]	15259	-	-	-	-	-	+	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #119329]	9116	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.: #119329]	7288	-	-	-	-	-	+	-	-	-	-	+	+	-	+	-	-	-	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[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]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	87.5	7 of 8
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	pyrimidine metabolism	75.56	34 of 45
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	peptidoglycan biosynthesis	73.33	11 of 15
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	urea cycle	69.23	9 of 13
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	glutamate and glutamine metabolism	64.29	18 of 28
[Ref.: #66794]	photosynthesis	64.29	9 of 14
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	NAD metabolism	61.11	11 of 18
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	starch degradation	60	6 of 10
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	methionine metabolism	53.85	14 of 26
[Ref.: #66794]	degradation of pentoses	53.57	15 of 28
[Ref.: #66794]	glycolysis	52.94	9 of 17
[Ref.: #66794]	alanine metabolism	51.72	15 of 29
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	tetrahydrofolate metabolism	50	7 of 14
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	citric acid cycle	50	7 of 14
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	resorcinol degradation	50	1 of 2
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	oxidative phosphorylation	48.35	44 of 91
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	isoprenoid biosynthesis	46.15	12 of 26
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	non-pathway related	44.74	17 of 38
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	lysine metabolism	42.86	18 of 42
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	Entner Doudoroff pathway	40	4 of 10
[Ref.: #66794]	methylglyoxal degradation	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	lipid metabolism	38.71	12 of 31
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	glycine metabolism	30	3 of 10
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	phenol degradation	30	6 of 20
[Ref.: #66794]	tryptophan metabolism	28.95	11 of 38
[Ref.: #66794]	reductive acetyl coenzyme A pathway	28.57	2 of 7
[Ref.: #66794]	ubiquinone biosynthesis	28.57	2 of 7
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	ascorbate metabolism	27.27	6 of 22
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	sulfate reduction	23.08	3 of 13
[Ref.: #66794]	lipid A biosynthesis	22.22	2 of 9
		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.: #8455]	Sample type/isolated from	fermented beets

[Ref.: #49932]	Sample type/isolated from	Fermented beets (Beta vulgaris)

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

[Ref.: #119329]	Sample type/isolated from	Food, Fermented beets
* marker position based on {}

Isolation sources categories

#Engineered

#Food production

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC065036 (>99% sequence identity) for Limosilactobacillus fermentum subclade from Microbeatlas

Aquatic Samples	4660
Soil Samples	1466
Animal Samples	55710
Plant Samples	1385
Total Samples	63221

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

[Ref.: #8455]	Pathogenicity (human)	yes, in single cases
[Ref.: #8455]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119329]	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 fermentum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1173	LC065036	1477	GenBank ENA	1613 tax ID
[Ref.: #20218]	Lactobacillus fermentum 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer region, complete sequence; and 23S ribosomal RNA gene, partial sequence	AF080099	518	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum ATCC 14931 16S ribosomal RNA gene, partial sequence	AF429506	515	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum strain ATCC 14931 16S ribosomal RNA gene, partial sequence; 16S-23S intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	AF429593	523	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum gene for 16S ribosomal RNA, partial sequence	D31689	159	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum 16S ribosomal RNA	M58819	1580	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum strain CIP 102980 16S ribosomal RNA gene, complete sequence	JN175331	1502	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum gene for 16S rRNA, partial sequence, strain: JCM 1137	AB289104	677	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum gene for 16S rRNA, partial sequence, strain: JCM 1173	AB289105	672	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum 16S ribosomal RNA, partial sequence; 16S/23S intergenic spacer region, complete sequence; and 23S ribosomal RNA partial sequence	AF182720	665	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum gene for 16S rRNA, partial sequence, strain: JCM 12530	AB289114	689	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum strain LMG 9846 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequence	EU161600	785	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Lactobacillus fermentum gene for 16S rRNA, partial sequence, strain: NBRC 15885	AB626052	1501	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	L.fermentum 16S rRNA gene	X61142	1381	GenBank ENA	1613 tax ID	*
[Ref.: #20218]	Limosilactobacillus fermentum gene for 16S rRNA, partial sequence, strain: ATCC 14931	AB017345	501	GenBank ENA	1613 tax ID	*
[Ref.: #124043]	Limosilactobacillus fermentum strain NBRC 15885 16S ribosomal RNA gene, partial sequence.	OQ194196	449	GenBank ENA	1613 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]	Limosilactobacillus fermentum ATCC 14931	GCA_000159215	scaffold	GenBank ENA	525325 tax ID
[Ref.: #66792]	Limosilactobacillus fermentum LMG 6902	GCA_029823225	contig	GenBank ENA	1613 tax ID	*
[Ref.: #66792]	Lactobacillus fermentum ATCC 14931	525325.3	wgs	PATRIC	525325 tax ID	*
[Ref.: #66792]	Lactobacillus fermentum ATCC 14931 strain SRR9217392-mag-bin.15	525325.50	wgs	PATRIC	525325 tax ID	*
[Ref.: #66792]	Lactobacillus fermentum strain B1 28	1613.432	complete	PATRIC	1613 tax ID	*
[Ref.: #66792]	Lactobacillus fermentum strain DSM 20052	1613.547	complete	PATRIC	1613 tax ID	*

[Ref.: #8455]	GC-content	53.4 mol%
[Ref.: #67770]	GC-content	50 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	52.4 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	53.4 mol%	thermal denaturation, midpoint method (Tm)

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: Lactobacillus fermentum strain B1 28 PATRIC: 1613.432
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	92.921	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	83.451	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	90.864	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	90.993	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	97.5	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	91.5	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lactobacillus fermentum strain B1 28 PATRIC: 1613.432
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	79.6
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	65.1
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	70.5
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	93.2

Availability in culture collections External links

[Ref.: #8455]

Culture collection no.

DSM 20052, ATCC 14931, NCDO 1750, CCUG 30138, LMG 6902, JCM 1173, BCRC 12190, CECT 4007, CIP 102980, IFO 15885, KCTC 3112, NBRC 15885, NCIMB 11840, NRIC 1752, NRRL B-4524, VTT E-93489

[Ref.: #75931]

SI-ID 3285

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Comparison of 16S rRNA Gene Based Microbial Profiling Using Five Next-Generation Sequencers and Various Primers.	Park C, Kim SB, Choi SH, Kim S	Front Microbiol	10.3389/fmicb.2021.715500	2021	*
Genetics	Genomic characterization of Lactobacillus fermentum DSM 20052.	Brandt K, Nethery MA, O'Flaherty S, Barrangou R	BMC Genomics	10.1186/s12864-020-6740-8	2020	*
Metabolism	Effect of Lyophilized, Encapsulated Lactobacillus fermentum and Lactulose Feeding on Growth Performance, Heavy Metals, and Trace Element Residues in Rainbow Trout (Oncorhynchus mykiss) Tissues.	Madreseh S, Ghaisari HR, Hosseinzadeh S	Probiotics Antimicrob Proteins	10.1007/s12602-018-9487-7	2019	*
Phylogeny	Lactobacillus fermentum FTDC 8312 combats hypercholesterolemia via alteration of gut microbiota.	Lye HS, Kato T, Low WY, Taylor TD, Prakash T, Lew LC, Ohno H, Liong MT	J Biotechnol	10.1016/j.jbiotec.2017.09.007	2017	*
Phylogeny	Lactobacillus gorillae sp. nov., isolated from the faeces of captive and wild western lowland gorillas (Gorilla gorilla gorilla).	Tsuchida S, Kitahara M, Nguema PPM, Norimitsu S, Fujita S, Yamagiwa J, Ngomanda A, Ohkuma M, Ushida K	Int J Syst Evol Microbiol	10.1099/ijs.0.068429-0	2014	*
Enzymology	Stable integration and expression of heterologous genes in several lactobacilli using an integration vector constructed from the integrase and attP sequences of phage PhiAT3 isolated from Lactobacillus casei ATCC 393.	Lin CF, Lo TC, Kuo YC, Lin TH	Appl Microbiol Biotechnol	10.1007/s00253-012-4393-5	2012	*
Metabolism	Effects of ensilage on storage and enzymatic degradability of sugar beet pulp.	Zheng Y, Yu C, Cheng YS, Zhang R, Jenkins B, VanderGheynst JS	Bioresour Technol	10.1016/j.biortech.2010.09.105	2010	*
Phylogeny	Development and assessment of a real-time pcr assay for rapid and sensitive detection of a novel thermotolerant bacterium, Lactobacillus thermotolerans, in chicken feces.	Selim AS, Boonkumklao P, Sone T, Assavanig A, Wada M, Yokota A	Appl Environ Microbiol	10.1128/AEM.71.8.4214-4219.2005	2005	*
Metabolism	Evaluation of nitric oxide production by lactobacilli.	Xu J, Verstraete W	Appl Microbiol Biotechnol	10.1007/s002530100616	2001	*
Pathogenicity	Digoxigenin-labeled deoxyribonucleic acid probes for the enumeration of bifidobacteria in fecal samples.	Kaneko T, Kurihara H	J Dairy Sci	10.3168/jds.S0022-0302(97)76054-5	1997	*
	[Influence lactobacilli on the functional activity of macrophages and delayed hypersensitivity reaction in mice].	Ielyns'ka NO, Kur'iata NV, Filippova TO, Ivanytsia VO	Mikrobiol Z		2003	*
	Use of Selected Lactic Acid Bacteria for the Fermentation of Legume-Based Water Extracts.	Demarinis C, Verni M, Pinto L, Rizzello CG, Baruzzi F	Foods	10.3390/foods11213346	2022	*
	Changes in nutrient consumption patterns of Lactobacillus fermentum mediated by sodium lactate.	Zhang K, Zhang Z, Guo X, Guo R, Zhu L, Qiu X, Yu X, Chai J, Gu C, Feng Z	J Sci Food Agric	10.1002/jsfa.12295	2022	*

References

#8455

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20052

#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 )

#38114 ; Curators of the CIP;
#49932 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30138

#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 .

#75931

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-ID3285.1 )

#119329 Collection of Institut Pasteur ; Curators of the CIP; CIP 102980

#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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Lactobacillus fermentum strain B1 28

Lactobacillus fermentum strain B1 28

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