Name: Levilactobacillus acidifarinae R-19065
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 6661

Type strain:

Species: Levilactobacillus acidifarinae

Strain Designation: R-19065, R-16065

Culture col. no.: CCUG 50162, DSM 19394, CCM 7240, LMG 22200, JCM 15949, BCRC 80774, CIP 108702, NBRC 107156

Strain history: CIP <- 2005, CCM <- M. Vancanneyt, LMG <- P Neysens, IMDO, Vrije Univ., Brussels, Belgium: strain R-16065

NCBI tax ID(s): 1423715 (strain), 267364 (species)

SI-ID 10207

LMG 22200, CCM 7240, CCUG 50162, DSM 19394, JCM 15949, CIP 108702

Special Collections

Section

When using BacDive for research please cite our paper

Levilactobacillus acidifarinae R-19065 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from artisanal wheat sourdough.

Gram-positive
rod-shaped
mesophilic
microaerophile
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	*Levilactobacillus*
	Species	**Levilactobacillus acidifarinae**
	Full Scientific Name (LPSN)	Levilactobacillus acidifarinae (Vancanneyt et al. 2005) Zheng et al. 2020

Synonym

Lactobacillus acidifarinae

Information on morphological and physiological properties Morphology

[Ref.: #31309]	Gram stain	positive
[Ref.: #115998]	Gram stain	positive
[Ref.: #125438]	Gram stain	positive Confidence in %92.376
[Ref.: #125439]	Gram stain	positive Confidence in %95.1

[Ref.: #31309]	Cell length	11 µm

[Ref.: #31309]	Cell width	1 µm

[Ref.: #31309]	Cell shape	rod-shaped
[Ref.: #115998]	Cell shape	rod-shaped

[Ref.: #31309]	Motility	no
[Ref.: #115998]	Motility	no
[Ref.: #125438]	Motility	no Confidence in %90.5

[Ref.: #31309]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8088]

Culture medium

PEDIOCOCCUS DAMNOSUS MEDIUM (DSMZ Medium 231)

[Ref.: #8088]

Culture medium growth

[Ref.: #8088]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8088]

Culture medium composition

expand / minimize

[Ref.: #38291]

Culture medium

MEDIUM 40- for Lactobacillus and Leuconostoc

[Ref.: #38291]

Culture medium growth

[Ref.: #38291]

Culture medium composition

expand / minimize

[Ref.: #115998]

Culture medium

CIP Medium 40

[Ref.: #115998]

Culture medium growth

[Ref.: #115998]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #8088]		growth	30 °C
[Ref.: #31309]		optimum	7.5 °C
[Ref.: #38291]		growth	37 °C
[Ref.: #58765]		growth	37 °C
[Ref.: #67770]		growth	30 °C
[Ref.: #115998]		growth	10-37 °C
[Ref.: #115998]	negative	growth	45 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8088]	Oxygen tolerance	microaerophile
[Ref.: #31309]	Oxygen tolerance	facultative anaerobe
[Ref.: #58765]	Oxygen tolerance	anaerobe
[Ref.: #115998]	Oxygen tolerance	facultative anaerobe
[Ref.: #125439]	Oxygen tolerance	microaerophile Confidence in %97.9

[Ref.: #31309]	Ability of spore formation	no
[Ref.: #125439]	Ability of spore formation	no Confidence in %95

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31309]		NaCl		growth	<5	%
[Ref.: #31309]		NaCl		optimum	2.5	%

[Ref.: #31309]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31309]	arabinose ChEBI	+	carbon source
[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-fructose 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-mannose 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]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31309]	fructose ChEBI	+	carbon source
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	gentiobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31309]	glucose ChEBI	+	carbon source
[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.: #31309]	L-arabitol ChEBI	+	carbon source
[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.: #31309]	maltose ChEBI	+	carbon source
[Ref.: #68371]	maltose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #31309]	mannitol ChEBI	+	carbon source
[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.: #115998]	nitrate ChEBI	-	reduction
[Ref.: #115998]	nitrate ChEBI	+	respiration
[Ref.: #115998]	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.: #31309]	ribose ChEBI	+	carbon source
[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]	turanose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31309]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #115998]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #115998]	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.: #115998]	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.: #115998]	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.: #115998]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #115998]	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.: #8088]	15196	-	-	-	-	+	+	+	-	-	-	+	+	+	-	-	-	-	-	+	-	-	-	+	-	-	+	-	-	+	+/-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+	-	-
[Ref.: #115998]	11356	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.: #115998]	11400	-	+	-	-	-	-	-	-	-	-	+	+	+	+	+	-	+	-	-	-

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

[Ref.: #8088]	Sample type/isolated from	artisanal wheat sourdough
[Ref.: #8088]	Country	Belgium
[Ref.: #8088]	Country ISO 3 Code	BEL
[Ref.: #8088]	Continent	Europe

[Ref.: #58765]	Sample type/isolated from	Wheat sourdough
[Ref.: #58765]	Country	Belgium
[Ref.: #58765]	Country ISO 3 Code	BEL
[Ref.: #58765]	Continent	Europe

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

[Ref.: #115998]	Sample type/isolated from	Food, Wheat sourdough
[Ref.: #115998]	Country	Belgium
[Ref.: #115998]	Country ISO 3 Code	BEL
[Ref.: #115998]	Continent	Europe
[Ref.: #115998]	Isolation date	2003
* marker position based on {}

Isolation sources categories

#Engineered

#Food production

#Food

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC483563 (>99% sequence identity) for Levilactobacillus from Microbeatlas

Aquatic Samples	158
Soil Samples	49
Animal Samples	2008
Plant Samples	170
Total Samples	2385

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

[Ref.: #8088]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #115998]	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.: #67770]	Lactobacillus acidifarinae gene for 16S ribosomal RNA, partial sequence	LC483563	1508	GenBank ENA	267364 tax ID
[Ref.: #8088]	Lactobacillus acidifarinae 16S rRNA gene, type strain LMG 22200	AJ632158	1518	GenBank ENA	267364 tax ID
[Ref.: #124043]	Lactobacillus acidifarinae gene for 16S rRNA, partial sequence, strain: NBRC 107156.	AB626070	1491	GenBank ENA	267364 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Levilactobacillus acidifarinae DSM 19394	GCA_001434835	scaffold	GenBank ENA	1423715 tax ID
[Ref.: #67770]	Levilactobacillus acidifarinae NBRC 107156	GCA_007991975	contig	GenBank ENA	267364 tax ID
[Ref.: #66792]	Lactobacillus acidifarinae DSM 19394	1423715.3	wgs	PATRIC	1423715 tax ID	*
[Ref.: #66792]	Lactobacillus acidifarinae strain NBRC 107156	267364.3	wgs	PATRIC	267364 tax ID	*
[Ref.: #66792]	Levilactobacillus acidifarinae DSM 19394	2700989134	draft	JGI IMG/M	1423715 tax ID	*

[Ref.: #8088]	GC-content	51 mol%
[Ref.: #67770]	GC-content	51 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	51.5 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: Lactobacillus acidifarinae DSM 19394 PATRIC: 1423715.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	92.376	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	84.416	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	78.415	yes
[Ref.: #125438]	aerobic	aerobicⓘ	no	97.162	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	95	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	90.5	yes

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Levilactobacillus acidifarinae DSM 19394 NCBI: GCA_001434835
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	95
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	86.9
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	95.1
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	microaerophile	97.9

Availability in culture collections External links

[Ref.: #8088]

Culture collection no.

CCUG 50162, DSM 19394, CCM 7240, LMG 22200, JCM 15949, BCRC 80774, CIP 108702, NBRC 107156

[Ref.: #76135]

SI-ID 10207

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lactobacillus acidifarinae sp. nov. and Lactobacillus zymae sp. nov., from wheat sourdoughs.	Vancanneyt M, Neysens P, De Wachter M, Engelbeen K, Snauwaert C, Cleenwerck I, Van der Meulen R, Hoste B, Tsakalidou E, De Vuyst L, Swings J	Int J Syst Evol Microbiol	10.1099/ijs.0.63274-0	2005	*

References

#8088

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19394

#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 )

#31309

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27624 (see below)

#38291 ; Curators of the CIP;
#58765 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 50162

#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 .

#76135

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-ID10207.1 )

#115998 Collection of Institut Pasteur ; Curators of the CIP; CIP 108702

#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 .

#27624

IJSEM 615 2005 ( DOI 10.1099/ijs.0.63274-0 , PubMed 15774633 )

* These data were automatically processed and therefore are not curated

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Lactobacillus acidifarinae DSM 19394

Levilactobacillus acidifarinae DSM 19394

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