Name: Leuconostoc holzapfelii DSM 21478
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6839

Type strain:

Species: Leuconostoc holzapfelii

Culture col. no.: DSM 21478, CCUG 54536, LMG 23990, JCM 16942, NCIMB 14555

Strain history: LMG 23990 <-- M. Vancanneyt R-30972 <-- C. Franz.

NCBI tax ID(s): 434464 (species)

SI-ID 294349

LMG 23990, CCUG 54536, JCM 16942, DSM 21478

Section

Leuconostoc holzapfelii DSM 21478 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from coffee fermentation.

Gram-positive
ovoid-shaped
mesophilic
microaerophile
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	*Lactobacillaceae*
	Genus	*Leuconostoc*
	Species	**Leuconostoc holzapfelii**
	Full Scientific Name (LPSN)	Leuconostoc holzapfelii De Bruyne et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32307]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #32307]	Cell length	2.5 µm

[Ref.: #32307]	Cell width	0.9 µm

[Ref.: #32307]	Cell shape	ovoid-shaped

[Ref.: #32307]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %98.091

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15729]

Culture medium

MRS MEDIUM (DSMZ Medium 11)

[Ref.: #15729]

Culture medium growth

[Ref.: #15729]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15729]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15729]	growth	30 °C
[Ref.: #32307]	growth	10-37 °C
[Ref.: #32307]	optimum	23.5 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #15729]	Temperature range	mesophilic
[Ref.: #32307]	Temperature range	psychrophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32307]			optimum	3.9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #15729]	Oxygen tolerance	microaerophile
[Ref.: #32307]	Oxygen tolerance	facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %100

[Ref.: #32307]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #32307]	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-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]	esculin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #32307]	fructose ChEBI	+	carbon source
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #32307]	galactose ChEBI	+	carbon source
[Ref.: #68371]	gentiobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #32307]	gluconate ChEBI	+	carbon source
[Ref.: #68371]	gluconate ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #32307]	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.: #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.: #32307]	maltose ChEBI	+	carbon source
[Ref.: #68371]	maltose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #32307]	mannose ChEBI	+	carbon source
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #32307]	melibiose ChEBI	+	carbon source
[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.: #32307]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #68371]	N-acetylglucosamine ChEBI	+	builds acid from	* from API 50CH acid
[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.: #32307]	raffinose ChEBI	+	carbon source
[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.: #32307]	trehalose ChEBI	+	carbon source
[Ref.: #68371]	trehalose 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.

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.: #15729]	14740	-	-	-	-	+	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	+	-	+	+	+	-	-	+	-	-	-	-	+/-	-	-	-	-	-	-	+	-	-

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

[Ref.: #15729]	Sample type/isolated from	coffee fermentation
[Ref.: #15729]	Country	Ethiopia
[Ref.: #15729]	Country ISO 3 Code	ETH
[Ref.: #15729]	Continent	Africa

[Ref.: #60220]	Sample type/isolated from	Coffee fermentation
[Ref.: #60220]	Sampling date	2000
[Ref.: #60220]	Country	Ethiopia
[Ref.: #60220]	Country ISO 3 Code	ETH
[Ref.: #60220]	Continent	Africa

[Ref.: #67770]	Sample type/isolated from	Ethiopian coffee fermentation
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	-
#Host	#Plants	#Shrub (Scrub)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM600682 (>99% sequence identity) for Leuconostoc from Microbeatlas

Aquatic Samples	477
Soil Samples	139
Animal Samples	2228
Plant Samples	285
Total Samples	3129

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

[Ref.: #15729]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #15729]	Leuconostoc holzapfelii 16S rRNA gene, type strain LMG 23990T	AM600682	1415	ENA	434464 tax ID
[Ref.: #67770]	Leuconostoc holzapfelii JCM 16942 gene for 16S rRNA, partial sequence	LC519862	1489	ENA	434464 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Leuconostoc holzapfelii CCUG 54536	GCA_012396485	contig	GenBank	434464 tax ID
[Ref.: #66792]	Leuconostoc holzapfelii JCM 16942	GCA_019655995	contig	GenBank	434464 tax ID	*
[Ref.: #66792]	Leuconostoc holzapfelii strain CCUG 54536	434464.4	wgs	PATRIC	434464 tax ID	*
[Ref.: #66792]	Leuconostoc holzapfelii strain JCM 16942	434464.6	wgs	PATRIC	434464 tax ID	*

[Ref.: #15729]	GC-content	43.5 mol%
[Ref.: #67770]	GC-content	43.5 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Leuconostoc holzapfelii strain JCM 16942 PATRIC: 434464.6
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Leuconostoc holzapfelii strain CCUG 54536 PATRIC: 434464.4
[Ref.: #69480]	gram-positive	yes	91.369	yes
[Ref.: #69480]	anaerobic	no	72.033	no
[Ref.: #69480]	halophile	yes	89.374	no
[Ref.: #69480]	spore-forming	no	97.313	no
[Ref.: #69480]	glucose-util	yes	90.768	yes
[Ref.: #69480]	aerobic	no	95.653	yes
[Ref.: #69480]	thermophile	no	99.473	yes
[Ref.: #69480]	motile	no	91.768	no
[Ref.: #69480]	flagellated	no	97.247	no
[Ref.: #69480]	glucose-ferment	yes	86.404	no

Availability in culture collections External links

[Ref.: #15729]

Culture collection no.

DSM 21478, CCUG 54536, LMG 23990, JCM 16942, NCIMB 14555

[Ref.: #76304]

SI-ID 294349

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Leuconostoc miyukkimchii sp. nov., isolated from brown algae (Undaria pinnatifida) kimchi.	Lee SH, Park MS, Jung JY, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.032367-0	2011	*
Phylogeny	Leuconostoc holzapfelii sp. nov., isolated from Ethiopian coffee fermentation and assessment of sequence analysis of housekeeping genes for delineation of Leuconostoc species.	De Bruyne K, Schillinger U, Caroline L, Boehringer B, Cleenwerck I, Vancanneyt M, De Vuyst L, Franz CMAP, Vandamme P	Int J Syst Evol Microbiol	10.1099/ijs.0.65292-0	2007	*

References

#15729

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21478

#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 )

#32307

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 #28545 (see below)

#60220 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54536

#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 .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#76304

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-ID294349.1 )

#28545

IJSEM 2952 2007 ( DOI 10.1099/ijs.0.65292-0 , PubMed 18048756 )

* These data were automatically processed and therefore are not curated

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Search for species Leuconostoc holzapfelii in external resources:
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Leuconostoc holzapfelii strain JCM 16942

Leuconostoc holzapfelii strain CCUG 54536

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Change proposal