Levilactobacillus yonginensis (DSM 29216, JCM 18023, KACC 16236)

Name: Levilactobacillus yonginensis (DSM 29216, JCM 18023, KACC 16236)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130365

Type strain

Strain Designation THK-V8

Culture col. no. DSM 29216 JCM 18023 KACC 16236 THK-V8 BCRC 81079

NCBI tax ID(s) 1054041

Special Collections DSMZ JCM Literature strains

History DSMZ <- KACC; KACC 16236 JCM <-- T.-H. Yi THK-V8.

Links

Levilactobacillus yonginensis THK-V8 is a microaerophile, Gram-positive, rod-shaped bacterium that was isolated from Korean fermented food, Kimchi.

Gram-positive rod-shaped microaerophile genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 377908

LMG 26589,KACC 16236,JCM 18023,DSM 29216

@ref 20215

Last LPSN update 2026-05-29 08:37:21

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Levilactobacillus

Species Levilactobacillus yonginensis

Full scientific name Levilactobacillus yonginensis (Yi et al. 2013) Zheng et al. 2020

Synonyms (1)

Lactobacillus yonginensis

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
30845	positive	rod-shaped
125438			91
125438	positive		93.444

Pigmentation

30845

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21901	MRS MEDIUM (DSMZ Medium 11)		Medium recipe at MediaDive	Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
21901	positive	growth	30
30845	positive	growth	04-40
30845	positive	optimum	30
67770	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
30845	positive	growth	4.0-7.0	acidophile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
21901	microaerophile
30845	facultative anaerobe
125439	facultative anaerobe	92.404

Spore formation

@ref	Spore formation	Confidence
30845
125439		97.211

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30845	NaCl	positive	growth	0-7 %

Observation

30845

Observationaggregates in clumps

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30845	22599 ChEBI	arabinose	+	carbon source
30845	16947 ChEBI	citrate	+	carbon source
30845	28757 ChEBI	fructose	+	carbon source
30845	28260 ChEBI	galactose	+	carbon source
30845	24265 ChEBI	gluconate	+	carbon source
30845	17234 ChEBI	glucose	+	carbon source
30845	18403 ChEBI	L-arabitol	+	carbon source
30845	17306 ChEBI	maltose	+	carbon source
30845	506227 ChEBI	N-acetylglucosamine	+	carbon source
30845	33942 ChEBI	ribose	+	carbon source
30845	17814 ChEBI	salicin	+	carbon source
30845	18222 ChEBI	xylose	+	carbon source

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Vegetable (incl. Grains)
#Engineered	#Food production	#Fermented

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
21901	Korean fermented food, Kimchi	Yongin	Republic of Korea	KOR	Asia
67770	Kimchi	Yongin	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence LC520003 (>99% sequence identity) for Levilactobacillus from Microbeatlas

Aquatic Samples	140
Soil Samples	164
Animal Samples	727
Plant Samples	212
Total Samples	1243

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21901	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM394626v1 assembly for Levilactobacillus yonginensis JCM 18023	contig	GCA_003946265	1054041.3	2881698443	1054041	66.48

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21901	Lactobacillus yonginensis strain THK-V8 16S ribosomal RNA gene, partial sequence	JN128640	1451		1054041
67770	Lactobacillus yonginensis JCM 18023 gene for 16S rRNA, partial sequence	LC520003	1509		1054041

GC content

@ref	GC-content (mol%)	Method
21901	47.8
67770	47.9	genome sequence analysis
67770	47.8	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM394626v1 assembly for Levilactobacillus yonginensis JCM 18023
NCBI: GCA_003946265

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	positive	78.74	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	92.40	no
125439	motility	BacteriaNetⓘ	no	80.62	no
125439	spore_formation	BacteriaNetⓘ	no	97.21	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lactobacillus yonginensis strain JCM 18023
PATRIC: 1054041.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	93.44	yes
125438	anaerobic	anaerobicⓘ	no	81.39	yes
125438	spore-forming	spore-formingⓘ	no	80.54	yes
125438	aerobic	aerobicⓘ	no	94.06	yes
125438	thermophilic	thermophileⓘ	no	95.50	no
125438	flagellated	motile2+ⓘ	no	91.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lactobacillus yonginensis sp. nov., a lactic acid bacterium with ginsenoside converting activity isolated from Kimchi.	Yi EJ, Yang JE, Lee JM, Park Y, Park SY, Shin HS, Kook M, Yi TH	Int J Syst Evol Microbiol	10.1099/ijs.0.045799-0	2013
Phylogeny	Lactobacillus enshiensis sp. nov., a novel arsenic-resistant bacterium.	Zhang Z, Wang Y, Hou Q, Zhao H, Li W, Sun Z, Guo Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.004072	2020
Phylogeny	Lactobacillus cerevisiae sp. nov., isolated from a spoiled brewery sample.	Koob J, Jacob F, Wenning M, Hutzler M	Int J Syst Evol Microbiol	10.1099/ijsem.0.002139	2017

References

#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 )
#21901	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29216
#27175	IJSEM 3274 2013 ( DOI 10.1099/ijs.0.045799-0 , PubMed 23475345 )
#30845	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 #27175
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Levilactobacillus yonginensis (DSM 29216, JCM 18023, KACC 16236)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003946265

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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