Lentilactobacillus otakiensis (DSM 19908, JCM 15040, NRIC 0742)

Name: Lentilactobacillus otakiensis (DSM 19908, JCM 15040, NRIC 0742)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6685

Type strain

Culture col. no. DSM 19908 JCM 15040 NRIC 0742 YIT 11163 CIP 110027

NCBI tax ID(s) 481720

Special Collections DSMZ JCM CIP

History <- K. Watanabe, Yakult Central Inst. Microbiol. Res., Tokyo, Japan; YIT 11163 K. Watanabe YIT 11163. CIP <- 2009, JCM <- 2007, K. Watanabe, Yakult Central Inst. Microbiol. Res., Tokyo, Japan: strain YIT 11163

Links

Lentilactobacillus otakiensis DSM 19908 is a microaerophile, mesophilic, Gram-positive prokaryote that was isolated from non-salted pickle solution used in production of sunki .

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

Name and taxonomic classification

SI-ID 362307

DSM 19908,JCM 15040,CIP 110027

@ref 20215

Last LPSN update 2025-12-16 09:48:23

Domain Bacillati

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Lentilactobacillus

Species Lentilactobacillus otakiensis

Full scientific name Lentilactobacillus otakiensis (Watanabe et al. 2009) Zheng et al. 2020

Synonyms (1)

Lactobacillus otakiensis

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
121466	positive	rod-shaped
125438	positive			94.427

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
8380	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
40627	MEDIUM 20 - for Anaerobic bacteria		Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
121466	CIP Medium 20	Medium recipe at CIP
121466	CIP Medium 40	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
8380	positive	growth	30	mesophilic
40627	positive	growth	37	mesophilic
67770	positive	growth	30	mesophilic
121466	positive	growth	15-37
121466	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
8380	microaerophile
121466	facultative anaerobe
125439	obligate aerobe	98.1

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	+	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	+	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	+	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
121466	17632 ChEBI	nitrate	-	reduction
121466	17632 ChEBI	nitrate	+	respiration
121466	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
121466	15688 ChEBI	acetoin	-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121466	alcohol dehydrogenase	+	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	+	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	+	3.2.1.31	from API zym
121466	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	+		from API zym
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
121466	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
121466	ornithine decarboxylase	-	4.1.1.17
121466	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
121466	-	+	-	+	-	+	-	-	-	-	+	+	+	+	+	+	-	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
8380	-	-	-	-	+	+	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-

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
8380	non-salted pickle solution used in production of sunki (Japanese traditional fermented leaves and stems of red turnips)	Kiso county, nagano prefecture	Japan	JPN	Asia
67770	Sunki, traditional Japanese pickles		Japan	JPN	Asia
121466	Sunki, non-salted pickle solution

Taxonmaps

69479

Global distribution of 16S sequence LC480801 (>99% sequence identity) for Lentilactobacillus from Microbeatlas

Aquatic Samples	1599
Soil Samples	1041
Animal Samples	7375
Plant Samples	556
Total Samples	10571

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
8380	1	Risk group (German classification) According to TRBA 466
121466	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM143414v1 assembly for Lentilactobacillus otakiensis DSM 19908 = JCM 15040	scaffold	GCA_001434145	1423780.4	2663763512	1423780	74.18
67770	Lot_1.0 assembly for Lentilactobacillus otakiensis DSM 19908 = JCM 15040	contig	GCA_000415925	1291737.4	2602041559	1423780	71.28
67770	ASM131139v1 assembly for Lentilactobacillus otakiensis DSM 19908 = JCM 15040	contig	GCA_001311395	1423780.3	2728369684	1423780	10.28

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
8380	Lentilactobacillus otakiensis gene for 16S rRNA, partial sequence, strain: YIT 11163 (= NRIC 0742, = JCM 15040, = DSM 19908)	AB366386	1566		481720
67770	Lactobacillus otakiensis JCM 15040 gene for 16S ribosomal RNA, partial sequence	LC480801	1509		481720

GC content

@ref	GC-content (mol%)	Method
8380	39.6
67770	42.4	genome sequence analysis
67770	39.6	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: Lentilactobacillus otakiensis DSM 19908 = JCM 15040
NCBI: GCA_001434145

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	70.20	no
125439	motility	BacteriaNetⓘ	no	69.40	no
125439	gram_stain	BacteriaNetⓘ	positive	71.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lactobacillus otakiensis DSM 19908 = JCM 15040
PATRIC: 1423780.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	94.43	no
125438	anaerobic	anaerobicⓘ	no	84.17	no
125438	spore-forming	spore-formingⓘ	no	85.84	no
125438	aerobic	aerobicⓘ	no	93.86	yes
125438	thermophilic	thermophileⓘ	no	96.99	yes
125438	flagellated	motile2+ⓘ	no	89.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Antihypertensive and Probiotic Effects of Hidakakombu (Saccharina angustata) Fermented by Lacticaseibacillus casei 001.	Sekine T, Nagai H, Hamada-Sato N.	Foods	10.3390/foods10092048	2021
Biotechnology	Characterization of tyramine producing Lentilactobacillus otakiensis isolated from aged Cheddar cheese and strategies of control.	de Almeida Moeller CO, Hakiku S, Joergensen M, Al-Nakeeb K, Rocha-Arriaga C, Duc TTT, Svarc PL, Simonsen H, Frimodt-Moller J, Oregaard G.	Food Res Int	10.1016/j.foodres.2025.117650	2025
	Draft Genome Sequences of Lacticaseibacillus rhamnosus cek-R1, Lacticaseibacillus paracasei cek-R2, and Lentilactobacillus otakiensis cek-R3, Isolated from a Beetroot Product.	Kaszab E, Laczko L, Bali K, Fidrus E, Banyai K, Kardos G.	Microbiol Resour Announc	10.1128/mra.00921-21	2022
	Indigenous Lactic Acid Bacteria Isolated from Raw Graviera Cheese and Evaluation of Their Most Important Technological Properties.	Psomas E, Sakaridis I, Boukouvala E, Karatzia MA, Ekateriniadou LV, Samouris G.	Foods	10.3390/foods12020370	2023
	The Pork Meat or the Environment of the Production Facility? The Effect of Individual Technological Steps on the Bacterial Contamination in Cooked Hams.	Vesela H, Dorotikova K, Duskova M, Furmancikova P, Sedo O, Kamenik J.	Microorganisms	10.3390/microorganisms10061106	2022
	Lacticaseibacillus Strains Isolated from Raw Milk: Screening Strategy for Their Qualification as Adjunct Culture in Cheesemaking.	Bettera L, Levante A, Bancalari E, Bottari B, Cirlini M, Neviani E, Gatti M.	Foods	10.3390/foods12213949	2023
	Metagenomic Study on Chinese Homemade Paocai: The Effects of Raw Materials and Fermentation Periods on the Microbial Ecology and Volatile Components.	Jiang L, Xian S, Liu X, Shen G, Zhang Z, Hou X, Chen A.	Foods	10.3390/foods11010062	2021
	Deciphering the Microbiota and Volatile Profiles of Algerian Smen, a Traditional Fermented Butter.	Boussekine R, Bekhouche F, Debaets S, Thierry A, Maillard MB, Falentin H, Pawtowski A, Barkat M, Coton M, Mounier J.	Microorganisms	10.3390/microorganisms10040736	2022
Enzymology	Identification, purification, and characterization of a novel amino acid racemase, isoleucine 2-epimerase, from Lactobacillus species.	Mutaguchi Y, Ohmori T, Wakamatsu T, Doi K, Ohshima T	J Bacteriol	10.1128/JB.00709-13	2013
Genetics	Draft Genome Sequence of D-Branched-Chain Amino Acid Producer Lactobacillus otakiensis JCM 15040T, Isolated from a Traditional Japanese Pickle.	Doi K, Mori K, Mutaguchi Y, Tashiro K, Fujino Y, Ohmori T, Kuhara S, Ohshima T	Genome Announc	10.1128/genomeA.00546-13	2013
Phylogeny	Rhizobacter bergeniae sp. nov., isolated from the root of Bergenia scopulosa.	Wei L, Si M, Long M, Zhu L, Li C, Shen X, Wang Y, Zhao L, Zhang L.	Int J Syst Evol Microbiol	10.1099/ijs.0.070318-0	2015
Phylogeny	Lactobacillus kisonensis sp. nov., Lactobacillus otakiensis sp. nov., Lactobacillus rapi sp. nov. and Lactobacillus sunkii sp. nov., heterofermentative species isolated from sunki, a traditional Japanese pickle.	Watanabe K, Fujimoto J, Tomii Y, Sasamoto M, Makino H, Kudo Y, Okada S	Int J Syst Evol Microbiol	10.1099/ijs.0.004689-0	2009

References

#8380	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19908
#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 )
#40627	; Curators of the CIP;
#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 .
#121466	Collection of Institut Pasteur ; Curators of the CIP; CIP 110027
#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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Lentilactobacillus otakiensis (DSM 19908, JCM 15040, NRIC 0742)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite tests

Enzymes

API zym

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001434145

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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