Paucilactobacillus hokkaidonensis (DSM 26202, CIP 110792, JCM 18461)

Name: Paucilactobacillus hokkaidonensis (DSM 26202, CIP 110792, JCM 18461)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24132

Type strain

Strain Designation LOOC260

Culture col. no. DSM 26202 CIP 110792 JCM 18461 KCTC 21044 LOOC260

NCBI tax ID(s) 1291742 1193095

Special Collections DSMZ JCM KCTC CIP Literature strains

History DSMZ <- M. Tohno, National Agriculture and Food Res. Org. (NARO), Nat. Inst. of Livestock and Grassland Science, Tochigi, Japan; LOOC260 JCM <-- M. Tohno LOOC260. KCTC <- DSM <- M Tohno, National Agriculture and Food Res Org (NARO), Nat. Inst. of Livestock and Grassland Science, Tochigi, Japan, LOOC260 CIP <- 2014, DSMZ <- M. Tohno, NARO, Tochigi, Japan: strain LOOC260

Links

Paucilactobacillus hokkaidonensis LOOC260 is an anaerobe, Gram-positive, rod-shaped bacterium that was isolated from timothy grass silage.

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

Name and taxonomic classification

SI-ID 390269

KCTC 21044,JCM 18461,DSM 26202,LMG 28400,CIP 110792

@ref 20215

Last LPSN update 2026-05-29 08:30:33

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Paucilactobacillus

Species Paucilactobacillus hokkaidonensis

Full scientific name Paucilactobacillus hokkaidonensis (Tohno et al. 2013) Zheng et al. 2020

Synonyms (1)

Lactobacillus hokkaidonensis

BacDive ID	Other strains from **Paucilactobacillus hokkaidonensis** (3)	Type strain
162247	P. hokkaidonensis JCM 18460
162248	P. hokkaidonensis JCM 18462
162249	P. hokkaidonensis JCM 18463

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30898	positive	2.25 µm	1 µm	rod-shaped
67771				rod-shaped
67771	positive
125438	positive				96.011
125438					93.5
119929	positive			rod-shaped

Pigmentation

30898

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
41596	MEDIUM 40- for Lactobacillus and Leuconostoc		Distilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
20992	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
119929	CIP Medium 40	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
20992	positive	growth	25
30898	positive	growth	04-37
30898	positive	optimum	25
41596	positive	growth	25
67770	positive	growth	30
67771	positive	growth	25

Culture pH

@ref	Ability	Type	PH	PH range
30898	positive	growth	4.0-7.0	acidophile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
20992	anaerobe
20992	microaerophile
30898	facultative anaerobe
67771	microaerophile
125439	facultative anaerobe	94.282

Spore formation

30898

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30898	NaCl	positive	growth	0-4 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
30898	22599 ChEBI	arabinose	+	carbon source
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
30898	17234 ChEBI	glucose	+	carbon source
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
30898	17306 ChEBI	maltose	+	carbon source
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
30898	506227 ChEBI	N-acetylglucosamine	+	carbon source
68371	0 ChEBI	Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	0 ChEBI	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
30898	33942 ChEBI	ribose	+	carbon source
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
30898	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30898	acid phosphatase	+	3.1.3.2
30898	alpha-galactosidase	+	3.2.1.22

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
20992	-	-	-	-	+	+	+	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
20992	-	-	-	-	+	+	+	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
20992	timothy grass (Phleum pratense L.) silage	Phleum pratense	Hokkaido	Japan	JPN	Asia
67770	Timothy grass (Phleum pratense L.) silage produced	Phleum pratense	Hokkaido	Japan	JPN	Asia
67771	From timothy grass, `Phleum pratense` L. silage		Hokkaido	Japan	JPN	Asia
119929	Timothy grass, Phleum pratense L. silage		Hokkaido	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence LC521988 (>99% sequence identity) for Paucilactobacillus hokkaidonensis from Microbeatlas

Aquatic Samples	211
Soil Samples	146
Animal Samples	1507
Plant Samples	170
Total Samples	2034

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20992	1	Risk group (German classification)
119929	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM82939v1 assembly for Paucilactobacillus hokkaidonensis JCM 18461 LOOC260	complete	GCA_000829395	1193095.6	2651869714	1291742	97.47
67771	ASM143750v1 assembly for Paucilactobacillus hokkaidonensis DSM 26202	scaffold	GCA_001437505	1193095.8	2660237970	1193095	60.97
66792	ASM131150v1 assembly for Paucilactobacillus hokkaidonensis JCM 18461	contig	GCA_001311505	1291742.4	2728369688	1291742	26.43

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20992	Lactobacillus hokkaidonensis gene for 16S ribosomal RNA, partial sequence	AB721549	1502		1291742
67770	Lactobacillus hokkaidonensis JCM 18461 gene for 16S rRNA, partial sequence	LC521988	1515		1291742

GC content

@ref	GC-content (mol%)	Method
20992	39.4	high performance liquid chromatography (HPLC)
30898	39.4
67770	38.1	genome sequence analysis
67770	39-39.8	high performance liquid chromatography (HPLC)
67771	39.0-39.08	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: ASM82939v1 assembly for Paucilactobacillus hokkaidonensis JCM 18461 LOOC260
NCBI: GCA_000829395

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	94.28	no
125439	gram_stain	BacteriaNetⓘ	positive	68.24	no
125439	motility	BacteriaNetⓘ	no	66.41	no
125439	spore_formation	BacteriaNetⓘ	no	72.56	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paucilactobacillus hokkaidonensis JCM 18461 LOOC260
NCBI: GCA_000829395.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	96.01	yes
125438	anaerobic	anaerobicⓘ	no	80.19	no
125438	aerobic	aerobicⓘ	no	95.43	yes
125438	spore-forming	spore-formingⓘ	no	87.50	yes
125438	thermophilic	thermophileⓘ	no	99.00	yes
125438	flagellated	motile2+ⓘ	no	93.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Exploring the Potential Molecular Mechanisms of Interactions between a Probiotic Consortium and Its Coral Host.	Rosado PM, Cardoso PM, Rosado JG, Schultz J, Nunes da Rocha U, Keller-Costa T, Peixoto RS.	mSystems	10.1128/msystems.00921-22	2023
Metabolism	Complete genome sequence and analysis of Lactobacillus hokkaidonensis LOOC260(T), a psychrotrophic lactic acid bacterium isolated from silage.	Tanizawa Y, Tohno M, Kaminuma E, Nakamura Y, Arita M	BMC Genomics	10.1186/s12864-015-1435-2	2015
	Ponticoccus alexandrii sp. nov., a novel bacterium isolated from the marine toxigenic dinoflagellate Alexandrium minutum.	Yang Q, Zhang X, Li L, Zhang R, Feng L, Mu J.	Antonie Van Leeuwenhoek	10.1007/s10482-017-0996-2	2018
Phylogeny	Lactobacillus wasatchensis sp. nov., a non-starter lactic acid bacteria isolated from aged Cheddar cheese.	Oberg CJ, Oberg TS, Culumber MD, Ortakci F, Broadbent JR, McMahon DJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.000689	2015
Phylogeny	Lactobacillus hokkaidonensis sp. nov., isolated from subarctic timothy grass (Phleum pratense L.) silage.	Tohno M, Kitahara M, Uegaki R, Irisawa T, Ohkuma M, Tajima K	Int J Syst Evol Microbiol	10.1099/ijs.0.047027-0	2012

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 )
#20992	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26202
#27228	IJSEM 2526 2013 ( DOI 10.1099/ijs.0.047027-0 , PubMed 23223820 )
#30898	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 #27228
#41596	; Curators of the CIP;
#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;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#119929	Collection of Institut Pasteur ; Curators of the CIP; CIP 110792
#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 )

Content

About us

Paucilactobacillus hokkaidonensis (DSM 26202, CIP 110792, JCM 18461)

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

Metabolite utilization

Enzymes

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000829395

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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