Lactobacillus hamsteri (DSM 5661, ATCC 43851, JCM 6256)

Name: Lactobacillus hamsteri (DSM 5661, ATCC 43851, JCM 6256)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6536

Type strain

Strain Designation Ha5F1

Culture col. no. DSM 5661 ATCC 43851 JCM 6256 CCUG 30726 LMG 10754 6 more

NCBI tax ID(s) 1423754 96565

Special Collections DSMZ CCUG JCM KCTC CIP

History <- JCM <- Fujisawa, Ha5F1 T. Fujisawa Ha5F1. CIP <- 1989, JCM <- T. Fujisawa: strain Ha5F1

Links

Lactobacillus hamsteri Ha5F1 is an anaerobe bacterium that was isolated from faeces of hamster.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 3303

LMG 10754,ATCC 43851,JCM 6256,NCFB 2795,CCUG 30726,CIP 103365,DSM 5661,CCRC 14740,NCIMB 702795,BCRC 14740,KCTC 5066

@ref 20215

Last LPSN update 2026-02-09 11:19:14

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Lactobacillus

Species Lactobacillus hamsteri

Full scientific name Lactobacillus hamsteri Mitsuoka and Fujisawa 1988

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		94
125438		94.776	positive

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
2149	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
39674	MEDIUM 43 - for Lactobacillus hamsteri and Lactobacillus ruminis		Distilled water make up to (900.000 ml);Man Rogosa Sharp broth (55.000 g);Cysteine hydrochloride 5 % solution - M0172 (100.000 ml)
119832	CIP Medium 41	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
2149	positive	growth	37
39674	positive	growth	37
50247	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
2149	anaerobe
50247	anaerobe
125439	obligate aerobe	95.9

Spore formation

@ref	Spore formation	Confidence
125438		92.942

Murein

@ref	Murein short key	Type
2149	A11.31	A4alpha L-Lys-D-Asp

Fatty acid profile

Metadata FA analysis

@ref

50247

Fatty acid	Percentage	ECL
C16:0	31.8	16
C18:2 ω6,9c/C18:0 ANTE	24.2	17.724
C18:1 ω9c	22.7	17.769
C18:0	12.1	18
C19:0 CYCLO ω9c	3.5	18.87
C14:0	3.1	14
C16:1 ω7c	2.6	15.819

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Rodentia (Other)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type
2149	faeces of hamster
50247	Hamster feces
67770	Hamster feces
119832	Animal, Hamster, feces

Taxonmaps

69479

Global distribution of 16S sequence LC071843 (>99% sequence identity) for Lactobacillus from Microbeatlas

Aquatic Samples	12
Soil Samples	17
Animal Samples	2099
Plant Samples	38
Total Samples	2166

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
2149	1	Risk group (German classification) According to TRBA 466
119832	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
124043	ASM3953862v1 assembly for Lactobacillus hamsteri JCM 6256	scaffold	GCA_039538625			96565	65.95
67770	ASM143451v1 assembly for Lactobacillus hamsteri DSM 5661 = JCM 6256	scaffold	GCA_001434515	1423754.3	2700989155	1423754	58.31
67770	ASM61544v1 assembly for Lactobacillus hamsteri DSM 5661 = JCM 6256	contig	GCA_000615445	1236945.3	2585427879	1423754	56.37

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Lactobacillus hamsteri 16S-23S ribosomal RNA intergenic spacer region, complete sequence	AF113601	202	96565
20218	Lactobacillus hamsteri partial 16S rRNA gene, type strain JCM 6256T	FR683094	1494	96565
20218	Lactobacillus hamsteri 16S rRNA gene, strain DSM 5661T	AJ306298	1510	96565
20218	Lactobacillus hamsteri gene for 16S rRNA, partial sequence, strain: JCM 6256	AB289146	664	96565
67770	Lactobacillus hamsteri gene for 16S ribosomal RNA, partial sequence, strain: JCM 6256	LC071843	1496	96565

GC content

@ref	GC-content (mol%)	Method
67770	35.1	genome sequence analysis
67770	33.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lactobacillus hamsteri DSM 5661 = JCM 6256
NCBI: GCA_001434515

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.90	no
125439	gram_stain	BacteriaNetⓘ	positive	78.50	no
125439	motility	BacteriaNetⓘ	no	64.20	no
125439	spore_formation	BacteriaNetⓘ	no	77.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lactobacillus hamsteri DSM 5661 = JCM 6256
PATRIC: 1423754.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	94.78	no
125438	anaerobic	anaerobicⓘ	no	62.78	yes
125438	spore-forming	spore-formingⓘ	no	92.94	no
125438	aerobic	aerobicⓘ	no	97.84	yes
125438	thermophilic	thermophileⓘ	no	95.50	yes
125438	flagellated	motile2+ⓘ	no	94.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lactobacillus xujianguonis sp. nov., isolated from faeces of Marmota himalayana.	Meng J, Jin D, Yang J, Lai XH, Pu J, Zhu W, Huang Y, Liang H, Lu S	Int J Syst Evol Microbiol	10.1099/ijsem.0.003598	2020

References

#2149	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5661
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#39674	; Curators of the CIP;
#50247	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30726
#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 .
#119832	Collection of Institut Pasteur ; Curators of the CIP; CIP 103365
#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 .
#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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Lactobacillus hamsteri (DSM 5661, ATCC 43851, JCM 6256)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Murein

Fatty acid profile

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_039538625

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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