Lactobacillus johnsonii (DSM 106897, WCA-380-WT-3D)

Name: Lactobacillus johnsonii (DSM 106897, WCA-380-WT-3D)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159210

Type strain

Strain Designation WCA-380-WT-3D

Culture col. no. DSM 106897 WCA-380-WT-3D

NCBI tax ID(s) 33959

Special Collections DSMZ Pig DZIF

Links

Lactobacillus johnsonii WCA-380-WT-3D is a mesophilic prokaryote that was isolated from feces; pig, 3,5 month old, wild type.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 400243

DSM 106897

@ref 20215

Last LPSN update 2025-12-16 10:08:12

Domain Bacillati

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Lactobacillus

Species Lactobacillus johnsonii

Full scientific name Lactobacillus johnsonii Fujisawa et al. 1992

BacDive ID	Other strains from **Lactobacillus johnsonii** (14)	Type strain
6560	L. johnsonii DSM 10533, ATCC 33200, NCFB 2241, CCUG 30725, ... (type strain)
6561	L. johnsonii D3, DSM 20553, JCM 2122, LMG 18184
131033	L. johnsonii MIII-1B.7-2, DSM 100219
135326	L. johnsonii Omniflora, CIP 103654
135886	L. johnsonii A20, CIP 103781, NCDO 20, VPI 11694
136237	L. johnsonii CIP 103652, ATCC 332, CCUG 44520, JCM 1017, ...
136238	L. johnsonii CCUG 44519, IFO 13952, LMG 9437, JCM 8794, ...
137649	L. johnsonii 63E, 55 098 301, CIP 103782, CIP 71.34, NCDO ...
146549	L. johnsonii CCUG 31413, JCM 8793, LMG 18206
160341	L. johnsonii Cla-CZ-4, DSM 108981
160897	L. johnsonii JCM 1022, KCTC 3141, LMG 18175
165303	L. johnsonii JCM 5812, BCRC 14037, LMG 18193
165960	L. johnsonii JCM 8791, LMG 18204
165961	L. johnsonii JCM 8792, LMG 18205

Morphology

Cell morphology

@ref	Motility	Confidence
125438		92.5
125438		94.687
125439		93.3

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
66033	WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)		Medium recipe at MediaDive	Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
66033	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	96

Spore formation

@ref	Spore formation	Confidence
125438		91.725

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)
#Host	#Mammals	#Suidae (Pig,Swine)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
66033	feces; pig, 3,5 month old, wild type	Kranzberg (Bavaria)	Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence MN537521 (>99% sequence identity) for Lactobacillus from Microbeatlas

Aquatic Samples	5652
Soil Samples	4782
Animal Samples	173268
Plant Samples	1535
Total Samples	185237

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
66033	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM1284352v1 assembly for Lactobacillus johnsonii WCA-380-WT-3D	contig	GCA_012843525	33959.468	33959	63.92

Genome browser: GCA_012843525

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66033	Lactobacillus sp. strain DSM 106897 16S ribosomal RNA gene, partial sequence	MN537521	1533		1591

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lactobacillus johnsonii WCA-380-WT-3D
NCBI: GCA_012843525

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	58.70	no
125439	motility	BacteriaNetⓘ	no	69.80	no
125439	gram_stain	BacteriaNetⓘ	positive	93.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lactobacillus johnsonii WCA-380-WT-3D
NCBI: GCA_012843525.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	94.69	no
125438	anaerobic	anaerobicⓘ	no	73.18	no
125438	aerobic	aerobicⓘ	no	97.96	no
125438	spore-forming	spore-formingⓘ	no	91.73	no
125438	thermophilic	thermophileⓘ	no	97.50	yes
125438	flagellated	motile2+ⓘ	no	92.50	no

Literature

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 )
#66033	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 106897
#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) .
#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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