Cite this strain

Brachybacterium ginsengisoli (DSM 105781, JCM 19356, KCTC 29226)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140077

Type strain

Culture col. no. DSM 105781 JCM 19356 KCTC 29226 DCY 80

NCBI tax ID(s) 1331682

Special Collections DSMZ JCM KCTC

Links

Name and taxonomic classification

Brachybacterium ginsengisoli DSM 105781 is an aerobe, mesophilic bacterium that was isolated from Soil of a ginseng field.

aerobe mesophilic genome sequence 16S sequence Bacteria

SI-ID 398243

DSM 105781

Last LPSN update 2024-12-09 10:49:59

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Dermabacteraceae

Genus Brachybacterium

Species Brachybacterium ginsengisoli

Full scientific name Brachybacterium ginsengisoli Hoang et al. 2014

Morphology

Cell morphology

@ref	Motility	Confidence
125438		91.5
125438		92.712

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
42684	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
42684	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic
67771	positive	growth	25	mesophilic

Physiology and metabolism

Observation

67770

Observationquinones: MK-7, MK-8

Oxygen tolerance

67771

Oxygen toleranceaerobe

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
42684	Soil of a ginseng field	Yeoncheon Province	Republic of Korea	KOR	Asia
67770	Soil of a ginseng field in Yeoncheon Province		Republic of Korea	KOR	Asia
67771	From ginseng soil		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence KC876052 (>99% sequence identity) for Brachybacterium from Microbeatlas

Aquatic Samples	58
Soil Samples	96
Animal Samples	648
Plant Samples	32
Total Samples	834

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
42684	1	Risk group (German classification)

Sequence information

GC content

@ref	GC-content (mol%)	Method
42684	71.0	high performance liquid chromatography (HPLC)
67770	71	high performance liquid chromatography (HPLC)

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
42684	Brachybacterium ginsengisoli strain DCY80 16S ribosomal RNA gene, partial sequence	KC876052	1416		1331682

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Brachybacterium ginsengisoli strain DCY80	1331682.4	complete	PATRIC	1331682
67770	Brachybacterium ginsengisoli DCY80	GCA_002407065	complete		1331682

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Brachybacterium ginsengisoli strain DCY80
PATRIC: 1331682.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	92.71	no
125438	anaerobic	anaerobicⓘ	no	97.29	yes
125438	spore-forming	spore-formingⓘ	no	67.42	no
125438	aerobic	aerobicⓘ	yes	83.56	yes
125438	thermophilic	thermophileⓘ	no	93.42	yes
125438	flagellated	motile2+ⓘ	no	91.50	no

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Brachybacterium ginsengisoli sp. nov., isolated from soil of a ginseng field.	Hoang VA, Kim YJ, Nguyen NL, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.058388-0	2014
Phylogeny	Phenotypic and Genomic Properties of Brachybacterium vulturis sp. nov. and Brachybacterium avium sp. nov.	Tak EJ, Kim PS, Hyun DW, Kim HS, Lee JY, Kang W, Sung H, Shin NR, Kim MS, Whon TW, Bae JW	Front Microbiol	10.3389/fmicb.2018.01809	2018

Straininfo Link

@ref	Straininfo	Culture collections
96490	398243	DSM 105781

Culture collection no.

Culture collection no.
DSM 105781
JCM 19356
KCTC 29226
DCY 80

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 )
#42684	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105781
#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;
#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 .
#96490	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID398243.1 )
#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 )

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