Brachybacterium muris (DSM 15460, CCM 7047, C3H-21)

Name: Brachybacterium muris (DSM 15460, CCM 7047, C3H-21)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3914

Type strain

Strain Designation C3H-21, C3H 21-2

Culture col. no. DSM 15460 CCM 7047 C3H-21 CIP 108210 CCUG 50352 4 more

NCBI tax ID(s) 219301

Special Collections DSMZ CCUG JCM CIP

Links

Brachybacterium muris C3H-21 is an obligate aerobe, mesophilic, Gram-positive prokaryote that was isolated from liver of mice.

Gram-positive coccus-shaped obligate aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 127984

CCM 7047,DSM 14560,DSM 15460,CCUG 50159,CIP 108210,CCUG 50352,JCM 14117

@ref 20215

Last LPSN update 2025-12-16 09:47:41

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Dermabacteraceae

Genus Brachybacterium

Species Brachybacterium muris

Full scientific name Brachybacterium muris Buczolits et al. 2003

BacDive ID	Other strains from **Brachybacterium muris** (3)	Type strain
155502	B. muris CCUG 57901 B
156443	B. muris CCUG 61799
157081	B. muris CCUG 69386

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
121199	positive	coccus-shaped
125439	positive		96.2
125438			93.5
125438	positive		93.943

Colony morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5937	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
5937	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
33912	MEDIUM 328- for nutrient agar		Distilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
121199	CIP Medium 328	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5937	positive	growth	28	mesophilic
33912	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic
121199	positive	growth	25-37	mesophilic
121199	negative	growth	10
121199	negative	growth	41
121199	negative	growth	45

Physiology and metabolism

Oxygen tolerance

121199

Oxygen toleranceobligate aerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
121199	NaCl	positive	growth	0-6 %
121199	NaCl		growth	8 %
121199	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-7

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
121199	16947 ChEBI	citrate	-	carbon source
121199	4853 ChEBI	esculin	+	hydrolysis
121199	606565 ChEBI	hippurate	-	hydrolysis
121199	17632 ChEBI	nitrate	-	reduction
121199	17632 ChEBI	nitrate	-	respiration
121199	16301 ChEBI	nitrite	-	reduction

Antibiotic resistance

@ref	Metabolite	Is antibiotic	Is sensitive	Is resistant
121199	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
121199	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
121199	15688 ChEBI	acetoin	-
121199	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
121199	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
121199	amylase	+
68382	beta-galactosidase	+	3.2.1.23	from API zym
121199	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
121199	caseinase	-	3.4.21.50
121199	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
121199	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
121199	gamma-glutamyltransferase	-	2.3.2.2
121199	gelatinase	+/-
121199	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
121199	lipase	-
68382	lipase (C 14)	-		from API zym
121199	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
121199	ornithine decarboxylase	-	4.1.1.17
121199	oxidase	-
121199	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	+	3.4.21.4	from API zym
121199	tryptophan deaminase	-
121199	tween esterase	-
121199	urease	-	3.5.1.5
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
121199	-	-	+	+	-	+	-	-	+	-	-	-	-	+	-	-	+	+	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body-Site	#Organ	#Liver

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
5937	liver of mice	Vienna	Austria	AUT	Europe
67770	Liver of a laboratory mouse strain
121199	Animal, Mouse, liver	Vienna	Austria	AUT	Europe	2000

Taxonmaps

69479

Global distribution of 16S sequence AJ537574 (>99% sequence identity) for Brachybacterium muris subclade from Microbeatlas

Aquatic Samples	730
Soil Samples	300
Animal Samples	6075
Plant Samples	146
Total Samples	7251

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5937	1	Risk group (German classification) According to TRBA 466
121199	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
66792	ASM1690745v1 assembly for Brachybacterium muris DSM 15460	contig	GCA_016907455	219301.5	2893575648	219301	72.39
124043	ASM4243338v1 assembly for Brachybacterium muris CCM 7047	scaffold	GCA_042433385			219301	35.48

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5937	Brachybacterium sp. C3H-21 partial 16S rRNA gene, strain C3H-21	AJ537574	1429		219301
124043	Brachybacterium muris strain CCM 7047 16S ribosomal RNA gene, partial sequence.	MT760120	1359		219301

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Brachybacterium muris DSM 15460
NCBI: GCA_016907455

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	76.60	no
125439	motility	BacteriaNetⓘ	no	76.20	no
125439	gram_stain	BacteriaNetⓘ	positive	96.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	89.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Brachybacterium muris strain DSM 15460
PATRIC: 219301.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	93.94	no
125438	anaerobic	anaerobicⓘ	no	91.19	no
125438	spore-forming	spore-formingⓘ	no	77.62	no
125438	aerobic	aerobicⓘ	yes	75.72	yes
125438	thermophilic	thermophileⓘ	no	89.33	yes
125438	flagellated	motile2+ⓘ	no	93.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft genome sequence of an Actinobacterium, Brachybacterium muris strain UCD-AY4.	Lo JR, Lang JM, Darling AE, Eisen JA, Coil DA	Genome Announc	10.1128/genomeA.00086-13	2013
Phylogeny	Brachybacterium saurashtrense sp. nov., a halotolerant root-associated bacterium with plant growth-promoting potential.	Gontia I, Kavita K, Schmid M, Hartmann A, Jha B	Int J Syst Evol Microbiol	10.1099/ijs.0.023176-0	2011
Phylogeny	Brachybacterium phenoliresistens sp. nov., isolated from oil-contaminated coastal sand.	Chou JH, Lin KY, Lin MC, Sheu SY, Wei YH, Arun AB, Young CC, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.65019-0	2007
Phylogeny	Brachybacterium muris sp. nov., isolated from the liver of a laboratory mouse strain.	Buczolits S, Schumann P, Weidler G, Radax C, Busse HJ	Int J Syst Evol Microbiol	10.1099/ijs.0.02728-0	2003

References

#5937	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15460
#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 )
#33912	; 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;
#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 .
#121199	Collection of Institut Pasteur ; Curators of the CIP; CIP 108210
#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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Brachybacterium muris (DSM 15460, CCM 7047, C3H-21)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_016907455

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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