Brachybacterium phenoliresistens (DSM 22299, BCRC 17589, JCM 15157)

Name: Brachybacterium phenoliresistens (DSM 22299, BCRC 17589, JCM 15157)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3915

Type strain

Strain Designation phenol-A

Culture col. no. DSM 22299 BCRC 17589 JCM 15157 LMG 23707 phenol-A

NCBI tax ID(s) 396014

Special Collections DSMZ JCM Literature strains

History DSMZ <- LMG <- W.-M. Chen, Natl. Kaohsiung Marine Univ. Taiwan; phenol-A JCM <-- BCRC 17589 <-- W.-M. Chen strain phenol-A.

Links

Brachybacterium phenoliresistens phenol-A is a facultative anaerobe, Gram-positive, ovoid-shaped bacterium that was isolated from oil-contaminated coastal sand.

Gram-positive ovoid-shaped facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 291592

LMG 23707,BCRC 17589,CCRC 17589,JCM 15157,DSM 22299

@ref 20215

Last LPSN update 2026-05-29 08:25:49

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Dermabacteraceae

Genus Brachybacterium

Species Brachybacterium phenoliresistens

Full scientific name Brachybacterium phenoliresistens Chou et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
32133	positive	1.3 µm	0.8 µm	ovoid-shaped

Pigmentation

32133

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16262	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
16262	positive	growth	28
32133	positive	growth	04-40
32133	positive	optimum	32.5
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
32133	positive	optimum	7
32133	positive	growth	05-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
32133	facultative anaerobe
125439	obligate aerobe	96.009

Spore formation

@ref	Spore formation	Confidence
32133
125439		92.335

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32133	NaCl	positive	growth	0.5-7 %
32133	NaCl	positive	optimum	2.5 %

Murein

@ref	Murein short key	Type
16262	A31.03	A4gamma m-Dpm-D-Asp-D-Glu; alpha-carboxyl group of D-Glu substituted by glycine

Observation

@ref	Observation
32133	aggregates in clumps
67770	quinones: MK-7

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32133	22599 ChEBI	arabinose	+	carbon source
32133	35391 ChEBI	aspartate	+	carbon source
32133	17057 ChEBI	cellobiose	+	carbon source
32133	23652 ChEBI	dextrin	+	carbon source
32133	4853 ChEBI	esculin	+	hydrolysis
32133	28757 ChEBI	fructose	+	carbon source
32133	28260 ChEBI	galactose	+	carbon source
32133	17234 ChEBI	glucose	+	carbon source
32133	15428 ChEBI	glycine	+	carbon source
32133	28087 ChEBI	glycogen	+	carbon source
32133	18403 ChEBI	L-arabitol	+	carbon source
32133	17716 ChEBI	lactose	+	carbon source
32133	17306 ChEBI	maltose	+	carbon source
32133	29864 ChEBI	mannitol	+	carbon source
32133	37684 ChEBI	mannose	+	carbon source
32133	51850 ChEBI	methyl pyruvate	+	carbon source
32133	506227 ChEBI	N-acetylglucosamine	+	carbon source
32133	16634 ChEBI	raffinose	+	carbon source
32133	26546 ChEBI	rhamnose	+	carbon source
32133	17814 ChEBI	salicin	+	carbon source
32133	30911 ChEBI	sorbitol	+	carbon source
32133	17992 ChEBI	sucrose	+	carbon source
32133	27082 ChEBI	trehalose	+	carbon source
32133	53424 ChEBI	tween 20	+	carbon source
32133	53423 ChEBI	tween 40	+	carbon source
32133	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
32133	acid phosphatase	+	3.1.3.2
32133	alkaline phosphatase	+	3.1.3.1
32133	catalase	+	1.11.1.6

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	cyanate degradation	100	3 of 3
66794	ketogluconate metabolism	100	8 of 8
66794	lipoate biosynthesis	100	5 of 5
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	starch degradation	100	10 of 10
66794	aspartate and asparagine metabolism	100	9 of 9
66794	threonine metabolism	100	10 of 10
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	cardiolipin biosynthesis	100	7 of 7
66794	glycogen metabolism	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	cellulose degradation	100	5 of 5
66794	heme metabolism	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	degradation of sugar acids	92	23 of 25
66794	Entner Doudoroff pathway	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	photosynthesis	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	NAD metabolism	83.33	15 of 18
66794	metabolism of disaccharids	81.82	9 of 11
66794	pentose phosphate pathway	81.82	9 of 11
66794	proline metabolism	81.82	9 of 11
66794	degradation of sugar alcohols	81.25	13 of 16
66794	peptidoglycan biosynthesis	80	12 of 15
66794	flavin biosynthesis	80	12 of 15
66794	pyrimidine metabolism	80	36 of 45
66794	purine metabolism	78.72	74 of 94
66794	d-mannose degradation	77.78	7 of 9
66794	sulfopterin metabolism	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	alanine metabolism	72.41	21 of 29
66794	glutamate and glutamine metabolism	71.43	20 of 28
66794	degradation of pentoses	71.43	20 of 28
66794	glycolysis	70.59	12 of 17
66794	myo-inositol biosynthesis	70	7 of 10
66794	enterobactin biosynthesis	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	sulfoquinovose degradation	66.67	2 of 3
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	histidine metabolism	65.52	19 of 29
66794	methionine metabolism	65.38	17 of 26
66794	oxidative phosphorylation	64.84	59 of 91
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	glutathione metabolism	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	vitamin B1 metabolism	61.54	8 of 13
66794	phenylpropanoid biosynthesis	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	degradation of hexoses	61.11	11 of 18
66794	factor 420 biosynthesis	60	3 of 5
66794	arginine metabolism	58.33	14 of 24
66794	non-pathway related	57.89	22 of 38
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	mevalonate metabolism	57.14	4 of 7
66794	propanol degradation	57.14	4 of 7
66794	citric acid cycle	57.14	8 of 14
66794	tryptophan metabolism	55.26	21 of 38
66794	lysine metabolism	54.76	23 of 42
66794	carotenoid biosynthesis	54.55	12 of 22
66794	urea cycle	53.85	7 of 13
66794	leucine metabolism	53.85	7 of 13
66794	lipid metabolism	51.61	16 of 31
66794	ascorbate metabolism	50	11 of 22
66794	lactate fermentation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	pantothenate biosynthesis	50	3 of 6
66794	biotin biosynthesis	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	isoprenoid biosynthesis	50	13 of 26
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	phenol degradation	50	10 of 20
66794	phenylmercury acetate degradation	50	1 of 2
66794	propionate fermentation	50	5 of 10
66794	ethanol fermentation	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	vitamin B6 metabolism	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	3-chlorocatechol degradation	40	2 of 5
66794	O-antigen biosynthesis	40	2 of 5
66794	3-phenylpropionate degradation	40	6 of 15
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	arachidonic acid metabolism	38.89	7 of 18
66794	carnitine metabolism	37.5	3 of 8
66794	tyrosine metabolism	35.71	5 of 14
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	lipid A biosynthesis	33.33	3 of 9
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	sulfate reduction	30.77	4 of 13
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	cholesterol biosynthesis	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	polyamine pathway	26.09	6 of 23
66794	toluene degradation	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Contamination	#Oil (Fuel)
#Environmental	#Terrestrial	#Coast
#Environmental	#Terrestrial	#Sandy

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16262	oil-contaminated coastal sand	Pingtung County	Taiwan, Province of China	TWN	Asia
67770	Oil-contaminated coastal sand	Pingtung County	Taiwan, Province of China	TWN	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ822566 (>99% sequence identity) for Brachybacterium phenoliresistens subclade from Microbeatlas

Aquatic Samples	148
Soil Samples	292
Animal Samples	916
Plant Samples	406
Total Samples	1762

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16262	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM3953078v1 assembly for Brachybacterium phenoliresistens JCM 15157	scaffold	GCA_039530785	396014	47.91

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16262	Brachybacterium phenoliresistens strain phenol-A 16S ribosomal RNA gene, partial sequence	DQ822566	1456		396014

GC content

@ref	GC-content (mol%)	Method
16262	70.8	high performance liquid chromatography (HPLC)
32133	70.8

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM3953078v1 assembly for Brachybacterium phenoliresistens JCM 15157
NCBI: GCA_039530785

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.01	no
125439	gram_stain	BacteriaNetⓘ	positive	88.03	no
125439	motility	BacteriaNetⓘ	no	64.66	no
125439	spore_formation	BacteriaNetⓘ	no	92.34	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Brachybacterium hainanense sp. nov., isolated from noni (Morinda citrifolia L.) branch.	Liu Y, Zhai L, Yao S, Cao Y, Cao Y, Zhang X, Su J, Ge Y, Zhao R, Cheng C	Int J Syst Evol Microbiol	10.1099/ijsem.0.000559	2015
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

References

#16262	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22299
#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 )
#28377	IJSEM 2674 2007 ( DOI 10.1099/ijs.0.65019-0 , PubMed 17978239 )
#32133	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 #28377
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 phenoliresistens (DSM 22299, BCRC 17589, JCM 15157)

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

Murein

Observation

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_039530785

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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