Name: Brachybacterium phenoliresistens phenol-A
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 3915

Type strain:

Species: Brachybacterium phenoliresistens

Strain Designation: phenol-A

Culture col. no.: DSM 22299, BCRC 17589, JCM 15157, LMG 23707

Strain history: BCRC 17589 <-- W.-M. Chen strain phenol-A.

NCBI tax ID(s): 396014 (species)

SI-ID 291592

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

Special Collections

Section

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
16S sequence
Bacteria

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Dermabacteraceae*
	Genus	*Brachybacterium*
	Species	**Brachybacterium phenoliresistens**
	Full Scientific Name (LPSN)	Brachybacterium phenoliresistens Chou et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32133]	Gram stain	positive

[Ref.: #32133]	Cell length	1.3 µm

[Ref.: #32133]	Cell width	0.8 µm

[Ref.: #32133]	Cell shape	ovoid-shaped

[Ref.: #32133]	Motility	no

[Ref.: #32133]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16262]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #16262]

Culture medium growth

[Ref.: #16262]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16262]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16262]	growth	28 °C
[Ref.: #32133]	growth	04-40 °C
[Ref.: #32133]	optimum	32.5 °C
[Ref.: #67770]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #32133]			optimum	7
[Ref.: #32133]			growth	05-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32133]

Oxygen tolerance

facultative anaerobe

[Ref.: #32133]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32133]		NaCl		growth	0.5-7	%
[Ref.: #32133]		NaCl		optimum	2.5	%

[Ref.: #16262]	Murein short key	A31.03
[Ref.: #16262]	Murein types	A4gamma m-Dpm-D-Asp-D-Glu; alpha-carboxyl group of D-Glu substituted by glycine

[Ref.: #32133]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32133]	arabinose ChEBI	+	carbon source
[Ref.: #32133]	aspartate ChEBI	+	carbon source
[Ref.: #32133]	cellobiose ChEBI	+	carbon source
[Ref.: #32133]	dextrin ChEBI	+	carbon source
[Ref.: #32133]	esculin ChEBI	+	hydrolysis
[Ref.: #32133]	fructose ChEBI	+	carbon source
[Ref.: #32133]	galactose ChEBI	+	carbon source
[Ref.: #32133]	glucose ChEBI	+	carbon source
[Ref.: #32133]	glycine ChEBI	+	carbon source
[Ref.: #32133]	glycogen ChEBI	+	carbon source
[Ref.: #32133]	L-arabitol ChEBI	+	carbon source
[Ref.: #32133]	lactose ChEBI	+	carbon source
[Ref.: #32133]	maltose ChEBI	+	carbon source
[Ref.: #32133]	mannitol ChEBI	+	carbon source
[Ref.: #32133]	mannose ChEBI	+	carbon source
[Ref.: #32133]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #32133]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32133]	raffinose ChEBI	+	carbon source
[Ref.: #32133]	rhamnose ChEBI	+	carbon source
[Ref.: #32133]	salicin ChEBI	+	carbon source
[Ref.: #32133]	sorbitol ChEBI	+	carbon source
[Ref.: #32133]	sucrose ChEBI	+	carbon source
[Ref.: #32133]	trehalose ChEBI	+	carbon source
[Ref.: #32133]	tween 20 ChEBI	+	carbon source
[Ref.: #32133]	tween 40 ChEBI	+	carbon source
[Ref.: #32133]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #32133]	acid phosphatase	+	3.1.3.2
[Ref.: #32133]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32133]	catalase	+	1.11.1.6

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

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #16262]	Sample type/isolated from	oil-contaminated coastal sand
[Ref.: #16262]	Geographic location (country and/or sea, region)	Pingtung County
[Ref.: #16262]	Country	Taiwan, Province of China
[Ref.: #16262]	Country ISO 3 Code	TWN
[Ref.: #16262]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Oil-contaminated coastal sand
[Ref.: #67770]	Geographic location (country and/or sea, region)	Pingtung County
[Ref.: #67770]	Country	Taiwan, Province of China
[Ref.: #67770]	Country ISO 3 Code	TWN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Contamination	#Oil (Fuel)
#Environmental	#Terrestrial	#Coast
#Environmental	#Terrestrial	#Sandy

What are isolation sources categories?

[Ref.: #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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #16262]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #16262]	Brachybacterium phenoliresistens strain phenol-A 16S ribosomal RNA gene, partial sequence	DQ822566	1456	GenBank ENA	396014 tax ID

[Ref.: #16262]	GC-content	70.8 mol%	high performance liquid chromatography (HPLC)
[Ref.: #32133]	GC-content	70.8 mol%

Availability in culture collections External links

[Ref.: #16262]

Culture collection no.

DSM 22299, BCRC 17589, JCM 15157, LMG 23707

[Ref.: #73425]

SI-ID 291592

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 )

#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 (see below)

#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 .

#73425

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-ID291592.1 )

#28377

IJSEM 2674 2007 ( DOI 10.1099/ijs.0.65019-0 , PubMed 17978239 )

* These data were automatically processed and therefore are not curated

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