Mycobacterium chlorophenolicum (DSM 43826, ATCC 49826, JCM 7439)

Name: Mycobacterium chlorophenolicum (DSM 43826, ATCC 49826, JCM 7439)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8364

Type strain

Strain Designation PCP-1

Culture col. no. DSM 43826 ATCC 49826 JCM 7439 NCIMB 123325 NRRL B-16528 12 more

NCBI tax ID(s) 1303685 37916

Special Collections DSMZ JCM CIP JMRC

History DSMZ <- J.H.A. Apajalahti, Univ. Helsinki, PCP-1 JCM <-- DSM 43826 <-- J. H. A. Apajalahti et al. PCP-I. CIP <- 1994, JCM <- DSM <- J.H.A. Apajalahti, Helsinki Univ., Finland: PCP-I, Rhodococcus chlorophenolicus

Links

Mycobacterium chlorophenolicum PCP-1 is an obligate aerobe, rod-shaped bacterium that was isolated from mixed culture that originated from a chlorophenol-contaminated lake sediment sample.

rod-shaped obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 42703

MTCC 2570,ATCC 49826,DSM 43826,CIP 104189,JCM 7439,NCIMB 12325,NRRL B-16528,CCRC 13726,IFO 15527,CECT 4065,NBRC 15527,HAMBI 2278,BCRC 13726

@ref 20215

Last LPSN update 2026-05-29 08:26:51

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium chlorophenolicum

Full scientific name Mycobacterium chlorophenolicum (Apajalahti et al. 1986) Häggblom et al. 1994

Synonyms (3)

Rhodococcus chlorophenolicus
Mycobacterium chlorophenolicum
Mycolicibacterium chlorophenolicum

Morphology

Cell morphology

@ref	Cell shape	Confidence	Gram stain
118241	rod-shaped
125438		94
125439		92.136
125439		98.582	positive

Multimedia

@ref:	11297
multimedia content:	DSM_43826.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_43826.jpg
caption:	Medium 645 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11297	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
11297	MIDDLEBROOK MEDIUM (DSMZ Medium 645)	Medium recipe at MediaDive	Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water
39745	MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicum		Distilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g)
118241	CIP Medium 116	Medium recipe at CIP
118241	CIP Medium 194	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
11297	positive	growth	28
39745	positive	growth	30
67770	positive	growth	28
118241	positive	growth	25-37
118241	negative	growth	10
118241	negative	growth	41
118241	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
118241	obligate aerobe
125439	obligate aerobe	98.857

Observation

@ref	Observation
20216	Degrades chlorophenols
67770	quinones: MK-9(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
118241	606565 ChEBI	hippurate	-	hydrolysis
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
118241	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test	Voges-proskauer-test	Methylred-test
118241	15688 ChEBI	acetoin		-
118241	17234 ChEBI	glucose			-
68369	35581 ChEBI	indole	-			from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
118241	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
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
118241	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
118241	caseinase	-	3.4.21.50
118241	catalase	+	1.11.1.6
118241	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
118241	gamma-glutamyltransferase	-	2.3.2.2
118241	gelatinase	-
68369	gelatinase	-		from API 20NE
118241	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
118241	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
118241	ornithine decarboxylase	-	4.1.1.17
118241	oxidase	-
118241	urease	+	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE

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
11297	-	+	+	+	-	+	+/-	+/-	-	-	+	+/-	-	-	-	+	-	-	-	-
118241	-	+	+	+	+	+	+	+	+	-	+	+	-	-	-	+	-	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
11297	-	-	-	-	-	-	-	-	+/-	+/-	-	+	-	-	+	-	+/-	+	-	-	not determinedn.d.

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
118241	not determinedn.d.	+	+	-	+	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	+	-	+	-	-	+	+	+	-	-	-	+	+	-	-	+	+	-	-	+	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	-	+	+	+	-	-	+	-	-	-	-	+	+	-	+	-	-	-	+	+	-	-	+	-	-	+	-	+	-	-	-	-	-	-	-	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Contamination	-
#Engineered	#Laboratory	#Lab enrichment
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type
11297	mixed culture that originated from a chlorophenol-contaminated lake sediment sample
67770	Lake sediment
118241	Environment, Lake sediment

Taxonmaps

69479

Global distribution of 16S sequence X81926 (>99% sequence identity) for Mycolicibacterium from Microbeatlas

Aquatic Samples	1667
Soil Samples	1619
Animal Samples	1470
Plant Samples	149
Total Samples	4905

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11297	1	Risk group (German classification) According to TRBA 466
118241	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
67770	ASM104423v1 assembly for Mycolicibacterium chlorophenolicum DSM 43826	scaffold	GCA_001044235	37916.4	2630968674	37916	63.58
67770	ASM155231v1 assembly for Mycolicibacterium chlorophenolicum JCM 7439 = NBRC 15527	contig	GCA_001552315	1303685.4	2731957580	1303685	56.79
66792	ASM131354v1 assembly for Mycolicibacterium chlorophenolicum JCM 7439 = NBRC 15527	contig	GCA_001313545	1303685.5	2734481951	1303685	0

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Mycobacterium chlorophenolicum strain CIP 104189 16S ribosomal RNA gene, partial sequence	AF547911	540	37916
20218	M.chlorophenolicum (DSM 43826) 16S rRNA gene	X79292	1466	37916
20218	M.chlorophenolicum 16S rRNA gene (NCIMB 12325T)	X81926	1317	37916
20218	M.chlorophenolicus (PCP-1) 16S rRNA gene	X79094	1532	37916

GC content

@ref	GC-content (mol%)	Method
67770	68.4	genome sequence analysis
67770	69.2	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM104423v1 assembly for Mycolicibacterium chlorophenolicum DSM 43826
NCBI: GCA_001044235

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.86	no
125439	gram_stain	BacteriaNetⓘ	positive	98.58	no
125439	motility	BacteriaNetⓘ	no	92.14	no
125439	spore_formation	BacteriaNetⓘ	yes	51.89	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mycobacterium chlorophenolicum JCM 7439 = NBRC 15527
PATRIC: 1303685.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	84.00	no
125438	anaerobic	anaerobicⓘ	no	86.27	no
125438	spore-forming	spore-formingⓘ	no	71.30	no
125438	aerobic	aerobicⓘ	yes	79.93	no
125438	thermophilic	thermophileⓘ	no	89.97	no
125438	flagellated	motile2+ⓘ	no	94.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Protozoan response to addition of the bacteria Mycobacterium chlorophenolicum and Pseudomonas chlororaphis to soil microcosms.	Ronn R, Grunert J, Ekelund F.	Biol Fertil Soils	10.1007/s003740000299	2001
	Accelerated Mineralization of Pentachlorophenol in Soil upon Inoculation with Mycobacterium chlorophenolicum PCP1 and Sphingomonas chlorophenolica RA2.	Miethling R, Karlson U.	Appl Environ Microbiol	10.1128/aem.62.12.4361-4366.1996	1996
Phylogeny	Phylogenomics and Comparative Genomic Studies Robustly Support Division of the Genus Mycobacterium into an Emended Genus Mycobacterium and Four Novel Genera.	Gupta RS, Lo B, Son J.	Front Microbiol	10.3389/fmicb.2018.00067	2018
	Utilization of Halogenated Benzenes, Phenols, and Benzoates by Rhodococcus opacus GM-14.	Zaitsev GM, Uotila JS, Tsitko IV, Lobanok AG, Salkinoja-Salonen MS.	Appl Environ Microbiol	10.1128/aem.61.12.4191-4201.1995	1995
	Expression of Genes for a Flavin Adenine Dinucleotide-Binding Oxidoreductase and a Methyltransferase from Mycobacterium chlorophenolicum Is Necessary for Biosynthesis of 10-Methyl Stearic Acid from Oleic Acid in Escherichia coli.	Machida S, Bakku RK, Suzuki I.	Front Microbiol	10.3389/fmicb.2017.02061	2017
Genetics	Characterization of Three Mycobacterium spp. with Potential Use in Bioremediation by Genome Sequencing and Comparative Genomics.	Das S, Pettersson BM, Behra PR, Ramesh M, Dasgupta S, Bhattacharya A, Kirsebom LA	Genome Biol Evol	10.1093/gbe/evv111	2015
Metabolism	Microbial O-methylation of the flame retardant tetrabromobisphenol-A.	George KW, Haggblom MM	Environ Sci Technol	10.1021/es800038q	2008
Enzymology	Analysis of the nearly identical morpholine monooxygenase-encoding mor genes from different Mycobacterium strains and characterization of the specific NADH : ferredoxin oxidoreductase of this cytochrome P450 system.	Sielaff B, Andreesen JR	Microbiology (Reading)	10.1099/mic.0.28039-0	2005
Enzymology	Adsorption capacity as a key parameter for enzyme induction and pentachlorophenol degradation in Mycobacterium chlorophenolicum PCP-1.	Brandt S, Zeng AP, Deckwer WD	Biotechnol Bioeng	10.1002/(sici)1097-0290(19991005)65:1<93::aid-bit11>3.0.co;2-5	1999
Metabolism	Inefficiency of Mycobacterium chlorophenolicum PCP-1 to enhance mineralization of pentachlorophenol in soil microcosms.	Combrisson J, Monrozier LJ	Chemosphere	10.1016/s0045-6535(98)00531-1	1999
	Adsorption and desorption of pentachlorophenol on cells of Mycobacterium chlorophenolicum PCP-1.	Brandt S, Zeng AP, Deckwer WD	Biotechnol Bioeng	10.1002/(SICI)1097-0290(19970805)55:3<480::AID-BIT3>3.0.CO;2-8	1997
Phylogeny	Rapid and sensitive method for the detection of Mycobacterium chlorophenolicum PCP-1 in soil based on 16S rRNA gene-targeted PCR.	Briglia M, Eggen RI, de Vos WM, van Elsas JD	Appl Environ Microbiol	10.1128/aem.62.4.1478-1480.1996	1996
Metabolism	Metabolism of halohydroquinones in Rhodococcus chlorophenolicus PCP-1.	Uotila JS, Kitunen VH, Coote T, Saastamoinen T, Salkinoja-Salonen M, Apajalahti JH	Biodegradation	10.1007/BF00695342	1995
Phylogeny	Phylogenetic evidence for transfer of pentachlorophenol-mineralizing Rhodococcus chlorophenolicus PCP-I(T) to the genus Mycobacterium.	Briglia M, Eggen RI, Van Elsas DJ, De Vos WM	Int J Syst Bacteriol	10.1099/00207713-44-3-494	1994
Metabolism	Biodegradation of pentachlorophenol in natural soil by inoculatedRhodococcus chlorophenolicus.	Middeldorp PJ, Briglia M, Salkinoja-Salonen MS	Microb Ecol	10.1007/BF02543872	1990

References

#11297	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43826
#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 )
#20216	Curators of the JMRC: Jena Microbial Resource Collection (JMRC):
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#39745	; 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;
#68369	Automatically annotated from API 20NE .
#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 .
#118241	Collection of Institut Pasteur ; Curators of the CIP; CIP 104189
#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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Mycobacterium chlorophenolicum (DSM 43826, ATCC 49826, JCM 7439)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 20NE

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001044235

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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