Name: Mycobacterium chlorophenolicum PCP-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 8364

Type strain:

Species: Mycobacterium chlorophenolicum

Strain Designation: PCP-1

Culture col. no.: DSM 43826, ATCC 49826, JCM 7439, NCIMB 123325, NRRL B-16528, BCRC 13726, CECT 4065, CIP 104189, HAMBI 2278, IFO 15527, MTCC 2570, NBRC 15527, NCIMB 12325

Strain history: DSM 43826 <-- J. H. A. Apajalahti et al. PCP-I.

NCBI tax ID(s): 1303685 (strain), 37916 (species)

Section

Mycobacterium chlorophenolicum PCP-1 is a mesophilic bacterium that was isolated from mixed culture that originated from a chlorophenol-contaminated lake sediment sample.

mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Mycobacteriaceae*
	Genus	*Mycobacterium*
	Species	**Mycobacterium chlorophenolicum**
	Full Scientific Name (PNU)	Mycobacterium chlorophenolicum (Apajalahti et al. 1986) Häggblom et al. 1994

	Synonym	Mycolicibacterium chlorophenolicum
	Synonym	Mycobacterium chlorophenolicum
	Synonym	Rhodococcus chlorophenolicus

Information on morphological and physiological properties Morphology

Multimedia content

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Caption:

Medium 645 28°C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

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Culture medium composition

expand / minimize

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Culture medium

MIDDLEBROOK MEDIUM (DSMZ Medium 645)

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

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Culture medium composition

expand / minimize

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Culture medium

MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicum

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Culture medium growth

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #11297]	growth	28 °C
[Ref.: #39745]	growth	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #11297]	Temperature range	mesophilic
[Ref.: #39745]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #20216]	Observation	Degrades chlorophenols
[Ref.: #67770]	Observation	quinones: MK-9(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite
[Ref.: #68369]		indole ChEBI	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym, API 20NE
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #11297]	22327	-	-	-	-	-	-	-	-	+/-	+/-	-	+	-	-	+	-	+/-	+	-	-	not determinedn.d.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #11297]	6381	-	+	+	+	-	+	+/-	+/-	-	-	+	+/-	-	-	-	+	-	-	-	-

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

[Ref.: #11297]	Sample type/isolated from	mixed culture that originated from a chlorophenol-contaminated lake sediment sample

[Ref.: #67770]	Sample type/isolated from	Lake sediment
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

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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

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

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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.: #20218]	Mycobacterium chlorophenolicum strain CIP 104189 16S ribosomal RNA gene, partial sequence	AF547911	540	ENA	37916 tax ID	*
[Ref.: #20218]	M.chlorophenolicum (DSM 43826) 16S rRNA gene	X79292	1466	ENA	37916 tax ID	*
[Ref.: #20218]	M.chlorophenolicum 16S rRNA gene (NCIMB 12325T)	X81926	1317	ENA	37916 tax ID	*
[Ref.: #20218]	M.chlorophenolicus (PCP-1) 16S rRNA gene	X79094	1532	ENA	37916 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Mycolicibacterium chlorophenolicum JCM 7439 = NBRC 15527 JCM 7439	GCA_001313545	contig	GenBank	1303685 tax ID	*
[Ref.: #66792]	Mycobacterium chlorophenolicum JCM 7439 = NBRC 15527	1303685.5	wgs	PATRIC	1303685 tax ID	*
[Ref.: #66792]	Mycobacterium chlorophenolicum JCM 7439 = NBRC 15527	1303685.4	wgs	PATRIC	1303685 tax ID	*
[Ref.: #66792]	Mycobacterium chlorophenolicum strain DSM 43826	37916.4	wgs	PATRIC	37916 tax ID	*
[Ref.: #66792]	Mycolicibacterium chlorophenolicum DSM 43826	2630968674	draft	JGI IMG/M	37916 tax ID	*
[Ref.: #66792]	Mycolicibacterium chlorophenolicum NBRC 15527	2731957580	draft	JGI IMG/M	1303685 tax ID	*

[Ref.: #67770]	GC-content	68.4 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	69.2 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #11297]

Culture collection no.

DSM 43826, ATCC 49826, JCM 7439, NCIMB 123325, NRRL B-16528, BCRC 13726, CECT 4065, CIP 104189, HAMBI 2278, IFO 15527, MTCC 2570, NBRC 15527, NCIMB 12325

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Associated Passport(s) in StrainInfo

114888, 114886, 152978, 152980

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
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	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	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	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	*
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	*
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	*
Metabolism	Microbial O-methylation of the flame retardant tetrabromobisphenol-A.	George KW, Haggblom MM	Environ Sci Technol	10.1021/es800038q	2008	*
Metabolism	Biodegradation of pentachlorophenol in natural soil by inoculatedRhodococcus chlorophenolicus.	Middeldorp PJ, Briglia M, Salkinoja-Salonen MS	Microb Ecol	10.1007/BF02543872	1990	*
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	*
	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	*

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

Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) Curators of the HKI: Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

* These data were automatically processed and therefore are not curated

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