Name: Rhodococcus phenolicus G2P
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 11042

Type strain:

Species: Rhodococcus phenolicus

Strain Designation: G2P

Culture col. no.: DSM 44812, CIP 109148, JCM 14914, NRRL B-24323

Strain history: CIP <- 2006, DSMZ <- M. Rehfuss: strain G2P

NCBI tax ID(s): 1303680 (strain), 263849 (species)

SI-ID 291003

DSM 44812, NRRL B-24323, CIP 109148, JCM 14914

Special Collections

Section

When using BacDive for research please cite our paper

Rhodococcus phenolicus G2P is a mesophilic bacterium that was isolated from biological wastewater processor.

mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Nocardiaceae*
	Genus	*Rhodococcus*
	Species	**Rhodococcus phenolicus**
	Full Scientific Name (LPSN)	Rhodococcus phenolicus Rehfuss and Urban 2006

Information on morphological and physiological properties Morphology

[Ref.: #125439]	Gram stain	positive Confidence in %99.4

[Ref.: #125438]	Motility	no Confidence in %96.5
[Ref.: #125439]	Motility	no Confidence in %92.8

Multimedia content

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Caption:

Medium 535 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

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #12097]

Culture medium composition

expand / minimize

[Ref.: #38383]

Culture medium

MEDIUM 72- for trypto casein soja agar

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Culture medium growth

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Culture medium composition

expand / minimize

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Culture medium

CIP Medium 72

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #12097]	growth	28 °C
[Ref.: #38383]	growth	30 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

obligate aerobe Confidence in %95

[Ref.: #12097]	Name of produced compound	phenol
[Ref.: #12097]	Name of produced compound	chlorobenzene
[Ref.: #12097]	Name of produced compound	dichlorobenzenes

	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.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[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]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #121795]	11683	-	+	+	+	-	+	-	-	-	-	+	-	-	-	-	-	+	-	-	-

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

[Ref.: #12097]	Sample type/isolated from	biological wastewater processor
[Ref.: #12097]	Geographic location (country and/or sea, region)	Texas, Johnson Space Center
[Ref.: #12097]	Country	USA
[Ref.: #12097]	Country ISO 3 Code	USA
[Ref.: #12097]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Johnson Space Center graywater bioprocessor
[Ref.: #67770]	Country	USA
[Ref.: #67770]	Country ISO 3 Code	USA
[Ref.: #67770]	Continent	North America

[Ref.: #121795]	Sample type/isolated from	Environment, Johson Space Center graywater bioprocessor
[Ref.: #121795]	Geographic location (country and/or sea, region)	Houston, Texas
[Ref.: #121795]	Country	United States of America
[Ref.: #121795]	Country ISO 3 Code	USA
[Ref.: #121795]	Continent	North America
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Machines and devices
#Engineered	#Waste	#Wastewater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM933579 (>99% sequence identity) for Rhodococcus from Microbeatlas

Aquatic Samples	349
Soil Samples	259
Animal Samples	272
Plant Samples	20
Total Samples	900

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

[Ref.: #12097]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #121795]	Biosafety level	1	Risk group (French classification)

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]	Rhodococcus phenolicus partial 16S rRNA gene, type strain DSM 44812T	AM933579	1511	GenBank ENA	263849 tax ID	*
[Ref.: #20218]	Rhodococcus phenolicus strain DSM 44812 16S ribosomal RNA gene, partial sequence	KF410354	1379	GenBank ENA	263849 tax ID	*
[Ref.: #20218]	Rhodococcus phenolicus 16S ribosomal RNA gene, partial sequence	AY533293	1395	GenBank ENA	263849 tax ID	*

Genome sequence information:

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

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Rhodococcus phenolicus DSM 44812	GCA_001646785	scaffold	GenBank ENA	263849 tax ID
[Ref.: #66792]	Rhodococcus phenolicus JCM 14914	GCA_001313425	contig	GenBank ENA	1303680 tax ID	*
[Ref.: #66792]	Rhodococcus phenolicus JCM 14914	1303680.3	wgs	PATRIC	1303680 tax ID	*
[Ref.: #66792]	Rhodococcus phenolicus strain DSM 44812	263849.4	wgs	PATRIC	263849 tax ID	*
[Ref.: #66792]	Rhodococcus phenolicus DSM 44812	2744054614	draft	JGI IMG/M	263849 tax ID	*
[Ref.: #66792]	Rhodococcus phenolicus JCM 14914	2675903364	draft	JGI IMG/M	1303680 tax ID	*

[Ref.: #12097]	GC-content	66.7 mol%
[Ref.: #67770]	GC-content	66.7 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	68.4 mol%	genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodococcus phenolicus JCM 14914 PATRIC: 1303680.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	83.696	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	94.961	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	67.874	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	85.984	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.5	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	96.5	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodococcus phenolicus DSM 44812 NCBI: GCA_001646785
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	79.7
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	92.8
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	99.4
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	95

Availability in culture collections External links

[Ref.: #12097]

Culture collection no.

DSM 44812, CIP 109148, JCM 14914, NRRL B-24323

[Ref.: #80294]

SI-ID 291003

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhodococcus phenolicus sp. nov., a novel bioprocessor isolated actinomycete with the ability to degrade chlorobenzene, dichlorobenzene and phenol as sole carbon sources.	Rehfuss M, Urban J	Syst Appl Microbiol	10.1016/j.syapm.2005.05.011	2005	*

References

#12097

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44812

#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 )

#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 )

#38383 ; 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 .

#80294

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-ID291003.1 )

#121795 Collection of Institut Pasteur ; Curators of the CIP; CIP 109148

#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 .

* These data were automatically processed and therefore are not curated

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Rhodococcus phenolicus JCM 14914

Rhodococcus phenolicus DSM 44812

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