Name: Phenylobacterium immobile E
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2339

Type strain:

Species: Phenylobacterium immobile

Strain Designation: E

Culture col. no.: DSM 1986, ATCC 35973, NCIB 12055, CIP 103305, LMG 6165, NCIMB 12055

Strain history: CIP <- 1997, DSM <- F. Lingens: strain E <- 1992, C. Fröhner

NCBI tax ID(s): 21 (species)

SI-ID 3827

LMG 6165, ATCC 35973, CIP 103305, DSM 1986, NCIB 12055, NCIMB 12055, KCTC 12161

Other strains from Phenylobacterium immobile

P. immobile Z6, DSM 2114, ATCC 35977
P. immobile K2, DSM 2117, ATCC 35975
P. immobile N, DSM 2113, ATCC 35976
P. immobile A12, DSM 2115, ATCC 35972
P. immobile J1, DSM 2116, ATCC 35974

Section

Phenylobacterium immobile E is an aerobe, chemoorganotroph, mesophilic bacterium that has a greenish yellow non-fluorescent pigmentation and was isolated from soil, enrichment with chloridazon.

Gram-negative
pigmented
rod-shaped
aerobe
chemoorganotroph
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Caulobacterales*
	Family	*Caulobacteraceae*
	Genus	*Phenylobacterium*
	Species	**Phenylobacterium immobile**
	Full Scientific Name (LPSN)	Phenylobacterium immobile Lingens et al. 1985

Synonym

"Phenylobacterium immobilis"

Information on morphological and physiological properties Morphology

[Ref.: #23073]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.995

[Ref.: #23073]	Cell length	1.0-2.0 µm

[Ref.: #23073]	Cell width	0.7-1.0 µm

[Ref.: #23073]	Cell shape	rod-shaped
[Ref.: #23073]	Cell shape	coccus-shaped

[Ref.: #23073]	Motility	no

[Ref.: #23073]	Colony size	1.0-2.0 mm
[Ref.: #23073]	Colony color	colorless
[Ref.: #23073]	Incubation period	14-21 days

[Ref.: #23073]	Pigment production	yes
[Ref.: #23073]	Pigmentation color	greenish yellow non-fluorescent

Information on culture and growth conditions Culture and growth conditions

[Ref.: #943]

Culture medium

PLATE COUNT AGAR (DSMZ Medium 464)

[Ref.: #943]

Culture medium growth

[Ref.: #943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #943]

Culture medium composition

expand / minimize

[Ref.: #943]

Culture medium

PHENYLOBACTERIUM MEDIUM (DSMZ Medium 363)

[Ref.: #943]

Culture medium growth

[Ref.: #943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #943]

Culture medium composition

expand / minimize

[Ref.: #38124]

Culture medium

MEDIUM 64 - for Phenylobacterium immobile

[Ref.: #38124]

Culture medium growth

[Ref.: #38124]

Culture medium composition

expand / minimize

[Ref.: #943]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #943]

Culture medium growth

[Ref.: #943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #943]

Culture medium composition

expand / minimize

[Ref.: #943]

Culture medium

MINERAL MEDIUM WITH VITAMINS (DSMZ Medium 462)

[Ref.: #943]

Culture medium growth

[Ref.: #943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #943]

Culture medium composition

expand / minimize

[Ref.: #120055]

Culture medium

CIP Medium 64

[Ref.: #120055]

Culture medium growth

[Ref.: #120055]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #943]		growth	28 °C
[Ref.: #23073]	no	growth	4.0 °C
[Ref.: #23073]	no	growth	37.0 °C
[Ref.: #23073]		optimum	28.0-30.0 °C
[Ref.: #38124]		growth	30 °C

[Ref.: #943]	Temperature range	mesophilic
[Ref.: #23073]	Temperature range	psychrophilic
[Ref.: #23073]	Temperature range	mesophilic
[Ref.: #38124]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #23073]			optimum	6.8-7.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #23073]

Oxygen tolerance

aerobe

[Ref.: #23073]

Nutrition type

chemoorganotroph

[Ref.: #23073]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.998

[Ref.: #943]	Name of produced compound	2 keto-4-hydroxy valeric acid
[Ref.: #943]	Name of produced compound	pyrazon dioxygenase
[Ref.: #943]	Name of produced compound	catechol-2,3-dioxygenase
[Ref.: #943]	Name of produced compound	dihydrodiols

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23073]	aminophenazone ChEBI	+	growth
[Ref.: #23073]	antipyrine ChEBI	+	growth
[Ref.: #23073]	casein	-	hydrolysis
[Ref.: #23073]	chloridazon ChEBI	+	growth
[Ref.: #23073]	dinitrogen ChEBI	-	growth
[Ref.: #23073]	esculin ChEBI	-	hydrolysis
[Ref.: #23073]	gelatin ChEBI	-	hydrolysis
[Ref.: #23073]	glucose ChEBI	-	fermentation
[Ref.: #23073]	L-phenylalanine ChEBI	+	growth
[Ref.: #23073]	nitrate ChEBI	-	reduction
[Ref.: #23073]	starch ChEBI	-	hydrolysis
[Ref.: #23073]	tryptophan ChEBI	-	energy source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #23073]	ampicillin ChEBI	yes
[Ref.: #23073]	cefaloridine ChEBI		yes
[Ref.: #23073]	chloramphenicol ChEBI	yes
[Ref.: #23073]	cloxacillin ChEBI		yes
[Ref.: #23073]	erythromycin ChEBI		yes
[Ref.: #23073]	fusidate ChEBI		yes
[Ref.: #23073]	kanamycin ChEBI	yes
[Ref.: #23073]	lincomycin ChEBI		yes
[Ref.: #23073]	methicillin ChEBI		yes
[Ref.: #23073]	neomycin ChEBI	yes
[Ref.: #23073]	streptomycin ChEBI	yes
[Ref.: #23073]	sulfisoxazole ChEBI		yes
[Ref.: #23073]	tetracycline ChEBI	yes
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #23073]		acetoin ChEBI	no
[Ref.: #23073]		indole ChEBI	no

	Metabolite	Voges-Proskauer-test	Methylred-test	Indole test
[Ref.: #23073]	acetoin ChEBI	-
[Ref.: #23073]	glucose ChEBI		-
[Ref.: #23073]	indole ChEBI			-

	Enzyme	Enzyme activity	EC number
[Ref.: #23073]	catalase	+	1.11.1.6
[Ref.: #23073]	cytochrome oxidase	+	1.9.3.1
[Ref.: #23073]	tryptophan deaminase	-	4.1.99.1
[Ref.: #23073]	urease	-	3.5.1.5

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

[Ref.: #943]	Sample type/isolated from	soil, enrichment with chloridazon
[Ref.: #943]	Country	Ecuador
[Ref.: #943]	Country ISO 3 Code	ECU
[Ref.: #943]	Continent	Middle and South America

[Ref.: #120055]	Sample type/isolated from	Environment, Soil

[Ref.: #23073]	Enrichment culture	mineral media
[Ref.: #23073]	Enrichment culture composition	containing chloridazon,antipyrin, or pyramidon
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

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

[Ref.: #943]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #120055]	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]	Phenylobacterium immobile 16S rRNA gene	Y18216	1466	ENA	21 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Phenylobacterium immobile (strain E)	GCA_001375595	contig	GenBank	31967 tax ID	*
[Ref.: #66792]	Phenylobacterium immobile (ATCC 35973)	31967.4	wgs	PATRIC	31967 tax ID	*
[Ref.: #66792]	Phenylobacterium immobile E	2690315804	draft	JGI IMG/M	31967 tax ID	*

[Ref.: #943]

GC-content

65.5 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Phenylobacterium immobile (ATCC 35973) PATRIC: 31967.4
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Phenylobacterium immobile (ATCC 35973) PATRIC: 31967.4
[Ref.: #69480]	gram-positive	no	97.359	yes
[Ref.: #69480]	anaerobic	no	98.724	no
[Ref.: #69480]	halophile	no	96.288	no
[Ref.: #69480]	spore-forming	no	96.318	yes
[Ref.: #69480]	glucose-util	yes	65.167	no
[Ref.: #69480]	motile	no	74.34	no
[Ref.: #69480]	flagellated	no	98.082	yes
[Ref.: #69480]	aerobic	yes	88.902	no
[Ref.: #69480]	thermophile	no	99.538	yes
[Ref.: #69480]	glucose-ferment	no	93.34	yes

Availability in culture collections External links

[Ref.: #943]

Culture collection no.

DSM 1986, ATCC 35973, NCIB 12055, CIP 103305, LMG 6165, NCIMB 12055

[Ref.: #71896]

SI-ID 3827

Literature:

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

	Title	Authors	Journal	DOI	Year
Phylogeny	Phenylobacterium panacis sp. nov., isolated from the rhizosphere of rusty mountain ginseng.	Farh ME, Kim YJ, Singh P, Hoang VA, Yang DC	Int J Syst Evol Microbiol	10.1099/ijsem.0.001109	2016	*
Genetics	Draft Genome Sequence of Phenylobacterium immobile Strain E (DSM 1986), Isolated from Uncontaminated Soil in Ecuador.	Reznicek O, Luesken F, Facey SJ, Hauer B	Genome Announc	10.1128/genomeA.00420-15	2015	*
Phylogeny	Phenylobacterium kunshanense sp. nov., isolated from the sludge of a pesticide manufacturing factory.	Chu C, Yuan C, Liu X, Yao L, Zhu J, He J, Kwon SW, Huang X	Int J Syst Evol Microbiol	10.1099/ijs.0.063644-0	2014	*
Enzymology	Purification and N-terminal amino-acid sequences of bacterial malate dehydrogenases from six actinomycetales strains and from Phenylobacterium immobile, strain E.	Rommel TO, Hund HK, Speth AR, Lingens F	Biol Chem Hoppe Seyler	10.1515/bchm3.1989.370.2.763	1989	*
Enzymology	A novel non-heme iron-containing dioxygenase. Chloridazon-catechol dioxygenase from Phenylobacterium immobilis DSM 1986.	Muller R, Schmitt S, Lingens F	Eur J Biochem	10.1111/j.1432-1033.1982.tb06722.x	1982	*
Metabolism	Bacterial degradation of aminopyrine.	Blecher H, Blecher R, Wegst W, Eberspaecher J, Lingens F	Xenobiotica	10.3109/00498258109045878	1981	*
	Assembly of a Rieske non-heme iron oxygenase multicomponent system from Phenylobacterium immobile E DSM 1986 enables pyrazon cis-dihydroxylation in E. coli.	Hunold A, Escobedo-Hinojosa W, Potoudis E, Resende D, Farr T, Syren PO, Hauer B	Appl Microbiol Biotechnol	10.1007/s00253-021-11129-w	2021	*

References

#943	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1986

#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 )

#23073

Franz Lingens,Renate Blecher,Hartmut Blecher,Friedhelm Blobel,Jürgen Eberspächer,Christoph Fröhner,Helma Görisch,Helmut Görisch,Gerlinde Layh: Phenylobacterium immobile gen. nov., sp. nov., a Gram-Negative Bacterium That Degrades the Herbicide Chloridazon. IJSEM 35: 26 - 39 1985 ( DOI 10.1099/00207713-35-1-26 )

#38124 ; 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) .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#71896

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-ID3827.1 )

#120055 Collection of Institut Pasteur ; Curators of the CIP; CIP 103305
* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Phenylobacterium immobile in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Phenylobacterium immobile (ATCC 35973)

Phenylobacterium immobile (ATCC 35973)

Change proposal

Change proposal