Name: Ideonella dechloratans CIP 104251
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 137263

Type strain:

Species: Ideonella dechloratans

Culture col. no.: CIP 104251, CCUG 30977, CCUG 30898, ATCC 51718

Strain history: CIP <- 1994, CCUG <- 1993, A. Malmqvist, ANOX, Lund, Sweden

NCBI tax ID(s): 36863 (species)

SI-ID 43141

ATCC 51718, CCUG 30977, CCUG 30898, CIP 104251

Special Collections

CCUG
CIP

Section

Ideonella dechloratans CIP 104251 is an aerobe, mesophilic, Gram-negative bacterium of the family Sphaerotilaceae.

Gram-negative
aerobe
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	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Sphaerotilaceae*
	Genus	*Ideonella*
	Species	**Ideonella dechloratans**
	Full Scientific Name (LPSN)	Ideonella dechloratans Malmqvist et al. 1994

Information on morphological and physiological properties Morphology

[Ref.: #37168]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %98

[Ref.: #37168]	Cell shape	rod-shaped

[Ref.: #37168]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #37168]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #37168]

Culture medium growth

[Ref.: #37168]

Culture medium composition

expand / minimize

[Ref.: #37168]

Culture medium

CIP Medium 3

[Ref.: #37168]

Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #37168]		growth	30 °C
[Ref.: #37168]	no	growth	5 °C
[Ref.: #37168]	no	growth	10 °C
[Ref.: #37168]	no	growth	41 °C
[Ref.: #50345]		growth	37-42 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #50345]

Oxygen tolerance

aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %91.888
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Salt	Tested relation		Salt conc.
[Ref.: #37168]	NaCl		growth	0	%
[Ref.: #37168]	NaCl	no	growth	2	%
[Ref.: #37168]	NaCl	no	growth	4	%
[Ref.: #37168]	NaCl	no	growth	6	%
[Ref.: #37168]	NaCl	no	growth	8	%
[Ref.: #37168]	NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #37168]	esculin ChEBI	-	hydrolysis
[Ref.: #37168]	nitrate ChEBI	-	reduction
[Ref.: #37168]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #37168]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #37168]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #37168]	amylase	+
[Ref.: #37168]	beta-galactosidase	-	3.2.1.23
[Ref.: #37168]	caseinase	+	3.4.21.50
[Ref.: #37168]	catalase	+	1.11.1.6
[Ref.: #37168]	DNase	-
[Ref.: #37168]	gelatinase	-
[Ref.: #37168]	lecithinase	+
[Ref.: #37168]	lipase	+
[Ref.: #37168]	lysine decarboxylase	-	4.1.1.18
[Ref.: #37168]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #37168]	oxidase	+
[Ref.: #37168]	urease	-	3.5.1.5
	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.: #50345]	Sample type/isolated from	Activated sludge,wastewater treatment plant
[Ref.: #50345]	Geographic location (country and/or sea, region)	Malmö,Sjölunda
[Ref.: #50345]	Country	Sweden
[Ref.: #50345]	Country ISO 3 Code	SWE
[Ref.: #50345]	Continent	Europe

[Ref.: #37168]	Geographic location (country and/or sea, region)	Lund
[Ref.: #37168]	Country	Sweden
[Ref.: #37168]	Country ISO 3 Code	SWE
[Ref.: #37168]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Waste	#Activated sludge
#Engineered	#Waste	#Water treatment plant

What are isolation sources categories?

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

[Ref.: #37168]

Biosafety level

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.: #124043]	Ideonella dechloratans partial 16S rRNA gene, strain CCUG 30977T	X72724	1500	GenBank ENA	36863 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Ideonella dechloratans CCUG 30977	GCA_008801845	contig	GenBank ENA	36863 tax ID	*
[Ref.: #66792]	Ideonella dechloratans strain CCUG 30977	36863.4	wgs	PATRIC	36863 tax ID	*
[Ref.: #66792]	Ideonella dechloratans Anox B, ATCC 51718	2510461017	draft	JGI IMG/M	36863 tax ID	*
[Ref.: #66792]	Ideonella dechloratans CCUG 30977	GCA_021049305	complete	GenBank ENA	36863 tax ID	*
[Ref.: #66792]	Ideonella dechloratans strain CCUG 30977	36863.8	complete	PATRIC	36863 tax ID	*

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Ideonella dechloratans strain CCUG 30977 PATRIC: 36863.4
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ideonella dechloratans CCUG 30977 NCBI: GCA_021049305.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.578	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	77.586	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	91.888	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.567	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	84.838	no

Availability in culture collections External links

[Ref.: #37168]

Culture collection no.

CIP 104251, CCUG 30977, CCUG 30898, ATCC 51718

[Ref.: #94200]

SI-ID 43141

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Aquincola rivuli sp. nov., isolated from a freshwater stream.	Sheu SY, Hsieh TY, Chen WM	Int J Syst Evol Microbiol	10.1099/ijsem.0.003429	2019	*
Phylogeny	Ideonella livida sp. nov., isolated from a freshwater lake.	Chen WM, Chen LC, Sheu DS, Tsai JM, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.004363	2020	*
Phylogeny	Ideonella paludis sp. nov., isolated from a marsh.	Sheu SY, Chen ZH, Young CC, Chen WM	Int J Syst Evol Microbiol	10.1099/ijsem.0.000832	2015	*
Phylogeny	Microaerobic enrichment of benzene-degrading bacteria and description of Ideonella benzenivorans sp. nov., capable of degrading benzene, toluene and ethylbenzene under microaerobic conditions.	Bedics A, Tancsics A, Toth E, Banerjee S, Harkai P, Kovacs B, Boka K, Kriszt B	Antonie Van Leeuwenhoek	10.1007/s10482-022-01759-z	2022	*

References

#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 )

#37168 Collection of Institut Pasteur ; Curators of the CIP; CIP 104251
#50345 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30977

#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 )

#94200

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-ID43141.1 )

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

* These data were automatically processed and therefore are not curated

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Ideonella dechloratans strain CCUG 30977

Ideonella dechloratans CCUG 30977

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