Name: Iodobacter limnosediminis E1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 132145

Type strain:

Species: Iodobacter limnosediminis

Strain Designation: E1

Culture col. no.: DSM 103822, CCTCC AB 2010224, NRRL B-59456

Strain history: <- CCTCC <- W. Su and F. Peng, CCTCC

NCBI tax ID(s): 752139 (species)

SI-ID 398033

DSM 103822

Special Collections

Section

When using BacDive for research please cite our paper

Iodobacter limnosediminis E1 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from Arctic lake sediment.

Gram-negative
motile
rod-shaped
aerobe
psychrophilic
16S sequence
Bacteria

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	*Neisseriales*
	Family	*Chromobacteriaceae*
	Genus	*Iodobacter*
	Species	**Iodobacter limnosediminis**
	Full Scientific Name (LPSN)	Iodobacter limnosediminis Su et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30610]	Gram stain	negative

[Ref.: #30610]	Cell length	1.55 µm

[Ref.: #30610]	Cell width	0.7 µm

[Ref.: #30610]	Cell shape	rod-shaped

[Ref.: #30610]	Motility	yes

[Ref.: #30610]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #23935]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #23935]

Culture medium growth

[Ref.: #23935]

Culture medium link

Medium recipe at MediaDive

[Ref.: #23935]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #23935]	growth	20 °C
[Ref.: #30610]	growth	04-28 °C
[Ref.: #30610]	optimum	18 °C

	pH	Kind of pH		pH
[Ref.: #30610]			optimum	9.5
[Ref.: #30610]			growth	04-11

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30610]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30610]		NaCl		growth	0-1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* 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.: #30610]	dextrin ChEBI	+	carbon source
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30610]	fructose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30610]	gluconate ChEBI	+	carbon source
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #30610]	glucose ChEBI	+	carbon source
[Ref.: #30610]	glutamate ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30610]	maltose ChEBI	+	carbon source
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #30610]	methyl D-glucoside ChEBI	+	carbon source
[Ref.: #30610]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #30610]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #30610]	sucrose ChEBI	+	carbon source
[Ref.: #30610]	trehalose ChEBI	+	carbon source
[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	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

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

	Enzyme	Enzyme activity	EC number
[Ref.: #30610]	acid phosphatase	+	3.1.3.2
[Ref.: #30610]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30610]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #30610]	catalase	+	1.11.1.6
[Ref.: #30610]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

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.: #23935]	27194	+	-	+	-	-	-	-	-	+	+	+	-	+	+	+	-	-	-	-	-	+

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

[Ref.: #23935]	Sample type/isolated from	Arctic lake sediment
[Ref.: #23935]	Geographic location (country and/or sea, region)	Blomstrand Island, Spitsbergen
[Ref.: #23935]	Country	Norway
[Ref.: #23935]	Country ISO 3 Code	NOR
[Ref.: #23935]	Continent	Europe
[Ref.: #23935]	Geographic location	78.9764°/12.0728°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment
#Condition	#Psychrophilic (<10°C)	-
#Climate	#Cold	#Polar

What are isolation sources categories?

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

[Ref.: #23935]

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.: #23935]	Iodobacter limnosediminis strain E1 16S ribosomal RNA gene, partial sequence	HM031078	1401	GenBank ENA	752139 tax ID

[Ref.: #23935]

GC-content

52.3 mol%

Availability in culture collections External links

[Ref.: #23935]

Culture collection no.

DSM 103822, CCTCC AB 2010224, NRRL B-59456

[Ref.: #90501]

SI-ID 398033

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Iodobacter limnosediminis sp. nov., isolated from Arctic lake sediment.	Su W, Zhou Z, Jiang F, Chang X, Liu Y, Wang S, Kan W, Xiao M, Shao M, Peng F, Fang C	Int J Syst Evol Microbiol	10.1099/ijs.0.039982-0	2012	*

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 )

#23935

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103822

#30610

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26941 (see below)

#68369

Automatically annotated from API 20NE .

#90501

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-ID398033.1 )

#26941

IJSEM 1464 2013 ( DOI 10.1099/ijs.0.039982-0 , PubMed 22888184 )

* These data were automatically processed and therefore are not curated

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