Collimonas pratensis (DSM 21399, CCUG 54728, LMG 23965)

Name: Collimonas pratensis (DSM 21399, CCUG 54728, LMG 23965)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11311

Type strain

Culture col. no. DSM 21399 CCUG 54728 LMG 23965 TER Ter91 TER 91 2 more

NCBI tax ID(s) 279113

Special Collections DSMZ CCUG Literature strains UCCCB

History <- W. de Boer, Centre for Terrestrial Ecology, Heteren Vandamme P., Gent University < de Boer W, Centre for Terrestrial Ecology

Links

Collimonas pratensis DSM 21399 is a bacterium that was isolated from Acidic dune grassland soil.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 136977

LMG 23965,DSM 21399,CCUG 54728

@ref 20215

Last LPSN update 2026-02-09 11:20:31

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Oxalobacteraceae

Genus Collimonas

Species Collimonas pratensis

Full scientific name Collimonas pratensis Höppener-Ogawa et al. 2008

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
15677	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Agar 15.0 g/l NaCl 5.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
15677	positive	growth	28
32359	positive	growth	20
67772	positive	optimum	28

Physiology and metabolism

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32359	22599 ChEBI	arabinose	+	carbon source
32359	35391 ChEBI	aspartate	+	carbon source
32359	15740 ChEBI	formate	+	carbon source
32359	33984 ChEBI	fucose	+	carbon source
32359	24265 ChEBI	gluconate	+	carbon source
32359	17754 ChEBI	glycerol	+	carbon source
32359	17596 ChEBI	inosine	+	carbon source
32359	18403 ChEBI	L-arabitol	+	carbon source
32359	37684 ChEBI	mannose	+	carbon source
32359	17268 ChEBI	myo-inositol	+	carbon source
32359	26271 ChEBI	proline	+	carbon source
32359	17272 ChEBI	propionate	+	carbon source
32359	53258 ChEBI	sodium citrate	+	carbon source
32359	30031 ChEBI	succinate	+	carbon source
32359	27082 ChEBI	trehalose	+	carbon source
32359	16704 ChEBI	uridine	+	carbon source
32359	27248 ChEBI	urocanic acid	+	carbon source
32359	17151 ChEBI	xylitol	+	carbon source

Enzymes

@ref	Value	Activity	Ec
32359	alpha-galactosidase	+	3.2.1.22
32359	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Grassland
#Environmental	#Terrestrial	#Soil
#Condition	#Acidic	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Sampling date
15677	Acidic dune grassland soil	Terschelling	Netherlands	NLD	Europe
60296	(Semi-)natural grasslands		Netherlands	NLD	Europe
67772	(Semi-)Natural grassland		Netherlands	NLD	Europe	1994

Taxonmaps

69479

Global distribution of 16S sequence AY281137 (>99% sequence identity) for Collimonas from Microbeatlas

Aquatic Samples	386
Soil Samples	741
Animal Samples	129
Plant Samples	89
Total Samples	1345

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15677	1	Risk group (German classification) According to TRBA 466
67772	1

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67772	ASM158418v1 assembly for Collimonas pratensis Ter91	complete	GCA_001584185	279113.9	2684623073	279113	99.02

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15677	Collimonas pratensis strain CTO 91 16S ribosomal RNA gene, partial sequence	AY281137	1453		279113

GC content

32359

GC-content (mol%)59

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
	Volatile-mediated interactions between phylogenetically different soil bacteria.	Garbeva P, Hordijk C, Gerards S, de Boer W.	Front Microbiol	10.3389/fmicb.2014.00289	2014
Phylogeny	Glaciimonas immobilis gen. nov., sp. nov., a member of the family Oxalobacteraceae isolated from alpine glacier cryoconite.	Zhang DC, Redzic M, Schinner F, Margesin R	Int J Syst Evol Microbiol	10.1099/ijs.0.028001-0	2010
Phylogeny	Collimonas arenae sp. nov. and Collimonas pratensis sp. nov., isolated from (semi-)natural grassland soils.	Hoppener-Ogawa S, de Boer W, Leveau JH, van Veen JA, de Brandt E, Vanlaere E, Sutton H, Dare DJ, Vandamme P	Int J Syst Evol Microbiol	10.1099/ijs.0.65375-0	2008

References

#15677	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21399
#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 )
#28588	IJSEM 414 2008 ( DOI 10.1099/ijs.0.65375-0 , PubMed 18218941 )
#32359	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 #28588
#60296	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54728
#67772	The University of Coimbra Bacteria Culture Collection (UCCCB) ; Curators of the UCCCB;
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Collimonas pratensis (DSM 21399, CCUG 54728, LMG 23965)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001584185

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

BacDive

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