Acidisoma sibiricum (DSM 21000, VKM B-2487, TPB606)

Name: Acidisoma sibiricum (DSM 21000, VKM B-2487, TPB606)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 82

Type strain

Strain Designation TPB606

Culture col. no. DSM 21000 VKM B-2487 TPB606

NCBI tax ID(s) 512383

Special Collections DSMZ Literature strains

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Acidisoma sibiricum TPB606 is an obligate aerobe, chemoorganotroph, psychrophilic prokaryote that forms circular colonies and was isolated from Sphagnum peat.

Gram-negative coccus-shaped colony-forming obligate aerobe chemoorganotroph psychrophilic 16S sequence

Name and taxonomic classification

SI-ID 402735

DSM 21000

@ref 20215

Last LPSN update 2025-12-16 09:46:46

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Acetobacteraceae

Genus Acidisoma

Species Acidisoma sibiricum

Full scientific name Acidisoma sibiricum Belova et al. 2009

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
22964	negative	1.4-3.1 µm	0.7-1.2 µm	coccus-shaped

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period
22964	2.0-5.0 mm	pinkish	circular	14 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
9076	ACIDOSOMA MEDIUM (DSMZ Medium 1220)		Medium recipe at MediaDive	Name: ACIDOSOMA MEDIUM (DSMZ Medium 1220) Composition: Agar 15.0 g/l Na gluconate 0.5 g/l (NH4)2SO4 0.25 g/l KH2PO4 0.1 g/l Yeast extract 0.1 g/l CaCl2 x 2 H2O 0.05 g/l MgSO4 x 7 H2O 0.02 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l CuCl2 x 5 H2O 0.0001 g/l Na2MoO4 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
9076	positive	growth	20	psychrophilic
22964	positive	growth	2.0-30.0
22964	positive	optimum	20.0-25.0

Culture pH

@ref	Ability	Type	PH	PH range
22964	positive	optimum	5.0-6.5
22964	positive	growth	3.7-7.6	acidophile

Physiology and metabolism

Oxygen tolerance

22964

Oxygen toleranceobligate aerobe

Nutrition type

22964

Typechemoorganotroph

Spore formation

22964

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
22964	NaCl		growth	>2.5 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
22964	30089 ChEBI	acetate	-	growth
22964	16449 ChEBI	alanine	-	growth
22964	58187 ChEBI	alginate	-	hydrolysis
22964	28938 ChEBI	ammonium	+	nitrogen source
22964	22599 ChEBI	arabinose	+	carbon source
22964	35391 ChEBI	aspartate	+/-	growth
22964	16150 ChEBI	benzoate	-	growth
22964	28885 ChEBI	butanol	-	growth
22964	17968 ChEBI	butyrate	-	growth
22964	85146 ChEBI	carboxymethylcellulose	-	hydrolysis
22964		casamino acids	+	carbon source
22964	17057 ChEBI	cellobiose	+/-	growth
22964	37397 ChEBI	chondroitin sulfate	-	hydrolysis
22964	16947 ChEBI	citrate	-	growth
22964	18024 ChEBI	D-galacturonic acid	+	carbon source
22964	15748 ChEBI	D-glucuronate	-	growth
22964	4853 ChEBI	esculin	+	hydrolysis
22964	16236 ChEBI	ethanol	-	growth
22964	15740 ChEBI	formate	-	growth
22964	28757 ChEBI	fructose	+	carbon source
22964	5181 ChEBI	fucoidan	+/-	hydrolysis
22964	29806 ChEBI	fumarate	-	growth
22964	16813 ChEBI	galactitol	+	carbon source
22964	28260 ChEBI	galactose	+	carbon source
22964	24265 ChEBI	gluconate	+	carbon source
22964	17234 ChEBI	glucose	+	carbon source
22964	28300 ChEBI	glutamine	+	nitrogen source
22964	17754 ChEBI	glycerol	+	carbon source
22964	28304 ChEBI	heparin	+	hydrolysis
22964	17120 ChEBI	hexanoate	-	growth
22964	27570 ChEBI	histidine	+	nitrogen source
22964	17196 ChEBI	L-asparagine	+	carbon source
22964	24996 ChEBI	lactate	-	growth
22964	17716 ChEBI	lactose	+/-	growth
22964	6364 ChEBI	laminarin	+/-	hydrolysis
22964	25017 ChEBI	leucine	-	growth
22964	25115 ChEBI	malate	-	growth
22964	17306 ChEBI	maltose	-	growth
22964	29864 ChEBI	mannitol	+	carbon source
22964	37684 ChEBI	mannose	+/-	growth
22964	16811 ChEBI	methionine	+	nitrogen source
22964	17268 ChEBI	myo-inositol	+	carbon source
22964	17632 ChEBI	nitrate	-	reduction
22964	17632 ChEBI	nitrate	+	nitrogen source
22964	30623 ChEBI	oxalate	-	growth
22964	17309 ChEBI	pectin	-	hydrolysis
22964		peptone	+	carbon source
22964	26271 ChEBI	proline	+	nitrogen source
22964	28831 ChEBI	propanol	-	growth
22964	17272 ChEBI	propionate	-	growth
22964	27941 ChEBI	pullulan	-	hydrolysis
22964	15361 ChEBI	pyruvate	+	carbon source
22964	16634 ChEBI	raffinose	-	growth
22964	30911 ChEBI	sorbitol	+	carbon source
22964	27922 ChEBI	sorbose	+	carbon source
22964	28017 ChEBI	starch	+	hydrolysis
22964	30031 ChEBI	succinate	-	growth
22964	17992 ChEBI	sucrose	+/-	growth
22964	27082 ChEBI	trehalose	+/-	growth
22964	16199 ChEBI	urea	+	nitrogen source
22964	37166 ChEBI	xylan	+	hydrolysis
22964	18222 ChEBI	xylose	+	carbon source
22964		yeast extract	+	carbon source
22964		yeast extract	+	nitrogen source

Antibiotic resistance

@ref	ChEBI	Metabolite
22964	28971	ampicillin
22964	17698	chloramphenicol
22964	17833	gentamicin
22964	6104	kanamycin
22964	6472	lincomycin
22964	7507	neomycin
22964	28368	novobiocin
22964	17076	streptomycin

Metabolite production

@ref	Chebi-ID	Metabolite	Production
22964	30033 ChEBI	bacteriochlorophyll alpha
22964	8295 ChEBI	beta-hydroxybutyrate

Enzymes

@ref	Value	Activity	Ec
22964	acid phosphatase	+	3.1.3.2
22964	alkaline phosphatase	+	3.1.3.1
22964	alpha-chymotrypsin	-	3.4.21.1
22964	alpha-fucosidase	-	3.2.1.51
22964	alpha-galactosidase	-	3.2.1.22
22964	alpha-glucosidase	-	3.2.1.20
22964	alpha-mannosidase	-	3.2.1.24
22964	beta-galactosidase	-	3.2.1.23
22964	beta-glucosidase	-	3.2.1.21
22964	beta-glucuronidase	-	3.2.1.31
22964	catalase	+	1.11.1.6
22964	cystine arylamidase	+	3.4.11.3
22964	cytochrome oxidase	+	1.9.3.1
22964	esterase	+
22964	esterase lipase (C 8)	+
22964	leucine arylamidase	+	3.4.11.1
22964	lipase (C 14)	-
22964	N-acetyl-beta-glucosaminidase	-	3.2.1.52
22964	naphthol-AS-BI-phosphohydrolase	-
22964	phosphatidate phosphatase	+	3.1.3.4
22964	trypsin	-	3.4.21.4
22964	urease	+	3.5.1.5
22964	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Peat moss

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
9076	Sphagnum peat	Sphagnum	western Siberia, Tomsk region, peat bog Bakchar	Russia	RUS	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9076	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
9076	Acidisoma sibiricum partial 16S rRNA gene, type strain TPB606	AM947653	1430		512383

GC content

@ref	GC-content (mol%)	Method
9076	60.5	thermal denaturation, midpoint method (Tm)
9076	67.8

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Acidisoma cladoniae sp. nov., an acidotolerant bacterium isolated from an Antarctic lichen.	Cho U, Jeon J, Kim W, Hong SG, Lee H, Lee YM.	Antonie Van Leeuwenhoek	10.1007/s10482-024-02021-4	2024
Phylogeny	Acidisoma tundrae gen. nov., sp. nov. and Acidisoma sibiricum sp. nov., two acidophilic, psychrotolerant members of the Alphaproteobacteria from acidic northern wetlands.	Belova SE, Pankratov TA, Detkova EN, Kaparullina EN, Dedysh SN	Int J Syst Evol Microbiol	10.1099/ijs.0.009209-0	2009

References

#9076	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21000
#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 )
#22964	Svetlana E. Belova,Timofei A. Pankratov,Ekaterina N. Detkova,Elena N. Kaparullina,Svetlana N. Dedysh: Acidisoma tundrae gen. nov., sp. nov. and Acidisoma sibiricum sp. nov., two acidophilic, psychrotolerant members of the Alphaproteobacteria from acidic northern wetlands. IJSEM 59: 2283 - 2290 2009 ( DOI 10.1099/ijs.0.009209-0 , PubMed 19620354 )
#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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Acidisoma sibiricum (DSM 21000, VKM B-2487, TPB606)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

BacDive

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