Strain identifier
BacDive ID: 81
Type strain:
Species: Acidisoma tundrae
Strain Designation: WM1
Strain history: <- S. N. Dedysh, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; WM1 <- S. Belova
NCBI tax ID(s): 512382 (species)
General
@ref: 8416
BacDive-ID: 81
DSM-Number: 19999
keywords: 16S sequence, Bacteria, obligate aerobe, chemoorganotroph, psychrophilic, Gram-negative, coccus-shaped, colony-forming
description: Acidisoma tundrae WM1 is an obligate aerobe, chemoorganotroph, psychrophilic bacterium that forms circular colonies and was isolated from acidic oligotrophic Sphagnum-dominated wetland.
NCBI tax id
- NCBI tax id: 512382
- Matching level: species
strain history
- @ref: 8416
- history: <- S. N. Dedysh, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; WM1 <- S. Belova
doi: 10.13145/bacdive81.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodospirillales
- family: Acetobacteraceae
- genus: Acidisoma
- species: Acidisoma tundrae
- full scientific name: Acidisoma tundrae Belova et al. 2009
@ref: 8416
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Acidisoma
species: Acidisoma tundrae
full scientific name: Acidisoma tundrae Belova et al. 2009
strain designation: WM1
type strain: yes
Morphology
cell morphology
- @ref: 22964
- gram stain: negative
- cell length: 1.9-4.1 µm
- cell width: 0.8-1.5 µm
- cell shape: coccus-shaped
- motility: no
colony morphology
- @ref: 22964
- colony size: 2.0-5.0 mm
- colony color: white or ivory
- colony shape: circular
- incubation period: 14 days
Culture and growth conditions
culture medium
- @ref: 8416
- name: ACIDOSOMA MEDIUM (DSMZ Medium 1220)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1220
- composition: 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 | range |
---|---|---|---|---|
8416 | positive | growth | 20 | psychrophilic |
22964 | positive | growth | 2.0-30.0 | |
22964 | positive | optimum | 15.0-22.0 | psychrophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
22964 | positive | growth | 3.0-7.5 | acidophile |
22964 | positive | optimum | 4.5-5.7 |
Physiology and metabolism
oxygen tolerance
- @ref: 22964
- oxygen tolerance: obligate aerobe
nutrition type
- @ref: 22964
- type: chemoorganotroph
spore formation
- @ref: 22964
- spore formation: no
halophily
- @ref: 22964
- salt: NaCl
- growth: no
- tested relation: growth
- concentration: >1.5 %(w/v)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
22964 | 30089 | acetate | - | growth |
22964 | 16449 | alanine | - | growth |
22964 | 35391 | aspartate | - | growth |
22964 | 16150 | benzoate | - | growth |
22964 | 28885 | butanol | - | growth |
22964 | 17057 | cellobiose | - | growth |
22964 | 16947 | citrate | - | growth |
22964 | 15748 | D-glucuronate | - | growth |
22964 | 15740 | formate | - | growth |
22964 | 29806 | fumarate | - | growth |
22964 | 17120 | hexanoate | - | growth |
22964 | 17716 | lactose | - | growth |
22964 | 25017 | leucine | - | growth |
22964 | 17306 | maltose | - | growth |
22964 | 17790 | methanol | - | growth |
22964 | 30623 | oxalate | - | growth |
22964 | 17272 | propionate | - | growth |
22964 | 16634 | raffinose | - | growth |
22964 | 30031 | succinate | - | growth |
22964 | 17992 | sucrose | - | growth |
22964 | 58187 | alginate | - | hydrolysis |
22964 | 85146 | carboxymethylcellulose | - | hydrolysis |
22964 | 37397 | chondroitin sulfate | - | hydrolysis |
22964 | 6364 | laminarin | - | hydrolysis |
22964 | 27941 | pullulan | - | hydrolysis |
22964 | 17632 | nitrate | - | reduction |
22964 | 22599 | arabinose | + | carbon source |
22964 | 17968 | butyrate | + | carbon source |
22964 | casamino acids | + | carbon source | |
22964 | 18024 | D-galacturonic acid | + | carbon source |
22964 | 16813 | galactitol | + | carbon source |
22964 | 16236 | ethanol | + | carbon source |
22964 | 28757 | fructose | + | carbon source |
22964 | 28260 | galactose | + | carbon source |
22964 | 24265 | gluconate | + | carbon source |
22964 | 17234 | glucose | + | carbon source |
22964 | 17754 | glycerol | + | carbon source |
22964 | 17196 | L-asparagine | + | carbon source |
22964 | 24996 | lactate | + | carbon source |
22964 | 25115 | malate | + | carbon source |
22964 | 29864 | mannitol | + | carbon source |
22964 | 37684 | mannose | + | carbon source |
22964 | 17268 | myo-inositol | + | carbon source |
22964 | peptone | + | carbon source | |
22964 | 15361 | pyruvate | + | carbon source |
22964 | 30911 | sorbitol | + | carbon source |
22964 | 27922 | sorbose | + | carbon source |
22964 | 27082 | trehalose | + | carbon source |
22964 | 18222 | xylose | + | carbon source |
22964 | yeast extract | + | carbon source | |
22964 | 4853 | esculin | + | hydrolysis |
22964 | 5181 | fucoidan | + | hydrolysis |
22964 | 28304 | heparin | + | hydrolysis |
22964 | 17309 | pectin | + | hydrolysis |
22964 | 28017 | starch | + | hydrolysis |
22964 | 37166 | xylan | + | hydrolysis |
22964 | 16449 | alanine | + | nitrogen source |
22964 | 28938 | ammonium | + | nitrogen source |
22964 | 28300 | glutamine | + | nitrogen source |
22964 | 27570 | histidine | + | nitrogen source |
22964 | 16811 | methionine | + | nitrogen source |
22964 | 17632 | nitrate | + | nitrogen source |
22964 | 26271 | proline | + | nitrogen source |
22964 | 16199 | urea | + | nitrogen source |
22964 | yeast extract | + | nitrogen source |
antibiotic resistance
@ref | ChEBI | metabolite | is antibiotic | is resistant | is sensitive |
---|---|---|---|---|---|
22964 | 28971 | ampicillin | yes | yes | |
22964 | 6472 | lincomycin | yes | yes | |
22964 | 17698 | chloramphenicol | yes | yes | |
22964 | 17833 | gentamicin | yes | yes | |
22964 | 6104 | kanamycin | yes | yes | |
22964 | 7507 | neomycin | yes | yes | |
22964 | 28368 | novobiocin | yes | yes | |
22964 | 17076 | streptomycin | yes | yes |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
22964 | 30033 | bacteriochlorophyll alpha | no |
22964 | 8295 | beta-hydroxybutyrate | yes |
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 | valine arylamidase | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|---|
8416 | acidic oligotrophic Sphagnum-dominated wetland | Sphagnum | Vorkuta region | Russia | RUS | Asia | 67 | 63 |
22964 | wetland | Vorkuta region | Russia | RUS | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Peat moss |
#Condition | #Acidic | |
#Environmental | #Terrestrial | #Wetland (Swamp) |
taxonmaps
- @ref: 69479
- File name: preview.99_120020.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_24648;97_30866;98_75306;99_120020&stattab=map
- Last taxonomy: Acidisoma tundrae subclade
- 16S sequence: AM947652
- Sequence Identity:
- Total samples: 1053
- soil counts: 566
- aquatic counts: 184
- animal counts: 125
- plant counts: 178
Safety information
risk assessment
- @ref: 8416
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8416
- description: Acidisoma tundrae partial 16S rRNA gene, type strain WM1
- accession: AM947652
- length: 1400
- database: ena
- NCBI tax ID: 512382
GC content
- @ref: 8416
- GC-content: 61.9
- method: thermal denaturation, midpoint method (Tm)
External links
@ref: 8416
culture collection no.: DSM 19999, VKM B-2488
straininfo link
- @ref: 69764
- straininfo: 364096
literature
- topic: Phylogeny
- Pubmed-ID: 19620354
- title: Acidisoma tundrae gen. nov., sp. nov. and Acidisoma sibiricum sp. nov., two acidophilic, psychrotolerant members of the Alphaproteobacteria from acidic northern wetlands.
- authors: Belova SE, Pankratov TA, Detkova EN, Kaparullina EN, Dedysh SN
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.009209-0
- year: 2009
- mesh: Acetobacteraceae/*classification/*isolation & purification, Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cold Temperature, Cytoplasmic Granules/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Fatty Acids/analysis, Hydrogen-Ion Concentration, Hydroxybutyrates/analysis, Microscopy, Electron, Transmission, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polyesters/analysis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Siberia, *Wetlands
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8416 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19999) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19999 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
22964 | Svetlana E. Belova,Timofei A. Pankratov,Ekaterina N. Detkova,Elena N. Kaparullina,Svetlana N. Dedysh | 10.1099/ijs.0.009209-0 | 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 | 19620354 | |
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
69764 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID364096.1 | StrainInfo: A central database for resolving microbial strain identifiers |