Strain identifier

BacDive ID: 142

Type strain: Yes

Species: Acidicapsa borealis

Strain Designation: KA1

Strain history: <- S. N. Dedysh, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; KA1 <- L.A. Kirsanova <- I. S. Kulichevskaya

NCBI tax ID(s): 946336 (species)

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General

@ref: 17422

BacDive-ID: 142

DSM-Number: 23886

keywords: 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, rod-shaped

description: Acidicapsa borealis KA1 is an aerobe, psychrophilic, Gram-negative bacterium of the family Acidobacteriaceae.

NCBI tax id

  • NCBI tax id: 946336
  • Matching level: species

strain history

  • @ref: 17422
  • history: <- S. N. Dedysh, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; KA1 <- L.A. Kirsanova <- I. S. Kulichevskaya

doi: 10.13145/bacdive142.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/acidobacteriota
  • domain: Bacteria
  • phylum: Acidobacteriota
  • class: Terriglobia
  • order: Terriglobales
  • family: Acidobacteriaceae
  • genus: Acidicapsa
  • species: Acidicapsa borealis
  • full scientific name: Acidicapsa borealis Kulichevskaya et al. 2012

@ref: 17422

domain: Bacteria

phylum: Acidobacteria

class: Acidobacteriia

order: Acidobacteriales

family: Acidobacteriaceae

genus: Acidicapsa

species: Acidicapsa borealis

full scientific name: Acidicapsa borealis Kulichevskaya et al. 2012

strain designation: KA1

type strain: yes

Morphology

cell morphology

  • @ref: 23352
  • gram stain: negative
  • cell length: 1.0-3.0 µm
  • cell width: 0.6-0.9 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refincubation periodcolony color
174228-14 days
23352pale pink

Culture and growth conditions

culture medium

  • @ref: 17422
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830; with strain-specific modifications) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l Glucose 0.2 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
17422positivegrowth20psychrophilic
23352positivemaximum33mesophilic
23352positiveminimum10psychrophilic
23352positiveoptimum22-28

culture pH

@refabilitytypepHPH range
23352positiveminimum3.5acidophile
23352positivemaximum7.3
23352positiveoptimum5.0-5.5

Physiology and metabolism

oxygen tolerance

  • @ref: 23352
  • oxygen tolerance: aerobe

halophily

  • @ref: 23352
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: >2.0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2335230089acetate-carbon source
2335258187alginate-carbon source
2335216150benzoate-carbon source
2335273706bromosuccinate-carbon source
2335216947citrate-carbon source
2335228847D-fucose-carbon source
2335217317D-sorbose-carbon source
2335216813galactitol-carbon source
2335216236ethanol-carbon source
2335229806fumarate-carbon source
233525291gelatin-carbon source
2335217754glycerol-carbon source
2335217120hexanoate-carbon source
2335224996lactate-carbon source
2335225115malate-carbon source
2335229864mannitol-carbon source
2335217790methanol-carbon source
2335230623oxalate-carbon source
2335217272propionate-carbon source
2335215361pyruvate-carbon source
2335230911sorbitol-carbon source
2335285146carboxymethylcellulose-hydrolysis
23352casein-hydrolysis
2335257704cationic chitosan-hydrolysis
2335217029chitin-hydrolysis
2335227941pullulan-hydrolysis
2335237166xylan-hydrolysis
2335217057cellobiose+carbon source
2335217108D-arabinose+carbon source
2335215824D-fructose+carbon source
2335212936D-galactose+carbon source
2335218024D-galacturonic acid+carbon source
2335217634D-glucose+carbon source
2335215748D-glucuronate+carbon source
2335216024D-mannose+carbon source
2335263150D-rhamnose+carbon source
2335216988D-ribose+carbon source
2335265327D-xylose+carbon source
2335217716lactose+carbon source
233526359lactulose+carbon source
2335217306maltose+carbon source
233526731melezitose+carbon source
2335228053melibiose+carbon source
23352506227N-acetylglucosamine+carbon source
2335216634raffinose+carbon source
2335217814salicin+carbon source
2335217992sucrose+carbon source
2335227082trehalose+carbon source
2335218305arbutin+hydrolysis
233524853esculin+hydrolysis
233525181fucoidan+hydrolysis
233526364laminarin+hydrolysis
2335217309pectin+hydrolysis
2335228017starch+hydrolysis
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.
2335228971ampicillinyesyes10 µg (disc)
233527507neomycinyesyes10 µg (disc)
2335217076streptomycinyesyes10 µg (disc)
2335217698chloramphenicolyesyes30 µg (disc)
2335217833gentamicinyesyes10 µg (disc)
233526472lincomycinyesyes10 µg (disc)
233526104kanamycinyesyes30 µg (disc)
2335228368novobiocinyesyes30 µg (disc)

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
17422cytochrome-c oxidase-1.9.3.1
23352acid phosphatase+3.1.3.2
23352alkaline phosphatase+3.1.3.1
23352alpha-chymotrypsin+3.4.21.1
23352alpha-fucosidase+3.2.1.51
23352alpha-galactosidase+3.2.1.22
23352alpha-glucosidase+3.2.1.20
23352alpha-mannosidase+3.2.1.24
23352beta-galactosidase+3.2.1.23
23352beta-glucosidase+3.2.1.21
23352beta-glucuronidase+3.2.1.31
23352catalase+1.11.1.6
23352cystine arylamidase+3.4.11.3
23352cytochrome oxidase-1.9.3.1
23352esterase+
23352leucine arylamidase+3.4.11.1
23352lipase-
23352N-acetyl-beta-glucosaminidase+3.2.1.52
23352naphthol-AS-BI-phosphohydrolase+
23352valine arylamidase+
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
17422-----+-+------------

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentlatitudelongitudesample type
17422Tver region (56° 34' N 32° 46' E)RussiaRUSEurope56.566732.7667
23352Katin Mokh Sphagnum peat bog

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Wetland (Swamp)
#Host#Plants#Peat moss

taxonmaps

  • @ref: 69479
  • File name: preview.99_118687.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_236;96_11435;97_18179;98_55017;99_118687&stattab=map
  • Last taxonomy: Acidicapsa borealis subclade
  • 16S sequence: FR774763
  • Sequence Identity:
  • Total samples: 1525
  • soil counts: 1202
  • aquatic counts: 72
  • animal counts: 85
  • plant counts: 166

Safety information

risk assessment

  • @ref: 17422
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17422
  • description: Acidicapsa borealis partial 16S rRNA gene, type strain DSM 23886T
  • accession: FR774763
  • length: 1411
  • database: ena
  • NCBI tax ID: 946336

GC content

@refGC-contentmethod
1742254.1thermal denaturation, midpoint method (Tm)
2335254.1Thermal denaturation, fluorometry

External links

@ref: 17422

culture collection no.: DSM 23886, LMG 25897, VKM B-2678

straininfo link

  • @ref: 69825
  • straininfo: 401081

literature

  • topic: Phylogeny
  • Pubmed-ID: 21856984
  • title: Acidicapsa borealis gen. nov., sp. nov. and Acidicapsa ligni sp. nov., subdivision 1 Acidobacteria from Sphagnum peat and decaying wood.
  • authors: Kulichevskaya IS, Kostina LA, Valaskova V, Rijpstra WIC, Sinninghe Damste JS, de Boer W, Dedysh SN
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.034819-0
  • year: 2011
  • mesh: Acidobacteria/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Microscopy, Molecular Sequence Data, Phylogeny, Pigments, Biological/metabolism, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sphagnopsida/*microbiology, Temperature, Wood/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17422Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23886)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23886
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23352Irina S. Kulichevskaya, Lilia A. Kostina, Vendula Valásková, W. Irene C. Rijpstra, Jaap S. Sinninghe Damsté, Wietse de Boer, Svetlana N. Dedysh10.1099/ijs.0.034819-0Acidicapsa borealis gen. nov., sp. nov. and Acidicapsa ligni sp. nov., subdivision 1 Acidobacteria from Sphagnum peat and decaying woodIJSEM 62: 1512-1520 201221856984
68369Automatically annotated from API 20NE
69479João 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
69825Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401081.1StrainInfo: A central database for resolving microbial strain identifiers