Strain identifier

BacDive ID: 132014

Type strain: Yes

Species: Actinocrinis puniceicyclus

Strain Designation: OB1

Strain history: <- P. Dunfield, Univ. Calgary, Canada; OB1 <- C. Sharp, Univ. Calgary, Canada

NCBI tax ID(s): 977794 (species)

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General

@ref: 23805

BacDive-ID: 132014

DSM-Number: 45618

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, filament-shaped, colony-forming

description: Actinocrinis puniceicyclus OB1 is an aerobe, spore-forming, Gram-positive bacterium that forms circular colonies and builds aerial hyphae.

NCBI tax id

  • NCBI tax id: 977794
  • Matching level: species

strain history

  • @ref: 23805
  • history: <- P. Dunfield, Univ. Calgary, Canada; OB1 <- C. Sharp, Univ. Calgary, Canada

doi: 10.13145/bacdive132014.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Catenulisporales
  • family: Actinospicaceae
  • genus: Actinocrinis
  • species: Actinocrinis puniceicyclus
  • full scientific name: Actinocrinis puniceicyclus Kim et al. 2017

@ref: 23805

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Catenulisporales

family: Actinospicaceae

genus: Actinocrinis

species: Actinocrinis puniceicyclus

full scientific name: Actinocrinis puniceicyclus Kim et al. 2017

strain designation: OB1

type strain: yes

Morphology

cell morphology

  • @ref: 25215
  • gram stain: positive
  • cell length: 15-25 µm
  • cell width: 1-1.5 µm
  • cell shape: filament-shaped
  • motility: no

colony morphology

  • @ref: 25215
  • colony size: 0.5 mm
  • colony color: purple
  • colony shape: circular
  • incubation period: 15 days
  • medium used: C10Y

multicellular morphology

  • @ref: 25215
  • forms multicellular complex: yes
  • complex name: aerial hyphae
  • complex color: white
  • medium name: C10Y
  • further description: older colonies turn white and produce extensive aerial hyphae

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
25215C10YyesC10 supplemented with 0.05% (w/v) yeast extract, pH 5.0
25215Yeast extractyes
25215tryptic soy broth (Sigma)yes
25215tryptone (Fisher Scientific)yes
23805R2A MEDIUM (DSMZ Medium 830)yesName: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 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 MgSO4 x 7 H2O 0.05 g/l Distilled waterhttps://mediadive.dsmz.de/medium/830

culture temp

@refgrowthtypetemperature
25215positivegrowth13-30
25215positiveoptimum20-25
25215nogrowth10
25215nogrowth37
23805positivegrowth20

culture pH

@refabilitytypepHPH range
25215positiveoptimum5.6
25215positivegrowth3.5-6.5acidophile

Physiology and metabolism

oxygen tolerance

  • @ref: 25215
  • oxygen tolerance: aerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
25215chains of arthrosporesarthrosporeyes
69481yes100

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2521530089acetate-growth
2521516150benzoate-growth
2521562968cellulose-growth
2521533403elemental sulfur-growth
2521516236ethanol-growth
2521529806fumarate-growth
2521516183methane-growth
2521517790methanol-growth
2521528831propanol-growth
2521515361pyruvate-growth
2521530031succinate-growth
2521558187alginate+growth
2521517634D-glucose+growth
2521528260galactose+growth
2521585248gellan gum+growth
2521529864mannitol+growth
2521537684mannose+growth
2521517309pectin+growth
2521528017starch+growth
2521517992sucrose+growth
2521537166xylan+growth
2521518222xylose+growth

enzymes

@refvalueactivityec
25215acid phosphatase+3.1.3.2
25215alkaline phosphatase+3.1.3.1
25215alpha-fucosidase-3.2.1.51
25215alpha-galactosidase+3.2.1.22
25215alpha-glucosidase+3.2.1.20
25215alpha-mannosidase-3.2.1.24
25215beta-galactosidase+3.2.1.23
25215beta-glucosidase-3.2.1.21
25215beta-glucuronidase-3.2.1.31
25215cystine arylamidase-3.4.11.3
25215esterase (C 4)-
25215esterase Lipase (C 8)-
25215leucine arylamidase+3.4.11.1
25215lipase (C 14)-
25215N-acetyl-beta-glucosaminidase+3.2.1.52
25215naphthol-AS-BI-phosphohydrolase+
25215trypsin+3.4.21.4
25215valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    25215C15:0 anteiso14.3
    25215C17:0 anteiso9.5
    25215anteiso-C17:1ω8c1.7
    25215C15:00.8
    25215C16:03.8
    25215C16:1ω7c1.4
    25215C17:03.8
    25215C17:1ω8c1.9
    25215C18:01.2
    25215C18:1 ω7c1.6
    25215C19:11.1
    25215C14:0 iso6.9
    25215C15:0 iso14.6
    25215C16:0 iso28.5
    25215iso-C16:1ω7c1.2
    25215C17:0 iso2.6
    25215iso-C17:1 ω8c2
    25215iso-C18:1ω9c1
  • type of FA analysis: whole cell analysis
  • incubation medium: C10Y
  • agar/liquid: liquid
  • system: MIS MIDI
  • method/protocol: Kulichevskaya et al. 2012

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture durationenrichment culture temperature
23805acidic bogKootenay National Park, Ochre Beds bogCanadaCANNorth America
25215oxic, upper 4 cm layer of the Ochre Beds bogsalts medium C1024 daysroom temperature

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Wetland (Swamp)
#Condition#Acidic

taxonmaps

  • @ref: 69479
  • File name: preview.99_89351.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15873;96_37005;97_47037;98_61668;99_89351&stattab=map
  • Last taxonomy: Actinocrinis puniceicyclus subclade
  • 16S sequence: FR775984
  • Sequence Identity:
  • Total samples: 12401
  • soil counts: 9654
  • aquatic counts: 493
  • animal counts: 996
  • plant counts: 1258

Safety information

risk assessment

  • @ref: 23805
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 23805
  • description: Actinobacterium OB1 partial 16S rRNA gene, isolate OB1
  • accession: FR775984
  • length: 1433
  • database: nuccore
  • NCBI tax ID: 977794

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinocrinis puniceicyclus DSM 45618GCA_018283645contigncbi977794
66792Actinocrinis puniceicyclus strain DSM 45618977794.5wgspatric977794

GC content

  • @ref: 23805
  • GC-content: 70.2
  • method: sequence analysis

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes86.561no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.728yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes82.851yes
69480spore-formingspore-formingAbility to form endo- or exosporesyes84.86no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno90.922yes
69480flagellatedmotile2+Ability to perform flagellated movementno89.5no

External links

@ref: 23805

culture collection no.: DSM 45618, ATCC BAA-2771

straininfo link

  • @ref: 90396
  • straininfo: 405695

literature

  • topic: Phylogeny
  • Pubmed-ID: 27902294
  • title: Actinocrinis puniceicyclus gen. nov., sp. nov., an actinobacterium isolated from an acidic spring.
  • authors: Kim JJ, Marjerrison CE, Cornish Shartau SL, Brady AL, Sharp CE, Rijpstra WIC, Sinninghe Damste JS, Schumann P, Grasby SE, Dunfield PF
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001667
  • year: 2017
  • mesh: Acids, Actinobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Canada, DNA, Bacterial/genetics, Fatty Acids/chemistry, Natural Springs/*microbiology, Peptidoglycan/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
23805Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45618Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45618)
25215J. J. M. Kim, C. E.,Cornish Shartau, S. L.,Brady, A. L.,Sharp, C. E.,Rijpstra, W. I.,Sinninghe Damsté, J. S.,Schumann, P.,Grasby, S. E.,Dunfield, P. F.Actinocrinis puniceicyclus gen. nov., sp. nov., an actinobacterium isolated from an acidic spring10.1099/ijsem.0.001667IJSEM 67: 602-609 201727902294
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90396Reimer, 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 identifiers10.60712/SI-ID405695.1