Strain identifier

BacDive ID: 16504

Type strain: Yes

Species: Acrocarpospora corrugata

Strain Designation: E 90

Strain history: KCC A-0181 <-- S. T. Williams E-90.

NCBI tax ID(s): 35763 (species)

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General

@ref: 10952

BacDive-ID: 16504

DSM-Number: 43316

keywords: genome sequence, 16S sequence, Bacteria, spore-forming

description: Acrocarpospora corrugata E 90 is a spore-forming bacterium that was isolated from beach sand.

NCBI tax id

  • NCBI tax id: 35763
  • Matching level: species

strain history

@refhistory
10952<- S.T. Williams, E 90
67770KCC A-0181 <-- S. T. Williams E-90.

doi: 10.13145/bacdive16504.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Streptosporangiaceae
  • genus: Acrocarpospora
  • species: Acrocarpospora corrugata
  • full scientific name: Acrocarpospora corrugata (Williams and Sharples 1976) Tamura et al. 2000

  • synonyms

    • @ref: 20215
    • synonym: Streptosporangium corrugatum

@ref: 10952

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Acrocarpospora

species: Acrocarpospora corrugata

full scientific name: Acrocarpospora corrugata (Williams and Sharples 1976) Tamura et al. 2000

strain designation: E 90

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19566Ochre yellow10-14 daysISP 2
19566Ochre yellow10-14 daysISP 3
19566Ochre yellow10-14 daysISP 4
19566Ochre yellow10-14 daysISP 5
19566Ochre yellow10-14 daysISP 6
19566Ochre yellow10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19566noISP 2
19566noISP 3
19566noISP 4
19566noISP 5
19566noISP 6
19566noISP 7

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
19566ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19566ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19566ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19566ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19566ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19566ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
10952GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yesName: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/65
10952CZAPEK PEPTONE AGAR (DSMZ Medium 83)yesName: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled waterhttps://mediadive.dsmz.de/medium/83

culture temp

@refgrowthtypetemperature
10952positivegrowth28
19566positiveoptimum30
67770positivegrowth28

Physiology and metabolism

spore formation

  • @ref: 69481
  • spore formation: yes
  • confidence: 100

halophily

  • @ref: 19566
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2), MK-9(III,VIII-H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1956617234glucose+
1956622599arabinose+
1956617992sucrose+
1956618222xylose+/-
1956617268myo-inositol+/-
1956629864mannitol+/-
1956628757fructose+/-
1956626546rhamnose+
1956616634raffinose+/-
1956662968cellulose+/-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19566+-+-++---++++-+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19566------+---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10952beach sand
67770Beach sand, FreshfiledLancashireUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Coast
#Environmental#Terrestrial#Sandy

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
109521Risk group (German classification)
195661Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218S.corrugatum gene for 16S ribosomal RNAX704271370nuccore35763
20218S.corrugatum DNA for 16S ribosomal RNA geneX899411449nuccore35763
20218Streptosporangium corrugatum 16S-23S ribosomal RNA spacer regionAF004011415nuccore35763
20218Streptosporangium corrugatum 16S rRNA geneU489911417nuccore35763
20218Acrocarpospora corrugata gene for 16S rRNA, partial sequenceAB1881501479nuccore35763

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acrocarpospora corrugata NBRC 13972GCA_009687845scaffoldncbi35763
66792Acrocarpospora corrugata strain NBRC 1397235763.4wgspatric35763

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes88.362no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no92.795no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes89.989no
69480spore-formingspore-formingAbility to form endo- or exosporesyes89.678no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.5yes
69480flagellatedmotile2+Ability to perform flagellated movementno86no

External links

@ref: 10952

culture collection no.: DSM 43316, ATCC 29331, IFO 13972, NBRC 13972, NCIB 11120, JCM 3181, BCRC 12360, BCRC 16357, IMSNU 20325, KCTC 9431, NCIMB 11120

straininfo link

  • @ref: 85537
  • straininfo: 39473

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10843059Acrocarpospora gen. nov., a new genus of the order Actinomycetales.Tamura T, Suzuki S, Hatano KInt J Syst Evol Microbiol10.1099/00207713-50-3-11632000Actinomycetales/chemistry/*classification/genetics/ultrastructure, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny23125318Acrocarpospora phusangensis sp. nov., isolated from a temperate peat swamp forest soil.Niemhom N, Suriyachadkun C, Tamura T, Thawai CInt J Syst Evol Microbiol10.1099/ijs.0.046227-02012Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/analysis, *WetlandsGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10952Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43316)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43316
19566Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43316.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
85537Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID39473.1StrainInfo: A central database for resolving microbial strain identifiers