Strain identifier

BacDive ID: 17731

Type strain: Yes

Species: Cryptosporangium aurantiacum

Strain Designation: 71-C38

Strain history: KCC A-0241 <-- AS 4.1052 <-- J. Ruan 71-C38.

NCBI tax ID(s): 134849 (species)

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General

@ref: 12363

BacDive-ID: 17731

DSM-Number: 46144

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive

description: Cryptosporangium aurantiacum 71-C38 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from lake mud.

NCBI tax id

  • NCBI tax id: 134849
  • Matching level: species

strain history

@refhistory
12363<- IMET <- KCC <- IMAS, 4.1052 <- J.S. Ruan, 71-C38 (Actinoplanes aurantiacus)
67770KCC A-0241 <-- AS 4.1052 <-- J. Ruan 71-C38.

doi: 10.13145/bacdive17731.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Cryptosporangiales
  • family: Cryptosporangiaceae
  • genus: Cryptosporangium
  • species: Cryptosporangium aurantiacum
  • full scientific name: Cryptosporangium aurantiacum (ex Ruan et al. 1976) Tamura and Hatano 2001

@ref: 12363

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Cryptosporangiaceae

genus: Cryptosporangium

species: Cryptosporangium aurantiacum

full scientific name: Cryptosporangium aurantiacum (ex Ruan et al. 1976) Tamura and Hatano 2001 emend. Nouioui et al. 2018

strain designation: 71-C38

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

colony morphology

@refcolony colorincubation periodmedium used
19719Deep orange10-14 daysISP 2
19719Deep orange10-14 daysISP 3
19719Deep orange10-14 daysISP 4
19719Deep orange10-14 daysISP 5
19719Deep orange10-14 daysISP 6
19719Red brown10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19719noISP 2
19719noISP 3
19719noISP 4
19719noISP 5
19719noISP 6
19719noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12363GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf
19719ISP 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
19719ISP 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:
19719ISP 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
19719ISP 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
19719ISP 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
19719ISP 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

culture temp

@refgrowthtypetemperaturerange
12363positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2), MK-9(H6), MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activity
1971917234glucose+
1971922599arabinose+
1971917992sucrose+
1971918222xylose+
1971917268myo-inositol+
1971929864mannitol+
1971928757fructose+
1971926546rhamnose+
1971916634raffinose+
1971962968cellulose-

enzymes

@refvalueactivityec
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
19719+-+-+--+-++++-++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12363lake mud
67770Soil, lake mudnear Bi Yun-Shi, BeijingChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_5292.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_898;97_1047;98_1246;99_5292&stattab=map
  • Last taxonomy: Cryptosporangium
  • 16S sequence: AJ293746
  • Sequence Identity:
  • Total samples: 1507
  • soil counts: 1094
  • aquatic counts: 146
  • animal counts: 136
  • plant counts: 131

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
123631Risk group (German classification)
197191Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinoplanes aurantiacus gene for 16S rRNA, partial sequenceAB0474901470ena134849
20218Actinoplanes aurantiacus partial 16S rRNA gene, strain IMSNU 22120AJ2937461508ena134849

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cryptosporangium aurantiacum strain DSM 46144134849.3wgspatric134849
66792Cryptosporangium aurantiacum DSM 461442700988713draftimg134849
67770Cryptosporangium aurantiacum DSM 46144GCA_900143005scaffoldncbi134849

GC content

  • @ref: 67770
  • GC-content: 71.2
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes55.458no
gram-positiveyes87.061no
anaerobicno99.013no
halophileno96.625no
spore-formingyes91.4no
thermophileno98.863yes
glucose-utilyes89.39no
flagellatedno92.329no
aerobicyes91.077no
glucose-fermentno90.685no

External links

@ref: 12363

culture collection no.: DSM 46144, IFO 13967, IMET 9261, JCM 3241, KCC A-0241, NBRC 13967, IMAS 4.1052, BCRC 13308, CGMCC 4.1052, IMSNU 22120, KCTC 9529, NCIMB 12649, NRRL B-16698

straininfo link

  • @ref: 86721
  • straininfo: 88641

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11760955Phylogenetic analysis of the genus Actinoplanes and transfer of Actinoplanes minutisporangius Ruan et al. 1986 and 'Actinoplanes aurantiacus' to Cryptosporangium minutisporangium comb. nov. and Cryptosporangium aurantiacum sp. nov.Tamura T, Hatano KInt J Syst Evol Microbiol10.1099/00207713-51-6-21192001Actinomycetales/chemistry/*classification/genetics, DNA, Ribosomal/genetics, Micromonosporaceae/chemistry/*classification/*genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny22140154Cryptosporangium mongoliense sp. nov., isolated from soil.Ara I, Tsetseg B, Daram D, Suto M, Ando KInt J Syst Evol Microbiol10.1099/ijs.0.038307-02011Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Carbohydrates/analysis, DNA, Bacterial/genetics, Lipids/analysis, Molecular Sequence Data, Mongolia, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil/analysis, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysisGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12363Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46144)https://www.dsmz.de/collection/catalogue/details/culture/DSM-46144
19719Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM46144.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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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
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
86721Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID88641.1StrainInfo: A central database for resolving microbial strain identifiers