Strain identifier

BacDive ID: 16920

Type strain: Yes

Species: Thermostaphylospora chromogena

Strain Designation: no. 577

Strain history: DSM 43794 <-- CUB 580 <-- IMRU N2900 <-- N. S. Agre 577.

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 11196

BacDive-ID: 16920

DSM-Number: 43794

keywords: genome sequence, 16S sequence, Bacteria, thermophilic

description: Thermostaphylospora chromogena no. 577 is a thermophilic bacterium that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1123378strain
35622species

strain history

@refhistory
11196<- A. McCarthy, CUB <- H.A. Lechevalier, IMRU <- N.S. Agre, 577
67770DSM 43794 <-- CUB 580 <-- IMRU N2900 <-- N. S. Agre 577.

doi: 10.13145/bacdive16920.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Streptosporangiaceae
  • genus: Thermostaphylospora
  • species: Thermostaphylospora chromogena
  • full scientific name: Thermostaphylospora chromogena (McCarthy and Cross 1984 ex Krasil'nikov and Agre 1965) Wu et al. 2018
  • synonyms

    • @ref: 20215
    • synonym: Thermomonospora chromogena

@ref: 11196

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Thermostaphylospora

species: Thermostaphylospora chromogena

full scientific name: Thermostaphylospora chromogena (McCarthy and Cross 1984) Wu et al. 2018 emend. Nouioui et al. 2018

strain designation: no. 577

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19955Pastel yellow (1034)10-14 daysISP 2
19955Colorless10-14 daysISP 3
19955Colorless10-14 daysISP 4
19955Colorless10-14 daysISP 5
19955Pastel yellow (1034)10-14 daysISP 6
19955Colorless10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19955noISP 2
19955noISP 3
19955noISP 4
19955noISP 5
19955noISP 6
19955noISP 7

multimedia

  • @ref: 11196
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43794.jpg
  • caption: Medium 65 50°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11196CZAPEK PEPTONE AGAR (DSMZ Medium 83)yeshttps://mediadive.dsmz.de/medium/83Name: 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 water
19955ISP 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
19955ISP 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
19955ISP 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
19955ISP 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
19955ISP 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
19955ISP 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:
11196GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf
11196GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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 water

culture temp

@refgrowthtypetemperaturerange
11196positivegrowth50thermophilic
19955positiveoptimum50thermophilic
67770positivegrowth50thermophilic

Physiology and metabolism

halophily

  • @ref: 19955
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 7.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H2), MK-9(H6)

Isolation, sampling and environmental information

isolation

@refsample type
11196soil
67770Soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_60189.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_26512;97_33282;98_42749;99_60189&stattab=map
  • Last taxonomy: Thermostaphylospora chromogena
  • 16S sequence: AF028246
  • Sequence Identity:
  • Total samples: 4830
  • soil counts: 3191
  • aquatic counts: 296
  • animal counts: 498
  • plant counts: 845

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
111961Risk group (German classification)
199551German classification

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Thermomonospora chromogena 16S ribosomal RNA gene, partial sequenceAF0282461497ena35622
20218Thermomonospora chromogena strain ATCC43196 rrnA operon 16S ribosomal RNA, complete sequenceAF1165582347ena35622
20218Thermomonospora chromogena strain ATCC43196 rrnB operon 23S ribosomal RNA and 16S ribosomal RNA, complete sequenceAF1165595634ena35622
20218Thermomonospora chromogena strain ATCC43196 rrnC operon 23S ribosomal RNA and 16S ribosomal RNA, complete sequenceAF1165603725ena35622
20218Thermomonospora chromogena strain ATCC43196 rrnD operon 23S ribosomal RNA, 5S ribosomal RNA, and 16S ribosomal RNA, complete sequenceAF1165616313ena35622
20218Thermomonospora chromogena strain ATCC43196 rrnE operon 23S ribosomal RNA, 5S ribosomal RNA, and 16S ribosomal RNA, complete sequenceAF1165626672ena35622
20218Thermomonospora chromogena strain ATCC 43196 rrnF operon, 16S ribosomal RNA, 23S ribosomal RNA, and 5S ribosomal RNA genes, complete sequenceAF1165636540ena35622
20218Thermomonospora chromogena 16S ribosomal RNA gene, partial sequenceAF0022611479ena35622
20218Thermomonospora chromogena gene for 16S rRNA, partial sequence, strain: NBRC 16096AB3645931497ena35622

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermostaphylospora chromogena strain DSM 4379435622.5wgspatric35622
66792Thermostaphylospora chromogena DSM 437942634166206draftimg1123378
67770Thermostaphylospora chromogena DSM 43794GCA_900099985contigncbi35622

GC content

@refGC-contentmethod
6777074
6777071genome sequence analysis

External links

@ref: 11196

culture collection no.: DSM 43794, ATCC 43196, CUB 580, IFO 12465, IMRU N 2900, JCM 6244, NBRC 12465, NCIB 10212, IFO 16096, IMET 9529, IMSNU 22188, INMI 577, KACC 20094, KCTC 9242, NBRC 16096, NCIMB 10212, NRRL B-16983

straininfo link

  • @ref: 85925
  • straininfo: 41703

literature

  • topic: Phylogeny
  • Pubmed-ID: 29388545
  • title: Thermostaphylospora grisealba gen. nov., sp. nov., isolated from mushroom compost and transfer of Thermomonospora chromogena Zhang et al. 1998 to Thermostaphylospora chromogena comb. nov.
  • authors: Wu H, Liu B, Shao Y, Ou X, Huang F
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002551
  • year: 2018
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, *Agaricales, Bacterial Typing Techniques, Base Composition, China, Composting, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11196Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43794)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43794
19955Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43794.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/
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
85925Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID41703.1StrainInfo: A central database for resolving microbial strain identifiers