Strain identifier
BacDive ID: 15125
Type strain: 
Species: Streptomyces diastatochromogenes
Strain Designation: Ogata 207
Strain history: CIP <- 1997, IFO <- 1978, KCC <- Res. Lab., Ihara Noyaku Co, Japan
NCBI tax ID(s): 42236 (species)
version 8.1 (current version)
General
@ref: 9551
BacDive-ID: 15125
DSM-Number: 40449
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive
description: Streptomyces diastatochromogenes Ogata 207 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from Environment, Soil.
NCBI tax id
- NCBI tax id: 42236
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9551 | <- E.B. Shirling, ISP <- ATCC <- IFO |
| 67770 | KCC S-0119 <-- IFO 3337 <-- K. Ogata 207. |
| 118927 | CIP <- 1997, IFO <- 1978, KCC <- Res. Lab., Ihara Noyaku Co, Japan |
doi: 10.13145/bacdive15125.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Kitasatosporales
- family: Streptomycetaceae
- genus: Streptomyces
- species: Streptomyces diastatochromogenes
- full scientific name: Streptomyces diastatochromogenes (Krainsky 1914) Waksman and Henrici 1948 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Actinomyces diastatochromogenes
@ref: 9551
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces diastatochromogenes
full scientific name: Streptomyces diastatochromogenes (Krainsky 1914) Waksman and Henrici 1948
strain designation: Ogata 207
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
colony morphology
| @ref | colony color | incubation period | medium used |
|---|---|---|---|
| 19456 | Beige | 10-14 days | ISP 2 |
| 19456 | Beige | 10-14 days | ISP 3 |
| 19456 | Beige | 10-14 days | ISP 4 |
| 19456 | Beige | 10-14 days | ISP 5 |
| 19456 | Brown | 10-14 days | ISP 6 |
| 19456 | Brown | 10-14 days | ISP 7 |
multicellular morphology
| @ref | forms multicellular complex | complex name | medium name | complex color |
|---|---|---|---|---|
| 19456 | yes | Aerial Mycelium | ISP 2 | |
| 19456 | yes | Aerial Mycelium | ISP 3 | Grey |
| 19456 | yes | Aerial Mycelium | ISP 4 | White |
| 19456 | yes | Aerial Mycelium | ISP 5 | White |
| 19456 | yes | Aerial Mycelium | ISP 6 | White |
| 19456 | yes | Aerial Mycelium | ISP 7 | White |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 9551 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: 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 |
| 19456 | ISP 2 | yes | Name: 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 | |
| 19456 | ISP 3 | yes | Name: 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: | |
| 19456 | ISP 4 | yes | Name: 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 | |
| 19456 | ISP 5 | yes | Name: 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 | |
| 19456 | ISP 6 | yes | Name: 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 | |
| 19456 | ISP 7 | yes | Name: 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 | |
| 39199 | MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicum | yes | Distilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g) | |
| 9551 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf | |
| 118927 | CIP Medium 194 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=194 | |
| 118927 | CIP Medium 116 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116 |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 19456 | positive | optimum | 28 | mesophilic |
| 9551 | positive | growth | 28 | mesophilic |
| 39199 | positive | growth | 30 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore description | type of spore | spore formation | confidence |
|---|---|---|---|---|
| 19456 | Formation of spore chains: rectiflixibilis, spore surface: smooth | spore | yes | |
| 69481 | yes | 100 | ||
| 69480 | yes | 100 |
halophily
- @ref: 19456
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 2.5 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 19456 | 16634 | raffinose | + | |
| 19456 | 26546 | rhamnose | + | |
| 19456 | 28757 | fructose | + | |
| 19456 | 29864 | mannitol | + | |
| 19456 | 17268 | myo-inositol | + | |
| 19456 | 18222 | xylose | + | |
| 19456 | 17992 | sucrose | + | |
| 19456 | 22599 | arabinose | + | |
| 19456 | 17234 | glucose | + | |
| 68368 | 5291 | gelatin | + | hydrolysis |
| 68368 | 27897 | tryptophan | - | energy source |
| 68368 | 16199 | urea | + | hydrolysis |
| 68368 | 16947 | citrate | + | assimilation |
| 68368 | 18257 | ornithine | + | degradation |
| 68368 | 25094 | lysine | + | degradation |
| 68368 | 29016 | arginine | + | hydrolysis |
metabolite production
| @ref | Chebi-ID | metabolite | production |
|---|---|---|---|
| 68368 | 15688 | acetoin | yes |
| 68368 | 35581 | indole | no |
| 68368 | 16136 | hydrogen sulfide | no |
metabolite tests
| @ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
|---|---|---|---|---|
| 68368 | 15688 | acetoin | + | |
| 68368 | 35581 | indole | - |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68368 | gelatinase | + | |
| 68368 | tryptophan deaminase | - | 4.1.99.1 |
| 68368 | urease | + | 3.5.1.5 |
| 68368 | ornithine decarboxylase | + | 4.1.1.17 |
| 68368 | lysine decarboxylase | + | 4.1.1.18 |
| 68368 | arginine dihydrolase | + | 3.5.3.6 |
| 68368 | beta-galactosidase | + | 3.2.1.23 |
API 20E
| @ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 19456 | + | + | + | + | + | - | + | - | - | + | + |
Isolation, sampling and environmental information
isolation
- @ref: 118927
- sample type: Environment, Soil
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 9551 | 1 | Risk group (German classification) |
| 19456 | 1 | Risk group (German classification) |
| 118927 | 1 | Risk group (French classification) |
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces diastatochromogenes gene for 16S ribosomal RNA, 23S ribosomal RNA, complete and partial sequence, strain:ATCC 12309 | AB026218 | 1851 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes gene for 16S rRNA, 16S-23S intergenic spacer, 23S rRNA, partial and complete sequence, isolate:ATCC 12309, clone:DI2 | AB041128 | 321 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes strain DSM40449 16S-23S intergenic spacer region, partial sequence | AF363497 | 296 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes gene for 16S ribosomal RNA, complete sequence | D63867 | 1531 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes strain DSM 40449 clone ITS 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296962 | 258 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes strain DSM 40449 clone ITS14 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296963 | 263 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes strain DSM 40449 clone ITS21 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296964 | 263 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes strain DSM 40449 clone ITS26 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296965 | 267 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes strain DSM 40449 clone ITS8 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296966 | 263 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes strain DSM 40449 clone ITS9 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296967 | 268 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes gene for 16S ribosomal RNA, partial sequence, strain: JCM 4746 | D44330 | 121 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes gene for 16S rRNA, partial sequence, strain: NBRC 13389 | AB184373 | 1442 | ena | 42236 |
| 20218 | Streptomyces diastatochromogenes gene for 16S rRNA, partial sequence, strain: NBRC 3337 | AB184747 | 1478 | ena | 42236 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces diastatochromogenes strain ATCC 12309 | 42236.5 | wgs | patric | 42236 |
| 66792 | Streptomyces diastatochromogenes ATCC 12309 | 2724679178 | draft | img | 42236 |
| 67770 | Streptomyces diastatochromogenes NRRL B-1698 | GCA_001418405 | scaffold | ncbi | 42236 |
| 67770 | Streptomyces diastatochromogenes ATCC 12309 | GCA_001550305 | contig | ncbi | 42236 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| gram-positive | yes | 86.2 | no |
| anaerobic | no | 99.225 | no |
| halophile | no | 96.823 | no |
| spore-forming | yes | 93.46 | yes |
| glucose-util | yes | 89.622 | no |
| aerobic | yes | 92.418 | no |
| flagellated | no | 97.56 | no |
| thermophile | no | 98.936 | yes |
| motile | no | 93.478 | no |
| glucose-ferment | no | 90.378 | no |
External links
@ref: 9551
culture collection no.: DSM 40449, ATCC 12309, CBS 370.58, CBS 690.72, ETH 31546, IFO 13389, IFO 3337, ISP 5449, JCM 4119, JCM 4746, KCC S-0119, KCC S-0746, NBRC 13389, NBRC 3337, NRRL B-1698, PSA 218, RIA 1350, VKM Ac-1760, BCRC 13668, CFBP 4540, CGMCC 4.1606, CIP 105123, KACC 20133, VTT E-042624, CCM 3113, KCC S-0244
straininfo link
- @ref: 84230
- straininfo: 39003
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9551 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40449) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40449 | |||
| 19456 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40449.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 39199 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17108 | ||||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 68368 | Automatically annotated from API 20E | |||||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 84230 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID39003.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
| 118927 | Curators of the CIP | Collection of Institut Pasteur (CIP 105123) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105123 |