Strain identifier
BacDive ID: 15463
Type strain:
Species: Streptomyces phaeochromogenes
Strain history: KCC S-0070 <-- H. Yonehara <-- IFO 3180 <-- ATCC 3338 <-- IMRU 3338.
NCBI tax ID(s): 1923 (species)
General
@ref: 9271
BacDive-ID: 15463
DSM-Number: 40073
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Streptomyces phaeochromogenes DSM 40073 is a spore-forming, mesophilic bacterium that builds an aerial mycelium.
NCBI tax id
- NCBI tax id: 1923
- Matching level: species
strain history
@ref | history |
---|---|
9271 | <- E.B. Shirling, ISP <- S.A. Waksman, IMRU |
67770 | KCC S-0070 <-- H. Yonehara <-- IFO 3180 <-- ATCC 3338 <-- IMRU 3338. |
doi: 10.13145/bacdive15463.20230509.8.1
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 phaeochromogenes
- full scientific name: Streptomyces phaeochromogenes (Conn 1917) Waksman 1957 (Approved Lists 1980)
synonyms
@ref synonym 20215 Actinomyces pheochromogenus 20215 Streptomyces ederensis
@ref: 9271
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces phaeochromogenes
full scientific name: Streptomyces phaeochromogenes (Conn 1917) Waksman 1957
type strain: yes
Morphology
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19399 | Brown | 10-14 days | ISP 2 |
19399 | 10-14 days | ISP 3 | |
19399 | 10-14 days | ISP 4 | |
19399 | 10-14 days | ISP 5 | |
19399 | 10-14 days | ISP 6 | |
19399 | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | complex name | complex color | medium name |
---|---|---|---|---|
19399 | yes | Aerial Mycelium | Grey | ISP 2 |
19399 | yes | Aerial Mycelium | Grey | ISP 3 |
19399 | yes | Aerial Mycelium | Grey | ISP 4 |
19399 | yes | Aerial Mycelium | Grey | ISP 5 |
19399 | yes | Aerial Mycelium | White | ISP 6 |
19399 | yes | Aerial Mycelium | Grey | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
9271 | 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 |
19399 | 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 | |
19399 | 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: | |
19399 | 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 | |
19399 | 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 | |
19399 | 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 | |
19399 | 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 | |
9271 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf | |
9271 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
19399 | positive | optimum | 28 | mesophilic |
9271 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
- @ref: 19399
- spore description: Formation of spore chains: retinaculiapetri, spore surface: smooth, Fragmentation: +
- spore formation: yes
compound production
@ref | compound |
---|---|
9271 | tyrosinate |
20216 | Tyrosinase |
20216 | Penicillin derivatives |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
19399 | 16634 | raffinose | - | |
19399 | 26546 | rhamnose | + | |
19399 | 28757 | fructose | +/- | |
19399 | 29864 | mannitol | - | |
19399 | 17268 | myo-inositol | - | |
19399 | 18222 | xylose | - | |
19399 | 17992 | sucrose | + | |
19399 | 22599 | arabinose | + | |
19399 | 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 | yes |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|
19399 | + | + | - | - | - | + | + | + | - | + | + |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
9271 | 1 | Risk group (German classification) |
19399 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces phaeochromogenes strain ATCC 23945 16S ribosomal RNA gene, partial sequence | EU594468 | 1466 | ena | 1923 |
20218 | Streptomyces phaeochromogenes strain ATCC 3338 16S ribosomal RNA gene, partial sequence | EU594469 | 1475 | ena | 1923 |
20218 | Streptomyces phaeochromogenes 16S ribosomal RNA gene, partial sequence | AF500071 | 1450 | ena | 1923 |
20218 | Streptomyces phaeochromogenes gene for 16S ribosomal RNA, partial sequence, strain: JCM 4659 | D44289 | 120 | ena | 1923 |
20218 | Streptomyces phaeochromogenes gene for 16S rRNA, partial sequence, strain: NBRC 12898 | AB184228 | 1476 | ena | 1923 |
20218 | Streptomyces phaeochromogenes gene for 16S rRNA, partial sequence, strain: NBRC 3180 | AB184738 | 1479 | ena | 1923 |
20218 | Streptomyces phaeochromogenes strain NRRL B-1248 16S ribosomal RNA gene, partial sequence | EU594472 | 1492 | ena | 1923 |
Genome sequences
- @ref: 67770
- description: Streptomyces phaeochromogenes NRRL B-1248
- accession: GCA_001418655
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 1923
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 97.825 | no |
gram-positive | yes | 88.374 | no |
anaerobic | no | 99.407 | no |
aerobic | yes | 93.211 | no |
halophile | no | 94.411 | no |
spore-forming | yes | 91.945 | yes |
thermophile | no | 99.14 | no |
glucose-util | yes | 90.308 | no |
motile | no | 93.546 | no |
glucose-ferment | no | 87.937 | no |
External links
@ref: 9271
culture collection no.: DSM 40073, ATCC 23945, ATCC 3338, CBS 929.68, ETH 20197, IFO 12898, IMRU 3338, ISP 5073, KCC S-0070, KCC S-0659, NBRC 12898, NCIMB 8505, RIA 1119, JCM 4070, BCRC 12484, CBS 282.30, CBS 288.60, CECT 3070, CGMCC 4.0613, CGMCC 4.1308, IFM 1051, IFO 3180, IMET 40355, JCM 4659, KCTC 9763, LMG 19348, NBRC 3180, NRRL B-1248, NRRL B-3010, RIA 61, VKM Ac-1002, VTT E-82160
straininfo link
- @ref: 84551
- straininfo: 389311
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 28382471 | Two new species of the genus Streptomyces: Streptomyces camponoti sp. nov. and Streptomyces cuticulae sp. nov. isolated from the cuticle of Camponotus japonicus Mayr. | Piao C, Zheng W, Li Y, Liu C, Jin L, Song W, Yan K, Wang X, Xiang W | Arch Microbiol | 10.1007/s00203-017-1353-6 | 2017 | Animals, Ants/*microbiology, Bacterial Typing Techniques, China, DNA Gyrase/genetics, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/classification/genetics/isolation & purification | Transcriptome |
Phylogeny | 32274558 | Streptomyces albicerus sp. nov., a novel actinomycete isolated from the sediments of the Tailan River in Xinjiang, China. | Sun B, Yuan L, Xia Z, Wan C, Zhang L | Arch Microbiol | 10.1007/s00203-020-01871-6 | 2020 | Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers, Species Specificity, Streptomyces/*classification/genetics, Vitamin K 2/chemistry |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9271 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40073) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40073 | |||
19399 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40073.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 | |||
20216 | Curators of the HKI | http://www.leibniz-hki.de/de/ | Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) | |||
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 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68368 | Automatically annotated from API 20E | |||||
84551 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID389311.1 | StrainInfo: A central database for resolving microbial strain identifiers |