Strain identifier
BacDive ID: 16031
Type strain:
Species: Streptomyces sulphureus
Strain Designation: Gasperini IPV 510
Strain history: KCC S-0085 <-- H. Yonehara <-- NRRL B-1627 <-- E. Baldacci.
NCBI tax ID(s): 1123321 (strain), 47758 (species)
General
@ref: 9315
BacDive-ID: 16031
DSM-Number: 40104
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive
description: Streptomyces sulphureus Gasperini IPV 510 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1123321 | strain |
47758 | species |
strain history
@ref | history |
---|---|
9315 | <- E.B. Shirling, ISP <- E. Baldacci, IPV 510 "strain Gasperini" |
67770 | KCC S-0085 <-- H. Yonehara <-- NRRL B-1627 <-- E. Baldacci. |
doi: 10.13145/bacdive16031.20230509.8.1
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 sulphureus
- full scientific name: Streptomyces sulphureus (Gasperini 1894) Waksman 1953 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Actinomyces sulphureus
@ref: 9315
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces sulphureus
full scientific name: Streptomyces sulphureus (Gasperini 1894) Waksman 1953 emend. Nouioui et al. 2018
strain designation: Gasperini IPV 510
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19805 | Yellow brown | 10-14 days | ISP 2 |
19805 | Brown | 10-14 days | ISP 3 |
19805 | Yellow | 10-14 days | ISP 4 |
19805 | Yellow | 10-14 days | ISP 5 |
19805 | Yellow | 10-14 days | ISP 6 |
19805 | Yellow | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | complex name | complex color | medium name |
---|---|---|---|---|
19805 | yes | Aerial Mycelium | Yellow | ISP 2 |
19805 | yes | Aerial Mycelium | Yellow | ISP 3 |
19805 | yes | Aerial Mycelium | Yellow | ISP 4 |
19805 | yes | Aerial Mycelium | Yellow | ISP 5 |
19805 | yes | Aerial Mycelium | Yellow | ISP 6 |
19805 | yes | Aerial Mycelium | Yellow | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
9315 | 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 |
19805 | 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 | |
19805 | 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: | |
19805 | 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 | |
19805 | 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 | |
19805 | 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 | |
19805 | 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 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
9315 | positive | growth | 28 | mesophilic |
19805 | positive | optimum | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore description | spore formation | confidence |
---|---|---|---|
19805 | Formation of spore chains: spira, spore surface: smooth | yes | |
69481 | yes | 100 | |
69480 | yes | 100 |
halophily
- @ref: 19805
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 5 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
19805 | 62968 | cellulose | - | |
19805 | 16634 | raffinose | - | |
19805 | 26546 | rhamnose | + | |
19805 | 28757 | fructose | + | |
19805 | 29864 | mannitol | + | |
19805 | 17268 | myo-inositol | - | |
19805 | 18222 | xylose | + | |
19805 | 17992 | sucrose | - | |
19805 | 22599 | arabinose | + | |
19805 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|
19805 | - | - | - | - | - | - | - | - | - | + | + |
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_7562.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_1755;97_4329;98_5542;99_7562&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: DQ442546
- Sequence Identity:
- Total samples: 2104
- soil counts: 626
- aquatic counts: 129
- animal counts: 1133
- plant counts: 216
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
9315 | 1 | Risk group (German classification) |
19805 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces sulphureus 16S-23S ribosomal RNA gene spacer, complete sequence | U93350 | 300 | ena | 1123321 |
20218 | Streptomyces sulphureus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4835 | D44397 | 120 | ena | 1123321 |
20218 | Streptomyces sulphureus gene for 16S rRNA, partial sequence, strain: NBRC 13345 | AB249965 | 1344 | ena | 1123321 |
20218 | Streptomyces sulphureus strain NRRL B-1627T 16S ribosomal RNA gene, partial sequence | DQ442546 | 1418 | ena | 1123321 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces sulphureus DSM 40104 | 1123321.3 | wgs | patric | 1123321 |
66792 | Streptomyces sulphureus DSM 40104 | 2518645610 | draft | img | 1123321 |
67770 | Streptomyces sulphureus DSM 40104 | GCA_000381025 | scaffold | ncbi | 1123321 |
GC content
- @ref: 67770
- GC-content: 71.7
- method: genome sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | no | 94.389 | no |
flagellated | no | 97.785 | no |
gram-positive | yes | 90.978 | no |
anaerobic | no | 99.29 | no |
aerobic | yes | 94.634 | no |
halophile | no | 80.255 | no |
spore-forming | yes | 93.388 | yes |
thermophile | no | 94.053 | yes |
glucose-util | yes | 89.848 | no |
glucose-ferment | no | 89.616 | no |
External links
@ref: 9315
culture collection no.: DSM 40104, ATCC 27468, CBS 646.72, IFO 13345, ISP 5104, NBRC 13345, NRRL B-1627, RIA 1306, JCM 4085, BCRC 13764, CGMCC 4.0627, HUT 6080, IMET 40623, JCM 4835, LMG 19355, NRRL B-2195, VKM Ac-1820
straininfo link
- @ref: 85104
- straininfo: 13359
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Genetics | 22843605 | Draft genome sequence of the marine actinomycete Streptomyces sulphureus L180, isolated from marine sediment. | Zhao X, Geng X, Chen C, Chen L, Jiao W, Yang C | J Bacteriol | 10.1128/JB.00900-12 | 2012 | China, DNA, Bacterial/*chemistry/*genetics, *Genome, Bacterial, Geologic Sediments/*microbiology, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, *Sequence Analysis, DNA, Streptomyces/classification/*genetics/isolation & purification | Phylogeny |
Phylogeny | 23291896 | Streptomyces halophytocola sp. nov., an endophytic actinomycete isolated from the surface-sterilized stems of a coastal halophyte Tamarix chinensis Lour. | Qin S, Bian GK, Tamura T, Zhang YJ, Zhang WD, Cao CL, Jiang JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.047456-0 | 2013 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, Plant Stems/microbiology, RNA, Ribosomal, 16S/genetics, Salt-Tolerant Plants/*microbiology, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Tamaricaceae/*microbiology | Enzymology |
Phylogeny | 25488288 | Streptomyces xiaopingdaonensis sp. nov., a novel marine actinomycete isolated from the sediment of Xiaopingdao in Dalian, China. | Chen C, Feng WW, Qin S, Zhao XQ | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0347-5 | 2014 | Bacterial Typing Techniques, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/*isolation & purification/physiology | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9315 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40104) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40104 | |||
19805 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40104.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 | |
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 | |||||
69479 | João 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 | |||
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 | |||
85104 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID13359.1 | StrainInfo: A central database for resolving microbial strain identifiers |