Strain identifier
BacDive ID: 15139
Type strain:
Species: Streptomyces filamentosus
Strain Designation: 1-C-9
Strain history: KCC S-0122 <-- Y. Okami 1-C-9 (NIHJ 256).
NCBI tax ID(s): 67294 (species)
General
@ref: 9222
BacDive-ID: 15139
DSM-Number: 40022
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production
description: Streptomyces filamentosus 1-C-9 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and produces antibiotic compounds.
NCBI tax id
- NCBI tax id: 67294
- Matching level: species
strain history
@ref | history |
---|---|
9222 | <- E.B. Shirling, ISP <- Y. Okami, 1-C-9 |
67770 | KCC S-0122 <-- Y. Okami 1-C-9 (NIHJ 256). |
doi: 10.13145/bacdive15139.20230509.8.1
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 filamentosus
- full scientific name: Streptomyces filamentosus Okami and Umezawa 1953 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Streptomyces roseosporus
@ref: 9222
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces filamentosus
full scientific name: Streptomyces filamentosus Okami and Umezawa 1953 emend. Lanoot et al. 2004
strain designation: 1-C-9
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 95.9 | |
69480 | 100 | positive |
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19387 | Brown beige | 10-14 days | ISP 2 |
19387 | Beige | 10-14 days | ISP 3 |
19387 | Beige | 10-14 days | ISP 4 |
19387 | Silk grey | 10-14 days | ISP 5 |
19387 | Light ivory | 10-14 days | ISP 6 |
19387 | Light ivory | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | complex name | medium name | complex color |
---|---|---|---|---|
19387 | yes | Aerial Mycelium | ISP 2 | |
19387 | yes | Aerial Mycelium | ISP 3 | Grey white |
19387 | yes | Aerial Mycelium | ISP 4 | Grey white |
19387 | yes | Aerial Mycelium | ISP 5 | |
19387 | yes | Aerial Mycelium | ISP 6 | |
19387 | yes | Aerial Mycelium | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
9222 | 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 |
19387 | 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 | |
19387 | 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: | |
19387 | 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 | |
19387 | 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 | |
19387 | 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 | |
19387 | 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 | |
9222 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://mediadive.dsmz.de/medium/84 | Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
19387 | positive | optimum | 28 | mesophilic |
9222 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
compound production
@ref | compound |
---|---|
9222 | caryomycin |
20216 | Caryomycin |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
19387 | 62968 | cellulose | +/- | |
19387 | 16634 | raffinose | +/- | |
19387 | 26546 | rhamnose | + | |
19387 | 28757 | fructose | +/- | |
19387 | 29864 | mannitol | +/- | |
19387 | 17268 | myo-inositol | - | |
19387 | 18222 | xylose | - | |
19387 | 17992 | sucrose | + | |
19387 | 22599 | arabinose | + | |
19387 | 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 | metabolite | production | Chebi-ID |
---|---|---|---|
67770 | caryomycin | yes | |
68368 | acetoin | yes | 15688 |
68368 | indole | no | 35581 |
68368 | hydrogen sulfide | no | 16136 |
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 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | trypsin | + | 3.4.21.4 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
19387 | + | + | + | + | + | + | + | + | + | + | + | - | + | - | + | + | - | - | - |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
19387 | + | + | + | + | + | - | + | - | - | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
9222 | soil | ||||
67770 | Soil | Beppu, Kyushu | Japan | JPN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_4215.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_766;99_4215&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: AB184130
- Sequence Identity:
- Total samples: 91
- soil counts: 45
- aquatic counts: 8
- animal counts: 19
- plant counts: 19
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
9222 | 1 | Risk group (German classification) |
19387 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces filamentosus gene for 16S rRNA, partial sequence | AB122741 | 564 | ena | 67294 |
20218 | Streptomyces filamentosus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4576 | D44244 | 120 | ena | 67294 |
20218 | Streptomyces filamentosus gene for 16S rRNA, partial sequence, strain: NBRC 12767 | AB184130 | 1473 | ena | 67294 |
20218 | Streptomyces filamentosus strain NRRL B-2114 16S ribosomal RNA gene, partial sequence | DQ026632 | 1344 | ena | 67294 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces filamentosus JCM 4122 | GCA_014654895 | contig | ncbi | 67294 |
66792 | Streptomyces filamentosus strain JCM 4122 | 67294.5 | wgs | patric | 67294 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
gram-positive | yes | 87.76 | no |
anaerobic | no | 99.086 | no |
halophile | no | 93.793 | no |
spore-forming | yes | 93.84 | no |
glucose-util | yes | 89.721 | yes |
thermophile | no | 99.134 | yes |
flagellated | no | 97.216 | no |
motile | no | 93.909 | no |
aerobic | yes | 91.331 | no |
glucose-ferment | no | 84.81 | no |
External links
@ref: 9222
culture collection no.: DSM 40022, ATCC 19753, CBS 492.68, IFO 12767, ISP 5022, NBRC 12767, RIA 1034, JCM 4122, BCRC 13644, CGMCC 4.1656, HAMBI 1010, IFM 1180, IMET 43562, JCM 4576, NCIMB 13018, NRRL B-2114, VKM Ac-1266
straininfo link
- @ref: 84243
- straininfo: 45632
literature
- topic: Phylogeny
- Pubmed-ID: 27209413
- title: Streptomyces xinjiangensis sp. nov., an actinomycete isolated from Lop Nur region.
- authors: Cheng C, Li YQ, Asem MD, Lu CY, Shi XH, Chu X, Zhang WQ, Di An D, Li WJ
- journal: Arch Microbiol
- DOI: 10.1007/s00203-016-1234-4
- year: 2016
- mesh: Actinobacteria/genetics, Bacterial Typing Techniques, Base Composition/genetics, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Peptidoglycan/genetics, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification
- topic2: Transcriptome
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9222 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40022) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40022 | |||
19387 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40022.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 | |
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 | |||||
68382 | Automatically annotated from API zym | |||||
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 | |||
84243 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45632.1 | StrainInfo: A central database for resolving microbial strain identifiers |