Strain identifier
BacDive ID: 16315
Type strain: 
Species: Streptomyces acidiscabies
Strain Designation: RL-110
Strain history: ATCC 49003 <-- D. H. Lambert RL-110 <-- R. Loria.
NCBI tax ID(s): 42234 (species)
version 8.1 (current version)
General
@ref: 10451
BacDive-ID: 16315
DSM-Number: 41668
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive, plant pathogen
description: Streptomyces acidiscabies RL-110 is a spore-forming, mesophilic, Gram-positive plant pathogen that builds an aerial mycelium and was isolated from potato scab.
NCBI tax id
- NCBI tax id: 42234
- Matching level: species
strain history
| @ref | history |
|---|---|
| 10451 | <- D. H.Lambert, RL-110 <- R. Loria |
| 67770 | ATCC 49003 <-- D. H. Lambert RL-110 <-- R. Loria. |
doi: 10.13145/bacdive16315.20230509.8.1
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 acidiscabies
- full scientific name: Streptomyces acidiscabies Lambert and Loria 1989
@ref: 10451
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces acidiscabies
full scientific name: Streptomyces acidiscabies Lambert and Loria 1989
strain designation: RL-110
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
colony morphology
| @ref | colony color | incubation period | medium used |
|---|---|---|---|
| 21404 | Yellow | 10-14 days | ISP 2 |
| 21404 | Yellow orange (2000) | 10-14 days | ISP 3 |
| 21404 | Colorless | 10-14 days | ISP 4 |
| 21404 | Red | 10-14 days | ISP 5 |
| 21404 | Beige (1001) | 10-14 days | ISP 6 |
| 21404 | Black | 10-14 days | ISP 7 |
multicellular morphology
| @ref | forms multicellular complex | complex name | complex color | medium name |
|---|---|---|---|---|
| 21404 | yes | Aerial Mycelium | Ivory (1014) | ISP 2 |
| 21404 | yes | Aerial Mycelium | Ivory (1014) | ISP 3 |
| 21404 | yes | Aerial Mycelium | Ivory (1014) | ISP 4 |
| 21404 | yes | Aerial Mycelium | Ivory (1014) | ISP 5 |
| 21404 | yes | Aerial Mycelium | Ivory (1014) | ISP 7 |
| 21404 | no | ISP 6 |
multimedia
- @ref: 10451
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_41668.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 10451 | 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 |
| 21404 | 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 | |
| 21404 | 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: | |
| 21404 | 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 | |
| 21404 | 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 | |
| 21404 | 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 | |
| 21404 | 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 | |
| 10451 | 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 |
| 10451 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://mediadive.dsmz.de/medium/252 | Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 10451 | 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: 10451
- compound: cutinase
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 10451 | potato scab | Maine | USA | USA | North America |
| 67770 | Potato scab |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Other | #Wound |
| #Host Body-Site | #Plant | #Root (Rhizome) |
taxonmaps
- @ref: 69479
- File name: preview.99_428.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_321;98_356;99_428&stattab=map
- Last taxonomy: Streptomyces acidiscabies
- 16S sequence: FJ007426
- Sequence Identity:
- Total samples: 1104
- soil counts: 501
- aquatic counts: 26
- animal counts: 48
- plant counts: 529
Safety information
risk assessment
- @ref: 10451
- pathogenicity plant: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces acidiscabies gene for 16S ribosomal RNA, 23S ribosomal RNA, complete and partial sequence, strain:ATCC 49003 | AB026220 | 1829 | ena | 42234 |
| 20218 | Streptomyces acidiscabies gene for 16S rRNA, 16S-23S intergenic spacer, 23S rRNA, partial and complete sequence, isolate:ATCC 49003, clone:A1 | AB041130 | 324 | ena | 42234 |
| 20218 | Streptomyces acidiscabies strain ATCC 49003 clone ITS 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296931 | 266 | ena | 42234 |
| 20218 | Streptomyces acidiscabies strain ATCC 49003 clone ITS12 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296932 | 245 | ena | 42234 |
| 20218 | Streptomyces acidiscabies strain ATCC 49003 clone ITS3 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296933 | 246 | ena | 42234 |
| 20218 | Streptomyces acidiscabies strain ATCC 49003 clone ITS4 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296934 | 266 | ena | 42234 |
| 20218 | Streptomyces acidiscabies strain ATCC 49003 clone ITS5 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296935 | 246 | ena | 42234 |
| 20218 | Streptomyces acidiscabies strain ATCC 49003 clone ITS9 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296936 | 246 | ena | 42234 |
| 20218 | Streptomyces acidiscabies 16S ribosomal RNA, complete sequence | D63865 | 1530 | ena | 42234 |
| 20218 | Streptomyces acidiscabies strain ATCC 49003 16S ribosomal RNA gene, partial sequence | FJ007426 | 1441 | ena | 42234 |
Genome sequences
- @ref: 67770
- description: Streptomyces acidiscabies NRRL B-16524
- accession: GCA_002150705
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 42234
GC content
- @ref: 10451
- GC-content: 71.1
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| flagellated | no | 97.201 | no |
| gram-positive | yes | 85.97 | no |
| anaerobic | no | 99.032 | no |
| halophile | no | 92.719 | no |
| spore-forming | yes | 94.662 | no |
| thermophile | no | 99.205 | yes |
| glucose-util | yes | 89.951 | no |
| aerobic | yes | 91.405 | no |
| motile | no | 92.794 | no |
| glucose-ferment | no | 88.931 | no |
External links
@ref: 10451
culture collection no.: DSM 41668, ATCC 49003, JCM 7913, CFBP 4539, CGMCC 4.1789, ICMP 12536, KACC 20125, KCTC 9736, LMG 19856, NCPPB 4072, NRRL B-16524
straininfo link
- @ref: 85371
- straininfo: 15011
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 25821125 | Identification of a novel unpaired histidine sensor kinase affecting secondary metabolism and morphological differentiation in Streptomyces acidiscabies ATCC 49003. | Park JM, Choi SU | Folia Microbiol (Praha) | 10.1007/s12223-015-0383-1 | 2015 | Biological Products/metabolism, Cloning, Molecular, Gene Expression, *Gene Expression Regulation, Bacterial, Gene Knockout Techniques, Histidine Kinase, Indoles/metabolism, Piperazines/metabolism, Protein Kinases/genetics/*isolation & purification/metabolism, *Secondary Metabolism, *Signal Transduction, Spores, Bacterial/growth & development, Streptomyces/*cytology/enzymology/genetics/*metabolism | Enzymology |
| Phylogeny | 34410901 | Streptomyces xanthii sp. nov. and Streptomyces roseirectus sp. nov. isolated from a Chinese medicinal plant. | Hu S, Wang Y, Wang J, Liu K, Tang X, Gao J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004962 | 2021 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Phylogeny, Plants, Medicinal/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/classification/isolation & purification, Xanthium/*microbiology | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 10451 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41668) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-41668 | |||
| 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 | |
| 21404 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM41668.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 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 | |||
| 85371 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID15011.1 | StrainInfo: A central database for resolving microbial strain identifiers |