Strain identifier
BacDive ID: 16323
Type strain: 
Species: Streptomyces longwoodensis
Strain history: KCC S-0976 <-- Hoffmann-La Roche Inc.; X-14537.
NCBI tax ID(s): 68231 (species)
version 8.1 (current version)
General
@ref: 10460
BacDive-ID: 16323
DSM-Number: 41677
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Streptomyces longwoodensis DSM 41677 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.
NCBI tax id
- NCBI tax id: 68231
- Matching level: species
strain history
| @ref | history |
|---|---|
| 10460 | <- JCM <- KCC <- Hoffman-La-Roche Inc., X-14537 |
| 67770 | KCC S-0976 <-- Hoffmann-La Roche Inc.; X-14537. |
doi: 10.13145/bacdive16323.20230509.8.1
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 longwoodensis
- full scientific name: Streptomyces longwoodensis Prosser and Palleroni 1981
@ref: 10460
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces longwoodensis
full scientific name: Streptomyces longwoodensis Prosser and Palleroni 1981 emend. Nouioui et al. 2018
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 92.604 | |
| 69480 | 100 | positive |
colony morphology
| @ref | colony color | incubation period | medium used |
|---|---|---|---|
| 18707 | Brown | 10-14 days | ISP 2 |
| 18707 | Brown | 10-14 days | ISP 3 |
| 18707 | Brown | 10-14 days | ISP 4 |
| 18707 | Brown | 10-14 days | ISP 5 |
| 18707 | Brown | 10-14 days | ISP 6 |
| 18707 | Brown | 10-14 days | ISP 7 |
multicellular morphology
| @ref | forms multicellular complex | complex name | complex color | medium name |
|---|---|---|---|---|
| 18707 | yes | Aerial Mycelium | Grey | ISP 2 |
| 18707 | yes | Aerial Mycelium | Grey | ISP 3 |
| 18707 | yes | Aerial Mycelium | Grey | ISP 4 |
| 18707 | yes | Aerial Mycelium | Grey | ISP 5 |
| 18707 | no | ISP 6 | ||
| 18707 | yes | Aerial Mycelium | Grey | ISP 7 |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 10460 | 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 |
| 18707 | 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 | |
| 18707 | 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: | |
| 18707 | 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 | |
| 18707 | 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 | |
| 18707 | 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 | |
| 18707 | 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 | |
| 10460 | 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 |
| 10460 | 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 |
| 10460 | YEAST STARCH AGAR (A) (DSMZ Medium 1027) | yes | https://mediadive.dsmz.de/medium/1027 | Name: YEAST STARCH AGAR (A) (DSMZ Medium 1027) Composition: Agar 15.0 g/l Starch 10.0 g/l Yeast extract 2.0 g/l Distilled water |
| 10460 | ISP2 MEDIUM (DSMZ Medium 987) | yes | https://mediadive.dsmz.de/medium/987 | Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 18707 | positive | optimum | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
| 10460 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore description | spore formation | confidence |
|---|---|---|---|
| 18707 | Formation of spore chains (spirales)(Sp), spore surface smooth | yes | |
| 69481 | yes | 100 | |
| 69480 | yes | 100 |
compound production
| @ref | compound |
|---|---|
| 10460 | lysocellin |
| 18707 | Lysocellin |
halophily
- @ref: 18707
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 5 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 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 | lysocellin | yes | |
| 68368 | acetoin | yes | 15688 |
| 68368 | indole | no | 35581 |
| 68368 | hydrogen sulfide | yes | 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 |
API 20E
| @ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 18707 | + | + | - | - | + | + | + | + | - | + | + |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 10460 | soil | Philadelphia, Longwood Gardens in Kennet Square | USA | USA | North America |
| 67770 | Soil | Longwood Gardens in Kennett Square, PA | USA | USA | North America |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 10460 | 1 | Risk group (German classification) |
| 18707 | 1 | German classification |
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces longwoodensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4976 | D44423 | 120 | ena | 68231 |
| 20218 | Streptomyces longwoodensis 16S rRNA gene, type strain LMG 20096 | AJ781356 | 1441 | ena | 68231 |
| 20218 | Streptomyces longwoodensis gene for 16S rRNA, partial sequence, strain: NBRC 14251 | AB184580 | 1428 | ena | 68231 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces longwoodensis strain DSM 41677 | 68231.3 | wgs | patric | 68231 |
| 66792 | Streptomyces longwoodensis DSM 41677 | 2775507133 | draft | img | 68231 |
| 67770 | Streptomyces longwoodensis DSM 41677 | GCA_001514125 | scaffold | ncbi | 68231 |
GC content
- @ref: 67770
- GC-content: 73.1
- method: genome sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| gram-positive | yes | 91.194 | no |
| anaerobic | no | 99.121 | no |
| halophile | no | 95.096 | no |
| spore-forming | yes | 95.478 | yes |
| glucose-util | yes | 88.543 | no |
| thermophile | no | 99.138 | yes |
| flagellated | no | 97.625 | no |
| aerobic | yes | 92.852 | no |
| glucose-ferment | no | 88.381 | no |
| motile | no | 93.943 | no |
External links
@ref: 10460
culture collection no.: DSM 41677, ATCC 29251, IFO 14251, JCM 4976, KCC S-0976, NBRC 14251, BCRC 12034, CGMCC 4.1898, KCTC 9783, LMG 20096, NRRL B-16923
straininfo link
- @ref: 85379
- straininfo: 39435
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 26296574 | Streptomyces sasae sp. nov., isolated from bamboo (Sasa borealis) rhizosphere soil. | Lee HJ, Whang KS | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000454 | 2015 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Rhizosphere, Sasa/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification | Genetics |
| Phylogeny | 32228806 | Streptomyces lasalocidi sp. nov. (formerly 'Streptomyces lasaliensis'), an actinomycete isolated from soil which produces the polyether antibiotic lasalocid. | Erwin GS, Heikkinen J, Halimaa P, Haber CL | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004135 | 2020 | Anti-Bacterial Agents/*biosynthesis, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis/chemistry, Fatty Acids/chemistry, Lasalocid/*biosynthesis, Massachusetts, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 34775568 | Streptomyces blattellae, a novel actinomycete isolated from the in vivo of a Blattella germanica. | Liu GM, Yuan LL, Zhang LL, Zeng H | Antonie Van Leeuwenhoek | 10.1007/s10482-021-01681-w | 2021 | *Actinobacteria/genetics, DNA, Bacterial/genetics, Humans, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/genetics | Pathogenicity |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 10460 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41677) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-41677 | |||
| 18707 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM41677.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) | |||
| 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/ | ||||
| 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 | |||
| 85379 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID39435.1 | StrainInfo: A central database for resolving microbial strain identifiers |