Strain identifier
BacDive ID: 15160
Type strain:
Species: Streptomyces flavidovirens
Strain history: KCC S-0474 <-- IFO 13039 <-- SAJ <-- ISP 5150 <-- INA 12287.
NCBI tax ID(s): 1123319 (strain), 67298 (species)
General
@ref: 9350
BacDive-ID: 15160
DSM-Number: 40150
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Streptomyces flavidovirens DSM 40150 is a spore-forming, mesophilic bacterium that was isolated from soil.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1123319 | strain |
67298 | species |
strain history
@ref | history |
---|---|
9350 | <- E.B. Shirling, ISP <- T.P. Preobrazhenskaya, INA |
67770 | KCC S-0474 <-- IFO 13039 <-- SAJ <-- ISP 5150 <-- INA 12287. |
doi: 10.13145/bacdive15160.20230509.8.1
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 flavidovirens
- full scientific name: Streptomyces flavidovirens (Kudrina 1957) Pridham et al. 1958 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Actinomyces flavidovirens
@ref: 9350
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces flavidovirens
full scientific name: Streptomyces flavidovirens (Kudrina 1957) Pridham et al. 1958
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 91.774 | |
69480 | 100 | positive |
Culture and growth conditions
culture medium
- @ref: 9350
- name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
- growth: yes
- link: https://mediadive.dsmz.de/medium/65
- composition: 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
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
18548 | positive | optimum | 28 | mesophilic |
9350 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
halophily
- @ref: 18548
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 2.5 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
18548 | 17234 | glucose | + | |
18548 | 22599 | arabinose | - | |
18548 | 17992 | sucrose | - | |
18548 | 18222 | xylose | - | |
18548 | 17268 | myo-inositol | - | |
18548 | 29864 | mannitol | - | |
18548 | 28757 | fructose | - | |
18548 | 26546 | rhamnose | - | |
18548 | 16634 | raffinose | - | |
18548 | 62968 | cellulose | - | |
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 | no |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|
18548 | + | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | continent | origin.country |
---|---|---|---|---|
9350 | soil | USSR | Asia | |
67770 | Soil | Russia | RUS |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_834.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_662;99_834&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: LC506591
- Sequence Identity:
- Total samples: 1611
- soil counts: 953
- aquatic counts: 126
- animal counts: 103
- plant counts: 429
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
18548 | 1 | German classification |
9350 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces flavidovirens strain IFO 13039 16S ribosomal RNA gene, partial sequence | AY999866 | 1434 | ena | 67298 |
20218 | Streptomyces flavidovirens gene for 16S ribosomal RNA, partial sequence, strain: JCM 4474 | D44169 | 120 | ena | 67298 |
20218 | Streptomyces flavidovirens gene for 16S rRNA, partial sequence, strain: NBRC 13039 | AB184270 | 1481 | ena | 67298 |
67770 | Streptomyces flavidovirens JCM 4474 gene for 16S rRNA, partial sequence | LC506591 | 1455 | ena | 67298 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces flavidovirens DSM 40150 | 1123319.3 | wgs | patric | 1123319 |
66792 | Streptomyces flavidovirens DSM 40150 | 2522572192 | draft | img | 1123319 |
67770 | Streptomyces flavidovirens DSM 40150 | GCA_000429085 | scaffold | ncbi | 1123319 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | no | 94.074 | no |
flagellated | no | 97.897 | no |
gram-positive | yes | 87.659 | no |
anaerobic | no | 99.206 | no |
aerobic | yes | 93.848 | no |
halophile | no | 89.833 | no |
spore-forming | yes | 93.724 | no |
thermophile | no | 95.834 | no |
glucose-util | yes | 90.394 | yes |
glucose-ferment | no | 89.644 | no |
External links
@ref: 9350
culture collection no.: DSM 40150, AS 4.1374, ATCC 19900, CBS 684.69, ETH 28431, IFO 13039, INA 12287, ISP 5150, NBRC 13039, RIA 1231, JCM 4474, ATCC 25451, BCRC 13761, CGMCC 4.1374, IMET 43744, NRRL B-2708, VKM Ac-1771
straininfo link
- @ref: 84264
- straininfo: 389292
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19567563 | Streptomyces hypolithicus sp. nov., isolated from an Antarctic hypolith community. | Le Roes-Hill M, Rohland J, Meyers PR, Cowan DA, Burton SG | Int J Syst Evol Microbiol | 10.1099/ijs.0.007971-0 | 2009 | Antarctic Regions, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification/physiology | Genetics |
Phylogeny | 31204968 | Streptomyces altiplanensis sp. nov., an alkalitolerant species isolated from Chilean Altiplano soil, and emended description of Streptomyces chryseus (Krasil'nikov et al. 1965) Pridham 1970. | Cortes-Albayay C, Dorador C, Schumann P, Schniete JK, Herron P, Andrews B, Asenjo J, Nouioui I | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003525 | 2019 | Alkalies, Altitude, Bacterial Typing Techniques, Base Composition, Chile, DNA, Bacterial/genetics, *Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Hydrogen-Ion Concentration, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9350 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40150) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40150 | |||
18548 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40150.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 | |||
84264 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID389292.1 | StrainInfo: A central database for resolving microbial strain identifiers |