Strain identifier
BacDive ID: 15161
Type strain:
Species: Streptomyces flavofungini
Strain Designation: Medipex SA-IX-3
Strain history: KCC S-0753 <-- IFO 13371 <-- SAJ <-- ISP 5366 <-- CBS 411.59 <-- J. Uri and I. Békési SA-IX-3.
NCBI tax ID(s): 68200 (species)
General
@ref: 9286
BacDive-ID: 15161
DSM-Number: 40366
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Streptomyces flavofungini Medipex SA-IX-3 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from desert sand.
NCBI tax id
- NCBI tax id: 68200
- Matching level: species
strain history
@ref | history |
---|---|
9286 | <- E.B. Shirling, ISP <- CBS <- Uri, Medipex SA-IX-3 |
67770 | KCC S-0753 <-- IFO 13371 <-- SAJ <-- ISP 5366 <-- CBS 411.59 <-- J. Uri and I. Békési SA-IX-3. |
doi: 10.13145/bacdive15161.20230509.8.1
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 flavofungini
- full scientific name: Streptomyces flavofungini (ex Úri and Békési 1958) Szabó and Preobrazhenskaya 1986
@ref: 9286
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces flavofungini
full scientific name: Streptomyces flavofungini (ex Úri and Békési 1958) Szabó and Preobrazhenskaya 1986
strain designation: Medipex SA-IX-3
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 91.666 | |
69480 | 100 | positive |
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19446 | Yellow | 10-14 days | ISP 2 |
19446 | 10-14 days | ISP 3 | |
19446 | Yellow | 10-14 days | ISP 4 |
19446 | Yellow | 10-14 days | ISP 5 |
19446 | Yellow | 10-14 days | ISP 6 |
19446 | Yellow | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | medium name | complex name | complex color |
---|---|---|---|---|
19446 | no | ISP 2 | ||
19446 | yes | ISP 3 | Aerial Mycelium | White |
19446 | yes | ISP 4 | Aerial Mycelium | White |
19446 | no | ISP 5 | ||
19446 | no | ISP 6 | ||
19446 | yes | ISP 7 | Aerial Mycelium | White |
multimedia
- @ref: 9286
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40366.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
9286 | 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 |
19446 | 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 | |
19446 | 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: | |
19446 | 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 | |
19446 | 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 | |
19446 | 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 | |
19446 | 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 | |
9286 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
19446 | positive | optimum | 28 | mesophilic |
9286 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore description | spore formation | confidence |
---|---|---|---|
19446 | spore chains: very short, spore surface: smooth | yes | |
69481 | yes | 100 | |
69480 | yes | 100 |
compound production
@ref | compound |
---|---|
9286 | flavofungin |
20216 | Flavofungin |
halophily
- @ref: 19446
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 5 %
observation
- @ref: 67770
- observation: quinones: MK-9(H8), MK-9(H6)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
19446 | 62968 | cellulose | + | |
19446 | 16634 | raffinose | - | |
19446 | 26546 | rhamnose | - | |
19446 | 28757 | fructose | +/- | |
19446 | 29864 | mannitol | + | |
19446 | 17268 | myo-inositol | - | |
19446 | 18222 | xylose | - | |
19446 | 17992 | sucrose | - | |
19446 | 22599 | arabinose | - | |
19446 | 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 | flavofungin | yes | |
68368 | acetoin | no | 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 |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
19446 | + | + | + | + | - | - | + | - | - | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
9286 | desert sand |
67770 | Desert sand |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Desert |
#Environmental | #Terrestrial | #Sandy |
#Condition | #Xerophilic |
taxonmaps
- @ref: 69479
- File name: preview.99_4034.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_287;98_3057;99_4034&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: AB184359
- Sequence Identity:
- Total samples: 91
- soil counts: 70
- aquatic counts: 4
- animal counts: 16
- plant counts: 1
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
9286 | 1 | Risk group (German classification) |
19446 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces flavofungini gene for 16S ribosomal RNA, partial sequence, strain: JCM 4753 | D44335 | 120 | ena | 68200 |
20218 | Streptomyces flavofungini gene for 16S rRNA, partial sequence, strain: NBRC 13371 | AB184359 | 1475 | ena | 68200 |
20218 | Streptomyces flavofungini strain NRRL B-12307 16S ribosomal RNA gene, partial sequence | AY999792 | 1078 | ena | 68200 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces flavofungini JCM 4753 | GCA_014650815 | scaffold | ncbi | 68200 |
66792 | Streptomyces flavofungini JCM 4753 | GCA_016411765 | scaffold | ncbi | 68200 |
66792 | Streptomyces flavofungini strain JCM 4753 | 68200.3 | wgs | patric | 68200 |
66792 | Streptomyces flavofungini strain JCM 4753 | 68200.4 | wgs | patric | 68200 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
flagellated | no | 97.832 | no |
gram-positive | yes | 87.434 | no |
anaerobic | no | 99.362 | no |
aerobic | yes | 91.646 | no |
halophile | no | 92.066 | no |
spore-forming | yes | 92.487 | no |
thermophile | no | 99.079 | no |
glucose-util | yes | 89.161 | no |
motile | no | 92.971 | no |
glucose-ferment | no | 88.108 | no |
External links
@ref: 9286
culture collection no.: DSM 40366, ATCC 27430, CBS 411.59, CBS 672.72, IFO 13371, ISP 5366, JCM 4753, NBRC 13371, RIA 1332, BCRC 15154, LMG 8598, NRRL B-12307, VKM Ac-1179
straininfo link
- @ref: 84265
- straininfo: 45803
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 20525816 | Streptomyces tacrolimicus sp. nov., a low producer of the immunosuppressant tacrolimus (FK506). | Martinez-Castro M, Barreiro C, Romero F, Fernandez-Chimeno RI, Martin JF | Int J Syst Evol Microbiol | 10.1099/ijs.0.024273-0 | 2010 | DNA, Bacterial/genetics, Immunosuppressive Agents/*metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Streptomyces/*classification/genetics/*isolation & purification/metabolism, Tacrolimus/*metabolism | Metabolism |
Phylogeny | 26449519 | Streptomyces alfalfae sp. nov. and comparisons with its closest taxa Streptomyces silaceus, Streptomyces flavofungini and Streptomyces intermedius. | She W, Sun Z, Yi L, Zhao S, Liang Y | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000671 | 2015 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Medicago/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Phylogeny | 28005517 | Streptomyces lasiicapitis sp. nov., an actinomycete that produces kanchanamycin, isolated from the head of an ant (Lasius fuliginosus L.). | Ye L, Zhao S, Li Y, Jiang S, Zhao Y, Li J, Yan K, Wang X, Xiang W, Liu C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001756 | 2017 | Animals, Ants/*microbiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification | Transcriptome |
Phylogeny | 28920834 | Streptomyces xylanilyticus sp. nov., isolated from soil. | Moonmangmee D, Kanchanasin P, Phongsopitanun W, Tanasupawat S, Moonmangmee S | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002282 | 2017 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Thailand, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Phylogeny | 33774760 | Streptomyces typhae sp. nov., a novel endophytic actinomycete with antifungal activity isolated the root of cattail (Typha angustifolia L.). | Peng C, Zhuang X, Gao C, Wang Z, Zhao J, Huang SX, Liu C, Xiang W | Antonie Van Leeuwenhoek | 10.1007/s10482-021-01561-3 | 2021 | *Actinobacteria, Antifungal Agents, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/genetics, *Typhaceae, Vitamin K 2 | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9286 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40366) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40366 | |||
19446 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40366.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 | |||||
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 | |||
84265 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45803.1 | StrainInfo: A central database for resolving microbial strain identifiers |