Strain identifier

BacDive ID: 16471

Type strain: Yes

Species: Streptomyces iranensis

Strain Designation: 35, HM 35

Strain history: CCUG 57623 <-- DSM 41954 <-- J. Hamedi HM 35 <-- F. Mohammadipanah.

NCBI tax ID(s): 576784 (species)

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General

@ref: 16168

BacDive-ID: 16471

DSM-Number: 41954

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, spiral-shaped

description: Streptomyces iranensis 35 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from rhizospherical soil at a depth of 10 cm.

NCBI tax id

  • NCBI tax id: 576784
  • Matching level: species

strain history

@refhistory
16168<- J. Hamedi, Univ. Tehran, Iran; strain 35 <- F. Mohammadipanah
67770CCUG 57623 <-- DSM 41954 <-- J. Hamedi HM 35 <-- F. Mohammadipanah.

doi: 10.13145/bacdive16471.20230509.8.1

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 iranensis
  • full scientific name: Streptomyces iranensis Hamedi et al. 2010

@ref: 16168

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces iranensis

full scientific name: Streptomyces iranensis Hamedi et al. 2010

strain designation: 35, HM 35

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
29538positive0.8-1.2 µmspiral-shaped
69480no94.518
69480positive100

colony morphology

@refcolony colorincubation periodmedium used
18732Ochre yellow (1024)10-14 daysISP 2
18732Sand yellow (1002)10-14 daysISP 3
18732Brown beige (1011)10-14 daysISP 4
18732Brown beige (1011)10-14 daysISP 5
18732Brown beige (1011)10-14 daysISP 6
18732Brown beige (1011)10-14 daysISP 7
613944-5 days

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
18732yesAerial MyceliumSignal white (9003)ISP 2
18732yesAerial MyceliumSignal white (9003)ISP 3
18732yesAerial MyceliumTraffic grey A (7042)ISP 4
18732yesAerial MyceliumCream (9001)ISP 5
18732noISP 6
18732yesAerial MyceliumCream (9001)ISP 7

pigmentation

  • @ref: 29538
  • production: yes

multimedia

  • @ref: 16168
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_41954.jpg
  • caption: Medium 252 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16168GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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
18732ISP 2yesName: 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
18732ISP 3yesName: 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:
18732ISP 4yesName: 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
18732ISP 5yesName: 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
18732ISP 6yesName: 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
18732ISP 7yesName: 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
16168STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://mediadive.dsmz.de/medium/252Name: 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
16168ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: 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

@refgrowthtypetemperaturerange
16168positivegrowth28mesophilic
18732positiveoptimum28mesophilic
29538positivegrowth13-37
29538positiveoptimum28mesophilic
61394positivegrowth30mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
29538positivegrowth06-11alkaliphile
29538positiveoptimum06-09

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29538aerobe
61394aerobe

spore formation

@refspore formationconfidence
29538yes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
29538NaClpositivegrowth0-2.5 %
29538NaClpositiveoptimum0-2.5 %

observation

@refobservation
29538aggregates in chains
67770quinones: MK-9(H4), MK-9(H6), MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2953815963ribitol+carbon source
2953817716lactose+carbon source
2953817272propionate+carbon source
2953826546rhamnose+carbon source
2953833942ribose+carbon source
2953830911sorbitol+carbon source
2953817992sucrose+carbon source
2953818222xylose+carbon source

enzymes

@refvalueactivityec
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase+3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18732+-+++++++++++--+++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16168rhizospherical soil at a depth of 10 cmIsfahan cityIranIRNAsia
61394Soil,rhizosphericalIsfahan CityIranIRNAsia
67770Rhizosphere soil at a depth of 10 cmIsfahan CityIranIRNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host Body-Site#Plant#Rhizosphere

Safety information

risk assessment

  • @ref: 16168
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16168
  • description: Streptomyces iranensis strain HM 35 16S ribosomal RNA gene, partial sequence
  • accession: FJ472862
  • length: 1515
  • database: ena
  • NCBI tax ID: 576784

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces iranensis DSM 41954GCA_017874715contigncbi576784
66792Streptomyces iranensis576784.4wgspatric576784
66792Streptomyces iranensis strain DSM 41954576784.8wgspatric576784
66792Streptomyces iranensis DSM 419542913549288draftimg576784

GC content

@refGC-contentmethod
1616871.1high performance liquid chromatography (HPLC)
2953871.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes89.657yes
anaerobicno99.296no
halophileno93.097no
spore-formingyes95.626no
glucose-utilyes89.384no
thermophileno98.408yes
motileno94.029no
flagellatedno98.173no
aerobicyes94.444yes
glucose-fermentno89.743no

External links

@ref: 16168

culture collection no.: DSM 41954, CCUG 57623, JCM 17327

straininfo link

  • @ref: 85507
  • straininfo: 403514

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19684315Streptomyces iranensis sp. nov., isolated from soil.Hamedi J, Mohammadipanah F, Klenk HP, Potter G, Schumann P, Sproer C, von Jan M, Kroppenstedt RMInt J Syst Evol Microbiol10.1099/ijs.0.015339-02009Base Sequence, Molecular Sequence Data, Phenotype, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification/physiologyGenetics
Genetics25035323Draft Genome Sequence of Streptomyces iranensis.Horn F, Schroeckh V, Netzker T, Guthke R, Brakhage AA, Linde JGenome Announc10.1128/genomeA.00616-142014
Metabolism27037115An Efficient Method To Generate Gene Deletion Mutants of the Rapamycin-Producing Bacterium Streptomyces iranensis HM 35.Netzker T, Schroeckh V, Gregory MA, Flak M, Krespach MKC, Leadlay PF, Brakhage AAAppl Environ Microbiol10.1128/AEM.00371-162016Anti-Bacterial Agents/*metabolism, Conjugation, Genetic, Escherichia coli/genetics, Gene Deletion, Gene Knockout Techniques/*methods, Gene Transfer Techniques, Plasmids/metabolism, Sirolimus/*metabolism, Streptomyces/*genetics/*metabolism
Phylogeny34106825Streptomyces coffeae sp. nov., an endophytic actinomycete isolated from the root of Coffea arabica (L.).Nammali A, Intaraudom C, Pittayakhajonwut P, Suriyachadkun C, Tadtong S, Srabua P, Thawai CInt J Syst Evol Microbiol10.1099/ijsem.0.0048342021Base Composition/genetics, Base Sequence, Coffea/*microbiology, DNA, Bacterial/genetics, Endophytes/genetics/*isolation & purification, Likelihood Functions, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Streptomyces/classification/*isolation & purification, ThailandEnzymology
Phylogeny34480669Streptomyces endocoffeicus sp. nov., an endophytic actinomycete isolated from Coffea arabica (L.).Nammali A, Intaraudom C, Pittayakhajonwut P, Suriyachadkun C, Tadtong S, Tanasupawat S, Thawai CAntonie Van Leeuwenhoek10.1007/s10482-021-01648-x2021*Actinobacteria, Bacterial Typing Techniques, Base Composition, *Coffea, DNA, Bacterial/genetics, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/genetics, ThailandTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16168Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41954)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41954
18732Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM41954.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29538Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2593528776041
61394Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57623)https://www.ccug.se/strain?id=57623
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
85507Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403514.1StrainInfo: A central database for resolving microbial strain identifiers