Strain identifier

BacDive ID: 15090

Type strain: Yes

Species: Streptomyces chromofuscus

Strain Designation: 13638/58

Strain history: KCC S-0354 <-- IFO 12851 <-- SAJ <-- ISP 5273 <-- INA 13638/58.

NCBI tax ID(s): 42881 (species)

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General

@ref: 9424

BacDive-ID: 15090

DSM-Number: 40273

keywords: genome sequence, 16S sequence, Bacteria, spore-forming

description: Streptomyces chromofuscus 13638/58 is a spore-forming bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 42881
  • Matching level: species

strain history

@refhistory
9424<- E.B. Shirling, ISP <- G.F. Gauze, INA, 13638/58
67770KCC S-0354 <-- IFO 12851 <-- SAJ <-- ISP 5273 <-- INA 13638/58.

doi: 10.13145/bacdive15090.20240916.9.1

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 chromofuscus
  • full scientific name: Streptomyces chromofuscus (Preobrazhenskaya et al. 1957) Pridham et al. 1958 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Actinomyces chromofuscus

@ref: 9424

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces chromofuscus

full scientific name: Streptomyces chromofuscus (Preobrazhenskaya et al. 1957) Pridham et al. 1958

strain designation: 13638/58

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 91.46

colony morphology

@refcolony colorincubation periodmedium used
19429Yellow10-14 daysISP 2
19429Yellow/Green10-14 daysISP 3
19429Yellow10-14 daysISP 4
19429Yellow/Green10-14 daysISP 5

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19429yesAerial MyceliumGreyISP 2
19429yesAerial MyceliumGreyISP 3
19429yesAerial MyceliumGreyISP 4
19429yesAerial MyceliumGreyISP 5

multimedia

  • @ref: 9424
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40273.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9424GYM 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
19429ISP 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
19429ISP 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:
19429ISP 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
19429ISP 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
9424ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperature
19429positiveoptimum30
9424positivegrowth28
67770positivegrowth28

Physiology and metabolism

oxygen tolerance

  • @ref: 69480
  • oxygen tolerance: aerobe
  • confidence: 90.689

spore formation

@refspore descriptionspore formationconfidence
19429Formation of spore chains: rectiflixibilis, spore surface: smoothyes
69481yes100

halophily

  • @ref: 19429
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1942962968cellulose-
1942916634raffinose+
1942926546rhamnose+
1942928757fructose+
1942929864mannitol+
1942917268myo-inositol+
1942918222xylose+
1942917992sucrose-
1942922599arabinose-
1942917234glucose+
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine+degradation
6836825094lysine-degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase+4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19429++-+-----+-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.country
9424soil
67770SoilRussiaRUS

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
94241Risk group (German classification)
194291Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces chromofuscus gene for 16S rRNA, partial sequenceAB122731564nuccore42881
20218Streptomyces chromofuscus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4354D44072120nuccore42881
20218Streptomyces chromofuscus gene for 16S rRNA, partial sequence, strain: NBRC 12851AB1841941469nuccore42881
20218Streptomyces chromofuscus strain NRRL B-12175 16S ribosomal RNA gene, partial sequenceAY9998001457nuccore42881

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces chromofuscus DSM 40273GCA_015160875completencbi42881
66792Streptomyces chromofuscus JCM 4354GCA_014649435scaffoldncbi42881
66792Streptomyces chromofuscus strain DSM 4027342881.4completepatric42881
66792Streptomyces chromofuscus strain JCM 435442881.3wgspatric42881

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes91.46no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.859no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes90.689no
69480spore-formingspore-formingAbility to form endo- or exosporesyes89.234yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno96.5yes
69480flagellatedmotile2+Ability to perform flagellated movementno87.5no

External links

@ref: 9424

culture collection no.: DSM 40273, ATCC 23896, CBS 682.68, IFO 12851, ISP 5273, NBRC 12851, RIA 1191, JCM 4354, BCRC 15125, CGMCC 4.1451, INA 13638/58, KCTC 19069, LMG 19317, NRRL B-12175, VKM Ac-974

straininfo link

  • @ref: 84196
  • straininfo: 13336

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23002051Streptomyces chiangmaiensis sp. nov. and Streptomyces lannensis sp. nov., isolated from the South-East Asian stingless bee (Tetragonilla collina).Promnuan Y, Kudo T, Ohkuma M, Chantawannakul PInt J Syst Evol Microbiol10.1099/ijs.0.045930-02012Animals, Bacterial Typing Techniques, Base Composition, Bees/*microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Thailand, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny25331336Streptomyces ferrugineus sp. nov., isolated from mangrove soil in Thailand.Ruan CY, Zhang L, Ye WW, Xie XC, Srivibool R, Duangmal K, Pathom-aree W, Deng ZX, Hong KAntonie Van Leeuwenhoek10.1007/s10482-014-0301-62014Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification, Thailand, Vitamin K 2/analysisGenetics
Phylogeny33269996Streptomyces gossypiisoli sp. nov., isolated from cotton soil in Xinjiang, PR China.Zhang QY, Qin S, Luo XX, Xia ZFInt J Syst Evol Microbiol10.1099/ijsem.0.0045612020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Gossypium, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9424Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40273)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40273
19429Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40273.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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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/
68368Automatically annotated from API 20E
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
84196Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13336.1StrainInfo: A central database for resolving microbial strain identifiers