Strain identifier

BacDive ID: 15133

Type strain: No

Species: Streptomyces hygroscopicus

Strain Designation: 9-20

Strain history: KCC S-0213 <-- IFM 1104 <-- NRRL 2339 <-- D. Gottlieb 9-20.

NCBI tax ID(s): 68042 (subspecies)

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General

@ref: 9249

BacDive-ID: 15133

DSM-Number: 40187

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production

description: Streptomyces hygroscopicus 9-20 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

  • NCBI tax id: 68042
  • Matching level: subspecies

strain history

@refhistory
9249<- E.B. Shirling, ISP <- D. Gottlieb, 9-20
67770KCC S-0213 <-- IFM 1104 <-- NRRL 2339 <-- D. Gottlieb 9-20.

doi: 10.13145/bacdive15133.20230509.8.1

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 hygroscopicus
  • full scientific name: Streptomyces hygroscopicus (Jensen 1931) Yüntsen et al. 1956 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Actinomyces hygroscopicus
    20215Streptomyces hygroscopicus subsp. sporocinereus
    20215Streptomyces sporocinereus
    20215Streptomyces endus

@ref: 9249

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces hygroscopicus subsp. hygroscopicus

full scientific name: Streptomyces hygroscopicus subsp. hygroscopicus (Jensen 1931) Yüntsen et al. 1956 emend. Komaki et al. 2017

strain designation: 9-20

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.989
69480100positive

multimedia

  • @ref: 9249
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40187.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 9249
  • 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

@refgrowthtypetemperaturerange
9249positivegrowth28mesophilic
18553positiveoptimum28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9249endomycin A
9249endomycin B
20216Endomycin A
20216Endomycin B (helixin)
67770Endomycins A and B (helixins A and B)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1855317234glucose+
1855322599arabinose+/-
1855317992sucrose+/-
1855318222xylose+/-
1855317268myo-inositol+/-
1855329864mannitol+
1855328757fructose+
1855326546rhamnose+
1855316634raffinose+/-
1855362968cellulose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
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
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
18553+++-++++++++---+++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18553+-----+---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
9249soilCache River ValleyUSAUSANorth America
67770SoilCache River Valley, ILUSAUSANorth America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_359.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_103;97_110;98_303;99_359&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AY999911
  • Sequence Identity:
  • Total samples: 834
  • soil counts: 635
  • aquatic counts: 65
  • animal counts: 94
  • plant counts: 40

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185531German classification
92491Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces endus strain AS 4.1377 16S ribosomal RNA gene, partial sequenceFJ4061111362ena285533
20218Streptomyces endus gene for 16S rRNA, partial sequence, strain: NBRC 12859AB2499591482ena285533
20218Streptomyces hygroscopicus partial 16S rRNA gene, strain NRRL 2339AJ3918211461ena1912
9249Streptomyces endus strain NRRL 2339 16S ribosomal RNA gene, partial sequenceAY9999111518ena68042

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces endus strain NBRC 12859285533.3wgspatric68042
67770Streptomyces hygroscopicus subsp. hygroscopicus NBRC 12859GCA_001553475contigncbi68042

GC content

@refGC-contentmethod
924971.91sequence analysis
6777071.91genome sequence analysis
6777071.3thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno93.262no
gram-positiveyes88.067no
anaerobicno99.18no
halophileno89.196no
spore-formingyes94.694no
glucose-utilyes88.894yes
flagellatedno97.58no
aerobicyes93.911no
thermophileno97.4yes
glucose-fermentno90.017no

External links

@ref: 9249

culture collection no.: DSM 40187, AS 4.1377, ATCC 23904, CBS 800.68, IFO 12859, ISP 5187, JCM 4213, NBRC 12859, NRRL 2339, RIA 1141, BCRC 13784, CBS 422.61, CGMCC 4.1377, IFM 1104, IFO 14005, IMET 42064, JCM 4636, KCTC 9777, NBRC 14005, NCIMB 9819, VKM Ac-1331

straininfo link

  • @ref: 84238
  • straininfo: 13385

literature

  • Pubmed-ID: 35208804
  • title: Taxonomic Positions of a Nyuzenamide-Producer and Its Closely Related Strains.
  • authors: Komaki H, Igarashi Y, Tamura T
  • journal: Microorganisms
  • DOI: 10.3390/microorganisms10020349
  • year: 2022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9249Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40187)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40187
18553Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40187.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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
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
68382Automatically annotated from API zym
69479João 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
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
84238Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13385.1StrainInfo: A central database for resolving microbial strain identifiers