Strain identifier

BacDive ID: 160091

Type strain: Yes

Species: Streptomyces scabichelini

Strain Designation: HC44

Strain history: <- K. Isik, Ondokuz Mayis University, Samsun, Turkey; HC44 <-

NCBI tax ID(s): 2711217 (species)

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General

@ref: 66995

BacDive-ID: 160091

DSM-Number: 106874

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Streptomyces scabichelini HC44 is a mesophilic bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 2711217
  • Matching level: species

strain history

  • @ref: 66995
  • history: <- K. Isik, Ondokuz Mayis University, Samsun, Turkey; HC44 <-

doi: 10.13145/bacdive160091.20230509.8.1

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 scabichelini
  • full scientific name: Streptomyces scabichelini Gencbay et al. 2021

@ref: 66995

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Streptomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces scabichelini

full scientific name: Streptomyces scabichelini Gencbay et al. 2021

strain designation: HC44

type strain: yes

Morphology

colony morphology

@refcolony colormedium used
69332Fawn brown (8007)ISP 2
69332Fawn brown (8007)ISP 5
69332Nut brown (8007)ISP 7
69332Ochre yellow (1024)ISP 6
69332Olive brown (8008)ISP 4
69332Olive brown (8008), sepia brown (8014)ISP 3
69332Sand yellow (1004)suter with tyrosine
69332Sand yellow (1004)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium namecomplex color
69332noAerial myceliumISP 2
69332yesAerial myceliumISP 3Stone grey (7030), light grey (7035)
69332noAerial myceliumISP 4
69332noAerial myceliumISP 5
69332noAerial myceliumISP 6
69332noAerial myceliumISP 7
69332noAerial myceliumsuter with tyrosine
69332noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69332noMelanin
69332yessoluble pigmentBrown beige (1011), golden yellow (1004)

multimedia

  • @ref: 66995
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_106874.jpg
  • caption: Medium 554 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
66995GYM 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
66995N-Z-AMINE-MEDIUM (DSMZ Medium 554)yeshttps://mediadive.dsmz.de/medium/554Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
66995ISP2 MEDIUM (DSMZ Medium 987)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium987.pdf
66995ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
66995STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf

culture temp

  • @ref: 66995
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

halophily

  • @ref: 69332
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6933222599arabinose+growth
6933262968cellulose+/-growth
6933228757fructose+growth
6933217234glucose+growth
6933217268inositol+growth
6933237684mannose+growth
6933216634raffinose+growth
6933226546rhamnose+growth
6933217992sucrose+growth
6933218222xylose+growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase+3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
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 coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69332--++---+-----------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69332+++/-+/-+++/---+++---+++-

Isolation, sampling and environmental information

isolation

  • @ref: 66995
  • sample type: soil
  • geographic location: Hacibekta (38° 58' 07.1'' N, 34° 34' 53.4'' E)
  • country: Turkey
  • origin.country: TUR
  • continent: Asia
  • latitude: 38.9686
  • longitude: 34.5815

Sequence information

16S sequences

  • @ref: 66995
  • description: Streptomyces sp. strain HC44 16S ribosomal RNA gene, partial sequence
  • accession: KX608881
  • length: 1482
  • database: ena
  • NCBI tax ID: 1931

Genome sequences

  • @ref: 66792
  • description: Streptomyces scabichelini HC44
  • accession: GCA_011045015
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 2711217

GC content

  • @ref: 66995
  • GC-content: 69.8
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno93.951no
flagellatedno97.9no
gram-positiveyes90.47no
anaerobicno99.354no
aerobicyes95.079no
halophileno94.007no
spore-formingyes94.777no
thermophileno98.224yes
glucose-utilyes90.09no
glucose-fermentno90.102no

External links

@ref: 66995

culture collection no.: DSM 106874, KCTC 39872

straininfo link

  • @ref: 112367
  • straininfo: 404253

literature

  • topic: Phylogeny
  • Pubmed-ID: 33470928
  • title: Streptomyces scabichelini sp. nov., isolated from soil.
  • authors: Gencbay T, Saygin H, Guven K, Topkara AR, Saricaoglu S, Sahin N, Isik K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.004639
  • year: 2021
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Genes, Bacterial, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification, Turkey, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66995Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-106874Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 106874)
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69332Wink, J.Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweighttps://cdn.dsmz.de/wink/DSM%20106874.pdf
112367Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID404253.1