Strain identifier

BacDive ID: 16501

Type strain: Yes

Species: Streptomyces xishensis

Strain history: <- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM M10378 <- Y. Xu

NCBI tax ID(s): 933941 (species)

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General

@ref: 17381

BacDive-ID: 16501

DSM-Number: 42022

keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic

description: Streptomyces xishensis DSM 42022 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from deap-see sediment.

NCBI tax id

  • NCBI tax id: 933941
  • Matching level: species

strain history

  • @ref: 17381
  • history: <- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM M10378 <- Y. Xu

doi: 10.13145/bacdive16501.20230509.8.1

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 xishensis
  • full scientific name: Streptomyces xishensis Xu et al. 2012

@ref: 17381

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces xishensis

full scientific name: Streptomyces xishensis Xu et al. 2012

type strain: yes

Morphology

colony morphology

@refcolony colormedium used
69328Brown beige (1011)suter without tyrosine
69328Beige (1001)ISP 6
69328Ivory (1014)ISP 2
69328Ivory (1014)ISP 3
69328Ivory (1014)ISP 7
69328Ochre brown (8001)suter with tyrosine
69328Sand yellow (1002)ISP 4
69328Sand yellow (1002)ISP 5

multicellular morphology

@refforms multicellular complexcomplex namemedium namecomplex color
69328yesAerial myceliumISP 2
69328yesAerial myceliumISP 3Signal white (9003)
69328yesAerial myceliumISP 4Pure white (9010)
69328yesAerial myceliumISP 5Oyster white (1013)
69328yesAerial myceliumISP 6Pure white (9010)
69328yesAerial myceliumISP 7
69328yesAerial myceliumsuter with tyrosineTelegrey 4 (7047)
69328yesAerial myceliumsuter without tyrosineGrey white (9002)

pigmentation

@refproductioncolorname
30409no
69328yesOchre yellow (1024), honey yellow (1005)soluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69328DSM_42022_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69328DSM_42022_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 17381
  • name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/84
  • composition: Name: 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
17381positivegrowth28mesophilic
30409positivegrowth28-37mesophilic
30409positiveoptimum32.5mesophilic

culture pH

@refabilitytypepH
30409positivegrowth06-08
30409positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 30409
  • oxygen tolerance: aerobe

spore formation

  • @ref: 30409
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
30409NaClpositivegrowth0-7 %
30409NaClpositiveoptimum1.5 %
69328NaClpositivegrowth0-5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3040917057cellobiose+carbon source
3040928757fructose+carbon source
3040917234glucose+carbon source
3040917754glycerol+carbon source
3040917306maltose+carbon source
3040929864mannitol+carbon source
3040917992sucrose+carbon source
3040917632nitrate+reduction
6932822599arabinose+growth
6932862968cellulose-growth
6932828757fructose-growth
6932817234glucose+growth
6932817268inositol+growth
6932837684mannose-growth
6932816634raffinose+growth
6932826546rhamnose+growth
6932817992sucrose+growth
6932818222xylose+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
30409catalase+1.11.1.6
30409urease+3.5.1.5
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 lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase+3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
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
69328---+-+++--++-------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69328++/-+-++/-+--++/--+-+-++-

Isolation, sampling and environmental information

isolation

  • @ref: 17381
  • sample type: deap-see sediment
  • geographic location: South China Sea, Xisha Islands sea area (17° 27' 34.988'' N 110° 28' 46.641'' E) at a depth of 1198 m
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 17.4597
  • longitude: 110.48

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_15422.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_1811;97_7136;98_11676;99_15422&stattab=map
  • Last taxonomy: Streptomyces xishensis subclade
  • 16S sequence: HQ585118
  • Sequence Identity:
  • Total samples: 565
  • soil counts: 381
  • aquatic counts: 54
  • animal counts: 79
  • plant counts: 51

Safety information

risk assessment

  • @ref: 17381
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17381
  • description: Streptomyces xishensis strain YIM M 10378 16S ribosomal RNA gene, partial sequence
  • accession: HQ585118
  • length: 1524
  • database: ena
  • NCBI tax ID: 933941

GC content

@refGC-contentmethod
1738171.4high performance liquid chromatography (HPLC)
3040971.4

External links

@ref: 17381

culture collection no.: DSM 42022, CCTCC AA 2010006, YIM M 10378

straininfo link

  • @ref: 85534
  • straininfo: 398442

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22140161Streptomyces glycovorans sp. nov., Streptomyces xishensis sp. nov. and Streptomyces abyssalis sp. nov., isolated from marine sediments.Xu Y, He J, Tian XP, Li J, Yang LL, Xie Q, Tang SK, Chen YG, Zhang S, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.035386-02011Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purificationGenetics
Phylogeny32915250Streptomyces boncukensis sp. nov., isolated from saltern soil.Tatar D, Veyisoglu A, Saygin H, Sahin NArch Microbiol10.1007/s00203-020-02036-12020DNA, Bacterial/genetics, Diaminopimelic Acid/metabolism, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Species Specificity, Streptomyces/*classification/genetics/isolation & purification, TurkeyMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17381Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42022)https://www.dsmz.de/collection/catalogue/details/culture/DSM-42022
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
30409Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2674628776041
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69328Wink, J.https://cdn.dsmz.de/wink/DSM%2042022.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
85534Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID398442.1StrainInfo: A central database for resolving microbial strain identifiers