Strain identifier

BacDive ID: 131435

Type strain: Yes

Species: Streptomyces lushanensis

Strain history: W.-J. Li JXJ 0135.

NCBI tax ID(s): 1434255 (species)

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General

@ref: 22662

BacDive-ID: 131435

DSM-Number: 42121

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

description: Streptomyces lushanensis DSM 42121 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 1434255
  • Matching level: species

strain history

@refhistory
22662<- W.-J. Li, YIM; JXJ 0135 <- B.-H. Zhang
67770W.-J. Li JXJ 0135.

doi: 10.13145/bacdive131435.20230509.8.1

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 lushanensis
  • full scientific name: Streptomyces lushanensis Zhang et al. 2015

@ref: 22662

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces lushanensis

full scientific name: Streptomyces lushanensis Zhang et al. 2015

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.206
69480100positive

colony morphology

@refcolony colormedium used
69347Beige (1001), Olive brown (8008)ISP 5
69347Beige (1001), Grey beige (1019)ISP 2
69347Beige (1001), Grey beige (1019)suter without tyrosine
69347Beige (1001), Fawn brown (8007)ISP 7
69347Beige (1001)ISP 6
69347Sand yellow (1002), Fawn brown (8007)ISP 3
69347Sand yellow (1002), Light ivory (1015)suter with tyrosine

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69347yesAerial myceliumSignal white (9003)ISP 2
69347yesAerial myceliumTraffic white (9016), yellow grey (7034), pebble grey (7032)ISP 3
69347yesAerial myceliumBeige (1001), fawn brown (8007)ISP 4
69347yesAerial myceliumTraffic white (9016), yellow grey (7034)ISP 5
69347noAerial myceliumISP 6
69347yesAerial myceliumGrey white (9002), yellow grey (7034)ISP 7
69347yesAerial myceliumCream (9001)suter with tyrosine
69347yesAerial myceliumCream (9001)suter without tyrosine

pigmentation

@refproductionnamecolor
69347noMelanin
69347yessoluble pigmentDaffodil yellow (1004), brown beige (1011), pebble grey (7032), yellow grey (7034), traffic white (9016), ivory (1014), sand yellow (1002)

multimedia

@refmultimedia contentcaptionintellectual property rights
22662https://www.dsmz.de/microorganisms/photos/DSM_42121.jpgMedium 84 28°C© Leibniz-Institut DSMZ
69347DSM_42121_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69347DSM_42121_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22662GYM 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
22662ROLLED 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
22662STARCH - 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

culture temp

@refgrowthtypetemperaturerange
22662positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

  • @ref: 69347
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6934722599arabinose-growth
6934762968cellulose-growth
6934728757fructose+growth
6934717234glucose+growth
6934717268inositol-growth
6934737684mannose+growth
6934716634raffinose-growth
6934726546rhamnose-growth
6934717992sucrose-growth
6934718222xylose+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
68382leucine arylamidase+3.4.11.1
68382trypsin+3.4.21.4
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

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69347--++--+++-+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69347++/-+/-+/-++/-+/-++/-++/----+++++/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
22662soilLushan Mountain, Jiangxi Province (29°42' N, 116°26' E)ChinaCHNAsia29.7116.433
67770Soil in Lushan MountainChinaCHNAsia

isolation source categories

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

Safety information

risk assessment

  • @ref: 22662
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22662
  • description: Streptomyces lushanensis strain JXJ 0135 16S ribosomal RNA gene, partial sequence
  • accession: KF938656
  • length: 1516
  • database: ena
  • NCBI tax ID: 1434255

Genome sequences

  • @ref: 67770
  • description: Streptomyces lushanensis NRRL B-24994
  • accession: GCA_001700515
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 1434255

GC content

  • @ref: 22662
  • GC-content: 69.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno97.924no
gram-positiveyes89.224no
anaerobicno99.032no
halophileno93.984no
spore-formingyes95.78no
glucose-utilyes89.894no
aerobicyes93.314no
thermophileno97.274yes
motileno94.212no
glucose-fermentno91.478yes

External links

@ref: 22662

culture collection no.: DSM 42121, JCM 19682, KACC 17834, KCTC 29261, JXJ 0135, JCM 19628, NRRL B-24994

straininfo link

  • @ref: 89861
  • straininfo: 396666

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24984801Streptomyces lushanensis sp. nov., a novel actinomycete with anti-cyanobacterial activity.Zhang BH, Cheng J, Chen W, Li HQ, Yang JY, Park DJ, Kim CJ, Shen R, Duan YQ, Li WJJ Antibiot (Tokyo)10.1038/ja.2014.852014Anti-Bacterial Agents/isolation & purification/*pharmacology, Base Composition, China, Cyanobacteria/*drug effects, DNA, Bacterial/*genetics, Fatty Acids/chemistry/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry/isolation & purification, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Spores, Bacterial/chemistry, Streptomyces/*classification/genetics/isolation & purificationEnzymology
Phylogeny30993571Streptomyces corynorhini sp. nov., isolated from Townsend's big-eared bats (Corynorhinus townsendii).Hamm PS, Caimi NA, Northup DE, Valdez EW, Buecher DC, Dunlap CA, Labeda DP, Porras-Alfaro AAntonie Van Leeuwenhoek10.1007/s10482-019-01261-z2019Animals, Bacterial Typing Techniques, Base Composition, Chiroptera/*microbiology, Metabolic Networks and Pathways/genetics, Microscopy, Electron, Scanning, Multilocus Sequence Typing, New Mexico, Nucleic Acid Hybridization, Phylogeny, Spores, Bacterial/ultrastructure, Streptomyces/*classification/genetics/*isolation & purification/physiology, Whole Genome SequencingEnzymology
Phylogeny31674894Streptomyces paludis sp. nov., isolated from an alpine wetland soil.Zhao J, Tang X, Li K, Guo Y, Feng M, Gao JInt J Syst Evol Microbiol10.1099/ijsem.0.0038212020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry, *WetlandsTranscriptome

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
22662Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-42121Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42121)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69347Wink, J.Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweighttps://cdn.dsmz.de/wink/DSM%2042121.pdf
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
89861Reimer, 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-ID396666.1