Strain identifier

BacDive ID: 15386

Type strain: Yes

Species: Streptomyces lucensis

Strain Designation: FI 1163

Strain history: KCC S-0490 <-- IFO 13056 <-- SAJ <-- ISP 5317 <-- Farmitalia FI 1163.

NCBI tax ID(s): 1306176 (strain), 67319 (species)

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General

@ref: 9455

BacDive-ID: 15386

DSM-Number: 40317

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

description: Streptomyces lucensis FI 1163 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

NCBI tax idMatching level
67319species
1306176strain

strain history

@refhistory
9455<- E.B. Shirling, ISP <- B. Camerino, Farmitalia, Milano, FI 1163
67770KCC S-0490 <-- IFO 13056 <-- SAJ <-- ISP 5317 <-- Farmitalia FI 1163.

doi: 10.13145/bacdive15386.20230509.8.1

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 lucensis
  • full scientific name: Streptomyces lucensis Arcamone et al. 1957 (Approved Lists 1980)

@ref: 9455

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces lucensis

full scientific name: Streptomyces lucensis Arcamone et al. 1957

strain designation: FI 1163

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no91.513
69480100positive

multimedia

  • @ref: 9455
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40317.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9455GYM 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
9455ROLLED 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

culture temp

@refgrowthtypetemperaturerange
18581positiveoptimum28mesophilic
9455positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

  • @ref: 9455
  • compound: lucensomycin (a tetraene)

halophily

  • @ref: 18581
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1858117234glucose+
1858122599arabinose+
1858117992sucrose-
1858118222xylose-
1858117268myo-inositol-
1858129864mannitol+
1858128757fructose+
1858126546rhamnose-
1858116634raffinose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
67770135874lucimycinyes
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideyes

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
18581+---+++--++

Isolation, sampling and environmental information

isolation

  • @ref: 9455
  • sample type: soil

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185811German classification
94551Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces lucensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4490D44183120ena1306176
20218Streptomyces lucensis gene for 16S rRNA, partial sequence, strain: NBRC 13056AB1842801434ena1306176
20218Streptomyces lucensis strain NRRL B-5626T 16S ribosomal RNA gene, partial sequenceDQ4425221490ena1306176

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces lucensis JCM 4490GCA_014650035scaffoldncbi1306176
66792Streptomyces lucensis JCM 4490GCA_001315365contigncbi1306176
66792Streptomyces lucensis JCM 44901306176.7wgspatric1306176
66792Streptomyces lucensis JCM 44901306176.6wgspatric1306176
66792Streptomyces lucensis JCM 44902734481984draftimg1306176

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno98.089no
gram-positiveyes90.255no
anaerobicno98.853no
aerobicyes90.915no
halophileno95.464no
spore-formingyes94.764no
thermophileno96.883yes
glucose-utilyes89.249yes
motileno94.154no
glucose-fermentno90.086no

External links

@ref: 9455

culture collection no.: DSM 40317, AS 4.1855, ATCC 17804, ATCC 25468, CBS 701.69, IFO 13056, ISP 5317, JCM 4490, NBRC 13056, RIA 1248, BCRC 15141, CGMCC 4.1855, CGMCC 4.2004, NCIMB 12679, NRRL B-16066, NRRL B-5626, VKM Ac-1737

straininfo link

  • @ref: 84476
  • straininfo: 45604

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21732032Streptomyces shenzhenensis sp. nov., a novel actinomycete isolated from mangrove sediment.Hu H, Lin HP, Xie Q, Li L, Xie XQ, Sun M, Hong KAntonie Van Leeuwenhoek10.1007/s10482-011-9618-62011China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Streptomyces/*classification/genetics/*isolation & purificationGenetics
Phylogeny24515726Streptomyces jiujiangensis sp. nov., isolated from soil in South China.Zhang BH, Cheng J, Li L, Zhang YG, Wang HF, Li HQ, Yang JY, Li WJAntonie Van Leeuwenhoek10.1007/s10482-014-0132-52014Bacterial Typing Techniques, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification/physiologyGenetics
Phylogeny31232681Streptomyces dangxiongensis sp. nov., isolated from soil of Qinghai-Tibet Plateau.Zhang B, Tang S, Yang R, Chen X, Zhang D, Zhang W, Li S, Chen T, Liu G, Dyson PInt J Syst Evol Microbiol10.1099/ijsem.0.0035502019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification, Tibet, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9455Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40317)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40317
18581Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40317.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
84476Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45604.1StrainInfo: A central database for resolving microbial strain identifiers