Strain identifier

BacDive ID: 15342

Type strain: Yes

Species: Streptomyces lateritius

Strain Designation: 6993

Strain history: KCC S-0389 <-- T. P. Preobrazhenskaya INA 6993.

NCBI tax ID(s): 67313 (species)

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General

@ref: 9359

BacDive-ID: 15342

DSM-Number: 40163

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

description: Streptomyces lateritius 6993 is a spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 67313
  • Matching level: species

strain history

@refhistory
9359<- E.B. Shirling, ISP <- T.P. Preobrazhenskaya, INA
67770KCC S-0389 <-- T. P. Preobrazhenskaya INA 6993.

doi: 10.13145/bacdive15342.20230509.8.1

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 lateritius
  • full scientific name: Streptomyces lateritius (Sveshnikova 1957) Pridham et al. 1958 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Actinomyces lateritius

@ref: 9359

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces lateritius

full scientific name: Streptomyces lateritius (Sveshnikova 1957) Pridham et al. 1958

strain designation: 6993

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no94.508
69480100positive

Culture and growth conditions

culture medium

  • @ref: 9359
  • 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
18550positiveoptimum28mesophilic
9359positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

  • @ref: 9359
  • compound: granaticin complex

halophily

  • @ref: 18550
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1855017234glucose+
1855022599arabinose+
1855017992sucrose-
1855018222xylose-
1855017268myo-inositol-
1855029864mannitol-
1855028757fructose-
1855026546rhamnose-
1855016634raffinose-
1855062968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan+energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleyes
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

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18550-------++-+

Isolation, sampling and environmental information

isolation

  • @ref: 9359
  • sample type: soil

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185501German classification
93591Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces lateritius strain IFO 12788 16S ribosomal RNA gene, partial sequenceAY9998551420ena67313
20218Streptomyces lateritius 16S ribosomal RNA gene, partial sequenceAF4547641426ena67313
20218Streptomyces lateritius gene for 16S ribosomal RNA, partial sequence, strain: JCM 4389D44104120ena67313
20218Streptomyces lateritius 16S rRNA gene, type strain LMG 19372AJ7813261478ena67313
20218Streptomyces lateritius gene for 16S rRNA, partial sequence, strain: NBRC 12788AB1841451480ena67313

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces lateritius JCM 4389GCA_014649715scaffoldncbi67313
66792Streptomyces lateritius strain JCM 438967313.3wgspatric67313

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno96.579no
gram-positiveyes88.467no
anaerobicno98.957no
aerobicyes89.14no
halophileno94.372no
spore-formingyes93.637no
glucose-utilyes90.039yes
thermophileno97.473no
motileno94.027no
glucose-fermentno87.92no

External links

@ref: 9359

culture collection no.: DSM 40163, ATCC 19776, ATCC 19913, CBS 514.68, IFO 12788, INA 6993, ISP 5163, NBRC 12788, RIA 1056, JCM 4389, BCRC 13774, CBS 262.66, CGMCC 4.1427, KCTC 19962, NRRL B-5349, NRRL B-5423, VKM Ac-1849, VKM Ac-577

straininfo link

  • @ref: 84435
  • straininfo: 13368

literature

  • topic: Phylogeny
  • Pubmed-ID: 3372358
  • title: New quinone antibiotics of the granaticin type, isolated from Streptomyces lateritius. II. Structure determination.
  • authors: Gilpin ML, Box SJ, Elson AL
  • journal: J Antibiot (Tokyo)
  • DOI: 10.7164/antibiotics.41.512
  • year: 1988
  • mesh: *Anti-Bacterial Agents, Chemical Phenomena, Chemistry, Naphthoquinones, *Quinones

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9359Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40163)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40163
18550Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40163.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
84435Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13368.1StrainInfo: A central database for resolving microbial strain identifiers