Strain identifier

BacDive ID: 15381

Type strain: Yes

Species: Streptomyces longispororuber

Strain history: KCC S-0784 <-- IFO 13488 <-- SAJ <-- ISP 5599 <-- INA 11668/54.

NCBI tax ID(s): 68230 (species)

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General

@ref: 9675

BacDive-ID: 15381

DSM-Number: 40599

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

description: Streptomyces longispororuber DSM 40599 is a spore-forming, mesophilic bacterium of the family Streptomycetaceae.

NCBI tax id

  • NCBI tax id: 68230
  • Matching level: species

strain history

@refhistory
9675<- E.B. Shirling, ISP <- T.P. Preobrazhenskaya, INA
67770KCC S-0784 <-- IFO 13488 <-- SAJ <-- ISP 5599 <-- INA 11668/54.

doi: 10.13145/bacdive15381.20230509.8.1

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 longispororuber
  • full scientific name: Streptomyces longispororuber Waksman 1953 (Approved Lists 1980)

@ref: 9675

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces longispororuber

full scientific name: Streptomyces longispororuber Waksman 1953

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.016
69480100positive

colony morphology

@refincubation periodmedium used
1948410-14 daysISP 2
1948410-14 daysISP 3
1948410-14 daysISP 4
1948410-14 daysISP 5
1948410-14 daysISP 6
1948410-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19484noISP 2
19484noISP 3
19484noISP 4
19484noISP 5
19484noISP 6
19484noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9675GYM 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
19484ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19484ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19484ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19484ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19484ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19484ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
9675ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
9675STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf

culture temp

@refgrowthtypetemperaturerange
19484positiveoptimum30mesophilic
9675positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

  • @ref: 9675
  • compound: undecylprodigiosine

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
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
19484+++++-+--++

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
96751Risk group (German classification)
194841Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces longispororuber gene for 16S ribosomal RNA, partial sequence, strain: JCM 4784D44359121ena68230
20218Streptomyces longispororuber gene for 16S rRNA, partial sequence, strain: NBRC 13488AB1844401429ena68230
20218Streptomyces sp. NTRHn8 gene for 16S ribosomal RNA, partial sequenceAB9205951286ena1571731
20218Streptomyces longispororuber strain NRRL B-3736T 16S ribosomal RNA gene, partial sequenceDQ4425211578ena68230

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces longispororuber JCM 4784GCA_014656095scaffoldncbi68230
66792Streptomyces longispororuber strain JCM 478468230.3wgspatric68230

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno93.567no
flagellatedno97.928no
gram-positiveyes90.891no
anaerobicno99.491no
aerobicyes90.592no
halophileno93.046no
spore-formingyes96.061no
glucose-utilyes89.366no
thermophileno98.557yes
glucose-fermentno89.712no

External links

@ref: 9675

culture collection no.: DSM 40599, ATCC 27443, CBS 789.72, ETH 28545, IFO 13488, INA 11668/54, ISP 5599, KCC S-0784, NBRC 13488, RIA 1449, JCM 4784, BCRC 16212, NCIMB 9629, NRRL B-3736, NRRL B-5761, PCM 2396, VKM Ac-1735

straininfo link

  • @ref: 84471
  • straininfo: 389342

literature

topicPubmed-IDtitleauthorsjournalDOIyearmesh
Phylogeny16458865Cell wall teichoic acids of streptomycetes of the phenetic cluster 'Streptomyces fulvissimus'.Shashkov AS, Streshinskaya GM, Senchenkova SN, Kozlova YI, Alferova IV, Terekhova LP, Evtushenko LICarbohydr Res10.1016/j.carres.2006.01.0202006Carbohydrate Conformation, Cell Wall/*chemistry, Nuclear Magnetic Resonance, Biomolecular, Streptomyces/*chemistry/classification/*cytology, Teichoic Acids/*chemistry
Phylogeny33359358Cell wall distraction and biofilm inhibition of marine Streptomyces derived angucycline in methicillin resistant Staphylococcus aureus.Jabila Mary TR, Kannan RR, Iniyan AM, Ramachandran D, Prakash Vincent SGMicrob Pathog10.1016/j.micpath.2020.1047122020Animals, Anti-Bacterial Agents/pharmacology, Biofilms, Cell Wall, India, *Methicillin-Resistant Staphylococcus aureus, Microbial Sensitivity Tests, Phylogeny, RNA, Ribosomal, 16S/genetics, Staphylococcus aureus, *Streptomyces/genetics, Zebrafish

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9675Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40599)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40599
19484Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40599.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
84471Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389342.1StrainInfo: A central database for resolving microbial strain identifiers