Strain identifier

BacDive ID: 14892

Type strain: No

Species: Streptomyces albidoflavus

Strain history: KCC S-0357 <-- IFO 12854 <-- SAJ <-- ISP 5233 <-- CBS R. Müller's strain.

NCBI tax ID(s): 1886 (species), 1902 (species)

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General

@ref: 9394

BacDive-ID: 14892

DSM-Number: 40233

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

description: Streptomyces albidoflavus DSM 40233 is an aerobe, spore-forming, mesophilic bacterium of the family Streptomycetaceae.

NCBI tax id

NCBI tax idMatching level
1886species
1902species

strain history

@refhistory
9394<- E.B. Shirling, ISP <- CBS <- R. Müller
67770KCC S-0357 <-- IFO 12854 <-- SAJ <-- ISP 5233 <-- CBS R. Müller's strain.

doi: 10.13145/bacdive14892.20230509.8.1

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 albidoflavus
  • full scientific name: Streptomyces albidoflavus (Rossi Doria 1891) Waksman and Henrici 1948 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Streptomyces griseus subsp. solvifaciens
    20215Streptomyces limosus
    20215Actinomyces sampsonii
    20215Actinomyces globisporus subsp. caucasicus
    20215Cladothrix odorifera
    20215Streptomyces felleus
    20215Streptomyces sampsonii
    20215Streptomyces odorifer
    20215Streptomyces coelicolor
    20215Streptothrix coelicolor
    20215Streptotrix albidoflava
    20215Streptomyces globisporus subsp. caucasicus
    20215Streptomyces canescens
    20215Streptomyces champavatii

@ref: 9394

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces albidoflavus

full scientific name: Streptomyces albidoflavus (Rossi Doria 1891) Waksman and Henrici 1948 emend. Nouioui et al. 2018

type strain: no

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

multimedia

  • @ref: 9394
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40233.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9394GYM 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
9394ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
18565positiveoptimum30mesophilic
9394positivegrowth28mesophilic
45397positivegrowth26mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 45397
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9394amylocyanine pigment
9394heptaene
9394indochrom

halophily

  • @ref: 18565
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 7.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1856517234glucose+
1856522599arabinose+
1856517992sucrose-
1856518222xylose+/-
1856517268myo-inositol-
1856529864mannitol+
1856528757fructose+
1856526546rhamnose-
1856516634raffinose-
1856562968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
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
18565----+-----+

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_720.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_287;98_384;99_720&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: Z76678
  • Sequence Identity:
  • Total samples: 129
  • soil counts: 39
  • aquatic counts: 5
  • animal counts: 85

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185651German classification
93941Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces coelicolor strain DSM40233 16S-23S intergenic spacer region, partial sequenceAF363491304ena1902
20218Streptomyces coelicolor gene for 16S ribosomal RNA, partial sequence, strain: JCM 4357D44075120ena1902
20218Streptomyces coelicolor strain DSM 40233 16S ribosomal RNA gene, partial sequenceFJ4060471396ena1902
20218Streptomyces coelicolor strain DSM 40233 16S ribosomal RNA gene, partial sequenceGU383131781ena1902
20218S.coelicolor (DSM 40233T) 16S rRNA geneZ766781476ena1902
9394Streptomyces coelicolor gene for 16S rRNA, partial sequence, strain: NBRC 12854AB1841961476ena1902

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces albidoflavus NBRC 12854GCA_020521315contigncbi1886
66792Streptomyces albidoflavus strain DSM 402331886.40wgspatric1886
67770Streptomyces albidoflavus DSM 40233GCA_004195775contigncbi1886
66792Streptomyces albidoflavus strain NBRC 128541886.115wgspatric1886
66792Streptomyces albidoflavus strain NBRC 128541886.102wgspatric1886
66792Streptomyces albidoflavus strain NBRC 128541886.114wgspatric1886

GC content

@refGC-contentmethod
6777072.8Buoyant density centrifugation (BD)
6777073thermal denaturation, midpoint method (Tm)
6777073fluorimetric

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno95.112no
gram-positiveyes92.708no
anaerobicno99.299no
aerobicyes94.14yes
halophileno88.869no
spore-formingyes95.501no
glucose-utilyes88.097no
flagellatedno97.649no
thermophileno97.766yes
glucose-fermentno85.046no

External links

@ref: 9394

culture collection no.: DSM 40233, ATCC 23899, CBS 210.27, CBS 795.68, CUB 100, IFO 12854, ISP 5233, JCM 4357, NBRC 12854, RIA 1173, CCUG 11110, BCRC 12067, CGMCC 4.1658, KACC 20100, LMG 8571, NCAIM B.02135, NCIMB 9798, NRRL B-2812, PCM 2324, VKM Ac-738, VTT E-001625

straininfo link

  • @ref: 84001
  • straininfo: 265435

literature

  • topic: Phylogeny
  • Pubmed-ID: 32756615
  • title: A sensitive pH indicator-based spectrophotometric assay for PHB depolymerase activity on microtiter plates.
  • authors: Camacho-Ruiz MA, Muller-Santos M, Hernandez-Mancillas XD, Armenta-Perez VP, Zamora-Gonzalez E, Rodriguez JA
  • journal: Anal Methods
  • DOI: 10.1039/d0ay00840k
  • year: 2020
  • mesh: Amino Acid Sequence, Burkholderiaceae, Hydrogen-Ion Concentration, *Hydroxybutyrates, *Polyesters, RNA, Ribosomal, 16S, Streptomyces

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9394Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40233)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40233
18565Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40233.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
45397Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 11110)https://www.ccug.se/strain?id=11110
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
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
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
84001Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID265435.1StrainInfo: A central database for resolving microbial strain identifiers