Strain identifier

BacDive ID: 14936

Type strain: Yes

Species: Streptomyces albogriseolus

Strain Designation: 7-A

Strain history: CIP <- 1995, JCM <- KCC <- T. Yamaguchi <- ATU <- T. Pridham: strain 7-A

NCBI tax ID(s): 1887 (species)

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General

@ref: 9208

BacDive-ID: 14936

DSM-Number: 40003

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

description: Streptomyces albogriseolus 7-A is a facultative anaerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 1887
  • Matching level: species

strain history

@refhistory
9208<- E.B. Shirling, ISP <- NRRL
67770KCC S-0004 <-- T. Yamaguchi (IAM 0031) <-- ATU <-- NRRL B-1305 <-- W. C. Haynes 7-A.
116194CIP <- 1995, JCM <- KCC <- T. Yamaguchi <- ATU <- T. Pridham: strain 7-A

doi: 10.13145/bacdive14936.20230509.8.1

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 albogriseolus
  • full scientific name: Streptomyces albogriseolus Benedict et al. 1954 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Actinomyces viridodiastaticus
    20215Streptomyces viridodiastaticus

@ref: 9208

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces albogriseolus

full scientific name: Streptomyces albogriseolus Benedict et al. 1954

strain designation: 7-A

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no91.061
69480100positive
116194positiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19383Yellow/brown10-14 daysISP 2
19383Yellow/brown10-14 daysISP 3
19383Yellow/brown10-14 daysISP 4
19383Yellow/brown10-14 daysISP 5
19383Yellow/brown10-14 daysISP 6
19383Yellow brown10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19383yesAerial MyceliumGreyISP 2
19383yesAerial MyceliumGreyISP 3
19383yesAerial MyceliumGreyISP 4
19383yesAerial MyceliumWhiteISP 5
19383noISP 6
19383noISP 7

multimedia

  • @ref: 9208
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40003.jpg
  • caption: Medium 987 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9208GYM 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
19383ISP 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
19383ISP 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:
19383ISP 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
19383ISP 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
19383ISP 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
19383ISP 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
38500MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulumyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
9208STARCH - 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
116194CIP Medium 236yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=236
116194CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
19383positiveoptimum30mesophilic
9208positivegrowth28mesophilic
38500positivegrowth30mesophilic
67770positivegrowth28mesophilic
116194positivegrowth30-37mesophilic
116194nogrowth10psychrophilic
116194nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116194
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

  • @ref: 9208
  • compound: neomycin

halophily

  • @ref: 19383
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine+hydrolysis
1161944853esculin+hydrolysis
11619417632nitrate+reduction
11619416301nitrite-reduction
116194132112sodium thiosulfate+builds gas from

metabolite production

@refChebi-IDmetaboliteproduction
677707507neomycinyes
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
11619435581indoleno

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
116194beta-galactosidase-3.2.1.23
116194alcohol dehydrogenase-1.1.1.1
116194gelatinase+
116194amylase+
116194DNase+
116194catalase+1.11.1.6
116194tween esterase+
116194lecithinase-
116194lysine decarboxylase-4.1.1.18
116194ornithine decarboxylase-4.1.1.17
116194urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
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
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116194-+++-+----++-+-++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19383++--+-+--++

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116194+++++----+++++-+++++++++-+-----+++---------------++--+-----+++----------++---+-++-----+-++++-++-++-

Isolation, sampling and environmental information

isolation

@refsample type
9208soil
67770Soil
116194Environment, Soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_357.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_97;98_106;99_357&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AY177662
  • Sequence Identity:
  • Total samples: 5402
  • soil counts: 2201
  • aquatic counts: 991
  • animal counts: 1970
  • plant counts: 240

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
92081Risk group (German classification)
193831Risk group (German classification)
1161941Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces albogriseolus partial 16S rRNA gene, type strain NRRL B-1305TAJ4948651519ena1887
20218Streptomyces sp. 40003 16S ribosomal RNA gene, partial sequenceAY1776621447ena1887
20218Streptomyces albogriseolus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4616D44267121ena1887
20218Streptomyces albogriseolus gene for 16S rRNA, partial sequence, strain: NBRC 12834AB1841801436ena1887
20218Streptomyces albogriseolus gene for 16S rRNA, partial sequence, strain: NBRC 3413AB1847671478ena1887
20218Streptomyces albogriseolus gene for 16S rRNA, partial sequence, strain: NBRC 3709AB1847801478ena1887
9208Streptomyces albogriseolus strain DSM 40003 16S ribosomal RNA gene, partial sequenceMH423861704ena1887

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces albogriseolus strain JCM 46161887.10wgspatric1887
67770Streptomyces albogriseolus JCM 4616GCA_014650475scaffoldncbi1887

GC content

  • @ref: 67770
  • GC-content: 72.3
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno93.364no
gram-positiveyes90.245no
anaerobicno99.032no
aerobicyes92.169no
halophileno89.566no
spore-formingyes96.657no
glucose-utilyes89.488no
flagellatedno97.914no
thermophileno97.958yes
glucose-fermentno88.712no

External links

@ref: 9208

culture collection no.: DSM 40003, ATCC 23875, CBS 614.68, ETH 16834, IFO 12834, ISP 5003, JCM 4004, JCM 4616, NBRC 12834, NRRL B-1305, RIA 1101, BCRC 12230, CGMCC 4.0565, CIP 104424, CIP 104428, HUT 6045, IFO 3413, IFO 3709, KCTC 9675, MTCC 2524, NBRC 3413, NBRC 3709, NCIMB 9604, VKM Ac-1200, VTT E-01260, KCC S-0004

straininfo link

  • @ref: 84045
  • straininfo: 389362

literature

  • topic: Phylogeny
  • Pubmed-ID: 26293487
  • title: Antimicrobial activities of actinomycetes isolated from unexplored regions of Sundarbans mangrove ecosystem.
  • authors: Sengupta S, Pramanik A, Ghosh A, Bhattacharyya M
  • journal: BMC Microbiol
  • DOI: 10.1186/s12866-015-0495-4
  • year: 2015
  • mesh: Actinobacteria/classification/genetics/*isolation & purification/*metabolism, Anti-Infective Agents/isolation & purification/*metabolism/pharmacology, Bacteria/drug effects, Bacterial Typing Techniques, Bangladesh, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Fungi/drug effects, Gas Chromatography-Mass Spectrometry, India, Inhibitory Concentration 50, Microbial Sensitivity Tests, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9208Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40003)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40003
19383Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40003.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
38500Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16331
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
68382Automatically annotated from API zym
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
84045Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389362.1StrainInfo: A central database for resolving microbial strain identifiers
116194Curators of the CIPCollection of Institut Pasteur (CIP 104424)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104424