Strain identifier

BacDive ID: 14940

Type strain: Yes

Species: Streptomyces alboniger

Strain Designation: P-638

Strain history: KCC S-0309 <-- Tanabe Seiyaku Co., Ltd., Japan; MCRL 0369 <-- NRRL B-2403.

NCBI tax ID(s): 132473 (species)

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General

@ref: 9122

BacDive-ID: 14940

DSM-Number: 40043

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

description: Streptomyces alboniger P-638 is a spore-forming bacterium that produces antibiotic compounds and was isolated from forest soil.

NCBI tax id

  • NCBI tax id: 132473
  • Matching level: species

strain history

@refhistory
9122<- E.B. Shirling, ISP <- H. Tresner, P-638
67770KCC S-0309 <-- Tanabe Seiyaku Co., Ltd., Japan; MCRL 0369 <-- NRRL B-2403.

doi: 10.13145/bacdive14940.20240916.9.1

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 alboniger
  • full scientific name: Streptomyces alboniger Porter et al. 1952 (Approved Lists 1980)

@ref: 9122

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces alboniger

full scientific name: Streptomyces alboniger Porter et al. 1952

strain designation: P-638

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 90.192

multimedia

  • @ref: 9122
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40043.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9122ROLLED 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
9122GYM 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

culture temp

@refgrowthtypetemperature
18470positiveoptimum28
9122positivegrowth28
67770positivegrowth28

Physiology and metabolism

oxygen tolerance

  • @ref: 69480
  • oxygen tolerance: aerobe
  • confidence: 91.844

spore formation

  • @ref: 69481
  • spore formation: yes
  • confidence: 100

compound production

@refcompound
9122puromycin
9122paramycin
20216Pamamycin
20216Puromycin

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1847017234glucose+
1847022599arabinose+
1847017992sucrose-
1847018222xylose-
1847017268myo-inositol+
1847029864mannitol+
1847028757fructose-
1847026546rhamnose-
1847016634raffinose-
1847062968cellulose+
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6777027902achromycinyes
67770pamamycinyes
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
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

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18470+++-+++++++++-++++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18470+++++-+--+-

Isolation, sampling and environmental information

isolation

@refsample type
9122forest soil
67770Soil

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_1501.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_118;99_1501&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AY999769
  • Sequence Identity:
  • Total samples: 802
  • soil counts: 664
  • aquatic counts: 35
  • animal counts: 54
  • plant counts: 49

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
91221Risk group (German classification)
184701German classification

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces alboniger 16S ribosomal RNA gene, partial sequenceAY8453491484nuccore132473
20218Streptomyces alboniger strain JCM 4309 16S ribosomal RNA gene, partial sequenceAY9997691419nuccore132473
20218Streptomyces anulatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4563D44233120nuccore1892
9122Streptomyces alboniger gene for 16S rRNA, partial sequence, strain: NBRC 12738AB1841111436nuccore132473

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces alboniger ATCC 12461GCA_008704395completencbi132473
66792Streptomyces alboniger strain ATCC 12461132473.7completepatric132473
66792Streptomyces alboniger ATCC 124612563366686draftimg132473

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes90.192no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.812no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes91.844no
69480spore-formingspore-formingAbility to form endo- or exosporesyes89.449no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno96yes
69480flagellatedmotile2+Ability to perform flagellated movementno88.5no

External links

@ref: 9122

culture collection no.: DSM 40043, ATCC 12461, ATCC 19722, CBS 461.68, IFO 12738, ISP 5043, NBRC 12738, RIA 1003, JCM 4309, BCRC 11606, CECT 3270, CGMCC 4.1695, HAMBI 53, IMET 43691, JCM 4563, KCTC 9014, LMG 8577, MTCC 925, NCIMB 13007, NRRL B-1832, NRRL B-2403, NRRL ISP-5043, VKM Ac-838

straininfo link

  • @ref: 84049
  • straininfo: 6025

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology541261Pamamycin: a new antibiotic and stimulator of aerial mycelia formation.McCann PA, Pogell BMJ Antibiot (Tokyo)10.7164/antibiotics.32.6731979Antifungal Agents/*isolation & purification/pharmacology, Bacteria/drug effects, Bacterial Physiological Phenomena, Chemical Phenomena, Chemistry, Chromatography, Drug Resistance, Microbial, Macrolides, Organic Chemicals, Stimulation, Chemical, Streptomyces/growth & development/*metabolismPhylogeny
Phylogeny3141335Isolation, physico-chemical properties and biological activity of pamamycin-607, an aerial mycelium-inducing substance from Streptomyces alboniger.Kondo S, Yasui K, Natsume M, Katayama M, Marumo SJ Antibiot (Tokyo)10.7164/antibiotics.41.11961988Anti-Bacterial Agents/*isolation & purification, Antifungal Agents/isolation & purification, Ascomycota/drug effects, Bacillus cereus/drug effects, Bacillus subtilis/drug effects, Chemical Phenomena, Chemistry, Physical, Furans/isolation & purificationEnzymology
Enzymology3888783Cloning and expression of a puromycin N-acetyl transferase gene from Streptomyces alboniger in Streptomyces lividans and Escherichia coli.Vara J, Malpartida F, Hopwood DA, Jimenez AGene10.1016/0378-1119(85)90094-01985Acetyltransferases/*genetics, Cloning, Molecular, Enzyme Induction, Escherichia coli/genetics, Gene Expression Regulation, Genes, Bacterial, Lac Operon, RNA, Messenger/biosynthesis, Streptomyces/*genetics, Transcription, Genetic
Enzymology7490225Structure-activity relationship of pamamycins: effects of alkyl substituents.Natsume M, Tazawa J, Yagi K, Abe H, Kondo S, Marumo SJ Antibiot (Tokyo)10.7164/antibiotics.48.11591995Antifungal Agents/*chemistry/isolation & purification/pharmacology, Fermentation, Gas Chromatography-Mass Spectrometry, Macrolides, Microbial Sensitivity Tests, Organic Chemicals, Streptomyces, Structure-Activity RelationshipPhylogeny
Pathogenicity10585652Extracellular serine-proteinases isolated from Streptomyces alboniger: partial characterization and effect of aprotinin on cellular structure.Lopes A, Coelho RR, Meirelles MN, Branquinha MH, Vermelho ABMem Inst Oswaldo Cruz10.1590/s0074-027619990006000101999Aprotinin/*pharmacology, Cell Wall/drug effects, Serine Endopeptidases/*isolation & purification, Serine Proteinase Inhibitors/*pharmacology, Streptomyces/*drug effects/*enzymology/growth & development/ultrastructureEnzymology
Pathogenicity21897037Effect of pamamycin-607 on secondary metabolite production by Streptomyces spp.Hashimoto M, Katsura H, Kato R, Kawaide H, Natsume MBiosci Biotechnol Biochem10.1271/bbb.1102512011Anti-Bacterial Agents/*biosynthesis/isolation & purification, Chromatography, High Pressure Liquid, Macrolides/*pharmacology, *Mycelium/drug effects/physiology, Staphylococcus aureus/drug effects/growth & development, *Streptomyces/drug effects/physiology, Streptomycin/*biosynthesis/isolation & purificationEnzymology
Phylogeny27298302Streptomyces rhizosphaerihabitans sp. nov. and Streptomyces adustus sp. nov., isolated from bamboo forest soil.Lee HJ, Whang KSInt J Syst Evol Microbiol10.1099/ijsem.0.0012362016Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sasa/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
29911201Puromycin A, B and C, cryptic nucleosides identified from Streptomyces alboniger NRRL B-1832 by PPtase-based activation.Yan X, Zhang B, Tian W, Dai Q, Zheng X, Hu K, Liu X, Deng Z, Qu XSynth Syst Biotechnol10.1016/j.synbio.2018.02.0012018

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9122Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40043)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40043
18470Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40043.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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
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
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
84049Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID6025.1StrainInfo: A central database for resolving microbial strain identifiers