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Strain identifier

BacDive ID: 14974

Type strain: Yes

Species: Streptomyces ambofaciens

Strain history: KCC S-0204 <-- J. Nüesch.

NCBI tax ID(s): 278992 (strain), 1889 (species)

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@ref: 9237

BacDive-ID: 14974

DSM-Number: 40053

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, antibiotic compound production

description: Streptomyces ambofaciens DSM 40053 is a mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

NCBI tax idMatching level

strain history

doi: 10.13145/bacdive14974.20221219.7.1

Name and taxonomic classification


  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptomycetales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces ambofaciens
  • full scientific name: Streptomyces ambofaciens Pinnert-Sindico 1954 (Approved Lists 1980)

@ref: 9237

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces ambofaciens

full scientific name: Streptomyces ambofaciens Pinnert-Sindico 1954 emend. Nouioui et al. 2018

type strain: yes



  • @ref: 9237
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40053.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

9237GYM 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
9237ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp


Physiology and metabolism

compound production

9237spiramycin I
9237spiramycin II
9237spiramycin III
9237spiramycin netropsin
9237spiramycin I, II, III

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836827897tryptophan-energy source

metabolite production

68368hydrogen sulfideno16136

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test


68382acid phosphatase+
68382cystine arylamidase-
68382valine arylamidase+
68382leucine arylamidase+
68382lipase (C 14)+
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+
68368tryptophan deaminase-
68368ornithine decarboxylase+
68368lysine decarboxylase+
68368arginine dihydrolase+

API zym

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



Isolation, sampling and environmental information


@refsample typecountryorigin.countrycontinentgeographic location
67770SoilFranceFRAEuropePéronne, Somme

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184741German classification
92371Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces ambofaciens strain DSM40053 16S-23S intergenic spacer region, partial sequenceAF363489285ena1889
20218Streptomyces ambofaciens ATCC23877 16S-23S ribosomal RNA A intergenic spacer, complete sequenceAY027681306ena1889
20218Streptomyces ambofaciens ATCC23877 16S-23S ribosomal RNA B intergenic spacer, complete sequenceAY027682303ena1889
20218Streptomyces ambofaciens ATCC23877 16S-23S ribosomal RNA C intergenic spacer, complete sequenceAY027683299ena1889
20218Streptomyces ambofaciens ATCC23877 16S-23S ribosomal RNA D intergenic spacer, complete sequenceAY027684303ena1889
20218Streptomyces ambofaciens ATCC23877 16S-23S ribosomal RNA E intergenic spacer, complete sequenceAY027685301ena1889
20218Streptomyces ambofaciens ATCC23877 16S-23S ribosomal RNA F intergenic spacer, complete sequenceAY027686300ena1889
20218Streptomyces ambofaciens rrnD gene cluster encoding 16S, 23S and 5S ribosomal RNAsM272456379ena1889
20218Streptomyces ambofaciens gene for 16S ribosomal RNA, partial sequence, strain: JCM 4618D44269121ena1889
20218Streptomyces ambofaciens gene for 16S rRNA, partial sequence, strain: NBRC 12651AB1841071469ena1889
20218Streptomyces ambofaciens gene for 16S rRNA, partial sequence, strain: NBRC 12836AB1841821464ena1889
9237Streptomyces ambofaciens ATCC 23877, complete genomeCP0123828303940ena278992

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces ambofaciens ATCC 23877 ATCC 23877GCA_001267885completencbi278992
66792Streptomyces ambofaciens ATCC 23877278992.20plasmidpatric278992
66792Streptomyces ambofaciens ATCC 23877278992.5completepatric278992
66792Streptomyces ambofaciens ATCC 238772873063797completeimg278992
67770Streptomyces ambofaciens ATCC 23877, complete genomeCP012382ena278992

GC content

  • @ref: 67770
  • GC-content: 72.2
  • method: genome sequence analysis

External links

@ref: 9237

culture collection no.: DSM 40053, ATCC 23877, CBS 616.68, IFO 12836, ISP 5053, JCM 4204, NBRC 12836, RIA 1115, BCRC 11857, CECT 3101, CGMCC 4.1528, JCM 4618, KCTC 9111, NBIMCC 1863, NRRL B-2516

straininfo link



Pathogenicity7685475Ultraviolet light, mitomycin C and nitrous acid induce genetic instability in Streptomyces ambofaciens ATCC23877.Volff JN, Vandewiele D, Simonet JM, Decaris BMutat Res10.1016/0027-5107(93)90008-41993Gene Rearrangement, *Genes, Bacterial/drug effects/radiation effects, Mitomycin/*pharmacology, *Mutation, Nitrous Acid/*pharmacology, SOS Response, Genetics, Streptomyces/drug effects/*genetics/radiation effects, *Ultraviolet Rays
Pathogenicity8277240Stimulation of genetic instability in Streptomyces ambofaciens ATCC 23877 by antibiotics that interact with DNA gyrase.Volff JN, Vandewiele D, Simonet JM, Decaris BJ Gen Microbiol10.1099/00221287-139-11-25511993Anti-Bacterial Agents/*pharmacology, DNA Topoisomerases, Type II/*drug effects, DNA, Bacterial/*drug effects/genetics, Mutation, Phenotype, SOS Response, Genetics/drug effects, Streptomyces/*drug effects/geneticsPhenotype
Phenotype9748511Generation of a genetic polymorphism in clonal populations of the bacterium Streptomyces ambofaciens: characterization of different mutator states.Martin P, Dary A, Decaris BMutat Res10.1016/s0027-5107(98)00156-01998Chromosomes, Bacterial, DNA Repair, Mutation/*genetics, Phenotype, Pigmentation/genetics, *Polymorphism, Genetic, Restriction Mapping, Spores, Bacterial, Streptomyces/*genetics, Ultraviolet Rays
Genetics10592319Intraclonal polymorphism in the bacterium Streptomyces ambofaciens ATCC23877: evidence for a high degree of heterogeneity of the wild type clones.Martin P, Dary A, Andre A, Fischer G, Leblond P, Decaris BMutat Res10.1016/s0027-5107(99)00149-91999Chromosomes, Bacterial/genetics, Cosmids, DNA Probes/genetics, DNA, Recombinant, *Genetic Heterogeneity, Genetic Markers, Pigments, Biological/deficiency/genetics, Polymorphism, Genetic/*genetics, Sequence Deletion, Streptomyces/*cytology/*genetics/growth & development
Enzymology12677359Spontaneous chromosome circularization and amplification of a new amplifiable unit of DNA belonging to the terminal inverted repeats in Streptomyces ambofaciens ATCC 23877.Catakli S, Andrieux A, Leblond P, Decaris B, Dary AArch Microbiol10.1007/s00203-003-0534-72003Bacterial Proteins/metabolism, Chromosome Deletion, Chromosomes, Bacterial/*chemistry/*genetics, DNA Probes, DNA, Bacterial/*chemistry/genetics/metabolism, Electrophoresis, Gel, Pulsed-Field, Models, Genetic, Mutation, Pigments, Biological/chemistry, Ring Chromosomes, Streptomyces/*genetics/isolation & purification, Terminal Repeat SequencesMetabolism
Metabolism15774892Involvement of AlpV, a new member of the Streptomyces antibiotic regulatory protein family, in regulation of the duplicated type II polyketide synthase alp gene cluster in Streptomyces ambofaciens.Aigle B, Pang X, Decaris B, Leblond PJ Bacteriol10.1128/JB.187.7.2491-2500.20052005Amino Acid Sequence, Anthraquinones/metabolism, Anti-Bacterial Agents/biosynthesis, Gene Expression Regulation, Bacterial/*physiology, *Genes, Regulator, Molecular Sequence Data, *Multigene Family, Mutation, Open Reading Frames, Pigments, Biological/biosynthesis, Polyketide Synthases/*genetics, Sequence Alignment, Sequence Homology, Amino Acid, Streptomyces/genetics/*metabolism, Transcription, GeneticGenetics
Metabolism15808936Sigma factor WhiG and its regulation constitute a target of a mutational phenomenon occurring during aerial mycelium growth in Streptomyces ambofaciens ATCC23877.Catakli S, Andrieux A, Decaris B, Dary ARes Microbiol10.1016/j.resmic.2004.12.0012005Amino Acid Sequence, Bacterial Proteins/biosynthesis/genetics/metabolism, Base Sequence, Conjugation, Genetic, DNA-Binding Proteins/genetics, Electrophoresis, Gel, Pulsed-Field, Gene Expression Regulation, Developmental, Genetic Complementation Test, Microscopy, Electron, Scanning, Molecular Sequence Data, *Mutation, Mycelium/genetics/growth & development/metabolism, RNA, Bacterial/chemistry/genetics, Reverse Transcriptase Polymerase Chain Reaction, Sequence Alignment, Sigma Factor/biosynthesis/*genetics/metabolism, Streptomyces/*genetics/growth & development/metabolismEnzymology
Genetics16388829Genetic instability of whiG gene during the aerial mycelium development of Streptomyces ambofaciens ATCC23877 under different conditions of nitrogen limitations.Genay M, Catakli S, Kleinclauss A, Andrieux A, Decaris B, Dary AMutat Res10.1016/j.mrfmmm.2005.10.0052006Amino Acid Sequence, Amino Acids/metabolism, Bacterial Proteins/chemistry, Base Sequence, Colony Count, Microbial, Genes, Bacterial/*genetics, Genome, Bacterial/genetics, Genomic Instability/*genetics, Molecular Sequence Data, Mutation/genetics, Mycelium/*growth & development, Nitrogen/*deficiency, Polymorphism, Single-Stranded Conformational, Sequence Alignment, Spores, Bacterial/metabolism, Streptomyces/classification/*genetics/*growth & development/metabolismMetabolism
Genetics16952952Intraspecific variability of the terminal inverted repeats of the linear chromosome of Streptomyces ambofaciens.Choulet F, Gallois A, Aigle B, Mangenot S, Gerbaud C, Truong C, Francou FX, Borges F, Fourrier C, Guerineau M, Decaris B, Barbe V, Pernodet JL, Leblond PJ Bacteriol10.1128/JB.00734-062006Base Composition, Chromosomes, Bacterial/*genetics, Conjugation, Genetic, DNA, Bacterial/*genetics, DNA, Complementary, Gene Library, *Genetic Variation, Molecular Sequence Data, Open Reading Frames, Plasmids/genetics, Recombination, Genetic, Sequence Analysis, DNA, Streptomyces/*genetics, *Synteny, Terminal Repeat Sequences/*geneticsTranscriptome
Genetics16956972Evolution of the terminal regions of the Streptomyces linear chromosome.Choulet F, Aigle B, Gallois A, Mangenot S, Gerbaud C, Truong C, Francou FX, Fourrier C, Guerineau M, Decaris B, Barbe V, Pernodet JL, Leblond PMol Biol Evol10.1093/molbev/msl1082006Chromosome Structures, *Chromosomes, Bacterial/chemistry, Conserved Sequence, *Evolution, Molecular, Genetic Drift, Genetic Variation, Genome, Bacterial, Streptomyces/*genetics, Streptomyces coelicolor/genetics, Synteny
Metabolism17074905Multiple biosynthetic and uptake systems mediate siderophore-dependent iron acquisition in Streptomyces coelicolor A3(2) and Streptomyces ambofaciens ATCC 23877.Barona-Gomez F, Lautru S, Francou FX, Leblond P, Pernodet JL, Challis GLMicrobiology (Reading)10.1099/mic.0.29161-02006Deferoxamine/chemistry/metabolism, *Genes, Bacterial, Iron/*metabolism, *Multigene Family, Oligopeptides/genetics/metabolism, Siderophores/*genetics/metabolism, Streptomyces/*genetics/*metabolism, Streptomyces coelicolor/genetics/metabolism
Metabolism18492804Identification and functional analysis of genes controlling biosynthesis of 2-methylisoborneol.Komatsu M, Tsuda M, Omura S, Oikawa H, Ikeda HProc Natl Acad Sci U S A10.1073/pnas.08023121052008Actinobacteria/*enzymology/genetics, Amino Acid Sequence, Camphanes/*metabolism, Conserved Sequence, Cyclization, Diphosphates/metabolism, Diterpenes/metabolism, Escherichia coli/genetics, Genes, Bacterial, Intramolecular Lyases/classification/genetics/*metabolism, Markov Chains, Methylation, Methyltransferases/genetics/*metabolism, Molecular Sequence Data, Phylogeny, Recombinant Proteins/genetics/metabolism, S-Adenosylmethionine/metabolism, Sequence Alignment, Sequence Analysis, Protein, Terpenes/metabolismPhylogeny
Metabolism20348259Biochemical characterization of a novel indole prenyltransferase from Streptomyces sp. SN-593.Takahashi S, Takagi H, Toyoda A, Uramoto M, Nogawa T, Ueki M, Sakaki Y, Osada HJ Bacteriol10.1128/JB.01557-092010Amino Acid Sequence, Bacterial Proteins/chemistry/classification/genetics/*metabolism, Dimethylallyltranstransferase/chemistry/classification/genetics/*metabolism, Hemiterpenes/metabolism, Indoles/*metabolism, Kinetics, Magnetic Resonance Spectroscopy, Mass Spectrometry, Molecular Sequence Data, Molecular Structure, Organophosphorus Compounds/metabolism, Phylogeny, Sequence Homology, Amino Acid, Streptomyces/*enzymology, Substrate SpecificityPhylogeny
Pathogenicity21444795Identification of a bioactive 51-membered macrolide complex by activation of a silent polyketide synthase in Streptomyces ambofaciens.Laureti L, Song L, Huang S, Corre C, Leblond P, Challis GL, Aigle BProc Natl Acad Sci U S A10.1073/pnas.10190771082011Cell Line, Tumor, Cell Proliferation/drug effects, Gene Silencing, Humans, Macrolides/*chemistry/metabolism/*pharmacology, Multigene Family, Polyketide Synthases/*genetics, Streptomyces/enzymology/*genetics, Transcriptional ActivationMetabolism
Metabolism24258629Genome mining of Streptomyces ambofaciens.Aigle B, Lautru S, Spiteller D, Dickschat JS, Challis GL, Leblond P, Pernodet JLJ Ind Microbiol Biotechnol10.1007/s10295-013-1379-y2013Anti-Bacterial Agents/biosynthesis, Biological Products/chemistry/*metabolism, Biosynthetic Pathways/genetics, *Genome, Bacterial, Secondary Metabolism/genetics, Streptomyces/*genetics/metabolismGenetics
Metabolism24498152A single Sfp-type phosphopantetheinyl transferase plays a major role in the biosynthesis of PKS and NRPS derived metabolites in Streptomyces ambofaciens ATCC23877.Bunet R, Riclea R, Laureti L, Hotel L, Paris C, Girardet JM, Spiteller D, Dickschat JS, Leblond P, Aigle BPLoS One10.1371/journal.pone.00876072014Antimycin A/analogs & derivatives/biosynthesis, *Bacterial Proteins/genetics/metabolism, *Genes, Bacterial, Netropsin/metabolism, Oligopeptides/biosynthesis/genetics, *Peptide Synthases/genetics/metabolism, *Polyketide Synthases/genetics/metabolism, *Streptomyces/enzymology/genetics, *Transferases (Other Substituted Phosphate Groups)/genetics/metabolismEnzymology
Metabolism25724953Pseudomonas fluorescens pirates both ferrioxamine and ferricoelichelin siderophores from Streptomyces ambofaciens.Galet J, Deveau A, Hotel L, Frey-Klett P, Leblond P, Aigle BAppl Environ Microbiol10.1128/AEM.03520-142015Culture Media/chemistry, Deferoxamine/*metabolism, Ferric Compounds/*metabolism, *Microbial Interactions, Oligopeptides/*metabolism, Pseudomonas fluorescens/growth & development/*metabolism, Siderophores/*metabolism, Streptomyces/growth & development/*metabolismCultivation
Genetics26410452Complete genome sequence of Streptomyces ambofaciens ATCC 23877, the spiramycin producer.Thibessard A, Haas D, Gerbaud C, Aigle B, Lautru S, Pernodet JL, Leblond PJ Biotechnol10.1016/j.jbiotec.2015.09.0202015Chromosomes, Bacterial/genetics, Evolution, Molecular, Genome, Bacterial/*genetics, Plasmids/genetics, Soil Microbiology, Spiramycin/*metabolism, Streptomyces/*genetics/*metabolismMetabolism
Metabolism27199346Role of secondary metabolites in the interaction between Pseudomonas fluorescens and soil microorganisms under iron-limited conditions.Deveau A, Gross H, Palin B, Mehnaz S, Schnepf M, Leblond P, Dorrestein PC, Aigle BFEMS Microbiol Ecol10.1093/femsec/fiw1072016Iron/*metabolism, Mycorrhizae/metabolism, Oligopeptides, Phenols, Pseudomonas fluorescens/growth & development/*metabolism/physiology, Siderophores/metabolism, Soil, *Soil Microbiology, Streptomyces/metabolism, Thiazoles
Metabolism27671711Degradation of carbonyl sulfide by Actinomycetes and detection of clade D of beta-class carbonic anhydrase.Ogawa T, Kato H, Higashide M, Nishimiya M, Katayama YFEMS Microbiol Lett10.1093/femsle/fnw2232016
27965636Multiple and Variable NHEJ-Like Genes Are Involved in Resistance to DNA Damage in Streptomyces ambofaciens.Hoff G, Bertrand C, Zhang L, Piotrowski E, Chipot L, Bontemps C, Confalonieri F, McGovern S, Lecointe F, Thibessard A, Leblond PFront Microbiol10.3389/fmicb.2016.019012016
Metabolism29944936Pirin: A novel redox-sensitive modulator of primary and secondary metabolism in Streptomyces.Tala A, Damiano F, Gallo G, Pinatel E, Calcagnile M, Testini M, Fico D, Rizzo D, Sutera A, Renzone G, Scaloni A, De Bellis G, Siculella L, De Benedetto GE, Puglia AM, Peano C, Alifano PMetab Eng10.1016/j.ymben.2018.06.0082018*Bacterial Proteins/genetics/metabolism, *Iron-Binding Proteins/genetics/metabolism, *Metabolic Engineering, Oxidation-Reduction, Polyketides/metabolism, *Streptomyces/genetics/metabolism
Pathogenicity30221219Stimulatory Effects of Methyl-beta-cyclodextrin on Spiramycin Production and Physical-Chemical Characterization of Nonhost@Guest Complexes.Calcagnile M, Bettini S, Damiano F, Tala A, Tredici SM, Pagano R, Di Salvo M, Siculella L, Fico D, De Benedetto GE, Valli L, Alifano PACS Omega10.1021/acsomega.7b017662018Biotechnology
32624939An aminoacylase activity from Streptomyces ambofaciens catalyzes the acylation of lysine on alpha-position and peptides on N-terminal position.Dettori L, Ferrari F, Framboisier X, Paris C, Guiavarc'h Y, Hotel L, Aymes A, Leblond P, Humeau C, Kapel R, Chevalot I, Aigle B, Delaunay SEng Life Sci10.1002/elsc.2017001732018
Metabolism34586912Transcriptional Regulation of Congocidine (Netropsin) Biosynthesis and Resistance.Vingadassalon A, Lorieux F, Juguet M, Noel A, Santos LDF, Marin Fernandez L, Pernodet JL, Bury-Mone S, Lautru SAppl Environ Microbiol10.1128/AEM.01380-212021Distamycins, *Gene Expression Regulation, Bacterial, Genes, Bacterial, Multigene Family, *Netropsin/biosynthesis, *Streptomyces/genetics/metabolism


9237Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40053)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40053
18474Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40053.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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
68382Automatically annotated from API zym