Strain identifier

BacDive ID: 16158

Type strain: Yes

Species: Streptomyces eurocidicus

Strain Designation: 549-A1, 549-A1 (NIHJ 267)

Strain history: CIP <- 2003, JCM <- 1983, KCC <- IFO <- SAJ <- ISP <- NRRL <- Y. Okami: strain 549-A1 (NIHJ 267)

NCBI tax ID(s): 66423 (species)

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General

@ref: 9679

BacDive-ID: 16158

DSM-Number: 40604

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic, Gram-positive, antibiotic compound production

description: Streptomyces eurocidicus 549-A1 is an obligate aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 66423
  • Matching level: species

strain history

@refhistory
9679<- E.B. Shirling, ISP <- NRRL <- Y. Okami, 549-A1
67770KCC S-0029 <-- Y. Okami 549-A1 (NIHJ 267).
119139CIP <- 2003, JCM <- 1983, KCC <- IFO <- SAJ <- ISP <- NRRL <- Y. Okami: strain 549-A1 (NIHJ 267)

doi: 10.13145/bacdive16158.20230509.8.1

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 eurocidicus
  • full scientific name: Streptomyces eurocidicus (Okami et al. 1954) Witt and Stackebrandt 1991

  • synonyms

    @refsynonym
    20215Streptoverticillium eurocidicum
    20215Streptomyces albireticuli
    20215Streptoverticillium albireticuli
    20215Streptomyces eurocidicus

@ref: 9679

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces eurocidicus

full scientific name: Streptomyces eurocidicus (Okami et al. 1954) Witt and Stackebrandt 1991

strain designation: 549-A1, 549-A1 (NIHJ 267)

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
119139positiverod-shapedno

colony morphology

@refcolony colorincubation periodmedium usedhemolysis ability
18662Nut brown (8011)10-14 daysISP 2
18662Ivory (1014)10-14 daysISP 3
18662Sand yellow (1002)10-14 daysISP 4
18662Ivory (1014)10-14 daysISP 5
18662Olive brown (8008)10-14 daysISP 6
18662Ochre yellow (1024)10-14 daysISP 7
1191391

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
18662yesAerial MyceliumPebble grey (7032)ISP 2
18662yesAerial MyceliumPebble grey (7032)ISP 3
18662yesAerial MyceliumIvory (1014)ISP 4
18662yesAerial MyceliumBrown beige (1011)ISP 5
18662yesAerial MyceliumBeige grey (7006)ISP 6
18662yesAerial MyceliumBeige grey (7006)ISP 7

multimedia

  • @ref: 9679
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40604.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9679ROLLED 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
9679STARCH - 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
9679GYM 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
18662ISP 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
18662ISP 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:
18662ISP 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
18662ISP 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
18662ISP 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
18662ISP 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
36696MEDIUM 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)
119139CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
9679positivegrowth28mesophilic
18662positiveoptimum28mesophilic
36696positivegrowth30mesophilic
67770positivegrowth28mesophilic
119139positivegrowth25-37mesophilic
119139nogrowth10psychrophilic
119139nogrowth41thermophilic
119139nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119139
  • oxygen tolerance: obligate aerobe

spore formation

@refspore descriptionspore formationconfidence
18662Formation of spore chains (verticillati)(Ve), spore surface smoothyes
69481yes100
69480yes100

compound production

@refcompound
9679azomycin
9679eurocidin
9679tertiomycine A
9679tertiomycine B
20216Azomycin (2-nitroimidazole)
20216Tertiomycin A
20216Tertiomycin B
20216Eurocidin
18662Macrolide antibiotics like Antibiotic YS 822A
18662Eurocidin D
18662Laidlomycin
18662Aminoglycoside antibiotics like Antibiotic SS 56A
18662Cytoblastin

halophily

@refsaltgrowthtested relationconcentration
119139NaClpositivegrowth0-4 %
119139NaClnogrowth6 %
119139NaClnogrowth8 %
119139NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1866217234glucose+
1866222599arabinose+
1866217992sucrose+
1866218222xylose+
1866217268myo-inositol+
1866229864mannitol+/-
1866228757fructose+
1866226546rhamnose+
1866216634raffinose+
1866262968cellulose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
11913916947citrate-carbon source
1191394853esculin-hydrolysis
119139606565hippurate+hydrolysis
11913917632nitrate-reduction
11913916301nitrite-reduction
11913917632nitrate-respiration

antibiotic resistance

  • @ref: 119139
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6777067135azomycinyes
67770eurocidinyes
67770tertiomycin Ayes
67770tertiomycin Byes
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
11913935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
11913915688acetoin-
11913917234glucose-

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
119139oxidase-
119139alcohol dehydrogenase-1.1.1.1
119139gelatinase-
119139amylase-
119139DNase-
119139caseinase-3.4.21.50
119139catalase+1.11.1.6
119139tween esterase+
119139gamma-glutamyltransferase+2.3.2.2
119139lecithinase+
119139lipase-
119139lysine decarboxylase-4.1.1.18
119139ornithine decarboxylase-4.1.1.17
119139phenylalanine ammonia-lyase-4.3.1.24
119139tryptophan deaminase-
119139urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-glucuronidase-3.2.1.31
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
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- FucosidaseControl
18662+++-+++++++-+-+-++-
119139+-+-+++--++-----+---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18662+++++-+---+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119139+--++----+-----+---+-----------++---------------+++--+-----+++----------++-----++---+-+-++++-++-++-

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
96791Risk group (German classification)
186621German classification
1191391Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces eurocidicus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4029D43989120ena66423
20218Streptomyces eurocidicus gene for 16S rRNA, partial sequence, strain: NBRC 13491AB1844411473ena66423
20218Streptomyces eurocidicus strain NRRL B-1676 16S ribosomal RNA gene, partial sequenceAY9997901492ena66423

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces eurocidicus CECT 3259GCA_014203505scaffoldncbi66423
66792Streptomyces eurocidicus strain ATCC 2742866423.13wgspatric66423
66792Streptomyces eurocidicus strain CECT 325966423.15wgspatric66423
66792Streptomyces eurocidicus CECT 32592863257063draftimg66423
66792Streptomyces eurocidicus ATCC 274282862643501draftimg66423
67770Streptomyces eurocidicus ATCC 27428GCA_002891295contigncbi66423

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno98.075no
gram-positiveyes89.616no
anaerobicno99.316no
aerobicyes89.864no
halophileno92.803no
spore-formingyes93.951yes
glucose-utilyes91.393yes
thermophileno97.81no
motileno93.017no
glucose-fermentno88.59no

External links

@ref: 9679

culture collection no.: DSM 40604, ATCC 27428, CBS 792.72, IFO 13491, ISP 5604, JCM 4029, NBRC 13491, NIHJ 267, NRRL B-1676, RIA 1452, RIA 733, BCRC 12424, CECT 3259, CGMCC 4.1086, CIP 108155, IMET 43412, JCM 4749, KCTC 9884, MTCC 2531, NCB 264, VKM Ac-903, CCRC 12424, KCC S-0749, AS 4.1086

straininfo link

  • @ref: 85223
  • straininfo: 45802

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny2358398Studies on inhibitors of rat mast cell degranulation produced by microorganisms. I. Screening of microorganisms, and isolation and physico-chemical properties of eurocidins C, D and E.Nakagomi K, Takeuchi M, Tanaka H, Tomizuka N, Nakajima TJ Antibiot (Tokyo)10.7164/antibiotics.43.4621990Animals, Anti-Inflammatory Agents, Non-Steroidal/analysis/isolation & purification/*pharmacology, Cell Degranulation/*drug effects, Cells, Cultured, Chromatography, High Pressure Liquid, Chromatography, Ion Exchange, Mast Cells/*drug effects/physiology, Molecular Weight, Polyenes/analysis/isolation & purification/pharmacology, Rats, Rats, Inbred Strains, Spectrophotometry, Infrared, Streptomycetaceae/metabolismEnzymology
Phylogeny27169711Streptomyces zhihengii sp. nov., isolated from rhizospheric soil of Psammosilene tunicoides.Huang MJ, Fei JJ, Salam N, Kim CJ, Hozzein WN, Xiao M, Huang HQ, Li WJArch Microbiol10.1007/s00203-016-1233-52016Bacterial Typing Techniques, Base Composition/genetics, Caryophyllaceae/*microbiology, China, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purificationTranscriptome
Phylogeny34382928Streptomyces genisteinicus sp. nov., a novel genistein-producing actinomycete isolated from a Chinese medicinal plant and proposal of Streptomyces michiganensis Corbaz et al. 1957 as a later heterotypic synonym of Streptomyces xanthochromogenes Arishima et al. 1956.Hu S, Li K, Wang Y, Guo Y, Zhou M, Tang X, Gao JInt J Syst Evol Microbiol10.1099/ijsem.0.0049542021Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genistein/*metabolism, Nucleic Acid Hybridization, *Phylogeny, Plant Leaves/microbiology, Plants, Medicinal/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/classification/isolation & purification, Xanthium/*microbiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9679Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40604)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40604
18662Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40604.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
36696Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5746
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
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
85223Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45802.1StrainInfo: A central database for resolving microbial strain identifiers
119139Curators of the CIPCollection of Institut Pasteur (CIP 108155)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108155