Strain identifier

BacDive ID: 14934

Type strain: Yes

Species: Streptomyces alboflavus

Strain Designation: 5045, 3008

Strain history: CIP <- 1995, JCM <- KCC <- IFO <- SAJ <- ISP: strain 5045 <- S. Waksman, IMRU: strain 3008

NCBI tax ID(s): 67267 (species)

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General

@ref: 9124

BacDive-ID: 14934

DSM-Number: 40045

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

description: Streptomyces alboflavus 5045 is an obligate aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium.

NCBI tax id

  • NCBI tax id: 67267
  • Matching level: species

strain history

@refhistory
9124<- E.B. Shirling, ISP <- IMRU
67770KCC S-0615 <-- IFO 13196 <-- SAJ <-- ISP 5045 <-- IMRU 3008.
116193CIP <- 1995, JCM <- KCC <- IFO <- SAJ <- ISP: strain 5045 <- S. Waksman, IMRU: strain 3008

doi: 10.13145/bacdive14934.20230509.8.1

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 alboflavus
  • full scientific name: Streptomyces alboflavus (Waksman and Curtis 1916) Waksman and Henrici 1948 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Actinomyces alboflavus

@ref: 9124

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces alboflavus

full scientific name: Streptomyces alboflavus (Waksman and Curtis 1916) Waksman and Henrici 1948 emend. Nouioui et al. 2018

strain designation: 5045, 3008

type strain: yes

Morphology

cell morphology

  • @ref: 116193
  • gram stain: positive
  • cell shape: rod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19394Ivory10-14 daysISP 2
19394Yellow10-14 daysISP 3
19394Yellow10-14 daysISP 4
19394Yellow10-14 daysISP 5
19394Yellow10-14 daysISP 6
19394Yellow10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium namecomplex namecomplex color
19394noISP 2
19394noISP 3
19394yesISP 4Aerial MyceliumWhite
19394noISP 5
19394noISP 6
19394yesISP 7Aerial MyceliumWhite

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9124GYM 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
19394ISP 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
19394ISP 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:
19394ISP 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
19394ISP 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
19394ISP 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
19394ISP 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
41173MEDIUM 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)
9124ROLLED 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
116193CIP Medium 236yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=236
116193CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
19394positiveoptimum28mesophilic
9124positivegrowth28mesophilic
41173positivegrowth30mesophilic
67770positivegrowth28mesophilic
116193positivegrowth30-37mesophilic
116193nogrowth10psychrophilic
116193nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116193
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 19394
  • spore description: Formation of spore chains: very short, spore surface: smooth
  • spore formation: yes

halophily

  • @ref: 19394
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
1161934853esculin-hydrolysis
11619317632nitrate+reduction
11619316301nitrite-reduction
116193132112sodium thiosulfate-builds gas from

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
11619335581indoleno

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
116193beta-galactosidase+3.2.1.23
116193alcohol dehydrogenase-1.1.1.1
116193gelatinase+
116193amylase+
116193DNase-
116193caseinase-3.4.21.50
116193catalase+1.11.1.6
116193tween esterase-
116193lecithinase-
116193lipase+
116193lysine decarboxylase-4.1.1.18
116193ornithine decarboxylase-4.1.1.17
116193urease-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
116193-+++-++---++---++++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19394+++++-++--+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116193+++++----+++++-+++++++++--+----+++---------------++--+-----++-----------++-----++-------++++-+--+--

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_4034.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_287;98_3057;99_4034&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: EF178699
  • Sequence Identity:
  • Total samples: 91
  • soil counts: 70
  • aquatic counts: 4
  • animal counts: 16
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
91241Risk group (German classification)
193941Risk group (German classification)
1161931Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces alboflavus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4615D44266120ena67267
20218Streptomyces alboflavus gene for 16S rRNA, partial sequence, strain: NBRC 13196AB1848611455ena67267
20218Streptomyces alboflavus gene for 16S rRNA, partial sequence, strain: NBRC 3438AB1847751479ena67267
20218Streptomyces alboflavus strain NRRL B-2373 16S ribosomal RNA gene, partial sequenceEF1786991451ena67267

Genome sequences

  • @ref: 67770
  • description: Streptomyces alboflavus NRRL B-2373
  • accession: GCA_000716675
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 67267

GC content

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

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.342no
flagellatedno97.401no
gram-positiveyes88.702no
anaerobicno99.436no
halophileno88.155no
spore-formingyes94.712yes
thermophileno99.126no
glucose-utilyes88.435no
aerobicyes91.106no
glucose-fermentno87.503no

External links

@ref: 9124

culture collection no.: DSM 40045, ATCC 12626, ATCC 23874, CBS 613.68, IFO 13196, IMRU 3008, ISP 5045, NBRC 13196, RIA 1112, JCM 4615, BCRC 13664, CGMCC 4.1461, CIP 104427, IFO 3438, IMET 42936, KCTC 9674, LMG 19364, NBRC 3438, NRRL B-1273, NRRL B-2373, VKM Ac-972, KCC S-0615

straininfo link

  • @ref: 84043
  • straininfo: 14118

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny28005517Streptomyces lasiicapitis sp. nov., an actinomycete that produces kanchanamycin, isolated from the head of an ant (Lasius fuliginosus L.).Ye L, Zhao S, Li Y, Jiang S, Zhao Y, Li J, Yan K, Wang X, Xiang W, Liu CInt J Syst Evol Microbiol10.1099/ijsem.0.0017562017Animals, Ants/*microbiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purificationTranscriptome
Phylogeny28920834Streptomyces xylanilyticus sp. nov., isolated from soil.Moonmangmee D, Kanchanasin P, Phongsopitanun W, Tanasupawat S, Moonmangmee SInt J Syst Evol Microbiol10.1099/ijsem.0.0022822017Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Thailand, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny33774760Streptomyces typhae sp. nov., a novel endophytic actinomycete with antifungal activity isolated the root of cattail (Typha angustifolia L.).Peng C, Zhuang X, Gao C, Wang Z, Zhao J, Huang SX, Liu C, Xiang WAntonie Van Leeuwenhoek10.1007/s10482-021-01561-32021*Actinobacteria, Antifungal Agents, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/genetics, *Typhaceae, Vitamin K 2Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9124Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40045)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40045
19394Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40045.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
41173Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16335
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
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
84043Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID14118.1StrainInfo: A central database for resolving microbial strain identifiers
116193Curators of the CIPCollection of Institut Pasteur (CIP 104427)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104427