Strain identifier

BacDive ID: 15392

Type strain: Yes

Species: Streptomyces malachitofuscus

Strain history: KCC S-0493 <-- IFO 13059 <-- SAJ <-- ISP 5332 <-- INA 739.

NCBI tax ID(s): 67322 (species)

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General

@ref: 9464

BacDive-ID: 15392

DSM-Number: 40332

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic

description: Streptomyces malachitofuscus DSM 40332 is a spore-forming, mesophilic bacterium that builds an aerial mycelium.

NCBI tax id

  • NCBI tax id: 67322
  • Matching level: species

strain history

@refhistory
9464<- E.B. Shirling, ISP <- G.F. Gauze, INA
67770KCC S-0493 <-- IFO 13059 <-- SAJ <-- ISP 5332 <-- INA 739.

doi: 10.13145/bacdive15392.20230509.8.1

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 malachitofuscus
  • full scientific name: Streptomyces malachitofuscus (ex Preobrazhenskaya et al. 1964) Preobrazhenskaya and Terekhova 1986

@ref: 9464

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces malachitofuscus

full scientific name: Streptomyces malachitofuscus (ex Preobrazhenskaya et al. 1964) Preobrazhenskaya and Terekhova 1986

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.234
69480100positive

colony morphology

@refcolony colormedium used
69256Brown beige (1011), May green (6017), Ochre yellow (1024)ISP 4
69256Beige (1001), Light ivory (1015)ISP 5
69256Ivory (1014)ISP 2
69256Ivory (1014), Brown beige (1011), May green (6017), Reseda green (6011)ISP 3
69256Ochre yellow (1024), Brown beige (1011)suter without tyrosine
69256Ochre yellow (1024), Ivory (1014)ISP 7
69256Sand yellow (1002)ISP 6
69256Sepia brown (8014)suter with tyrosine

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69256yesAerial myceliumGrey white (9002)ISP 2
69256yesAerial myceliumSignal white (9003), agate grey (7038)ISP 3
69256noAerial myceliumISP 4
69256yesAerial myceliumCream (9001)ISP 5
69256noAerial myceliumISP 6
69256yesAerial myceliumTraffic white (9016)ISP 7
69256yesAerial myceliumTraffic white (9016)suter with tyrosine
69256yesAerial myceliumGrey white (9002)suter without tyrosine

pigmentation

@refproductionnamecolor
69256noMelanin
69256yessoluble pigmentOlive brown (8008), sand yellow (1002), black red (3007), ochre brown (8001), ochre yellow (1024)

multimedia

@refmultimedia contentcaptionintellectual property rights
69256DSM_40332_image7.jpeg(SSM+T, SSM-T)Helmholtz-Zentrum für Infektionsforschung GmbH
69256DSM_40332_image8.jpeg(SSM+T, SSM-T)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 9464
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: 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

@refgrowthtypetemperaturerange
18584positiveoptimum28mesophilic
9464positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

  • @ref: 69256
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-7.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6925622599arabinose+growth
6925662968cellulose-growth
6925628757fructose+growth
6925617234glucose+growth
6925617268inositol+growth
6925637684mannose+growth
6925616634raffinose-growth
6925626546rhamnose+growth
6925617992sucrose+growth
6925618222xylose+growth
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
68379gelatinase+
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
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 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 coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69256---+------+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69256++/-+-+----++-+-+-++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18584+++++++---+

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185841German classification
94641Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces malachitofuscus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4493D44185120ena67322
20218Streptomyces malachitofuscus 16S rRNA gene, type strain LMG 20067AJ7813471469ena67322
20218Streptomyces malachitofuscus gene for 16S rRNA, partial sequence, strain: NBRC 13059AB1842821469ena67322

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces malachitofuscus JCM 4493GCA_014650055scaffoldncbi67322
66792Streptomyces malachitofuscus strain JCM 449367322.3wgspatric67322

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno97.544no
gram-positiveyes89.002no
anaerobicno98.896no
aerobicyes92.495no
halophileno90.656no
spore-formingyes96.32no
glucose-utilyes91.18yes
thermophileno98.1yes
motileno94.065no
glucose-fermentno91.42no

External links

@ref: 9464

culture collection no.: DSM 40332, ATCC 25471, CBS 881.69, IFO 13059, INA 739, ISP 5332, NBRC 13059, RIA 1251, JCM 4493, BCRC 15143, CGMCC 4.1743, NRRL B-12273, VKM Ac-1850

straininfo link

  • @ref: 84482
  • straininfo: 389335

literature

  • topic: Phylogeny
  • Pubmed-ID: 28559892
  • title: Streptomyces colonosanans sp. nov., A Novel Actinobacterium Isolated from Malaysia Mangrove Soil Exhibiting Antioxidative Activity and Cytotoxic Potential against Human Colon Cancer Cell Lines.
  • authors: Law JW, Ser HL, Duangjai A, Saokaew S, Bukhari SI, Khan TM, Ab Mutalib NS, Chan KG, Goh BH, Lee LH
  • journal: Front Microbiol
  • DOI: 10.3389/fmicb.2017.00877
  • year: 2017

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9464Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40332)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40332
18584Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40332.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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69256Wink, J.https://cdn.dsmz.de/wink/DSM%2040332.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
84482Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389335.1StrainInfo: A central database for resolving microbial strain identifiers