Strain identifier

BacDive ID: 15269

Type strain: Yes

Species: Streptomyces halstedii

Strain history: KCC S-0042 <-- T. Yamaguchi (IAM 0034) <-- ATU <-- NRRL B-1062 <-- ATCC 3325 <-- IMRU 3325.

NCBI tax ID(s): 1909 (species)

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General

@ref: 9163

BacDive-ID: 15269

DSM-Number: 40067

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Streptomyces halstedii DSM 40067 is a mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1909
  • Matching level: species

strain history

@refhistory
9163<- E.B. Shirling, ISP <- S.A. Waksman, IMRU
67770KCC S-0042 <-- T. Yamaguchi (IAM 0034) <-- ATU <-- NRRL B-1062 <-- ATCC 3325 <-- IMRU 3325.

doi: 10.13145/bacdive15269.20230509.8.1

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

  • synonyms

    @refsynonym
    20215Streptomyces griseolus
    20215Actinomyces griseolus
    20215Actinomyces halstedii
    20215Streptomyces graminofaciens

@ref: 9163

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces halstedii

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

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9163GYM 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
9163ISP 5 MEDIUM (DSMZ Medium 993)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium993.pdf

culture temp

@refgrowthtypetemperaturerange
18479positiveoptimum28mesophilic
9163positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

halophily

  • @ref: 18479
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1847917234glucose+
1847922599arabinose+
1847917992sucrose+
1847918222xylose+
1847917268myo-inositol+
1847929864mannitol+
1847928757fructose+
1847926546rhamnose+
1847916634raffinose+
1847962968cellulose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
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
18479+-+-+-+--++-----+--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18479-++++-+--++

Isolation, sampling and environmental information

isolation

  • @ref: 9163
  • sample type: soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_135.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_120;99_135&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AB184788
  • Sequence Identity:
  • Total samples: 4030
  • soil counts: 2441
  • aquatic counts: 286
  • animal counts: 1009
  • plant counts: 294

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184791German classification
91631Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces griseolus strain AS 4.1864 16S ribosomal RNA gene, partial sequenceAY9998821399ena1909
20218Streptomyces griseolus strain AS 4.1864 16S ribosomal RNA gene, partial sequenceFJ4059061369ena1909
20218Streptomyces griseolus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4043D43990120ena1909
20218Streptomyces griseolus gene for 16S rRNA, partial sequence, strain: NBRC 12777AB1841361429ena1909
20218Streptomyces griseolus gene for 16S rRNA, partial sequence, strain: NBRC 3415AB1847681477ena1909
20218Streptomyces griseolus gene for 16S rRNA, partial sequence, strain: NBRC 3416AB1847691477ena1909
20218Streptomyces griseolus gene for 16S rRNA, partial sequence, strain: NBRC 3719AB1847881477ena1909

Genome sequences

  • @ref: 67770
  • description: Streptomyces griseolus NRRL B-2925
  • accession: GCA_000721185
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1909

GC content

  • @ref: 67770
  • GC-content: 72
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno93.936no
flagellatedno97.73no
gram-positiveyes87.88no
anaerobicno99.035no
aerobicyes93.898no
halophileno93.766yes
spore-formingyes94.519no
glucose-utilyes87.603yes
glucose-fermentno87.017no
thermophileno98.52yes

External links

@ref: 9163

culture collection no.: DSM 40067, AS 4.1864, ATCC 19764, ATCC 3325, CBS 502.68, IFO 12777, IFO 3415, IMRU 3325, ISP 5067, KCC S-0042, KCC S-0043, KCC S-0581, NBRC 12777, NBRC 3415, NRRL B-1062, RIA 1044, JCM 4042, BCRC 13677, CBS 280.30, CCM 3181, CGMCC 4.1864, HAMBI 1000, HUT 6054, HUT 6056, HUT 6099, IFO 3416, IFO 3719, IMET 42053, JCM 4043, JCM 4581, KCTC 9028, NBRC 3416, NBRC 3719, NCIMB 9606, NRRL B-2925, RIA 88, VKM Ac-1726

straininfo link

  • @ref: 84364
  • straininfo: 311064

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism16802209Screening of compactin-resistant microorganisms capable of converting compactin to pravastatin.Chen CH, Hu HY, Cho YC, Hsu WHCurr Microbiol10.1007/s00284-005-0276-72006Bacteria/drug effects/isolation & purification/*metabolism, Chromatography, High Pressure Liquid, Culture Media, Hydroxylation, Lovastatin/*analogs & derivatives/metabolism/pharmacology, *Microbial Sensitivity Tests, Pravastatin/*biosynthesisCultivation
Metabolism33121415Bacterial Biotransformation and Anticancer Activities of Betulin against A549, HepG2 and 5RP7 Cancer Cell Lines.Kiran I, Ciftci GA, Eklioglu OA, Akkaya SGKAnticancer Agents Med Chem10.2174/18715206206662010291024002021Animals, Antineoplastic Agents/chemistry/metabolism/*pharmacology, Apoptosis/drug effects, Bacillus/metabolism, Bacillus subtilis/metabolism, Biotransformation, Cell Line, Cell Proliferation/drug effects, Cell Survival/drug effects, DNA, Neoplasm/antagonists & inhibitors/biosynthesis, Dose-Response Relationship, Drug, Drug Screening Assays, Antitumor, Escherichia coli/metabolism, Humans, Mice, Molecular Conformation, Proteus vulgaris/metabolism, Staphylococcus aureus/metabolism, Streptomyces/metabolism, Structure-Activity Relationship, Triterpenes/chemistry/metabolism/*pharmacologyPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9163Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40067)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40067
18479Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40067.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
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
84364Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID311064.1StrainInfo: A central database for resolving microbial strain identifiers