Strain identifier

BacDive ID: 16453

Type strain: Yes

Species: Streptomyces alni

Strain Designation: D65

Strain history: CGMCC 4.3510 <-- N. Liu et al. D65.

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General

@ref: 17713

BacDive-ID: 16453

DSM-Number: 42036

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

description: Streptomyces alni D65 is an aerobe, spore-forming, mesophilic bacterium that was isolated from roots of a wild tree, Alnus nepalensis.

strain history

@refhistory
17713<- D. P. Labeda, NRRL; NRRL B-24611 <- Y. Huang, CGMCC; CGMCC 4.3510
67770CGMCC 4.3510 <-- N. Liu et al. D65.

doi: 10.13145/bacdive16453.20230509.8.1

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 alni
  • full scientific name: Streptomyces alni Liu et al. 2009

  • synonyms

    • @ref: 20215
    • synonym: Actinacidiphila alni

@ref: 17713

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces alni

full scientific name: Streptomyces alni Liu et al. 2009 emend. Nouioui et al. 2018

strain designation: D65

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
32610positive
69480no90.359
69480positive100

pigmentation

  • @ref: 32610
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17713
  • 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
17713positivegrowth28mesophilic
32610positivegrowth10-45
32610positiveoptimum27.5mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
32610positivegrowth4.5-9.5alkaliphile
32610positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 32610
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
32610yes
69481yes100
69480yes100

halophily

  • @ref: 32610
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <3 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3261030089acetate+carbon source
3261022599arabinose+carbon source
3261016947citrate+carbon source
3261028757fructose+carbon source
3261017716lactose+carbon source
3261015792malonate+carbon source
3261017306maltose+carbon source
3261028044phenylalanine+carbon source
3261016634raffinose+carbon source
3261017814salicin+carbon source
3261030911sorbitol+carbon source
3261017992sucrose+carbon source
3261027082trehalose+carbon source
3261018222xylose+carbon source
326104853esculin+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6777028197daidzeinyes
67770125610N-acetyltyramineyes

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
17713roots of a wild tree, Alnus nepalensisYunnan Province, Xishuangbanna, Nannuo MountainChinaCHNAsia
67770Root of Alnus nepalensis in the rainforest of Nannuo MountainXishuangbanna, Yunnan ProvinceChinaCHNAsiaAlnus nepalensis

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Root (Rhizome)

Safety information

risk assessment

  • @ref: 17713
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17713
  • description: Streptomyces alni strain D65 16S ribosomal RNA gene, partial sequence
  • accession: DQ460470
  • length: 1426
  • database: ena
  • NCBI tax ID: 380248

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces alni strain CGMCC 4.3510380248.4wgspatric380248
66792Streptomyces alni CGMCC 4.35102667527403draftimg380248
67770Actinacidiphila alni CGMCC 4.3510GCA_900112845scaffoldncbi380248

GC content

@refGC-contentmethod
1771370.2
6777072.1genome sequence analysis
6777070.2thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes91.106no
anaerobicno99.271no
halophileno95.872no
spore-formingyes94.705yes
glucose-utilyes86.957no
aerobicyes94.073no
motileno94.385no
flagellatedno97.742no
thermophileno99.083yes
glucose-fermentno84.459no

External links

@ref: 17713

culture collection no.: DSM 42036, CGMCC 4.3510, NRRL B-24611, JCM 16122

straininfo link

  • @ref: 85490
  • straininfo: 399855

literature

  • topic: Phylogeny
  • Pubmed-ID: 19196762
  • title: Streptomyces alni sp. nov., a daidzein-producing endophyte isolated from a root of Alnus nepalensis D. Don.
  • authors: Liu N, Wang H, Liu M, Gu Q, Zheng W, Huang Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65769-0
  • year: 2009
  • mesh: Alnus/*microbiology, Isoflavones/*metabolism, Molecular Sequence Data, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Species Specificity, Streptomyces/*classification/genetics/isolation & purification/*physiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17713Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42036)https://www.dsmz.de/collection/catalogue/details/culture/DSM-42036
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
32610Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2882328776041
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
85490Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399855.1StrainInfo: A central database for resolving microbial strain identifiers