Strain identifier

BacDive ID: 24443

Type strain: Yes

Species: Actinokineospora bangkokensis

Strain Designation: 44EHW

Strain history: <- C Suriyachadkun, BCC; BCC 53155

NCBI tax ID(s): 1193682 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 20243

BacDive-ID: 24443

DSM-Number: 46700

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

description: Actinokineospora bangkokensis 44EHW is an aerobe, spore-forming, mesophilic bacterium that was isolated from rhizospheric soil under an Elephant ear plant Colocasia esculenta.

NCBI tax id

  • NCBI tax id: 1193682
  • Matching level: species

strain history

  • @ref: 20243
  • history: <- C Suriyachadkun, BCC; BCC 53155

doi: 10.13145/bacdive24443.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Actinokineospora
  • species: Actinokineospora bangkokensis
  • full scientific name: Actinokineospora bangkokensis Intra et al. 2013

@ref: 20243

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Actinokineospora

species: Actinokineospora bangkokensis

full scientific name: Actinokineospora bangkokensis Intra et al. 2013

strain designation: 44EHW

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
30936positiverod-shapedno
69480no90.601
69480positive99.719

pigmentation

  • @ref: 30936
  • production: yes

multimedia

  • @ref: 20243
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46700.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20243GYM 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
20243BENNETT'S AGAR (DSMZ Medium 548)yeshttps://mediadive.dsmz.de/medium/548Name: BENNETT'S AGAR (DSMZ Medium 548) Composition: Agar 15.0 g/l Glucose 10.0 g/l N-Z amine 2.0 g/l Yeast extract 1.0 g/l Beef extract 1.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
20243positivegrowth28mesophilic
30936positivegrowth12-39

culture pH

  • @ref: 30936
  • ability: positive
  • type: growth
  • pH: 04-11
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 30936
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30936yes
69481yes100
69480yes100

halophily

  • @ref: 30936
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 01-03 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3093628757fructose+carbon source
3093617234glucose+carbon source
3093629864mannitol+carbon source
3093617992sucrose+carbon source
3093618222xylose+carbon source

enzymes

@refvalueactivityec
30936acid phosphatase+3.1.3.2
30936alkaline phosphatase+3.1.3.1
30936alpha-galactosidase+3.2.1.22
30936gelatinase+

Isolation, sampling and environmental information

isolation

  • @ref: 20243
  • sample type: rhizospheric soil under an Elephant ear plant Colocasia esculenta
  • geographic location: Bangkok
  • country: Thailand
  • origin.country: THA
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_50124.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_394;97_444;98_36038;99_50124&stattab=map
  • Last taxonomy: Actinokineospora bangkokensis subclade
  • 16S sequence: JQ922512
  • Sequence Identity:
  • Total samples: 48
  • soil counts: 25
  • aquatic counts: 6
  • animal counts: 12
  • plant counts: 5

Safety information

risk assessment

  • @ref: 20243
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20243
  • description: Actinokineospora bangkokensis strain 44EHW 16S ribosomal RNA gene, partial sequence
  • accession: JQ922512
  • length: 1398
  • database: ena
  • NCBI tax ID: 1193682

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinokineospora bangkokensis 44EHWGCA_001940455scaffoldncbi1193682
66792Actinokineospora bangkokensis 44EHW2865852738draftimg1193682

GC content

  • @ref: 20243
  • GC-content: 74

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno97.173yes
gram-positiveyes90.033yes
anaerobicno99.049no
halophileno90.783no
spore-formingyes95.437yes
glucose-utilyes88.503yes
aerobicyes93.385yes
thermophileno99.093yes
motileno93.717no
glucose-fermentno93.64no

External links

@ref: 20243

culture collection no.: DSM 46700, BCC 53155, NBRC 108932

straininfo link

  • @ref: 88320
  • straininfo: 406402

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23291892Actinokineospora bangkokensis sp. nov., isolated from rhizospheric soil.Intra B, Matsumoto A, Inahashi Y, Omura S, Takahashi Y, Panbangred WInt J Syst Evol Microbiol10.1099/ijs.0.047928-02013Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/analysisGenetics
Metabolism27267862Thailandins A and B, New Polyene Macrolactone Compounds Isolated from Actinokineospora bangkokensis Strain 44EHW(T), Possessing Antifungal Activity against Anthracnose Fungi and Pathogenic Yeasts.Intra B, Greule A, Bechthold A, Euanorasetr J, Paululat T, Panbangred WJ Agric Food Chem10.1021/acs.jafc.6b011192016Actinobacteria/*chemistry/isolation & purification/metabolism, Antifungal Agents/chemistry/metabolism/*pharmacology, Candida albicans/drug effects, Colletotrichum/drug effects, Cryptococcus neoformans/drug effects, Fermentation, Microbial Sensitivity Tests, Molecular Structure, Plant Diseases/*microbiology, Polyenes/chemistry/metabolism/pharmacology, ThailandPathogenicity
Genetics27886115The Draft Genome Sequence of Actinokineospora bangkokensis 44EHW(T) Reveals the Biosynthetic Pathway of the Antifungal Thailandin Compounds with Unusual Butylmalonyl-CoA Extender Units.Greule A, Intra B, Flemming S, Rommel MG, Panbangred W, Bechthold AMolecules10.3390/molecules211116072016Actinobacteria/*genetics/metabolism, Antifungal Agents/metabolism, Base Composition, *Base Sequence, Biosynthetic Pathways, Chromosome Mapping, Genome Size, *Genome, Bacterial, Multigene FamilyMetabolism
Phylogeny32618556Actinokineospora pegani sp. nov., an endophytic actinomycete isolated from the surface-sterilized root of Peganum harmala L.Lei YJ, Xia ZF, Luo XX, Zhang LLInt J Syst Evol Microbiol10.1099/ijsem.0.0042992020Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Peganum/*microbiology, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmedjournal
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
20243Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-46700Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46700)
30936Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172726628776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88320Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID406402.1