Strain identifier
BacDive ID: 24443
Type strain: 
Species: Actinokineospora bangkokensis
Strain Designation: 44EHW
Strain history: <- C Suriyachadkun, BCC; BCC 53155
NCBI tax ID(s): 1193682 (species)
version 9.3 (current version)
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/bacdive24443.20250331.9.3
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
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 30936 | positive | rod-shaped | no | |
| 125439 | positive | 100 | ||
| 125439 | no | 97.5 | ||
| 125438 | positive | 91.857 |
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
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 20243 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | 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 |
| 20243 | BENNETT'S AGAR (DSMZ Medium 548) | yes | https://mediadive.dsmz.de/medium/548 | Name: 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
| @ref | growth | type | temperature |
|---|---|---|---|
| 20243 | positive | growth | 28 |
| 30936 | positive | growth | 12-39 |
culture pH
- @ref: 30936
- ability: positive
- type: growth
- pH: 04-11
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 30936 | aerobe | |
| 125438 | aerobe | 91.366 |
| 125439 | facultative anaerobe | 99.9 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 30936 | yes | |
| 125439 | yes | 99.6 |
halophily
- @ref: 30936
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 01-03 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30936 | 28757 | fructose | + | carbon source |
| 30936 | 17234 | glucose | + | carbon source |
| 30936 | 29864 | mannitol | + | carbon source |
| 30936 | 17992 | sucrose | + | carbon source |
| 30936 | 18222 | xylose | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30936 | acid phosphatase | + | 3.1.3.2 |
| 30936 | alkaline phosphatase | + | 3.1.3.1 |
| 30936 | alpha-galactosidase | + | 3.2.1.22 |
| 30936 | gelatinase | + |
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
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #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: nuccore
- NCBI tax ID: 1193682
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Actinokineospora bangkokensis 44EHW | GCA_001940455 | scaffold | ncbi | 1193682 |
| 66792 | Actinokineospora bangkokensis 44EHW | 2865852738 | draft | img | 1193682 |
GC content
- @ref: 20243
- GC-content: 74
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 91.857 | yes |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.431 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 91.366 | yes |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 88.207 | yes |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 96.378 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 86.6 | yes |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 99.6 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 97.5 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 100 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | facultative anaerobe | 99.9 |
External links
@ref: 20243
culture collection no.: DSM 46700, BCC 53155, NBRC 108932
straininfo link
- @ref: 88320
- straininfo: 406402
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 23291892 | Actinokineospora bangkokensis sp. nov., isolated from rhizospheric soil. | Intra B, Matsumoto A, Inahashi Y, Omura S, Takahashi Y, Panbangred W | Int J Syst Evol Microbiol | 10.1099/ijs.0.047928-0 | 2013 | Actinomycetales/*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/analysis | Genetics |
| Metabolism | 27267862 | Thailandins 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 W | J Agric Food Chem | 10.1021/acs.jafc.6b01119 | 2016 | Actinobacteria/*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, Thailand | Pathogenicity |
| Genetics | 27886115 | The 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 A | Molecules | 10.3390/molecules21111607 | 2016 | Actinobacteria/*genetics/metabolism, Antifungal Agents/metabolism, Base Composition, *Base Sequence, Biosynthetic Pathways, Chromosome Mapping, Genome Size, *Genome, Bacterial, Multigene Family | Metabolism |
| Phylogeny | 32618556 | Actinokineospora pegani sp. nov., an endophytic actinomycete isolated from the surface-sterilized root of Peganum harmala L. | Lei YJ, Xia ZF, Luo XX, Zhang LL | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004299 | 2020 | Actinobacteria/*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/chemistry | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | ||||
| 20243 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-46700 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46700) | ||||
| 30936 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27266 | 28776041 | ||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 69479 | João 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 beta | https://microbeatlas.org/ | ||||
| 88320 | Reimer, 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 identifiers | 10.60712/SI-ID406402.1 | ||||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | ||||
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |