Strain identifier
BacDive ID: 130440
Type strain:
Species: Actinoplanes siamensis
Strain Designation: A-T 6646
Strain history: <- C Suriyachadkun, BCC; BCC 46194 <- C Suriyachadkun; A-T 6646
NCBI tax ID(s): 1223317 (species)
General
@ref: 21460
BacDive-ID: 130440
DSM-Number: 46706
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, motile, ovoid-shaped
description: Actinoplanes siamensis A-T 6646 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from Bamboo forest soil.
NCBI tax id
- NCBI tax id: 1223317
- Matching level: species
strain history
- @ref: 21460
- history: <- C Suriyachadkun, BCC; BCC 46194 <- C Suriyachadkun; A-T 6646
doi: 10.13145/bacdive130440.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micromonosporales
- family: Micromonosporaceae
- genus: Actinoplanes
- species: Actinoplanes siamensis
- full scientific name: Actinoplanes siamensis Suriyachadkun et al. 2013
@ref: 21460
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micromonosporaceae
genus: Actinoplanes
species: Actinoplanes siamensis
full scientific name: Actinoplanes siamensis Suriyachadkun et al. 2013
strain designation: A-T 6646
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility | confidence |
---|---|---|---|---|
30942 | positive | ovoid-shaped | yes | |
69480 | positive | 100 |
pigmentation
- @ref: 30942
- production: yes
multimedia
- @ref: 21460
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46706.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
21460 | CZAPEK PEPTONE AGAR (DSMZ Medium 83) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium83.pdf | |
21460 | 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 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
30942 | positive | growth | 25-40 | |
30942 | positive | optimum | 27.5 | mesophilic |
21460 | positive | growth | 28 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30942 | positive | growth | 06-11 | alkaliphile |
30942 | positive | optimum | 8.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 30942
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
30942 | yes | |
69481 | yes | 100 |
69480 | yes | 100 |
halophily
- @ref: 30942
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-1 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30942 | 17057 | cellobiose | + | carbon source |
30942 | 28757 | fructose | + | carbon source |
30942 | 28260 | galactose | + | carbon source |
30942 | 17234 | glucose | + | carbon source |
30942 | 37684 | mannose | + | carbon source |
30942 | 18222 | xylose | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30942 | acid phosphatase | + | 3.1.3.2 |
30942 | alkaline phosphatase | + | 3.1.3.1 |
30942 | catalase | + | 1.11.1.6 |
30942 | gelatinase | + |
Isolation, sampling and environmental information
isolation
- @ref: 21460
- sample type: Bamboo forest soil
- geographic location: Khorn Kaen Province
- country: Thailand
- origin.country: THA
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Forest |
#Environmental | #Terrestrial | #Soil |
#Host | #Plants | #Herbaceous plants (Grass,Crops) |
taxonmaps
- @ref: 69479
- File name: preview.99_60515.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_240;97_262;98_42945;99_60515&stattab=map
- Last taxonomy: Actinoplanes siamensis subclade
- 16S sequence: JX283293
- Sequence Identity:
- Total samples: 5
- soil counts: 5
Safety information
risk assessment
- @ref: 21460
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21460
- description: Actinoplanes siamensis strain A-T 6646 16S ribosomal RNA gene, partial sequence
- accession: JX283293
- length: 1451
- database: ena
- NCBI tax ID: 1223317
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Actinoplanes siamensis NBRC 109076 | GCA_016862395 | contig | ncbi | 1223317 |
66792 | Actinoplanes siamensis strain NBRC 109076 | 1223317.3 | wgs | patric | 1223317 |
GC content
- @ref: 21460
- GC-content: 72
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | yes | 61.781 | no |
gram-positive | yes | 90.252 | no |
anaerobic | no | 99.191 | yes |
aerobic | yes | 95.525 | no |
halophile | no | 96.24 | no |
spore-forming | yes | 92.452 | no |
glucose-util | yes | 90.157 | yes |
flagellated | no | 90.186 | no |
thermophile | no | 98.298 | no |
glucose-ferment | no | 90.195 | no |
External links
@ref: 21460
culture collection no.: DSM 46706, BCC 46194, NBRC 109076
straininfo link
- @ref: 88970
- straininfo: 399657
literature
- topic: Phylogeny
- Pubmed-ID: 23396720
- title: Actinoplanes siamensis sp. nov., isolated from soil.
- authors: Suriyachadkun C, Ngaemthao W, Chunhametha S, Thawai C, Sanglier JJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.048017-0
- year: 2013
- mesh: Bacterial Typing Techniques, Bambusa/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Micromonosporaceae/*classification/genetics/isolation & purification, 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
- topic2: Genetics
Reference
@id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
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 | |||
21460 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-46706 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46706) | |||
30942 | 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 | 27272 | 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 | |||
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/ | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
88970 | 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-ID399657.1 |