Strain identifier
BacDive ID: 24209
Type strain:
Species: Dactylosporangium siamense
Strain Designation: MW4-36
Strain history: S. Chiaraphongphon MW4-36.
NCBI tax ID(s): 685454 (species)
General
@ref: 20521
BacDive-ID: 24209
DSM-Number: 46705
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive, motile, ovoid-shaped
description: Dactylosporangium siamense MW4-36 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from tropical forest soil.
NCBI tax id
- NCBI tax id: 685454
- Matching level: species
strain history
@ref | history |
---|---|
20521 | <- C Suriyachadkun, BCC; BCC 34901 <- C. Thawai; MW4-36 |
67770 | S. Chiaraphongphon MW4-36. |
doi: 10.13145/bacdive24209.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micromonosporales
- family: Micromonosporaceae
- genus: Dactylosporangium
- species: Dactylosporangium siamense
- full scientific name: Dactylosporangium siamense Thawai and Suriyachadkun 2013
@ref: 20521
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micromonosporaceae
genus: Dactylosporangium
species: Dactylosporangium siamense
full scientific name: Dactylosporangium siamense Thawai and Suriyachadkun 2013
strain designation: MW4-36
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility | confidence |
---|---|---|---|---|
31098 | positive | ovoid-shaped | yes | |
69480 | positive | 100 |
pigmentation
- @ref: 31098
- production: yes
multimedia
- @ref: 20521
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46705.jpg
- caption: Medium 554 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
20521 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf | |
20521 | N-Z-AMINE-MEDIUM (DSMZ Medium 554) | yes | https://mediadive.dsmz.de/medium/554 | Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
31098 | positive | optimum | 29 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
20521 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
31098 | yes | |
69481 | yes | 96 |
69480 | yes | 100 |
halophily
- @ref: 31098
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-3 %
observation
- @ref: 67770
- observation: quinones: MK-9(H8), MK-9(H6)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31098 | 22599 | arabinose | + | carbon source |
31098 | 17057 | cellobiose | + | carbon source |
31098 | 28757 | fructose | + | carbon source |
31098 | 28260 | galactose | + | carbon source |
31098 | 17754 | glycerol | + | carbon source |
31098 | 17716 | lactose | + | carbon source |
31098 | 29864 | mannitol | + | carbon source |
31098 | 28053 | melibiose | + | carbon source |
31098 | 16634 | raffinose | + | carbon source |
31098 | 26546 | rhamnose | + | carbon source |
31098 | 17814 | salicin | + | carbon source |
31098 | 18222 | xylose | + | carbon source |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
20521 | tropical forest soil | Nakhon Sawan Province | Thailand | THA | Asia |
67770 | Soil from tropical forest | Nakhon Sawan Province | Thailand | THA | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Forest |
#Environmental | #Terrestrial | #Soil |
#Climate | #Hot | #Tropical |
taxonmaps
- @ref: 69479
- File name: preview.99_875.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_521;97_600;98_690;99_875&stattab=map
- Last taxonomy: Dactylosporangium
- 16S sequence: AB529446
- Sequence Identity:
- Total samples: 1735
- soil counts: 1581
- aquatic counts: 58
- animal counts: 75
- plant counts: 21
Safety information
risk assessment
- @ref: 20521
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20521
- description: Dactylosporangium siamense gene for 16S rRNA, partial sequence
- accession: AB529446
- length: 1433
- database: ena
- NCBI tax ID: 685454
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Dactylosporangium siamense NBRC 106093 | GCA_016862795 | contig | ncbi | 685454 |
66792 | Dactylosporangium siamense strain NBRC 106093 | 685454.3 | wgs | patric | 685454 |
GC content
@ref | GC-content | method |
---|---|---|
20521 | 72.9 | |
67770 | 72 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 96 | no |
gram-positive | yes | 85.114 | no |
anaerobic | no | 99.016 | no |
halophile | no | 96.803 | no |
spore-forming | yes | 94.207 | yes |
glucose-util | yes | 90.059 | no |
thermophile | no | 99.351 | yes |
flagellated | no | 89.363 | no |
motile | yes | 66.01 | yes |
aerobic | yes | 92.778 | no |
glucose-ferment | no | 89.708 | no |
External links
@ref: 20521
culture collection no.: DSM 46705, BCC 34901, NBRC 106093, JCM 15934
straininfo link
- @ref: 88155
- straininfo: 405584
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 23728370 | Dactylosporangium siamense sp. nov., isolated from soil. | Thawai C, Suriyachadkun C | Int J Syst Evol Microbiol | 10.1099/ijs.0.052092-0 | 2013 | Bacterial Typing Techniques, Base Composition, Carbohydrates/chemistry, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Micromonosporaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Trees/microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Phylogeny | 25987396 | Dactylosporangium cerinum sp. nov., a novel actinobacterium isolated from the rhizosphere of Pinus koraiensis Sieb. et Zucc. | Liu C, Guan X, Jin P, Li J, Li Y, Li L, Zhou Y, Shen Y, Wang X, Xiang W | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0478-3 | 2015 | Carbohydrates/analysis, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Japan, Micromonosporaceae/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, Pinus/*microbiology, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytology, Vitamin K 2/analysis | 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 | |||
20521 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-46705 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46705) | |||
31098 | 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 | 27427 | 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 | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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 | |||
88155 | 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-ID405584.1 |