Strain identifier
BacDive ID: 133585
Type strain: 
Species: Thermosporothrix hazakensis
Strain Designation: SK20-1
Strain history: S. Yabe SK20-1.
NCBI tax ID(s): 644383 (species)
version 8.1 (current version)
General
@ref: 29657
BacDive-ID: 133585
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, rod-shaped
description: Thermosporothrix hazakensis SK20-1 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from compost.
NCBI tax id
- NCBI tax id: 644383
- Matching level: species
strain history
- @ref: 67770
- history: S. Yabe SK20-1.
doi: 10.13145/bacdive133585.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/chloroflexota
- domain: Bacteria
- phylum: Chloroflexota
- class: Ktedonobacteria
- order: Ktedonobacterales
- family: Thermosporotrichaceae
- genus: Thermosporothrix
- species: Thermosporothrix hazakensis
- full scientific name: Thermosporothrix hazakensis Yabe et al. 2010
@ref: 29657
domain: Bacteria
phylum: Chloroflexi
class: Ktedonobacteria
order: Ktedonobacterales
family: Thermosporotrichaceae
genus: Thermosporothrix
species: Thermosporothrix hazakensis
strain designation: SK20-1
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 29657 | positive | 01-02 µm | 0.7-1 µm | rod-shaped | no | |
| 69480 | positive | 100 |
pigmentation
- @ref: 29657
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 29657 | positive | growth | 31-58 | |
| 29657 | positive | optimum | 50 | thermophilic |
| 67770 | positive | growth | 50 | thermophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29657 | positive | growth | 5.4-8.7 | alkaliphile |
| 29657 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 29657
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 29657 | yes | |
| 69481 | yes | 100 |
| 69480 | yes | 99.273 |
observation
| @ref | observation |
|---|---|
| 29657 | aggregates in chains |
| 67770 | quinones: MK-9(H2) |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29657 | 28757 | fructose | + | carbon source |
| 29657 | 17234 | glucose | + | carbon source |
| 29657 | 29864 | mannitol | + | carbon source |
| 29657 | 16634 | raffinose | + | carbon source |
| 29657 | 26546 | rhamnose | + | carbon source |
| 29657 | 17992 | sucrose | + | carbon source |
| 29657 | 18222 | xylose | + | carbon source |
enzymes
- @ref: 29657
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
| @ref | sample type |
|---|---|
| 29657 | compost |
| 67770 | Compost |
isolation source categories
- Cat1: #Engineered
- Cat2: #Biodegradation
- Cat3: #Composting
taxonmaps
- @ref: 69479
- File name: preview.99_129722.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10199;96_44299;97_56736;98_75175;99_129722&stattab=map
- Last taxonomy: Thermosporothrix hazakensis
- 16S sequence: AB500145
- Sequence Identity:
- Total samples: 240
- soil counts: 155
- aquatic counts: 17
- animal counts: 37
- plant counts: 31
Sequence information
16S sequences
- @ref: 29657
- description: Thermosporothrix hazakensis gene for 16S rRNA, partial sequence
- accession: AB500145
- length: 1415
- database: nuccore
- NCBI tax ID: 644383
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thermosporothrix hazakensis SK20-1 | GCA_005402645 | contig | ncbi | 644383 |
| 66792 | Thermosporothrix hazakensis strain SK20-1 | 644383.5 | wgs | patric | 644383 |
| 67770 | Thermosporothrix hazakensis ATCC BAA-1881 | GCA_003253565 | scaffold | ncbi | 644383 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 29657 | 54 | |
| 67770 | 54 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| gram-positive | yes | 88.905 | yes |
| anaerobic | no | 97.64 | yes |
| halophile | no | 90.555 | no |
| spore-forming | no | 50 | no |
| glucose-util | yes | 86.66 | no |
| thermophile | yes | 75.038 | yes |
| flagellated | no | 96.863 | no |
| aerobic | yes | 87.115 | yes |
| motile | no | 88.938 | yes |
| glucose-ferment | no | 88.165 | no |
External links
@ref: 29657
culture collection no.: JCM 16142, ATCC BAA 1881, NBRC 105916
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 19767365 | Thermosporothrix hazakensis gen. nov., sp. nov., isolated from compost, description of Thermosporotrichaceae fam. nov. within the class Ktedonobacteria Cavaletti et al. 2007 and emended description of the class Ktedonobacteria. | Yabe S, Aiba Y, Sakai Y, Hazaka M, Yokota A | Int J Syst Evol Microbiol | 10.1099/ijs.0.018069-0 | 2009 | Chloroflexi/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology | Metabolism |
| Phylogeny | 20495028 | Thermogemmatispora onikobensis gen. nov., sp. nov. and Thermogemmatispora foliorum sp. nov., isolated from fallen leaves on geothermal soils, and description of Thermogemmatisporaceae fam. nov. and Thermogemmatisporales ord. nov. within the class Ktedonobacteria. | Yabe S, Aiba Y, Sakai Y, Hazaka M, Yokota A | Int J Syst Evol Microbiol | 10.1099/ijs.0.024877-0 | 2010 | Amino Acids/analysis, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Chloroflexi/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hot Temperature, Hydrogen-Ion Concentration, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Plant Leaves/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytology, Vitamin K 2/analysis | Stress |
| Phylogeny | 20513961 | A life cycle of branched aerial mycelium- and multiple budding spore-forming bacterium Thermosporothrix hazakensis belonging to the phylum Chloroflexi. | Yabe S, Aiba Y, Sakai Y, Hazaka M, Yokota A | J Gen Appl Microbiol | 10.2323/jgam.56.137 | 2010 | Chloroflexi/classification/*growth & development/*physiology/ultrastructure, DNA, Bacterial/analysis, Microscopy, Electron, Scanning, Microscopy, Electron, Transmission, Molecular Sequence Data, Mycelium/*metabolism, Sequence Analysis, DNA, Species Specificity, Spores, Bacterial/physiology | Genetics |
| Metabolism | 24474719 | Identification and biosynthesis of new acyloins from the thermophilic bacterium Thermosporothrix hazakensis SK20-1(T). | Park JS, Kagaya N, Hashimoto J, Izumikawa M, Yabe S, Shin-Ya K, Nishiyama M, Kuzuyama T | Chembiochem | 10.1002/cbic.201300690 | 2014 | Bacterial Proteins/metabolism, Biocatalysis, Candida albicans/drug effects, Chloroflexi/*chemistry/metabolism, Fatty Alcohols/chemistry/*metabolism/pharmacology, Hexanones/chemistry/metabolism/pharmacology, Keto Acids/chemistry/metabolism, Phenylpyruvic Acids/chemistry/metabolism | Pathogenicity |
| Phylogeny | 26961584 | Thermosporothrix narukonensis sp. nov., belonging to the class Ktedonobacteria, isolated from fallen leaves on geothermal soil, and emended description of the genus Thermosporothrix. | Yabe S, Sakai Y, Yokota A | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001004 | 2016 | Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Chloroflexi/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Pathogenicity | 31164714 | Ktedonoketone and 2'-oxosattabacin, benzenoid metabolites from a thermophilic bacterium Thermosporothrix hazakensis in the phylum Chloroflexi. | Igarashi Y, Yamamoto K, Ueno C, Yamada N, Saito K, Takahashi K, Enomoto M, Kuwahara S, Oikawa T, Tashiro E, Imoto M, Xiaohanyao Y, Zhou T, Harunari E, Oku N | J Antibiot (Tokyo) | 10.1038/s41429-019-0195-7 | 2019 | Adipocytes/drug effects, Animals, Biological Products/chemistry/*isolation & purification, Biosynthetic Pathways, Cell Differentiation/drug effects, Cell Line, Chloroflexi/*metabolism, Mice, Molecular Structure | Enzymology |
| Metabolism | 33676867 | High cellulolytic potential of the Ktedonobacteria lineage revealed by genome-wide analysis of CAZymes. | Zheng Y, Maruoka M, Nanatani K, Hidaka M, Abe N, Kaneko J, Sakai Y, Abe K, Yokota A, Yabe S | J Biosci Bioeng | 10.1016/j.jbiosc.2021.01.008 | 2021 | Bacteria/metabolism, Carbohydrate Metabolism/*genetics, Cellulases/*genetics/metabolism, Cellulose/*metabolism, *Chloroflexi/classification/enzymology/genetics/metabolism, Chromosome Mapping, Fungi/metabolism, Gene Expression Regulation, Bacterial, Genome, Bacterial, Glycoside Hydrolases/genetics/metabolism, Metabolic Engineering, Organisms, Genetically Modified, Plants/metabolism, Polysaccharides/metabolism | Genetics |
Reference
| @id | authors | title | doi/url | 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 | |||
| 29657 | 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 | 26045 | 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 | |
| 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 |