Strain identifier

BacDive ID: 133585

Type strain: Yes

Species: Thermosporothrix hazakensis

Strain Designation: SK20-1

Strain history: S. Yabe SK20-1.

NCBI tax ID(s): 644383 (species)

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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/bacdive133585.20250331.9.3

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

@refgram staincell lengthcell widthcell shapemotilityconfidence
29657positive01-02 µm0.7-1 µmrod-shapedno
125439negative98.6

pigmentation

  • @ref: 29657
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperature
29657positivegrowth31-58
29657positiveoptimum50
67770positivegrowth50

culture pH

@refabilitytypepHPH range
29657positivegrowth5.4-8.7alkaliphile
29657positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 29657
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29657yes
125439no98.7

observation

@refobservation
29657aggregates in chains
67770quinones: MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2965728757fructose+carbon source
2965717234glucose+carbon source
2965729864mannitol+carbon source
2965716634raffinose+carbon source
2965726546rhamnose+carbon source
2965717992sucrose+carbon source
2965718222xylose+carbon source

enzymes

  • @ref: 29657
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample type
29657compost
67770Compost

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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermosporothrix hazakensis SK20-1GCA_005402645contigncbi644383
66792Thermosporothrix hazakensis strain SK20-1644383.5wgspatric644383
67770Thermosporothrix hazakensis ATCC BAA-1881GCA_003253565scaffoldncbi644383

GC content

@refGC-contentmethod
2965754
6777054high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes78.16no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.824yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes84.631yes
125438spore-formingspore-formingAbility to form endo- or exosporesyes65.517no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno56.251yes
125438motile2+flagellatedAbility to perform flagellated movementno80.512yes
125439BacteriaNetspore_formationAbility to form endo- or exosporesno98.7
125439BacteriaNetmotilityAbility to perform movementyes78.6
125439BacteriaNetgram_stainReaction to gram-stainingnegative98.6
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe83.6

External links

@ref: 29657

culture collection no.: JCM 16142, ATCC BAA-1881, NBRC 105916

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19767365Thermosporothrix 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 AInt J Syst Evol Microbiol10.1099/ijs.0.018069-02009Chloroflexi/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil MicrobiologyMetabolism
Phylogeny20495028Thermogemmatispora 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 AInt J Syst Evol Microbiol10.1099/ijs.0.024877-02010Amino 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/analysisStress
Phylogeny20513961A 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 AJ Gen Appl Microbiol10.2323/jgam.56.1372010Chloroflexi/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/physiologyGenetics
Metabolism24474719Identification 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 TChembiochem10.1002/cbic.2013006902014Bacterial 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/metabolismPathogenicity
Phylogeny26961584Thermosporothrix 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 AInt J Syst Evol Microbiol10.1099/ijsem.0.0010042016Bacterial 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/chemistryTranscriptome
Pathogenicity31164714Ktedonoketone 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 NJ Antibiot (Tokyo)10.1038/s41429-019-0195-72019Adipocytes/drug effects, Animals, Biological Products/chemistry/*isolation & purification, Biosynthetic Pathways, Cell Differentiation/drug effects, Cell Line, Chloroflexi/*metabolism, Mice, Molecular StructureEnzymology
Metabolism33676867High 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 SJ Biosci Bioeng10.1016/j.jbiosc.2021.01.0082021Bacteria/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/metabolismGenetics

Reference

@idauthorstitledoi/urlID_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
29657Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172604528776041
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG