Strain identifier

BacDive ID: 11666

Type strain: Yes

Species: Thermobacillus composti

Strain Designation: KWC4

Strain history: N. Kurosawa KWC4.

NCBI tax ID(s): 717605 (strain), 377615 (species)

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General

@ref: 7456

BacDive-ID: 11666

DSM-Number: 18247

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-negative, rod-shaped

description: Thermobacillus composti KWC4 is an aerobe, spore-forming, Gram-negative bacterium that was isolated from fed-batch composting reactor.

NCBI tax id

NCBI tax idMatching level
717605strain
377615species

strain history

@refhistory
7456<- N. Kurosawa <- K. Watanabe, KWC4
67770N. Kurosawa KWC4.

doi: 10.13145/bacdive11666.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Paenibacillaceae
  • genus: Thermobacillus
  • species: Thermobacillus composti
  • full scientific name: Thermobacillus composti Watanabe et al. 2007

@ref: 7456

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Thermobacillus

species: Thermobacillus composti

full scientific name: Thermobacillus composti Watanabe et al. 2007

strain designation: KWC4

type strain: yes

Morphology

cell morphology

  • @ref: 31933
  • gram stain: negative
  • cell length: 3.5 µm
  • cell width: 0.6 µm
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

  • @ref: 7456
  • name: SULFOLOBUS MEDIUM (DSMZ Medium 88)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/88
  • composition: Name: SULFOLOBUS MEDIUM (DSMZ Medium 88; with strain-specific modifications) Composition: Gelrite 7.0 g/l Yeast extract 5.0 g/l (NH4)2SO4 1.28713 g/l KH2PO4 0.277228 g/l MgSO4 x 7 H2O 0.247525 g/l CaCl2 x 2 H2O 0.0693069 g/l FeCl3 x 6 H2O 0.019802 g/l Na2B4O7 x 10 H2O 0.00445545 g/l MnCl2 x 4 H2O 0.00178218 g/l ZnSO4 x 7 H2O 0.000217822 g/l CuCl2 x 2 H2O 4.95049e-05 g/l Na2MoO4 x 2 H2O 2.9703e-05 g/l VOSO4 x 2 H2O 2.9703e-05 g/l CoSO4 x 7 H2O 9.90099e-06 g/l Distilled water

culture temp

@refgrowthtypetemperature
7456positivegrowth50
31933positivegrowth32-61
31933positiveoptimum50
67770positivegrowth50

culture pH

@refabilitytypepHPH range
31933positivegrowth5.6-10.1alkaliphile
31933positiveoptimum9

Physiology and metabolism

oxygen tolerance

  • @ref: 31933
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31933yes
69480yes91.675

halophily

  • @ref: 31933
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0.0-4.4 %

observation

@refobservation
31933aggregates in chains
67770quinones: MK-6(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3193317057cellobiose+carbon source
3193323652dextrin+carbon source
3193328757fructose+carbon source
3193328260galactose+carbon source
3193317234glucose+carbon source
3193317716lactose+carbon source
3193317306maltose+carbon source
3193337684mannose+carbon source
3193328053melibiose+carbon source
31933506227N-acetylglucosamine+carbon source
3193317992sucrose+carbon source
3193327082trehalose+carbon source
3193318222xylose+carbon source

enzymes

@refvalueactivityec
31933acid phosphatase+3.1.3.2
31933alkaline phosphatase+3.1.3.1
31933alpha-galactosidase+3.2.1.22
31933catalase+1.11.1.6
31933cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7456fed-batch composting reactorHachioji, TokyoJapanJPNAsia
67770Composting reactor

isolation source categories

Cat1Cat2Cat3
#Engineered#Biodegradation#Composting
#Engineered#Bioreactor

taxonmaps

  • @ref: 69479
  • File name: preview.99_3881.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_1989;97_2391;98_2953;99_3881&stattab=map
  • Last taxonomy: Thermobacillus
  • 16S sequence: AB254031
  • Sequence Identity:
  • Total samples: 10018
  • soil counts: 4904
  • aquatic counts: 1207
  • animal counts: 1953
  • plant counts: 1954

Safety information

risk assessment

  • @ref: 7456
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7456
  • description: Thermobacillus composti gene for 16S ribosomal RNA, partial sequence
  • accession: AB254031
  • length: 1528
  • database: nuccore
  • NCBI tax ID: 717605

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermobacillus composti KWC4GCA_000227705completencbi717605
66792Thermobacillus composti KWC4717605.9plasmidpatric717605
66792Thermobacillus composti KWC4, DSM 182472508501069completeimg717605

GC content

@refGC-contentmethod
745660
6777060high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes56.441yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no95.087yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes58.715no
69480spore-formingspore-formingAbility to form endo- or exosporesyes91.675no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno74.869no
69480flagellatedmotile2+Ability to perform flagellated movementyes84.805no

External links

@ref: 7456

culture collection no.: DSM 18247, JCM 13945

straininfo link

  • @ref: 80887
  • straininfo: 309511

literature

  • topic: Phylogeny
  • Pubmed-ID: 17625178
  • title: Thermobacillus composti sp. nov., a moderately thermophilic bacterium isolated from a composting reactor.
  • authors: Watanabe K, Nagao N, Yamamoto S, Toda T, Kurosawa N
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64672-0
  • year: 2007
  • mesh: Base Composition, DNA Transposable Elements, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA/genetics, Gram-Negative Aerobic Rods and Cocci/chemistry/*classification/genetics/*isolation & purification, Hot Temperature, Hydrogen-Ion Concentration, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Soil, *Soil Microbiology, Temperature
  • topic2: Stress

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
7456Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18247)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18247
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
31933Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2819028776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
80887Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID309511.1StrainInfo: A central database for resolving microbial strain identifiers