Strain identifier

BacDive ID: 16717

Type strain: Yes

Species: Thermus thermophilus

Strain Designation: HB8

Strain history: CIP <- 2010, DSMZ <- T. Oshima: strain HB8

NCBI tax ID(s): 300852 (strain), 274 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 297

BacDive-ID: 16717

DSM-Number: 579

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, thermophilic, Gram-negative, rod-shaped

description: Thermus thermophilus HB8 is a facultative anaerobe, thermophilic, Gram-negative bacterium that was isolated from hot spring.

NCBI tax id

NCBI tax idMatching level
300852strain
274species

strain history

@refhistory
297<- T. Oshima, HB8 (formerly Flavobacterium thermophilum)
67770S. Kuramitsu <-- T. Oshima HB8.
123511CIP <- 2010, DSMZ <- T. Oshima: strain HB8

doi: 10.13145/bacdive16717.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/deinococcota
  • domain: Bacteria
  • phylum: Deinococcota
  • class: Deinococci
  • order: Thermales
  • family: Thermaceae
  • genus: Thermus
  • species: Thermus thermophilus
  • full scientific name: Thermus thermophilus (ex Oshima and Imahori 1974) Manaia et al. 1995

  • synonyms

    • @ref: 20215
    • synonym: Thermus thermophilus

@ref: 297

domain: Bacteria

phylum: Deinococcus-Thermus

class: Deinococci

order: Thermales

family: Thermaceae

genus: Thermus

species: Thermus thermophilus

full scientific name: Thermus thermophilus (ex Oshima and Imahori 1974) Manaia et al. 1995

strain designation: HB8

type strain: yes

Morphology

cell morphology

  • @ref: 123511
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
297THERMUS 162 MEDIUM (DSMZ Medium 878)yeshttps://mediadive.dsmz.de/medium/878Name: THERMUS 162 MEDIUM (DSMZ Medium 878) Composition: Agar 28.0 g/l Na2HPO4 x 12 H2O 4.3 g/l Yeast extract 1.0 g/l Tryptone 1.0 g/l KH2PO4 0.544 g/l MgCl2 x 6 H2O 0.2 g/l Nitrilotriacetic acid 0.1 g/l CaSO4 x 2 H2O 0.04 g/l Fe(III) citrate 0.00122472 g/l MnSO4 x H2O 0.00114 g/l ZnSO4 x 7 H2O 0.00025 g/l H3BO3 0.00025 g/l CoCl2 x 6 H2O 2.25e-05 g/l CuSO4 x 5 H2O 1.25e-05 g/l Na2MoO4 x 2 H2O 1.25e-05 g/l H2SO4 Distilled water
32821MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123511CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
297positivegrowth75thermophilic
32821positivegrowth60thermophilic
67770positivegrowth75thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123511
  • oxygen tolerance: facultative anaerobe

compound production

@refcompound
297restriction endonuclease TthHB8I
297D xylose isomerase
297thermostable enzymes
20216Endonuclease TthHB8

observation

  • @ref: 67770
  • observation: quinones: MK-8

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
123511nitrate-reduction17632
123511nitrite-reduction16301

metabolite production

  • @ref: 123511
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

enzymes

@refvalueactivityec
123511oxidase+
123511catalase+1.11.1.6
123511urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123511-+++-+----++---++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123511----+/-------+/-+/--------+/----+/---+/---+/-+/--------+/---------+/-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
297hot springJapanJPNAsia
67770Hot spring water at Mine Hot SpringJapanJPNAsiaShizuoka
123511Environment, Water, hot springJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Thermal spring
#Condition#Thermophilic (>45°C)

taxonmaps

  • @ref: 69479
  • File name: preview.99_308.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_87;96_213;97_232;98_261;99_308&stattab=map
  • Last taxonomy: Thermus
  • 16S sequence: X07998
  • Sequence Identity:
  • Total samples: 12457
  • soil counts: 1743
  • aquatic counts: 3381
  • animal counts: 6610
  • plant counts: 723

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
2971Risk group (German classification)
1235111Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218T.thermophilus 16S ribosomal RNA, partX583421141ena300852
297Thermus thermophilus 16S ribosomal RNA geneX079981515ena300852
67770Thermus thermophilus gene for 16S rRNA, partial sequence, strain: JCM 10941AB6035171457ena274

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermus thermophilus HB8GCA_000091545completencbi300852
66792Thermus thermophilus JCM10941GCA_019973715completencbi274
66792Thermus thermophilus HB8300852.37plasmidpatric300852
66792Thermus thermophilus HB8300852.38plasmidpatric300852
66792Thermus thermophilus HB8300852.39plasmidpatric300852
66792Thermus thermophilus HB8300852.9completepatric300852
66792Thermus thermophilus HB8300852.40plasmidpatric300852
66792Thermus thermophilus strain JCM10941274.50completepatric274
66792Thermus thermophilus HB8637000323completeimg300852
66792Thermus thermophilus strain JCM10941274.76completepatric274
66792Thermus thermophilus strain JCM10941274.57completepatric274
66792Thermus thermophilus strain JCM10941274.69completepatric274

GC content

@refGC-content
29769.0
6777069

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno89.113no
flagellatedno97.864no
gram-positiveno95.951no
anaerobicno94no
aerobicyes79.561no
halophileno86.892no
spore-formingno91.564no
thermophileyes100yes
glucose-utilyes86.882no
glucose-fermentno86.595no

External links

@ref: 297

culture collection no.: DSM 579, ATCC 27634, JCM 10941, CGMCC 1.6492, NBRC 101084, NCIMB 11244, CIP 110185

straininfo link

  • @ref: 85736
  • straininfo: 5028

literature

topicPubmed-IDtitleauthorsjournalyearmeshtopic2DOI
Enzymology6622827Effect of various compounds on enkephalin hydrolysis by an aminopeptidase from the thermophiles Thermomonospora fusca ATCC 27730 and Thermus thermophilus ATCC 27634.Weiss B, Hui M, Lajtha ARes Commun Chem Pathol Pharmacol1983Actinomycetales/*enzymology, Aminopeptidases/antagonists & inhibitors/*metabolism, Enkephalins/*metabolism, Hot Temperature, Hydrogen-Ion Concentration, Metals/pharmacology, Sulfhydryl Reagents/*pharmacology, Thermus/*enzymologyMetabolism
Cultivation9620963Anaerobic growth, a property horizontally transferred by an Hfr-like mechanism among extreme thermophiles.Ramirez-Arcos S, Fernandez-Herrero LA, Marin I, Berenguer JJ Bacteriol1998Amino Acid Sequence, Anaerobiosis, Base Sequence, *Conjugation, Genetic, Culture Media, DNA, Bacterial/genetics, Escherichia coli/genetics, Gene Expression, Genes, Bacterial, Molecular Sequence Data, Multigene Family, Nitrate Reductase, Nitrate Reductases/genetics, Nitrates/metabolism, Operon, Plasmids/genetics, Replication Origin, Restriction Mapping, Thermus thermophilus/*genetics/*growth & development/metabolismGenetics10.1128/JB.180.12.3137-3143.1998
Enzymology9644249Molecular cloning, expression, and site-directed mutagenesis of inorganic pyrophosphatase from Thermus thermophilus HB8.Satoh T, Samejima T, Watanabe M, Nogi S, Takahashi Y, Kaji H, Teplyakov A, Obmolova G, Kuranova I, Ishii KJ Biochem1998Amino Acid Sequence, Amino Acid Substitution, Base Sequence, Cloning, Molecular, DNA, Bacterial, Enzyme Stability, Escherichia coli/genetics, Hydrolysis, Inorganic Pyrophosphatase, Molecular Sequence Data, Mutagenesis, Site-Directed, Pyrophosphatases/chemistry/*genetics/metabolism, Recombinant Proteins/chemistry/genetics/metabolism, Sequence Homology, Amino Acid, Thermus thermophilus/*enzymology, Tryptophan/chemistryGenetics10.1093/oxfordjournals.jbchem.a022100
Enzymology23411229Simple, fast, and efficient process for producing and purifying trehalulose.Wei Y, Liang J, Huang Y, Lei P, Du L, Huang RFood Chem2012Bacterial Proteins/chemistry, Biocatalysis, Disaccharides/chemistry/*isolation & purification, Glucosyltransferases/chemistry, Industrial Microbiology/economics/*methods, Saccharomyces cerevisiae/metabolism, Sucrose/chemistry, Thermus thermophilus/chemistry/*enzymologyPhylogeny10.1016/j.foodchem.2012.11.115
Metabolism27342638In vitro synthesis of polyhydroxyalkanoates using thermostable acetyl-CoA synthetase, CoA transferase, and PHA synthase from thermotorelant bacteria.Tajima K, Han X, Hashimoto Y, Satoh Y, Satoh T, Taguchi SJ Biosci Bioeng20163-Hydroxybutyric Acid/metabolism, Acetate-CoA Ligase/isolation & purification/*metabolism, Acetyl Coenzyme A/metabolism, Acyltransferases/isolation & purification/*metabolism, Coenzyme A-Transferases/isolation & purification/*metabolism, Enzyme Stability, Hydroxybutyrates/metabolism, Lactic Acid/metabolism, Peptococcaceae/*enzymology/metabolism, Polyesters/metabolism, Polyhydroxyalkanoates/*biosynthesis, Temperature, Thermus thermophilus/*enzymology/metabolismEnzymology10.1016/j.jbiosc.2016.06.001

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
297Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 579)https://www.dsmz.de/collection/catalogue/details/culture/DSM-579
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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
32821Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8017
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 updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
85736Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID5028.1StrainInfo: A central database for resolving microbial strain identifiers
123511Curators of the CIPCollection of Institut Pasteur (CIP 110185)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110185