Strain identifier

BacDive ID: 24812

Type strain: Yes

Species: Methylothermus subterraneus

Strain Designation: HTM55

Strain history: H. Hirayama HTM55.

NCBI tax ID(s): 697197 (species)

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General

@ref: 21088

BacDive-ID: 24812

DSM-Number: 19750

keywords: 16S sequence, Bacteria, thermophilic

description: Methylothermus subterraneus HTM55 is a thermophilic bacterium that was isolated from hot spring water a subsurface gold mine.

NCBI tax id

  • NCBI tax id: 697197
  • Matching level: species

strain history

@refhistory
21088<- H. Hirayama, Japan Agency for Marine-Earth Sci. and Technol. (JAMSTEC), Extremobiosphere Res. Center, Yokosuka; HTM55
67770H. Hirayama HTM55.

doi: 10.13145/bacdive24812.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Methylococcales
  • family: Methylothermaceae
  • genus: Methylothermus
  • species: Methylothermus subterraneus
  • full scientific name: Methylothermus subterraneus Hirayama et al. 2019

  • synonyms

    • @ref: 20215
    • synonym: Methylothermus subterraneus

@ref: 21088

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Methylococcales

family: Methylothermaceae

genus: Methylothermus

species: Methylothermus subterraneus

full scientific name: Methylothermus subterraneus Hirayama et al. 2011

strain designation: HTM55

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 21088
  • name: METHYLOTHERMUS MEDIUM (DSMZ Medium 1412)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1412
  • composition: Name: METHYLOTHERMUS MEDIUM (DSMZ Medium 1412) Composition: KCl 33.0 g/l NaCl 3.0 g/l NaHCO3 2.5 g/l MgCl2 x 6 H2O 0.42 g/l MgSO4 x 7 H2O 0.34 g/l NaNO3 0.25 g/l NH4Cl 0.25 g/l CaCl2 x 2 H2O 0.08 g/l Fe2(SO4)3 x n H2O 0.02 g/l KH2PO4 0.014 g/l Nitrilotriacetic acid 0.0045 g/l MnSO4 x 2 H2O 0.0015 g/l ZnSO4 x 7 H2O 0.00054 g/l CoSO4 x 7 H2O 0.00054 g/l Na2SeO3 x 5 H2O 0.0005 g/l NiCl2 x 6 H2O 0.0005 g/l Na2SiO3 x 9 H2O 0.0002 g/l AlK(SO4)2 x 12 H2O 6e-05 g/l H3BO4 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l CuSO4 x 5 H2O 3e-05 g/l Pyridoxine hydrochloride 1e-05 g/l Thiamine HCl 5e-06 g/l Riboflavin 5e-06 g/l Nicotinic acid 5e-06 g/l D-Calcium pantothenate 5e-06 g/l p-Aminobenzoic acid 5e-06 g/l Lipoic acid 5e-06 g/l Folic acid 2e-06 g/l Biotin 2e-06 g/l Vitamin B12 1e-07 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21088positivegrowth55thermophilic
67770positivegrowth50thermophilic

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
21088hot spring water a subsurface gold mineJapanJPNAsia
67770Subsurface hot aquifer water in the Hishikari gold mineJapanJPNAsiaKagoshima

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_64149.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5567;96_27914;97_35145;98_45370;99_64149&stattab=map
  • Last taxonomy: Methylothermus
  • 16S sequence: AB536747
  • Sequence Identity:
  • Total samples: 27
  • soil counts: 1
  • aquatic counts: 22
  • animal counts: 3
  • plant counts: 1

Safety information

risk assessment

  • @ref: 21088
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21088
  • description: Methylothermus subterraneus gene for 16S rRNA, partial sequence
  • accession: AB536747
  • length: 1470
  • database: ena
  • NCBI tax ID: 697197

GC content

  • @ref: 21088
  • GC-content: 54.4
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 21088

culture collection no.: DSM 19750, JCM 13664

straininfo link

  • @ref: 88634
  • straininfo: 406724

literature

  • topic: Phylogeny
  • Pubmed-ID: 21148670
  • title: Methylothermus subterraneus sp. nov., a moderately thermophilic methanotroph isolated from a terrestrial subsurface hot aquifer.
  • authors: Hirayama H, Suzuki Y, Abe M, Miyazaki M, Makita H, Inagaki F, Uematsu K, Takai K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.028092-0
  • year: 2010
  • mesh: Base Composition, DNA, Bacterial/genetics, Fatty Acids/metabolism, Hot Springs/*microbiology, Hot Temperature, Methane/*metabolism, Methanol/*metabolism, Methylococcaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics
  • topic2: Metabolism

Reference

@idauthorstitledoi/urlcatalogue
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
21088Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-19750Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19750)
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/
88634Reimer, 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 identifiers10.60712/SI-ID406724.1