Strain identifier

BacDive ID: 11904

Type strain: Yes

Species: Methylophaga thalassica

Strain history: CIP <- 1995, M. Janvier and F. Gasser, Inst. Pasteur, Paris, France <- NCIMB, "Methylomonas thalassica" <- K. Kouno

NCBI tax ID(s): 40223 (species)

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General

@ref: 2287

BacDive-ID: 11904

DSM-Number: 5690

keywords: 16S sequence, Bacteria, mesophilic

description: Methylophaga thalassica DSM 5690 is a mesophilic bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 40223
  • Matching level: species

strain history

@refhistory
2287<- NCIMB <- K. Kouno
67770T. Urakami TK 1102 <-- NCMB 2163 <-- K. Kouno YK 4015.
123498CIP <- 1995, M. Janvier and F. Gasser, Inst. Pasteur, Paris, France <- NCIMB, "Methylomonas thalassica" <- K. Kouno

doi: 10.13145/bacdive11904.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Beggiatoales
  • family: Piscirickettsiaceae
  • genus: Methylophaga
  • species: Methylophaga thalassica
  • full scientific name: Methylophaga thalassica Janvier et al. 1985

@ref: 2287

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Thiotrichales

family: Piscirickettsiaceae

genus: Methylophaga

species: Methylophaga thalassica

full scientific name: Methylophaga thalassica Janvier et al. 1985

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2287MEDIUM FOR MARINE METHYLOTROPHS (DSMZ Medium 750)yeshttps://mediadive.dsmz.de/medium/750Name: MEDIUM FOR MARINE METHYLOTROPHS (DSMZ Medium 750) Composition: NaCl 25.0 g/l Agar 20.0 g/l Peptone 10.0 g/l Methanol 7.92 g/l Beef extract 7.0 g/l (NH4)2SO4 1.0 g/l K2HPO4 1.0 g/l Distilled water
39039MEDIUM 138 - for Methylophaga thalassica and Methylophaga marinayesDistilled water make up to (972.000 ml);Sodium chloride (24.000 g);Potassium chloride (0.500 g);Magnesium chloride hexahydrate (3.000 g);Magnesium sulphate heptahydrate (2.000 g);Calcium chloride dihydrate (1.000 g);Methanol (6.000 ml);Trizma hydrochlorid
123498CIP Medium 138yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=138

culture temp

@refgrowthtypetemperaturerange
2287positivegrowth25-30mesophilic
39039positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

observation

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

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
2287seawaterKanagawa PrefectureJapanJPNAsia
67770Coastal seawaterKanagawaJapanJPNAsia
123498Environment, Coastal sea waterKanagawaJapanJPNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_7528.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_54;96_118;97_4308;98_5516;99_7528&stattab=map
  • Last taxonomy: Methylophaga thalassica
  • 16S sequence: X87339
  • Sequence Identity:
  • Total samples: 212
  • soil counts: 9
  • aquatic counts: 189
  • animal counts: 14

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
22871Risk group (German classification)
1234981Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218M.thalassica DNA for 16S ribosomal RNA (ATCC 33146)X873391489ena40223
20218M.thalassica mRNA for 16S ribosomal RNAX954601491ena40223
20218Methylophaga thalassica gene for 16S rRNA, partial sequence, strain: NBRC 102424AB6817801463ena40223

GC content

@refGC-contentmethod
6777044.9high performance liquid chromatography (HPLC)
6777044thermal denaturation, midpoint method (Tm)
6777043.8thermal denaturation, midpoint method (Tm)

External links

@ref: 2287

culture collection no.: DSM 5690, ATCC 33146, IAM 12458, LMG 4055, NCIMB 2163, JCM 6887, CIP 104552, KCTC 2861, NBRC 102424, VKM B-2057

straininfo link

  • @ref: 81119
  • straininfo: 3573

literature

  • topic: Enzymology
  • Pubmed-ID: 18410346
  • title: Characterization of the recombinant diaminobutyric acid acetyltransferase from Methylophaga thalassica and Methylophaga alcalica.
  • authors: Mustakhimov II, Rozova ON, Reshetnikov AS, Khmelenina VN, Murrell JC, Trotsenko YA
  • journal: FEMS Microbiol Lett
  • DOI: 10.1111/j.1574-6968.2008.01156.x
  • year: 2008
  • mesh: Acetyltransferases/*biosynthesis, Carbonates/metabolism, Cations, Divalent, Cloning, Molecular, Copper/metabolism, Enzyme Stability, Hydrogen-Ion Concentration, Molecular Weight, Osmolar Concentration, Piscirickettsiaceae/*enzymology, Potassium Chloride/metabolism, Recombinant Proteins/biosynthesis, Sodium Chloride/metabolism, Substrate Specificity, Temperature
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2287Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5690)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5690
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
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
39039Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16473
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
81119Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID3573.1StrainInfo: A central database for resolving microbial strain identifiers
123498Curators of the CIPCollection of Institut Pasteur (CIP 104552)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104552