Strain identifier

BacDive ID: 17673

Type strain: Yes

Species: Haloplasma contractile

Strain Designation: SSD-17B

Strain history: A. Antunes SSD-17B.

NCBI tax ID(s): 471825 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 7744

BacDive-ID: 17673

DSM-Number: 18853

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic

description: Haloplasma contractile SSD-17B is an anaerobe, mesophilic bacterium that was isolated from anoxic hypersaline brine-sediment interface.

NCBI tax id

  • NCBI tax id: 471825
  • Matching level: species

strain history

@refhistory
7744<- A. G. L. Antunes, Univ. Coimbra, Portugal; SSD-17B
67770A. Antunes SSD-17B.

doi: 10.13145/bacdive17673.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/mycoplasmatota
  • domain: Bacteria
  • phylum: Mycoplasmatota
  • class: Mollicutes
  • order: Haloplasmatales
  • family: Haloplasmataceae
  • genus: Haloplasma
  • species: Haloplasma contractile
  • full scientific name: Haloplasma contractile Antunes et al. 2008

@ref: 7744

domain: Bacteria

phylum: Tenericutes

class: Mollicutes

order: Haloplasmatales

family: Haloplasmataceae

genus: Haloplasma

species: Haloplasma contractile

full scientific name: Haloplasma contractile Antunes et al. 2008

strain designation: SSD-17B

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 7744
  • name: HALOPLASMA CONTRACTILE MEDIUM (DSMZ Medium 1231)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1231
  • composition: Name: HALOPLASMA CONTRACTILE MEDIUM (DSMZ Medium 1231) Composition: NaCl 6.925 g/l Starch 5.0 g/l MgSO4 x 7 H2O 1.75 g/l MgCl2 x 6 H2O 1.375 g/l KH2PO4 0.5 g/l Na2S x 9 H2O 0.5 g/l CaCl2 x 2 H2O 0.375 g/l Yeast extract 0.2 g/l Peptone 0.2 g/l KCl 0.15 g/l NaBr 0.025 g/l H3BO3 0.0075 g/l SrCl2 x 6 H2O 0.00375 g/l KI 1.25e-05 g/l Resazurin 5e-07 g/l Double distilled water Distilled water

culture temp

@refgrowthtypetemperaturerange
7744positivegrowth30-37mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 7744
  • oxygen tolerance: anaerobe

observation

  • @ref: 67770
  • observation: quinones: MK-4

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7744anoxic hypersaline brine-sediment interfaceRed Sea, Shaban DeepSaudi ArabiaSAUAsia
67770Hypersaline brine-sediment interface of the Shaban DeepRed Sea

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic
#Environmental#Aquatic#Sediment
#Condition#Anoxic (anaerobic)
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_1789.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_257;96_1017;97_1184;98_1415;99_1789&stattab=map
  • Last taxonomy: Haloplasma contractile subclade
  • 16S sequence: EF999972
  • Sequence Identity:
  • Total samples: 881
  • soil counts: 130
  • aquatic counts: 278
  • animal counts: 426
  • plant counts: 47

Safety information

risk assessment

  • @ref: 7744
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7744
  • description: Haloplasma contractile strain SSD-17B 16S ribosomal RNA gene, partial sequence
  • accession: EF999972
  • length: 1345
  • database: ena
  • NCBI tax ID: 1033810

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Haloplasma contractile SSD-17B1033810.11wgspatric1033810
66792Haloplasma contractile SSD-17B2562617192draftimg1033810
67770Haloplasma contractile SSD-17BGCA_000215935contigncbi1033810

GC content

  • @ref: 7744
  • GC-content: 33.6
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno86.797no
flagellatedno93.448no
gram-positiveyes89.036no
anaerobicyes93.913yes
aerobicno92.876yes
halophileno62.388no
spore-formingno55.221no
thermophileno97.81yes
glucose-utilyes88.197no
glucose-fermentno52.254no

External links

@ref: 7744

culture collection no.: DSM 18853, JCM 14575

straininfo link

  • @ref: 86664
  • straininfo: 405889

literature

  • topic: Phylogeny
  • Pubmed-ID: 18326567
  • title: A new lineage of halophilic, wall-less, contractile bacteria from a brine-filled deep of the Red Sea.
  • authors: Antunes A, Rainey FA, Wanner G, Taborda M, Patzold J, Nobre MF, da Costa MS, Huber R
  • journal: J Bacteriol
  • DOI: 10.1128/JB.01860-07
  • year: 2008
  • mesh: Anaerobiosis, Animals, Artemia/*microbiology, DNA, Bacterial/analysis/chemistry/genetics, Gram-Positive Bacteria/*classification/genetics, Molecular Sequence Data, *Phylogeny, Seawater/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
7744Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18853)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18853
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
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)
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
86664Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405889.1StrainInfo: A central database for resolving microbial strain identifiers