Strain identifier
BacDive ID: 17673
Type strain:
Species: Haloplasma contractile
Strain Designation: SSD-17B
Strain history: A. Antunes SSD-17B.
NCBI tax ID(s): 471825 (species)
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
@ref | history |
---|---|
7744 | <- A. G. L. Antunes, Univ. Coimbra, Portugal; SSD-17B |
67770 | A. 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
@ref | growth | type | temperature | range |
---|---|---|---|---|
7744 | positive | growth | 30-37 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 7744
- oxygen tolerance: anaerobe
observation
- @ref: 67770
- observation: quinones: MK-4
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
7744 | anoxic hypersaline brine-sediment interface | Red Sea, Shaban Deep | Saudi Arabia | SAU | Asia |
67770 | Hypersaline brine-sediment interface of the Shaban Deep | Red Sea |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Haloplasma contractile SSD-17B | 1033810.11 | wgs | patric | 1033810 |
66792 | Haloplasma contractile SSD-17B | 2562617192 | draft | img | 1033810 |
67770 | Haloplasma contractile SSD-17B | GCA_000215935 | contig | ncbi | 1033810 |
GC content
- @ref: 7744
- GC-content: 33.6
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 86.797 | no |
flagellated | no | 93.448 | no |
gram-positive | yes | 89.036 | no |
anaerobic | yes | 93.913 | yes |
aerobic | no | 92.876 | yes |
halophile | no | 62.388 | no |
spore-forming | no | 55.221 | no |
thermophile | no | 97.81 | yes |
glucose-util | yes | 88.197 | no |
glucose-ferment | no | 52.254 | no |
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
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
7744 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18853) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18853 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
69479 | João 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 | |
86664 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID405889.1 | StrainInfo: A central database for resolving microbial strain identifiers |