Strain identifier
BacDive ID: 5895
Type strain: 
Species: Natrinema salaciae
Strain Designation: MDB25
Strain history: M. S. da Costa MDB25.
NCBI tax ID(s): 1186196 (species)
version 8.1 (current version)
General
@ref: 17828
BacDive-ID: 5895
DSM-Number: 25055
keywords: genome sequence, 16S sequence, Archaea, thermophilic, Gram-negative
description: Natrinema salaciae MDB25 is a thermophilic, Gram-negative archaeon that was isolated from anoxic brine.
NCBI tax id
- NCBI tax id: 1186196
- Matching level: species
strain history
| @ref | history |
|---|---|
| 17828 | <- M. da Costa, Univ. Coimbra, Portugal; MDB25 <- M. Taborda |
| 67770 | M. S. da Costa MDB25. |
doi: 10.13145/bacdive5895.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Halobacteria
- order: Natrialbales
- family: Natrialbaceae
- genus: Natrinema
- species: Natrinema salaciae
- full scientific name: Natrinema salaciae Albuquerque et al. 2012
@ref: 17828
domain: Archaea
phylum: Euryarchaeota
class: Halobacteria
order: Halobacteriales
family: Natrialbaceae
genus: Natrinema
species: Natrinema salaciae
full scientific name: Natrinema salaciae Albuquerque et al. 2012
strain designation: MDB25
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.943
colony morphology
- @ref: 17828
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 17828
- name: HALOBACTERIA MEDIUM (DSMZ Medium 372)
- growth: yes
- link: https://mediadive.dsmz.de/medium/372
- composition: Name: HALOBACTERIA MEDIUM (DSMZ Medium 372) Composition: NaCl 200.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 17828 | positive | growth | 45 | thermophilic |
| 67770 | positive | growth | 45 | thermophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 93 |
| 69480 | no | 99.925 |
observation
- @ref: 67770
- observation: quinones: MK-8, MK-8(H2)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 17828 | anoxic brine | Eastern Mediterranean Sea, Lake Medee (34°19.778'N and 22°31.341'E) at a depth of 3050 m | Italy | ITA | Europe | 34.3296 | 22.5224 |
| 67770 | Brine from Lake Medee, at a depth of 3050 m | Mediterranean Sea |
isolation source categories
| Cat1 | Cat2 |
|---|---|
| #Environmental | #Aquatic |
| #Condition | #Anoxic (anaerobic) |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_191737.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17652;96_69524;97_91960;98_124971;99_191737&stattab=map
- Last taxonomy: Natrinema salaciae subclade
- 16S sequence: JQ669385
- Sequence Identity:
- Total samples: 1
- soil counts: 1
Safety information
risk assessment
- @ref: 17828
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Natrinema salaciae gene for 16S ribosomal RNA, partial sequence, strain: JCM 17869 | AB935413 | 1474 | ena | 1186196 |
| 17828 | Natrinema salaciae strain MDB25 16S ribosomal RNA gene, partial sequence | JQ669385 | 1460 | ena | 1186196 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Natrinema salaciae DSM 25055 | 2639762573 | draft | img | 1186196 |
| 67770 | Natrinema salaciae DSM 25055 | GCA_900110865 | scaffold | ncbi | 1186196 |
| 66792 | Natrinema salaciae strain DSM 25055 | 1186196.3 | wgs | patric | 1186196 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 17828 | 63.0 | high performance liquid chromatography (HPLC) |
| 67770 | 63 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
- trait: spore-forming
- prediction: no
- confidence: 93
- training_data: no
External links
@ref: 17828
culture collection no.: DSM 25055, CECT 8172, JCM 17869
straininfo link
- @ref: 75375
- straininfo: 381617
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22817877 | Natrinema salaciae sp. nov., a halophilic archaeon isolated from the deep, hypersaline anoxic Lake Medee in the Eastern Mediterranean Sea. | Albuquerque L, Taborda M, La Cono V, Yakimov M, da Costa MS | Syst Appl Microbiol | 10.1016/j.syapm.2012.06.005 | 2012 | Anaerobiosis, Genes, Archaeal/genetics, Halobacteriaceae/*classification/genetics/*isolation & purification, Italy, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Salts, Water Microbiology | Genetics |
| Phylogeny | 28650314 | Natrinema soli sp. nov., a novel halophilic archaeon isolated from a hypersaline wetland. | Rasooli M, Naghoni A, Amoozegar MA, Mirfeizi L, Moshtaghi Nikou M, Shahzadeh Fazeli SA, Minegishi H, Ventosa A | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001909 | 2017 | DNA, Archaeal/genetics, Genes, Archaeal, Glycolipids/chemistry, Halobacteriaceae/*classification/genetics/isolation & purification, Iran, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, *Wetlands | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 17828 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25055) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25055 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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 | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 75375 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID381617.1 | StrainInfo: A central database for resolving microbial strain identifiers |