Strain identifier
BacDive ID: 2439
Type strain: 
Species: Halochromatium salexigens
Strain Designation: 6310
Strain history: <- P. Caumette, SG3201
NCBI tax ID(s): 49447 (species)
version 9.1 (current version)
General
@ref: 1555
BacDive-ID: 2439
DSM-Number: 4395
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-negative
description: Halochromatium salexigens 6310 is an anaerobe, Gram-negative bacterium that was isolated from salt marshes in salinas.
NCBI tax id
- NCBI tax id: 49447
- Matching level: species
strain history
- @ref: 1555
- history: <- P. Caumette, SG3201
doi: 10.13145/bacdive2439.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Chromatiales
- family: Chromatiaceae
- genus: Halochromatium
- species: Halochromatium salexigens
- full scientific name: Halochromatium salexigens (Caumette et al. 1989) Imhoff et al. 1998
synonyms
- @ref: 20215
- synonym: Chromatium salexigens
@ref: 1555
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Chromatiales
family: Chromatiaceae
genus: Halochromatium
species: Halochromatium salexigens
full scientific name: Halochromatium salexigens (Caumette et al. 1989) Imhoff et al. 1998
strain designation: 6310
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 96.744
Culture and growth conditions
culture medium
- @ref: 1555
- name: CHROMATIUM SALEXIGENS MEDIUM (DSMZ Medium 421)
- growth: yes
- link: https://mediadive.dsmz.de/medium/421
- composition: Name: CHROMATIUM SALEXIGENS MEDIUM (DSMZ Medium 421) Composition: NaCl 100.0 g/l MgCl2 x 6 H2O 3.0 g/l NaHCO3 1.5 g/l Na2S x 9 H2O 0.592592 g/l MgSO4 x 7 H2O 0.500001 g/l Na acetate 0.5 g/l Sodium Thiosulfate 0.5 g/l Ammonium chloride 0.349999 g/l KH2PO4 0.349999 g/l KCl 0.349999 g/l CaCl2 x 2 H2O 0.25 g/l Dextrose 0.25 g/l Pyruvic acid sodium salt 0.25 g/l Ammonium acetate 0.25 g/l Yeast extract 0.25 g/l Na2-EDTA 0.003 g/l Resazurin 0.00225 g/l FeSO4 x 7 H2O 0.0011 g/l Vitamin B12 0.001 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 2 H2O 5e-05 g/l ZnCl2 4.2e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l Na2MoO4 x 2 H2O 1.8e-05 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
- @ref: 1555
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
oxygen tolerance
- @ref: 1555
- oxygen tolerance: anaerobe
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 1555
- sample type: salt marshes in salinas
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Salt marsh |
| #Condition | #Saline |
Safety information
risk assessment
- @ref: 1555
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Halochromatium salexigens partial 16S rRNA gene, type strain 6310T
- accession: X98597
- length: 1451
- database: nuccore
- NCBI tax ID: 49447
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Halochromatium salexigens DSM 4395 | GCA_016653295 | scaffold | ncbi | 49447 |
| 66792 | Halochromatium salexigens strain DSM 4395 | 49447.5 | wgs | patric | 49447 |
GC content
- @ref: 1555
- GC-content: 64.6
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 96.744 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 74.099 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 74.791 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 88.596 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 88.015 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 70.268 | no |
External links
@ref: 1555
culture collection no.: DSM 4395, SG 3201
straininfo link
- @ref: 71986
- straininfo: 47842
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1555 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4395) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-4395 | |||
| 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) | |||
| 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 | |||
| 71986 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47842.1 | StrainInfo: A central database for resolving microbial strain identifiers |