Strain identifier
BacDive ID: 5597
Type strain: 
Species: Gelidibacter algens
Strain history: <- J. P. Bowman, ACAM <- D. Nichols
NCBI tax ID(s): 49280 (species)
version 8.1 (current version)
General
@ref: 4545
BacDive-ID: 5597
DSM-Number: 12408
keywords: genome sequence, 16S sequence, Bacteria, psychrophilic
description: Gelidibacter algens DSM 12408 is a psychrophilic bacterium that was isolated from sea ice.
NCBI tax id
- NCBI tax id: 49280
- Matching level: species
strain history
- @ref: 4545
- history: <- J. P. Bowman, ACAM <- D. Nichols
doi: 10.13145/bacdive5597.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Gelidibacter
- species: Gelidibacter algens
- full scientific name: Gelidibacter algens Bowman et al. 1997
@ref: 4545
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Gelidibacter
species: Gelidibacter algens
full scientific name: Gelidibacter algens Bowman et al. 1997
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 91.369 | |
| 69480 | 99.885 | negative |
Culture and growth conditions
culture medium
- @ref: 4545
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
- @ref: 4545
- growth: positive
- type: growth
- temperature: 10
- range: psychrophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.969 |
Isolation, sampling and environmental information
isolation
- @ref: 4545
- sample type: sea ice
- geographic location: Ellis Fjord, Vestfold Hills
- continent: Australia and Oceania
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Ice |
| #Environmental | #Aquatic | #Marine |
taxonmaps
- @ref: 69479
- File name: preview.99_6696.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_3169;97_3885;98_4939;99_6696&stattab=map
- Last taxonomy: Gelidibacter algens subclade
- 16S sequence: U62914
- Sequence Identity:
- Total samples: 135
- soil counts: 15
- aquatic counts: 100
- animal counts: 20
Safety information
risk assessment
- @ref: 4545
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Gelidibacter algens ACAM 536T 16S ribosomal RNA gene, partial sequence
- accession: U62914
- length: 1478
- database: ena
- NCBI tax ID: 49280
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Gelidibacter algens DSM 12408 | GCA_003259265 | scaffold | ncbi | 49280 |
| 66792 | Gelidibacter algens ACAM 536 | GCA_001678675 | contig | ncbi | 49280 |
| 66792 | Gelidibacter algens strain ACAM 536 | 49280.15 | wgs | patric | 49280 |
| 66792 | Gelidibacter algens strain DSM 12408 | 49280.10 | wgs | patric | 49280 |
| 66792 | Gelidibacter algens DSM 12408 | 2593339300 | draft | img | 49280 |
GC content
- @ref: 4545
- GC-content: 36-38
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 87.279 | no |
| flagellated | no | 93.973 | no |
| gram-positive | no | 97.576 | no |
| anaerobic | no | 99.186 | no |
| aerobic | yes | 88.135 | no |
| halophile | no | 69.374 | no |
| spore-forming | no | 95.048 | no |
| glucose-util | yes | 85.255 | no |
| glucose-ferment | no | 92.256 | no |
| thermophile | no | 99.719 | yes |
External links
@ref: 4545
culture collection no.: DSM 12408, ACAM 536, ATCC 700364
straininfo link
- @ref: 75079
- straininfo: 43893
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 9226898 | Psychroserpens burtonensis gen. nov., sp. nov., and Gelidibacter algens gen. nov., sp. nov., psychrophilic bacteria isolated from antarctic lacustrine and sea ice habitats. | Bowman JP, McCammon SA, Brown JL, Nichols PD, McMeekin TA | Int J Syst Bacteriol | 10.1099/00207713-47-3-670 | 1997 | Antarctic Regions, Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genotype, Gram-Negative Bacteria/*classification/genetics/isolation & purification, Molecular Sequence Data, Oceans and Seas, Phenotype, Phylogeny, Seawater/*microbiology | Genetics |
| Genetics | 27587822 | Draft Genome Sequence of the Psychrophilic Gliding Species Gelidibacter algens ACAM 536. | Bowman JP | Genome Announc | 10.1128/genomeA.00908-16 | 2016 | ||
| Phylogeny | 28913636 | Gelidibacter flavus sp. nov., Isolated from Activated Sludge of Seawater Treatment System. | Kim HS, Bang JJ, Lee SS | Curr Microbiol | 10.1007/s00284-017-1280-4 | 2017 | Flavobacteriaceae/*classification/genetics/isolation & purification, Genome, Bacterial, Genomics/methods, Genotype, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sewage/*microbiology | Genetics |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4545 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12408) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12408 | |||
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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 | |||
| 75079 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43893.1 | StrainInfo: A central database for resolving microbial strain identifiers |