Strain identifier
BacDive ID: 17695
Type strain: 
Species: Algoriphagus antarcticus
Strain Designation: R-10710
Strain history: <- LMG <- J. Mergaert; R-10710
NCBI tax ID(s): 238540 (species)
version 8.1 (current version)
General
@ref: 6222
BacDive-ID: 17695
DSM-Number: 15986
keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, rod-shaped
description: Algoriphagus antarcticus R-10710 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from microbial mat.
NCBI tax id
- NCBI tax id: 238540
- Matching level: species
strain history
- @ref: 6222
- history: <- LMG <- J. Mergaert; R-10710
doi: 10.13145/bacdive17695.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Cyclobacteriaceae
- genus: Algoriphagus
- species: Algoriphagus antarcticus
- full scientific name: Algoriphagus antarcticus Van Trappen et al. 2004
@ref: 6222
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Cyclobacteriaceae
genus: Algoriphagus
species: Algoriphagus antarcticus
full scientific name: Algoriphagus antarcticus Van Trappen et al. 2004
strain designation: R-10710
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 30127 | negative | 2.5 µm | 0.5 µm | rod-shaped | no | |
| 69480 | no | 93.038 | ||||
| 69480 | negative | 99.983 |
pigmentation
- @ref: 30127
- production: yes
Culture and growth conditions
culture medium
- @ref: 6222
- 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 | growth | type | temperature | range |
|---|---|---|---|---|
| 6222 | positive | growth | 20 | psychrophilic |
| 30127 | positive | growth | 05-20 | psychrophilic |
| 30127 | positive | optimum | 20 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 30127
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.981 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30127 | NaCl | positive | growth | 0-5 % |
| 30127 | NaCl | positive | optimum | 2.5 % |
metabolite utilization
- @ref: 30127
- Chebi-ID: 4853
- metabolite: esculin
- utilization activity: +
- kind of utilization tested: hydrolysis
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30127 | catalase | + | 1.11.1.6 |
| 30127 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 6222
- sample type: microbial mat
- geographic location: Lake Reid, Larsemann Hills
- continent: Australia and Oceania
isolation source categories
- Cat1: #Environmental
- Cat2: #Microbial community
- Cat3: #Microbial mat
taxonmaps
- @ref: 69479
- File name: preview.99_22006.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15774;96_2082;97_5333;98_16596;99_22006&stattab=map
- Last taxonomy: Algoriphagus antarcticus
- 16S sequence: AJ577141
- Sequence Identity:
- Total samples: 81
- soil counts: 41
- aquatic counts: 38
- animal counts: 2
Safety information
risk assessment
- @ref: 6222
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6222
- description: Algoriphagus antarcticus 16S rRNA gene, strain LMG 21980
- accession: AJ577141
- length: 1473
- database: ena
- NCBI tax ID: 238540
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Algoriphagus antarcticus DSM 15986 | GCA_002150685 | contig | ncbi | 238540 |
| 66792 | Algoriphagus antarcticus DSM 15986 | GCA_003387655 | scaffold | ncbi | 238540 |
| 66792 | Algoriphagus antarcticus strain DSM 15986 | 238540.3 | wgs | patric | 238540 |
| 66792 | Algoriphagus antarcticus strain DSM 15986 | 238540.5 | wgs | patric | 238540 |
| 66792 | Algoriphagus antarcticus DSM 15986 (v2) | 2739367658 | draft | img | 238540 |
GC content
- @ref: 30127
- GC-content: 40
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 97.073 | yes |
| gram-positive | no | 97.757 | yes |
| anaerobic | no | 98.192 | yes |
| aerobic | yes | 89.716 | yes |
| halophile | no | 66.398 | no |
| spore-forming | no | 95.3 | no |
| glucose-util | yes | 88.318 | no |
| thermophile | no | 99.41 | yes |
| motile | no | 91.456 | yes |
| glucose-ferment | no | 89.431 | no |
External links
@ref: 6222
culture collection no.: DSM 15986, LMG 21980
straininfo link
- @ref: 86686
- straininfo: 24307
literature
- topic: Phylogeny
- Pubmed-ID: 15545419
- title: Algoriphagus antarcticus sp. nov., a novel psychrophile from microbial mats in Antarctic lakes.
- authors: Van Trappen S, Vandecandelaere I, Mergaert J, Swings J
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02973-0
- year: 2004
- mesh: Aerobiosis, Antarctic Regions, Bacterial Typing Techniques, Base Composition, Cold Temperature, Cytophagaceae/*classification/genetics/*isolation & purification/physiology, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Fresh Water/*microbiology, Genes, rRNA, Gentian Violet, Molecular Sequence Data, Organic Chemicals/metabolism, Phenazines, Phylogeny, Pigments, Biological/biosynthesis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Water Microbiology
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 6222 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15986) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15986 | |||
| 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 | |||
| 30127 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26480 | 28776041 | |
| 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) | |||
| 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 | |||
| 86686 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID24307.1 | StrainInfo: A central database for resolving microbial strain identifiers |