Strain identifier
BacDive ID: 18097
Type strain: 
Species: Archaeoglobus profundus
Strain Designation: AV18
Strain history: DSM 5631 <-- K. O. Stetter and S. Burggraf AV18.
NCBI tax ID(s): 572546 (strain), 84156 (species)
version 8.1 (current version)
General
@ref: 2137
BacDive-ID: 18097
DSM-Number: 5631
keywords: genome sequence, 16S sequence, Archaea, anaerobe, spore-forming, hyperthermophilic, Gram-negative
description: Archaeoglobus profundus AV18 is an anaerobe, spore-forming, hyperthermophilic archaeon that was isolated from deep sea hydrothermal vents.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 572546 | strain |
| 84156 | species |
strain history
| @ref | history |
|---|---|
| 2137 | <- K.O. Stetter and S. Burggraf, Av18 |
| 67770 | DSM 5631 <-- K. O. Stetter and S. Burggraf AV18. |
doi: 10.13145/bacdive18097.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Archaeoglobi
- order: Archaeoglobales
- family: Archaeoglobaceae
- genus: Archaeoglobus
- species: Archaeoglobus profundus
- full scientific name: Archaeoglobus profundus Burggraf et al. 1990
@ref: 2137
domain: Archaea
phylum: Euryarchaeota
class: Archaeoglobi
order: Archaeoglobales
family: Archaeoglobaceae
genus: Archaeoglobus
species: Archaeoglobus profundus
full scientific name: Archaeoglobus profundus Burggraf et al. 1990
strain designation: AV18
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.965
Culture and growth conditions
culture medium
- @ref: 2137
- name: ARCHAEOGLOBUS PROFUNDUS MEDIUM (DSMZ Medium 519)
- growth: yes
- link: https://mediadive.dsmz.de/medium/519
- composition: Name: ARCHAEOGLOBUS PROFUNDUS MEDIUM (DSMZ Medium 519) Composition: MgCl2 x 6 H2O 3.95257 g/l Na2SO4 2.66798 g/l NaHCO3 0.988142 g/l Na-acetate 0.988142 g/l Yeast extract 0.494071 g/l Na2S x 9 H2O 0.494071 g/l KCl 0.335968 g/l NH4Cl 0.247036 g/l K2HPO4 0.13834 g/l MgSO4 x 7 H2O 0.0296443 g/l Nitrilotriacetic acid 0.0148221 g/l NaCl 0.00988142 g/l MnSO4 x H2O 0.00494071 g/l Fe(NH4)2(SO4)2 x 7 H2O 0.00197628 g/l CoSO4 x 7 H2O 0.00177866 g/l ZnSO4 x 7 H2O 0.00177866 g/l FeSO4 x 7 H2O 0.000988142 g/l CaCl2 x 2 H2O 0.000988142 g/l Sodium resazurin 0.000494071 g/l NiCl2 x 6 H2O 0.000296443 g/l AlK(SO4)2 x 12 H2O 0.000197628 g/l CuSO4 x 5 H2O 9.88142e-05 g/l H3BO3 9.88142e-05 g/l Na2MoO4 x 2 H2O 9.88142e-05 g/l Na2WO4 x 2 H2O 3.95257e-06 g/l Na2SeO3 x 5 H2O 2.96443e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 2137 | positive | growth | 85 | hyperthermophilic | |
| 67770 | positive | growth | 80 | hyperthermophilic | |
| 69480 | thermophilic | 99.999 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 2137 | anaerobe | |
| 69480 | anaerobe | 99.732 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | no | 99.818 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 2137 | deep sea hydrothermal vents | Gulf of California, Guaymas Basin | Mexico | MEX | North America |
| 67770 | Deep sea hydrothermal system at Guaymas | Mexico | MEX | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Hydrothermal vent |
| #Environmental | #Aquatic | #Marine |
| #Condition | #Thermophilic (>45°C) |
Safety information
risk assessment
- @ref: 2137
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Archaeoglobus profundus DSM 5631 strain AV18 16S ribosomal RNA gene, partial sequence | JQ346760 | 1288 | ena | 572546 |
| 67770 | Archaeoglobus profundus 16S rRNA gene (partial), 23S rRNA gene (partial) and ITS1, strain AV18 | AJ299219 | 1796 | ena | 572546 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Archaeoglobus profundus DSM 5631 | GCA_000025285 | complete | ncbi | 572546 |
| 66792 | Archaeoglobus profundus Av18, DSM 5631 | 646311906 | complete | img | 572546 |
| 66792 | Archaeoglobus profundus DSM 5631 | 572546.16 | plasmid | patric | 572546 |
| 66792 | Archaeoglobus profundus DSM 5631 | 572546.12 | complete | patric | 572546 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 2137 | 41.0 | |
| 67770 | 41 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | no | 82.234 | no |
| flagellated | no | 96.513 | no |
| gram-positive | no | 97.674 | no |
| anaerobic | yes | 99.135 | yes |
| aerobic | no | 97.546 | yes |
| halophile | no | 74.958 | no |
| spore-forming | no | 94.789 | no |
| thermophile | yes | 99.692 | no |
| glucose-util | yes | 70.212 | no |
| glucose-ferment | no | 67.194 | no |
External links
@ref: 2137
culture collection no.: DSM 5631, JCM 9629, NBRC 100127
straininfo link
- @ref: 87085
- straininfo: 47962
literature
- topic: Biotechnology
- Pubmed-ID: 35398211
- title: Efficient production of inositol from glucose via a tri-enzymatic cascade pathway.
- authors: Wang J, Cheng H, Zhao Z, Zhang Y
- journal: Bioresour Technol
- DOI: 10.1016/j.biortech.2022.127125
- year: 2022
- mesh: *Glucose/metabolism, *Inositol
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 2137 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5631) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5631 | |||
| 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 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 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 | |||
| 87085 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47962.1 | StrainInfo: A central database for resolving microbial strain identifiers |