Strain identifier
BacDive ID: 6157
Type strain:
Species: Aquabacter spiritensis
Strain Designation: SPL-1
Strain history: <- LMG <- J. Staley, SPL-1, (unidentified)
NCBI tax ID(s): 933073 (species)
General
@ref: 3393
BacDive-ID: 6157
DSM-Number: 9035
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Aquabacter spiritensis SPL-1 is a mesophilic, Gram-negative bacterium that was isolated from water .
NCBI tax id
- NCBI tax id: 933073
- Matching level: species
strain history
- @ref: 3393
- history: <- LMG <- J. Staley, SPL-1, (unidentified)
doi: 10.13145/bacdive6157.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Xanthobacteraceae
- genus: Aquabacter
- species: Aquabacter spiritensis
- full scientific name: Aquabacter spiritensis Irgens et al. 1993
@ref: 3393
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Xanthobacteraceae
genus: Aquabacter
species: Aquabacter spiritensis
full scientific name: Aquabacter spiritensis Irgens et al. 1993
strain designation: SPL-1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.994
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3393 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water |
3393 | MMB MEDIUM (DSMZ Medium 628) | yes | https://mediadive.dsmz.de/medium/628 | Name: MMB MEDIUM (DSMZ Medium 628) Composition: Glucose 1.0 g/l MgSO4 x 7 H2O 0.594 g/l (NH4)2SO4 0.25 g/l Nitrilotriacetic acid 0.2 g/l Yeast extract 0.15 g/l Peptone 0.15 g/l CaCl2 x 2 H2O 0.0667 g/l ZnSO4 x 7 H2O 0.001095 g/l FeSO4 x 7 H2O 0.0005 g/l Na-EDTA 0.00025 g/l (NH4)6Mo7O24 x 4 H2O 0.000185 g/l MnSO4 x H2O 0.000154 g/l Calcium pantothenate 5e-05 g/l Pyridoxine hydrochloride 5e-05 g/l Riboflavin 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l CuSO4 x 5 H2O 3.92e-05 g/l Co(NO3)2 x 6 H2O 2.48e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2B4O7 x 10 H2O 1.77e-05 g/l Vitamin B12 1e-06 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3393 | positive | growth | 28 | mesophilic |
3393 | positive | growth | 30 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
3393 | water (5 m depth) | Spirit Lake, Washinghton | USA | USA | North America | |
61658 | Water,5.0 m depth | Washington,Spirit Lake | USA | USA | North America | 1981-04-10 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
Safety information
risk assessment
- @ref: 3393
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3393
- description: Aquabacter spiritensis partial 16S rRNA gene, type strain DSM9035T
- accession: FR733686
- length: 1474
- database: ena
- NCBI tax ID: 933073
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Aquabacter spiritensis DSM 9035 | GCA_004346185 | scaffold | ncbi | 933073 |
66792 | Aquabacter spiritensis strain DSM 9035 | 933073.3 | wgs | patric | 933073 |
66792 | Aquabacter spiritensis DSM 9035 | 2784746799 | draft | img | 933073 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 84.649 | no |
flagellated | no | 59.482 | no |
gram-positive | no | 98.089 | no |
anaerobic | no | 95.696 | no |
aerobic | yes | 92.045 | no |
halophile | no | 80.934 | no |
spore-forming | no | 94.829 | no |
glucose-util | yes | 83.92 | no |
thermophile | no | 97.571 | yes |
glucose-ferment | no | 91.038 | no |
External links
@ref: 3393
culture collection no.: DSM 9035, ATCC 43981, LMG 8611, CCUG 58315
straininfo link
- @ref: 75643
- straininfo: 9843
literature
- topic: Phylogeny
- Pubmed-ID: 31592754
- title: Aquabacter cavernae sp. nov., a bacterium isolated from cave soil.
- authors: Duo JL, Cha QY, Zhou XK, Zhang TK, Qin SC, Yang PX, Zhu ML, Mo MH, Duan YQ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003585
- year: 2019
- mesh: Alphaproteobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Caves/*microbiology, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry
- topic2: Transcriptome
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3393 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9035) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9035 | |||
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 | |||
61658 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 58315) | https://www.ccug.se/strain?id=58315 | |||
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 | |
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 | |||
75643 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID9843.1 | StrainInfo: A central database for resolving microbial strain identifiers |