Strain identifier
BacDive ID: 17765
Type strain: 
Species: Hydrotalea sandarakina
Strain Designation: AF-51
Strain history: <- M. da Costa, Univ. Coimbra, Portugal; AF-51 <- L. Albuquerque
NCBI tax ID(s): 1004304 (species)
version 8.1 (current version)
General
@ref: 16706
BacDive-ID: 17765
DSM-Number: 23241
keywords: genome sequence, 16S sequence, Bacteria, aerobe, thermophilic, rod-shaped
description: Hydrotalea sandarakina AF-51 is an aerobe, thermophilic, rod-shaped bacterium that was isolated from water of a hot spring.
NCBI tax id
- NCBI tax id: 1004304
- Matching level: species
strain history
- @ref: 16706
- history: <- M. da Costa, Univ. Coimbra, Portugal; AF-51 <- L. Albuquerque
doi: 10.13145/bacdive17765.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Chitinophagia
- order: Chitinophagales
- family: Chitinophagaceae
- genus: Hydrotalea
- species: Hydrotalea sandarakina
- full scientific name: Hydrotalea sandarakina Albuquerque et al. 2012
@ref: 16706
domain: Bacteria
phylum: Bacteroidetes
class: Chitinophagia
order: Sphingobacteriales
family: Chitinophagaceae
genus: Hydrotalea
species: Hydrotalea sandarakina
full scientific name: Hydrotalea sandarakina Albuquerque et al. 2012
strain designation: AF-51
type strain: yes
Morphology
cell morphology
| @ref | cell length | cell width | cell shape | motility | confidence | gram stain |
|---|---|---|---|---|---|---|
| 30367 | 2.25 µm | 0.4 µm | rod-shaped | no | ||
| 69480 | no | 90.779 | ||||
| 69480 | 99.999 | negative |
pigmentation
- @ref: 30367
- production: yes
Culture and growth conditions
culture medium
- @ref: 16706
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 16706 | positive | growth | 45 | thermophilic |
| 30367 | positive | growth | 25-52.5 | |
| 30367 | positive | optimum | 45 | thermophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30367 | positive | growth | 6-6.5 |
| 30367 | positive | optimum | 6.25 |
Physiology and metabolism
oxygen tolerance
- @ref: 30367
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 30367 | no | |
| 69481 | no | 100 |
| 69480 | no | 99.976 |
halophily
- @ref: 30367
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <1 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30367 | 35391 | aspartate | + | carbon source |
| 30367 | 17057 | cellobiose | + | carbon source |
| 30367 | 28757 | fructose | + | carbon source |
| 30367 | 28260 | galactose | + | carbon source |
| 30367 | 24265 | gluconate | + | carbon source |
| 30367 | 17234 | glucose | + | carbon source |
| 30367 | 29987 | glutamate | + | carbon source |
| 30367 | 17754 | glycerol | + | carbon source |
| 30367 | 24996 | lactate | + | carbon source |
| 30367 | 17716 | lactose | + | carbon source |
| 30367 | 17306 | maltose | + | carbon source |
| 30367 | 37684 | mannose | + | carbon source |
| 30367 | 18257 | ornithine | + | carbon source |
| 30367 | 26271 | proline | + | carbon source |
| 30367 | 16634 | raffinose | + | carbon source |
| 30367 | 17992 | sucrose | + | carbon source |
| 30367 | 27082 | trehalose | + | carbon source |
| 30367 | 18222 | xylose | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30367 | acid phosphatase | + | 3.1.3.2 |
| 30367 | alkaline phosphatase | + | 3.1.3.1 |
| 30367 | alpha-galactosidase | + | 3.2.1.22 |
| 30367 | catalase | + | 1.11.1.6 |
| 30367 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 16706
- sample type: water of a hot spring
- geographic location: Azores Islands, Island of São Miguel, Furnas area, Área da Fonte 1825
- country: Portugal
- origin.country: PRT
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_94878.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_185;96_38903;97_49548;98_65145;99_94878&stattab=map
- Last taxonomy: Hydrotalea sandarakina subclade
- 16S sequence: JF739858
- Sequence Identity:
- Total samples: 2396
- soil counts: 187
- aquatic counts: 1119
- animal counts: 1052
- plant counts: 38
Safety information
risk assessment
- @ref: 16706
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16706
- description: Hydrotalea sandarakina strain AF-51 16S ribosomal RNA gene, partial sequence
- accession: JF739858
- length: 1531
- database: ena
- NCBI tax ID: 1004304
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Hydrotalea sandarakina DSM 23241 | GCA_003254115 | scaffold | ncbi | 1004304 |
| 66792 | Hydrotalea sandarakina strain DSM 23241 | 1004304.4 | wgs | patric | 1004304 |
| 66792 | Hydrotalea sandarakina DSM 23241 | 2593339290 | draft | img | 1004304 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 16706 | 35.2 | high performance liquid chromatography (HPLC) |
| 30367 | 35.2 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 97.95 | no |
| gram-positive | no | 97.511 | no |
| anaerobic | no | 98.492 | no |
| halophile | no | 96.972 | no |
| spore-forming | no | 94.979 | yes |
| aerobic | yes | 88.015 | yes |
| glucose-util | yes | 89.223 | yes |
| thermophile | no | 72.53 | yes |
| motile | no | 95.951 | no |
| glucose-ferment | no | 87.999 | no |
External links
@ref: 16706
culture collection no.: DSM 23241, LMG 25526
straininfo link
- @ref: 86756
- straininfo: 406652
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21890728 | Hydrotalea sandarakina sp. nov., isolated from a hot spring runoff, and emended descriptions of the genus Hydrotalea and the species Hydrotalea flava. | Albuquerque L, Rainey FA, Nobre MF, da Costa MS | Int J Syst Evol Microbiol | 10.1099/ijs.0.034496-0 | 2011 | Aerobiosis, Azores, Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/*isolation & purification/physiology, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hot Springs/*microbiology, Molecular Sequence Data, Oxidoreductases/metabolism, Phylogeny, Pigments, Biological/metabolism, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature | Metabolism |
| Phylogeny | 23796643 | Characteristics of an orange-pigmented bacterium isolated from a hot spring in Kagoshima, Japan. | Furuhata K, Ishizaki N, Handa Y, Nishijima M, Fukuyama M | Biocontrol Sci | 10.4265/bio.18.105 | 2013 | Bacteria/classification/genetics/*isolation & purification/metabolism, Base Composition, Fatty Acids/metabolism, Hot Springs/*microbiology, Japan, Molecular Sequence Data, Phylogeny, Pigments, Biological/*metabolism | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 16706 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23241) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23241 | ||||
| 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 | ||||
| 30367 | 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 | 26707 | 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) | ||||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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 | ||||
| 86756 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406652.1 | StrainInfo: A central database for resolving microbial strain identifiers |