Strain identifier
BacDive ID: 133034
Type strain:
Species: Deinococcus budaensis
Strain Designation: FeSTC15-38
Strain history: <- J. Makk, Eötvös Loránd Univ., Microbiology, Budapest, Hungary; FeSTC15-38
NCBI tax ID(s): 1665626 (species)
General
@ref: 24822
BacDive-ID: 133034
DSM-Number: 101791
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, sphere-shaped, colony-forming
description: Deinococcus budaensis FeSTC15-38 is an aerobe, Gram-negative, sphere-shaped bacterium that forms circular colonies and was isolated from biofilm from a hydrothermal spring cave wall.
NCBI tax id
- NCBI tax id: 1665626
- Matching level: species
strain history
- @ref: 24822
- history: <- J. Makk, Eötvös Loránd Univ., Microbiology, Budapest, Hungary; FeSTC15-38
doi: 10.13145/bacdive133034.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/deinococcota
- domain: Bacteria
- phylum: Deinococcota
- class: Deinococci
- order: Deinococcales
- family: Deinococcaceae
- genus: Deinococcus
- species: Deinococcus budaensis
- full scientific name: Deinococcus budaensis Makk et al. 2016
@ref: 24822
domain: Bacteria
phylum: Deinococcus-Thermus
class: Deinococci
order: Deinococcales
family: Deinococcaceae
genus: Deinococcus
species: Deinococcus budaensis
full scientific name: Deinococcus budaensis Makk et al. 2016
strain designation: FeSTC15-38
type strain: yes
Morphology
cell morphology
- @ref: 25080
- gram stain: negative
- cell length: 1.8 µm
- cell width: 1 µm
- cell shape: sphere-shaped
- motility: no
colony morphology
- @ref: 25080
- colony size: 1.0-2.0 mm
- colony color: pale pink
- colony shape: circular
- incubation period: 3 days
- medium used: Sphaerotilus-Leptothrix
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
25080 | Sphaerotilus-Leptothrix agar | yes | ||
25080 | glycerol-yeast extract-peptone medium | yes | ||
25080 | Reasoner's 2A agar (R2A) | yes | ||
25080 | TGY medium | yes | ||
25080 | Sphaerotilus-Leptothrix | yes | ||
24822 | GLYCEROL-YEAST EXTRACT-PEPTONE MEDIUM (DSMZ Medium 1484) | yes | https://mediadive.dsmz.de/medium/1484 | Name: Glycerol-Yeast extract-Peptone Medium (DSMZ Medium 1484) Composition: Agar 15.0 g/l Yeast extract 5.0 g/l Bacto peptone 3.0 g/l Betaine 1.25 g/l Sodium pyruvate 1.25 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l ZnSO4 x 7 H2O 0.0018 g/l CoSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l CaCl2 x 2 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l Pyridoxine hydrochloride 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l (DL)-alpha-Lipoic acid 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Nicotinic acid 5e-05 g/l Riboflavin 5e-05 g/l Thiamine HCl 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Glycerol Distilled water |
culture temp
@ref | growth | type | temperature |
---|---|---|---|
25080 | positive | growth | 20.0-37.0 |
25080 | positive | optimum | 28 |
24822 | positive | growth | 28 |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
25080 | positive | growth | 6.0-9.0 | alkaliphile |
25080 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 25080
- oxygen tolerance: aerobe
spore formation
- @ref: 25080
- spore formation: no
halophily
- @ref: 25080
- salt: NaCl
- growth: no
- tested relation: growth
- concentration: >1.0 %
murein
- @ref: 25080
- murein short key: A21.01
- type: A3ß L-Orn-Gly2-3
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
25080 | 17128 | adipate | - | assimilation |
25080 | 16449 | alanine | - | carbon source |
25080 | casein | - | hydrolysis | |
25080 | 17634 | D-glucose | - | fermentation |
25080 | 17634 | D-glucose | - | builds acid from |
25080 | 17634 | D-glucose | - | assimilation |
25080 | 17634 | D-glucose | - | carbon source |
25080 | 16899 | D-mannitol | - | assimilation |
25080 | 16024 | D-mannose | - | assimilation |
25080 | 16024 | D-mannose | - | carbon source |
25080 | 63150 | D-rhamnose | - | carbon source |
25080 | 16988 | D-ribose | - | carbon source |
25080 | 65327 | D-xylose | - | carbon source |
25080 | 4853 | esculin | - | hydrolysis |
25080 | 5291 | gelatin | - | hydrolysis |
25080 | 17754 | glycerol | - | carbon source |
25080 | 17120 | hexanoate | - | assimilation |
25080 | 17268 | myo-inositol | - | carbon source |
25080 | 30849 | L-arabinose | - | assimilation |
25080 | 30849 | L-arabinose | - | carbon source |
25080 | 17196 | L-asparagine | - | carbon source |
25080 | 18050 | L-glutamine | - | carbon source |
25080 | 17716 | lactose | - | carbon source |
25080 | 25115 | malate | - | assimilation |
25080 | 17306 | maltose | - | assimilation |
25080 | 506227 | N-acetylglucosamine | - | assimilation |
25080 | 17632 | nitrate | - | reduction |
25080 | 16301 | nitrite | - | reduction |
25080 | 18401 | phenylacetate | - | assimilation |
25080 | 32032 | potassium gluconate | - | assimilation |
25080 | 53258 | sodium citrate | - | assimilation |
25080 | 53258 | sodium citrate | - | carbon source |
25080 | 28017 | starch | - | hydrolysis |
25080 | 17992 | sucrose | - | carbon source |
25080 | 27082 | trehalose | - | carbon source |
25080 | 27897 | tryptophan | - | energy source |
25080 | 53426 | tween 80 | - | hydrolysis |
25080 | 16199 | urea | - | hydrolysis |
25080 | 15824 | D-fructose | + | carbon source |
25080 | 12936 | D-galactose | + | carbon source |
25080 | 5291 | gelatin | + | degradation |
25080 | 17306 | maltose | + | carbon source |
25080 | 32954 | sodium acetate | + | carbon source |
25080 | 50144 | sodium pyruvate | + | carbon source |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
25080 | 15688 | acetoin | no |
25080 | 16136 | hydrogen sulfide | no |
25080 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
25080 | 15688 | acetoin | - | |
25080 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
25080 | acid phosphatase | + | 3.1.3.2 |
25080 | alkaline phosphatase | + | 3.1.3.1 |
25080 | alpha-chymotrypsin | - | 3.4.21.1 |
25080 | alpha-fucosidase | - | 3.2.1.51 |
25080 | alpha-galactosidase | - | 3.2.1.22 |
25080 | alpha-glucosidase | + | 3.2.1.20 |
25080 | alpha-mannosidase | - | 3.2.1.24 |
25080 | arginine dihydrolase | + | 3.5.3.6 |
25080 | beta-glucosidase | - | 3.2.1.21 |
25080 | beta-glucuronidase | + | 3.2.1.31 |
25080 | catalase | + | 1.11.1.6 |
25080 | cystine arylamidase | - | 3.4.11.3 |
25080 | cytochrome oxidase | - | 1.9.3.1 |
25080 | esterase (C 4) | + | |
25080 | esterase Lipase (C 8) | + | |
25080 | leucine arylamidase | + | 3.4.11.1 |
25080 | lipase (C 14) | - | |
25080 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
25080 | naphthol-AS-BI-phosphohydrolase | + | |
25080 | phosphatase | - | |
25080 | trypsin | - | 3.4.21.4 |
25080 | tryptophan deaminase | - | 4.1.99.1 |
25080 | urease | + | 3.5.1.5 |
25080 | valine arylamidase | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | enrichment culture | enrichment culture composition | enrichment culture duration | enrichment culture temperature |
---|---|---|---|---|---|---|---|---|---|---|---|
24822 | biofilm from a hydrothermal spring cave wall | Budapest, Gellért Hill, Rudas-Török spring cave (47.489° N 19.046° E) | Hungary | HUN | Europe | 47.489 | 19.046 | ||||
25080 | Sphaerotilus-Leptothrix agar plates; pH 7.0 (DSMZ Medium 803) | l-1: 1.0 g yeast extract, 1.5 g peptone, 0.2 g MgSO4.7H2O, 0.05 g CaCl2 , 0.50 g (NH4)5Fe(C6H4O7)2 , 0.05 g MnSO4 .4H2O, 0.01 g FeCl2 .6H2O and 20.0 g agar | 5 days | 28 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Cave water |
#Environmental | #Aquatic | #Thermal spring |
#Environmental | #Biofilm | |
#Condition | #Thermophilic (>45°C) |
Safety information
risk assessment
- @ref: 24822
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24822
- description: Deinococcus sp. FeSTC15-38 partial 16S rRNA gene, strain FeSTC15-38
- accession: LN864925
- length: 1448
- database: nuccore
- NCBI tax ID: 1665626
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Deinococcus budaensis DSM 101791 | GCA_014201885 | scaffold | ncbi | 1665626 |
66792 | Deinococcus budaensis strain DSM 101791 | 1665626.3 | wgs | patric | 1665626 |
66792 | Deinococcus budaensis DSM 101791 | 2861295632 | draft | img | 1665626 |
GC content
- @ref: 24822
- GC-content: 68.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
@ref | trait | model | description | prediction | confidence | training_data |
---|---|---|---|---|---|---|
69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 60 | no |
69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 68.119 | yes |
69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 91.477 | yes |
69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 80.885 | yes |
69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 72.811 | yes |
69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 80.815 | yes |
69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 75.69 | no |
External links
@ref: 24822
culture collection no.: DSM 101791, NCAIM B.02630
straininfo link
- @ref: 91304
- straininfo: 406501
literature
- topic: Phylogeny
- Pubmed-ID: 27667170
- title: Deinococcus budaensis sp. nov., a mesophilic species isolated from a biofilm sample of a hydrothermal spring cave.
- authors: Makk J, Toth EM, Anda D, Pal S, Schumann P, Kovacs AL, Madl-Szonyi J, Marialigeti K, Borsodi AK
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.001519
- year: 2016
- mesh: Bacterial Typing Techniques, Base Composition, *Biofilms, Caves/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Deinococcus/*classification/isolation & purification/radiation effects, Fatty Acids/chemistry, *Gamma Rays, Glycolipids/chemistry, Hungary, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
24822 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-101791 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101791) | |||
25080 | J. T. Makk, E. M.,Anda, D.,Pál, S.,Schumann, P.,Kovács, A. L.,Mádl-Szönyi, J.,Márialigeti, K.,Borsodi, A. K. | Deinococcus budaensis sp. nov., a mesophilic species isolated from a biofilm sample of a hydrothermal spring cave | 10.1099/ijsem.0.001519 | IJSEM 66: 5345-5351 2016 | 27667170 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
91304 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID406501.1 |