Strain identifier
BacDive ID: 1394
Type strain:
Species: Ureibacillus thermosphaericus
Strain Designation: p-11, HAMBI:1900
Strain history: CIP <- 1996, M. Andersson, Helsinki Univ., Helsinki, Finland: strain HAMBI:1900
NCBI tax ID(s): 51173 (species)
General
@ref: 3990
BacDive-ID: 1394
DSM-Number: 10633
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, thermophilic, Gram-negative, motile, rod-shaped, colony-forming
description: Ureibacillus thermosphaericus p-11 is an aerobe, spore-forming, thermophilic bacterium that forms circular colonies and was isolated from landfill air.
NCBI tax id
- NCBI tax id: 51173
- Matching level: species
strain history
@ref | history |
---|---|
3990 | <- M. Salkinoja-Salonen, University of Helsinki |
35171 | 1996, M. Andersson, Helsinki Univ., Finland: strain HAMBI:1900 |
123516 | CIP <- 1996, M. Andersson, Helsinki Univ., Helsinki, Finland: strain HAMBI:1900 |
doi: 10.13145/bacdive1394.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Caryophanaceae
- genus: Ureibacillus
- species: Ureibacillus thermosphaericus
- full scientific name: Ureibacillus thermosphaericus (Andersson et al. 1996) Fortina et al. 2001
synonyms
- @ref: 20215
- synonym: Bacillus thermosphaericus
@ref: 3990
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Caryophanaceae
genus: Ureibacillus
species: Ureibacillus thermosphaericus
full scientific name: Ureibacillus thermosphaericus (Andersson et al. 1996) Fortina et al. 2001
strain designation: p-11, HAMBI:1900
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility |
---|---|---|---|---|---|
23024 | negative | 1.0-6.0 µm | 0.5-0.7 µm | rod-shaped | yes |
123516 | positive | rod-shaped | yes |
colony morphology
@ref | colony color | colony shape | incubation period |
---|---|---|---|
23024 | transparent | circular | 1-1.5 days |
123516 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3990 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535; with strain-specific modifications) Composition: Soil extract 500.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
35171 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
123516 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3990 | positive | growth | 55 | thermophilic |
23024 | positive | growth | 37.0-60.0 | |
23024 | positive | growth | 37.0 | mesophilic |
23024 | no | growth | 65.0 | thermophilic |
35171 | positive | growth | 37 | mesophilic |
123516 | positive | growth | 30-55 | |
123516 | no | growth | 10 | psychrophilic |
123516 | no | growth | 22 | psychrophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
23024 | positive | growth | 9.0 | alkaliphile |
123516 | positive | growth | 6 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
23024 | aerobe |
123516 | obligate aerobe |
spore formation
@ref | spore description | type of spore | spore formation |
---|---|---|---|
23024 | spherical,terminal or subterminal,in swollen sporangia | endospore | yes |
123516 | yes |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
23024 | NaCl | positive | growth | 5.0 % |
123516 | NaCl | positive | growth | 0-2 % |
123516 | NaCl | no | growth | 4 % |
123516 | NaCl | no | growth | 6 % |
123516 | NaCl | no | growth | 8 % |
123516 | NaCl | no | growth | 10 % |
murein
- @ref: 3990
- murein short key: A11.31
- type: A4alpha L-Lys-D-Asp
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
23024 | casein | - | hydrolysis | |
23024 | gelatin | - | hydrolysis | 5291 |
23024 | starch | - | hydrolysis | 28017 |
23024 | nitrate | - | reduction | 17632 |
23024 | citrate | + | builds acid from | 16947 |
23024 | glucose | + | builds acid from | 17234 |
23024 | L-arabinose | + | builds acid from | 30849 |
23024 | maltose | + | builds acid from | 17306 |
23024 | mannose | + | builds acid from | 37684 |
23024 | rhamnose | + | builds acid from | 26546 |
23024 | ribose | + | builds acid from | 33942 |
23024 | sucrose | + | builds acid from | 17992 |
23024 | trehalose | + | builds acid from | 27082 |
23024 | xylose | + | builds acid from | 18222 |
23024 | urea | + | hydrolysis | 16199 |
123516 | citrate | - | carbon source | 16947 |
123516 | esculin | - | hydrolysis | 4853 |
123516 | hippurate | + | hydrolysis | 606565 |
123516 | nitrate | - | reduction | 17632 |
123516 | nitrite | - | reduction | 16301 |
123516 | nitrate | - | respiration | 17632 |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
23024 | 35581 | indole | no |
23024 | 15688 | acetoin | no |
123516 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
23024 | 15688 | acetoin | - | |
123516 | 15688 | acetoin | - | |
123516 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | - | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | - | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | - | 3.1.3.1 |
123516 | oxidase | + | |
123516 | beta-galactosidase | + | 3.2.1.23 |
123516 | alcohol dehydrogenase | - | 1.1.1.1 |
123516 | gelatinase | - | |
123516 | amylase | - | |
123516 | DNase | - | |
123516 | caseinase | - | 3.4.21.50 |
123516 | catalase | + | 1.11.1.6 |
123516 | tween esterase | - | |
123516 | gamma-glutamyltransferase | - | 2.3.2.2 |
123516 | lecithinase | - | |
123516 | lipase | - | |
123516 | lysine decarboxylase | - | 4.1.1.18 |
123516 | ornithine decarboxylase | - | 4.1.1.17 |
123516 | protease | - | |
123516 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123516 | - | - | + | - | - | + | - | - | - | - | + | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location | isolation date |
---|---|---|---|---|---|---|
3990 | landfill air | Finland | FIN | Europe | ||
23024 | urban air and municipal landfill sites | |||||
123516 | Environment, Landfill air | Finland | FIN | Europe | Porvoo | 1987 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Waste | #Landfill |
#Environmental | #Air |
taxonmaps
- @ref: 69479
- File name: preview.99_16631.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_8510;97_10240;98_12572;99_16631&stattab=map
- Last taxonomy: Ureibacillus thermosphaericus subclade
- 16S sequence: X90640
- Sequence Identity:
- Total samples: 19476
- soil counts: 8797
- aquatic counts: 2235
- animal counts: 5636
- plant counts: 2808
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
3990 | 1 | Risk group (German classification) |
123516 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Ureibacillus thermosphaericus gene for 16S rRNA, partial sequence | AB101594 | 1540 | ena | 51173 |
20218 | Ureibacillus thermosphaericus isolate Uth41 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | EU723669 | 539 | ena | 51173 |
20218 | Ureibacillus thermosphaericus isolate Uth60 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | EU723670 | 372 | ena | 51173 |
20218 | Ureibacillus thermosphaericus isolate Uth61 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | EU723671 | 384 | ena | 51173 |
20218 | B.thermosphaericus DNA for 16S ribosomal RNA gene | X90640 | 1488 | ena | 51173 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Ureibacillus thermosphaericus DSM 10633 | GCA_012396605 | contig | ncbi | 51173 |
66792 | Ureibacillus thermosphaericus DSM 10633 | GCA_014202525 | scaffold | ncbi | 51173 |
66792 | Ureibacillus thermosphaericus strain DSM 10633 | 51173.7 | wgs | patric | 51173 |
66792 | Ureibacillus thermosphaericus strain DSM 10633 | 51173.6 | wgs | patric | 51173 |
66792 | Ureibacillus thermosphaericus DSM 10633 | 2861563776 | draft | img | 51173 |
GC content
@ref | GC-content | method |
---|---|---|
3990 | 37 | high performance liquid chromatography (HPLC) |
23024 | 35.7 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | yes | 86.473 | no |
gram-positive | yes | 82.52 | no |
anaerobic | no | 96.627 | no |
aerobic | yes | 87.959 | yes |
halophile | no | 79.512 | no |
spore-forming | yes | 96.394 | yes |
glucose-util | yes | 67.307 | no |
thermophile | no | 92.866 | no |
motile | yes | 91.303 | yes |
glucose-ferment | no | 91.06 | no |
External links
@ref: 3990
culture collection no.: DSM 10633, HAMBI 1900, CIP 104857, KCTC 13004
straininfo link
- @ref: 71045
- straininfo: 14023
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 11321090 | Ureibacillus gen. nov., a new genus to accommodate Bacillus thermosphaericus (Andersson et al. 1995), emendation of Ureibacillus thermosphaericus and description of Ureibacillus terrenus sp. nov. | Fortina MG, Pukall R, Schumann P, Mora D, Parini C, Manachini PL, Stackebrandt E | Int J Syst Evol Microbiol | 10.1099/00207713-51-2-447 | 2001 | Bacillus/*classification/cytology, Bacterial Typing Techniques, Base Composition, DNA, Ribosomal, Fatty Acids/analysis, Molecular Sequence Data, Phenotype, RNA, Ribosomal, 16S, Sequence Homology, Nucleic Acid, *Soil Microbiology, Terminology as Topic, Vitamin K/analysis | Genetics |
Genetics | 11718544 | Phenotypic and genotypic characterization of esterase-producing Ureibacillus thermosphaericus isolated from an aerobic digestor of swine waste. | Gagne A, Chicoine M, Morin A, Houde A | Can J Microbiol | 10.1139/w01-096 | 2001 | Aerobiosis, Animals, Base Sequence, Culture Media, *Environmental Microbiology, Esterases/biosynthesis/*metabolism, Genes, Bacterial, Genotype, *Gram-Negative Bacteria/chemistry/classification/physiology, Manure/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, RNA, Spores, Bacterial/genetics, Swine | Phylogeny |
Phylogeny | 16514046 | Ureibacillus suwonensis sp. nov., isolated from cotton waste composts. | Kim BY, Lee SY, Weon HY, Kwon SW, Go SJ, Park YK, Schumann P, Fritze D | Int J Syst Evol Microbiol | 10.1099/ijs.0.63703-0 | 2006 | Bacillus/*classification/genetics/isolation & purification/physiology, DNA, Bacterial, DNA, Ribosomal/chemistry, Gossypium, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Phenotype |
Phylogeny | 24491829 | Ureibacillus defluvii sp. nov., isolated from a thermophilic microbial fuel cell. | Zhou S, Tang J, Qin D, Lu Q, Yang G | Int J Syst Evol Microbiol | 10.1099/ijs.0.056655-0 | 2014 | Bacterial Typing Techniques, Base Composition, Bioelectric Energy Sources/*microbiology, Biofilms, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Planococcaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3990 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10633) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10633 | |||
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 | |
23024 | M. G. Fortina,R. Pukall,P. Schumann,D. Mora,C. Parini,P. L. Manachini,E. Stackebrandt | 10.1099/00207713-51-2-447 | Ureibacillus gen. nov., a new genus to accommodate Bacillus thermosphaericus (Andersson et al. 1995), emendation of Ureibacillus thermosphaericus and description of Ureibacillus terrenus sp. nov. | IJSEM 51: 447-455 2001 | 11321090 | |
35171 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/16812 | ||||
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) | |||
68382 | Automatically annotated from API zym | |||||
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 | |||
71045 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID14023.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123516 | Curators of the CIP | Collection of Institut Pasteur (CIP 104857) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104857 |