Strain identifier
BacDive ID: 13075
Type strain:
Species: Pseudomonas thermotolerans
Strain Designation: CM3
Strain history: CIP <- 2002, C.M. Manaia, Porto, Portugal: strain CM3
NCBI tax ID(s): 1123021 (strain), 157784 (species)
General
@ref: 5303
BacDive-ID: 13075
DSM-Number: 14292
keywords: genome sequence, 16S sequence, Bacteria, aerobe, thermophilic, motile
description: Pseudomonas thermotolerans CM3 is an aerobe, thermophilic, motile bacterium that was isolated from cooking water of cork transformation industry.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1123021 | strain |
157784 | species |
strain history
@ref | history |
---|---|
5303 | <- C. M. Manaia, Porto; CM3 |
40715 | 2002, C.M. Manaia, Porto, Portugal: strain CM3 |
123518 | CIP <- 2002, C.M. Manaia, Porto, Portugal: strain CM3 |
doi: 10.13145/bacdive13075.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pseudomonadales
- family: Pseudomonadaceae
- genus: Pseudomonas
- species: Pseudomonas thermotolerans
- full scientific name: Pseudomonas thermotolerans Manaia and Moore 2002
@ref: 5303
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas thermotolerans
full scientific name: Pseudomonas thermotolerans Manaia and Moore 2002
strain designation: CM3
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 97.975 | ||
69480 | 100 | negative | ||
123518 | yes | negative | rod-shaped |
pigmentation
- @ref: 123518
- production: no
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
5303 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
5303 | MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457) | yes | https://mediadive.dsmz.de/medium/457 | Name: MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457) Composition: Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water |
5303 | PSEUDOMONAS AGAR F (DSMZ Medium 907) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium907.pdf | |
40715 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
123518 | CIP Medium 368 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=368 | |
123518 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
5303 | positive | growth | 45 | thermophilic |
40715 | positive | growth | 50 | thermophilic |
60265 | positive | growth | 30-42 | |
5303 | positive | growth | 37 | mesophilic |
123518 | positive | growth | 25-55 | |
123518 | no | growth | 5 | psychrophilic |
123518 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
60265 | aerobe |
123518 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.995 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
123518 | NaCl | positive | growth | 0-4 % |
123518 | NaCl | no | growth | 6 % |
123518 | NaCl | no | growth | 8 % |
123518 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | + | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 27689 | decanoate | + | assimilation |
68369 | 24265 | gluconate | - | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16899 | D-mannitol | - | assimilation |
68369 | 16024 | D-mannose | - | assimilation |
68369 | 30849 | L-arabinose | - | assimilation |
68369 | 17634 | D-glucose | - | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | - | reduction |
123518 | 16947 | citrate | - | carbon source |
123518 | 4853 | esculin | - | hydrolysis |
123518 | 17632 | nitrate | - | reduction |
123518 | 16301 | nitrite | - | reduction |
123518 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 123518
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68369 | 35581 | indole | no |
123518 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68369 | cytochrome oxidase | + | 1.9.3.1 |
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
123518 | oxidase | + | |
123518 | beta-galactosidase | - | 3.2.1.23 |
123518 | alcohol dehydrogenase | - | 1.1.1.1 |
123518 | gelatinase | - | |
123518 | amylase | - | |
123518 | DNase | - | |
123518 | caseinase | - | 3.4.21.50 |
123518 | catalase | + | 1.11.1.6 |
123518 | tween esterase | - | |
123518 | lecithinase | - | |
123518 | lipase | - | |
123518 | lysine decarboxylase | - | 4.1.1.18 |
123518 | ornithine decarboxylase | - | 4.1.1.17 |
123518 | protease | + | |
123518 | tryptophan deaminase | - | |
123518 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123518 | - | + | + | + | - | + | + | - | - | - | + | + | - | - | - | - | - | - | - | - |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
5303 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | + | - | - | + |
5303 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | + | - | - | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123518 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | + | + | + | - | + | - | - | - | - | + | + | + | - | + | + | + | - | + | + | + | - | + | - | - | - | - | + | + | + | + | + | + | + | - | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
5303 | cooking water of cork transformation industry | Oporto | Portugal | PRT | Europe | |
60265 | Cooking water of cork transformation industry | Portugal | PRT | Europe | ||
123518 | Environment, Water used to cook | Portugal | PRT | Europe | 1998 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Industrial | #Industrial production |
#Engineered | #Waste | #Industrial wastewater |
#Host Body-Site | #Plant | #Bark |
taxonmaps
- @ref: 69479
- File name: preview.99_5419.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_646;97_3219;98_4043;99_5419&stattab=map
- Last taxonomy: Azotobacter
- 16S sequence: AJ311980
- Sequence Identity:
- Total samples: 2713
- soil counts: 333
- aquatic counts: 943
- animal counts: 1281
- plant counts: 156
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
5303 | 1 | Risk group (German classification) |
123518 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 5303
- description: Pseudomonas thermotolerans partial 16S rRNA gene, strain CM3
- accession: AJ311980
- length: 1429
- database: ena
- NCBI tax ID: 157784
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudomonas thermotolerans DSM 14292 | GCA_000364625 | scaffold | ncbi | 1123021 |
66792 | Pseudomonas thermotolerans DSM 14292 | 1123021.3 | wgs | patric | 1123021 |
66792 | Pseudomonas thermotolerans DSM 14292 | 2521172647 | draft | img | 1123021 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 88.932 | no |
flagellated | yes | 81.696 | no |
gram-positive | no | 99.01 | no |
anaerobic | no | 98.409 | yes |
aerobic | yes | 90.582 | no |
halophile | no | 79.934 | no |
spore-forming | no | 96.553 | no |
glucose-util | no | 53.514 | yes |
thermophile | no | 98.322 | no |
glucose-ferment | no | 92.433 | no |
External links
@ref: 5303
culture collection no.: CCUG 54623, DSM 14292, KCTC 12117, LMG 21284, CIP 107795
straininfo link
- @ref: 82285
- straininfo: 85579
literature
- topic: Phylogeny
- Pubmed-ID: 12508889
- title: Pseudomonas thermotolerans sp. nov., a thermotolerant species of the genus Pseudomonas sensu stricto.
- authors: Manaia CM, Moore ERB
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-52-6-2203
- year: 2002
- mesh: Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Hot Temperature, Lipids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, Pseudomonas/*classification/genetics/isolation & purification/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics
- topic2: Stress
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
5303 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14292) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14292 | |
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 | |
40715 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5269 | ||
60265 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 54623) | https://www.ccug.se/strain?id=54623 | |
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) | |
68369 | Automatically annotated from API 20NE | |||
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 | |
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 | |
82285 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID85579.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
123518 | Curators of the CIP | Collection of Institut Pasteur (CIP 107795) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107795 |