Strain identifier
BacDive ID: 2892
Type strain:
Species: Acidovorax temperans
Strain history: CIP <- 1991, CCUG <- 1981, PHL, Göteborg, Sweden
NCBI tax ID(s): 80878 (species)
General
@ref: 3087
BacDive-ID: 2892
DSM-Number: 7270
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile, human pathogen
description: Acidovorax temperans DSM 7270 is an obligate aerobe, mesophilic, motile human pathogen that was isolated from human urine.
NCBI tax id
- NCBI tax id: 80878
- Matching level: species
strain history
@ref | history |
---|---|
3087 | <- CCUG |
123441 | CIP <- 1991, CCUG <- 1981, PHL, Göteborg, Sweden |
doi: 10.13145/bacdive2892.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Acidovorax
- species: Acidovorax temperans
- full scientific name: Acidovorax temperans Willems et al. 1990
@ref: 3087
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Acidovorax
species: Acidovorax temperans
full scientific name: Acidovorax temperans Willems et al. 1990
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 96.567 | ||
69480 | 100 | negative | ||
123441 | no | negative | rod-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3087 | 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 |
40235 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
123441 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3087 | positive | growth | 28 | mesophilic |
40235 | positive | growth | 25 | mesophilic |
123441 | positive | growth | 25-41 | |
123441 | no | growth | 5 | psychrophilic |
123441 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 123441
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.999 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
123441 | NaCl | positive | growth | 0 % |
123441 | NaCl | no | growth | 2 % |
123441 | NaCl | no | growth | 4 % |
123441 | NaCl | no | growth | 6 % |
123441 | NaCl | no | growth | 8 % |
123441 | 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 |
123441 | 16947 | citrate | - | carbon source |
123441 | 4853 | esculin | - | hydrolysis |
123441 | 17632 | nitrate | + | reduction |
123441 | 16301 | nitrite | + | reduction |
123441 | 17632 | nitrate | + | respiration |
antibiotic resistance
- @ref: 123441
- 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 |
123441 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
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 |
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 |
123441 | oxidase | + | |
123441 | beta-galactosidase | - | 3.2.1.23 |
123441 | alcohol dehydrogenase | - | 1.1.1.1 |
123441 | gelatinase | - | |
123441 | amylase | - | |
123441 | DNase | - | |
123441 | caseinase | - | 3.4.21.50 |
123441 | catalase | + | 1.11.1.6 |
123441 | tween esterase | + | |
123441 | lecithinase | + | |
123441 | lipase | + | |
123441 | lysine decarboxylase | - | 4.1.1.18 |
123441 | ornithine decarboxylase | - | 4.1.1.17 |
123441 | protease | + | |
123441 | tryptophan deaminase | - | |
123441 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123441 | - | + | - | + | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3087 | + | - | - | - | - | - | - | - | + | - | - | + | - | - | - | - | - | + | - | - | + |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123441 | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | + | - | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | + | - | - | - | - | - | - | - | + | - | + | - | - | - | + | + | - | + | - | - | - | + | - | + | + | + | + | - | + | - | - | - | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
3087 | human urine | Göteborg | Sweden | SWE | Europe | |
123441 | Human, Urine | Göterborg | Sweden | SWE | Europe | 1981 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body Product | #Fluids | #Urine |
taxonmaps
- @ref: 69479
- File name: preview.99_8006.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_491;97_560;98_1918;99_8006&stattab=map
- Last taxonomy: Acidovorax
- 16S sequence: AF078766
- Sequence Identity:
- Total samples: 381
- soil counts: 20
- aquatic counts: 166
- animal counts: 170
- plant counts: 25
Safety information
risk assessment
@ref | pathogenicity human | biosafety level | biosafety level comment |
---|---|---|---|
3087 | yes, in single cases | 1 | Risk group (German classification) |
123441 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 20218
- description: Acidovorax temperans 16S ribosomal RNA gene, partial sequence
- accession: AF078766
- length: 1512
- database: ena
- NCBI tax ID: 80878
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Acidovorax temperans DSM 7270 | GCA_006716905 | contig | ncbi | 80878 |
66792 | Acidovorax temperans strain DSM 7270 | 80878.16 | wgs | patric | 80878 |
66792 | Acidovorax temperans DSM 7270 | 2818991434 | draft | img | 80878 |
GC content
- @ref: 3087
- GC-content: 62.4
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 89.634 | no |
flagellated | yes | 79.043 | no |
gram-positive | no | 98.849 | no |
anaerobic | no | 98.027 | no |
halophile | no | 95.946 | no |
spore-forming | no | 94.925 | no |
glucose-util | yes | 64.882 | yes |
aerobic | yes | 93.911 | no |
thermophile | no | 97.751 | yes |
glucose-ferment | no | 91.274 | yes |
External links
@ref: 3087
culture collection no.: DSM 7270, ATCC 49665, CCUG 11779, LMG 7169, CIP 103457, CCM 4562
straininfo link
- @ref: 72415
- straininfo: 152
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 2275854 | Acidovorax, a new genus for Pseudomonas facilis, Pseudomonas delafieldii, E. Falsen (EF) group 13, EF group 16, and several clinical isolates, with the species Acidovorax facilis comb. nov., Acidovorax delafieldii comb. nov., and Acidovorax temperans sp. nov. | Willems A, Falsen E, Pot B, Jantzen E, Hoste B, Vandamme P, Gillis M, Kersters K, De Ley J | Int J Syst Bacteriol | 10.1099/00207713-40-4-384 | 1990 | Base Composition, Base Sequence, Chromatography, Gas, Cluster Analysis, DNA, Bacterial/analysis, Electrophoresis, Fatty Acids/analysis, Nucleic Acid Hybridization, Phenotype, Pseudomonas/*classification/genetics, Terminology as Topic | Enzymology |
Phylogeny | 29616893 | Acidovorax kalamii sp. nov., isolated from a water sample of the river Ganges. | Pal D, Kaur N, Sudan SK, Bisht B, Krishnamurthi S, Mayilraj S | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002736 | 2018 | Bacterial Typing Techniques, Base Composition, Comamonadaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, India, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3087 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7270) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-7270 | |||
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 | |
40235 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15257 | ||||
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 | |
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 | |||
72415 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID152.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123441 | Curators of the CIP | Collection of Institut Pasteur (CIP 103457) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103457 |