Strain identifier
BacDive ID: 1947
Type strain:
Species: Burkholderia dolosa
Strain Designation: AU0645, R-5670
Strain history: CIP <- 2004, CCUG <- 2003, LMG <- T. Coenye, Gent, Belgium <- J. LiPuma, Philadelphia, USA
NCBI tax ID(s): 152500 (species)
General
@ref: 6284
BacDive-ID: 1947
DSM-Number: 16088
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Burkholderia dolosa AU0645 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sputum of cystic fibrosis patient.
NCBI tax id
- NCBI tax id: 152500
- Matching level: species
strain history
@ref | history |
---|---|
6284 | <- LMG <- T. Coenye, Univ. Ghent, Belgium; R-5670 <- J. J. LiPuma, Philadelphia USA; AU0645 |
118960 | CIP <- 2004, CCUG <- 2003, LMG <- T. Coenye, Gent, Belgium <- J. LiPuma, Philadelphia, USA |
doi: 10.13145/bacdive1947.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Burkholderiaceae
- genus: Burkholderia
- species: Burkholderia dolosa
- full scientific name: Burkholderia dolosa Vermis et al. 2004
@ref: 6284
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Burkholderiaceae
genus: Burkholderia
species: Burkholderia dolosa
full scientific name: Burkholderia dolosa Vermis et al. 2004
strain designation: AU0645, R-5670
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell shape | motility |
---|---|---|---|---|
30053 | negative | 2 µm | rod-shaped | yes |
118960 | negative | rod-shaped | yes |
colony morphology
- @ref: 6284
- type of hemolysis: gamma
- incubation period: 1-2 days
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6284 | CASO AGAR (MERCK 105458) (DSMZ Medium 220) | yes | https://mediadive.dsmz.de/medium/220 | Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water |
36729 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
118960 | CIP Medium 339 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=339 | |
118960 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6284 | positive | growth | 28 | mesophilic |
36729 | positive | growth | 30 | mesophilic |
57842 | positive | growth | 37 | mesophilic |
118960 | positive | growth | 30-41 | |
118960 | no | growth | 5 | psychrophilic |
118960 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
30053 | aerobe |
57842 | aerobe |
118960 | obligate aerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
118960 | NaCl | positive | growth | 0-4 % |
118960 | NaCl | no | growth | 6 % |
118960 | NaCl | no | growth | 8 % |
118960 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30053 | 22599 | arabinose | + | carbon source |
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 |
118960 | 4853 | esculin | - | hydrolysis |
118960 | 17632 | nitrate | + | reduction |
118960 | 16301 | nitrite | - | reduction |
118960 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 118960
- 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 |
118960 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
6284 | catalase | + | 1.11.1.6 |
6284 | cytochrome-c oxidase | + | 1.9.3.1 |
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 |
118960 | oxidase | + | |
118960 | beta-galactosidase | + | 3.2.1.23 |
118960 | alcohol dehydrogenase | - | 1.1.1.1 |
118960 | gelatinase | - | |
118960 | amylase | - | |
118960 | DNase | - | |
118960 | caseinase | - | 3.4.21.50 |
118960 | catalase | + | 1.11.1.6 |
118960 | tween esterase | + | |
118960 | lecithinase | - | |
118960 | lipase | - | |
118960 | lysine decarboxylase | - | 4.1.1.18 |
118960 | ornithine decarboxylase | - | 4.1.1.17 |
118960 | protease | + | |
118960 | tryptophan deaminase | - | |
118960 | urease | - | 3.5.1.5 |
fatty acid profile
fatty acids
@ref fatty acid percentage ECL 57842 C14:0 4.1 14 57842 C15:0 0.4 15 57842 C16:0 27.2 16 57842 C17:0 0.2 17 57842 C18:0 0.4 18 57842 C12:0 ALDE ? 0.2 10.915 57842 C13:1 at 12-13 0.5 12.931 57842 C14:0 2OH 0.8 15.205 57842 C14:0 3OH/C16:1 ISO I 5.7 15.485 57842 C16:0 2OH 3 17.233 57842 C16:0 3OH 4.9 17.52 57842 C16:1 2OH 0.9 17.047 57842 C16:1 ω5c 0.6 15.908 57842 C16:1 ω7c 6 15.819 57842 C17:0 CYCLO 24.1 16.888 57842 C18:1 2OH 1.2 19.088 57842 C18:1 ω7c /12t/9t 6.1 17.824 57842 C19:0 CYCLO ω8c 12.1 18.9 57842 Unidentified 0.3 16.091 57842 Unidentified 0.3 17.748 57842 Unidentified 0.6 18.139 57842 unknown 18.445 0.4 18.445 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118960 | - | + | + | + | + | + | - | - | - | - | + | + | - | - | - | - | - | + | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
6284 | + | - | - | - | - | - | - | + | + | + | + | + | + | - | + | + | + | + | + | + | + |
6284 | + | - | - | - | - | - | - | + | + | + | + | + | + | - | + | + | + | + | + | + |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118960 | + | + | + | + | + | - | - | - | - | - | - | - | - | + | - | - | - | - | - | + | + | + | - | - | + | - | + | + | - | + | + | + | + | + | - | - | + | + | - | + | - | - | - | + | + | - | - | + | + | + | + | + | - | + | + | + | + | - | - | + | + | + | + | + | + | - | - | - | - | - | - | + | + | + | - | - | + | + | - | + | + | + | - | - | + | - | + | - | + | + | + | + | + | + | + | + | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
6284 | sputum of cystic fibrosis patient | USA | USA | North America |
57842 | Human sputum,cystic fibrosis | USA | USA | North America |
118960 | Human, Sputum, cystic fibrosis | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Disease | #Cystic fibrosis |
#Infection | #Patient | |
#Host Body Product | #Fluids | #Sputum |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6284 | 2 | Risk group (German classification) |
118960 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Burkholderia dolosa strain LMG 18943 16S ribosomal RNA gene, partial sequence | HQ849079 | 1124 | ena | 152500 |
20218 | Burkholderia dolosa strain LMG 18943 16S ribosomal RNA gene, partial sequence | JX986970 | 1485 | ena | 152500 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Burkholderia dolosa LMG 18943 | GCA_902499135 | contig | ncbi | 152500 |
66792 | Burkholderia dolosa strain FDAARGOS_1463 | 152500.30 | complete | patric | 152500 |
66792 | Burkholderia dolosa strain LMG 18943 | 152500.12 | wgs | patric | 152500 |
66792 | Burkholderia dolosa strain FDAARGOS_1463 | 152500.66 | complete | patric | 152500 |
66792 | Burkholderia dolosa strain FDAARGOS_1463 | 152500.52 | complete | patric | 152500 |
66792 | Burkholderia dolosa strain FDAARGOS_1463 | 152500.41 | complete | patric | 152500 |
GC content
- @ref: 30053
- GC-content: 67.3
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 89.725 | yes |
gram-positive | no | 98.256 | no |
anaerobic | no | 98.948 | yes |
aerobic | yes | 90.346 | no |
halophile | no | 93.14 | no |
spore-forming | no | 93.273 | no |
glucose-util | yes | 89.373 | no |
flagellated | no | 87.877 | no |
thermophile | no | 98.814 | no |
glucose-ferment | no | 89.987 | yes |
External links
@ref: 6284
culture collection no.: DSM 16088, CCUG 47727, LMG 18943, CIP 108406
straininfo link
- @ref: 71592
- straininfo: 13005
literature
- topic: Phylogeny
- Pubmed-ID: 15143009
- title: Proposal to accommodate Burkholderia cepacia genomovar VI as Burkholderia dolosa sp. nov.
- authors: Vermis K, Coenye T, LiPuma JJ, Mahenthiralingam E, Nelis HJ, Vandamme P
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02888-0
- year: 2004
- mesh: Base Sequence, Burkholderia/*classification/genetics/metabolism, Burkholderia cepacia/*classification/genetics/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Genes, Bacterial, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
---|---|---|---|---|---|---|---|
6284 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16088) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16088 | ||||
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 | ||
30053 | 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 | 28776041 | 26414 | ||
36729 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6025 | |||||
57842 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 47727) | https://www.ccug.se/strain?id=47727 | ||||
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 | ||||||
71592 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID13005.1 | StrainInfo: A central database for resolving microbial strain identifiers | ||||
118960 | Curators of the CIP | Collection of Institut Pasteur (CIP 108406) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108406 |