Strain identifier
BacDive ID: 1917
Type strain:
Species: Burkholderia plantarii
Strain Designation: AZ 8201
Strain history: CIP <- 1998, CFBP
NCBI tax ID(s): 41899 (species)
General
@ref: 3621
BacDive-ID: 1917
DSM-Number: 9509
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile, plant pathogen
description: Burkholderia plantarii AZ 8201 is an obligate aerobe, mesophilic, motile plant pathogen that was isolated from rice seedling.
NCBI tax id
- NCBI tax id: 41899
- Matching level: species
strain history
@ref | history |
---|---|
3621 | <- JCM <- K. Azegami; AZ 8201 |
41941 | 1998, CFBP |
67770 | K. Azegami AZ8201. |
121853 | CIP <- 1998, CFBP |
doi: 10.13145/bacdive1917.20230509.8.1
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 plantarii
- full scientific name: Burkholderia plantarii (Azegami et al. 1987) Urakami et al. 1994
synonyms
@ref synonym 20215 Burkholderia vandii 20215 Pseudomonas plantarii
@ref: 3621
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Burkholderiaceae
genus: Burkholderia
species: Burkholderia plantarii
full scientific name: Burkholderia plantarii (Azegami et al. 1987) Urakami et al. 1994
strain designation: AZ 8201
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 94.783 | ||
69480 | 99.984 | negative | ||
121853 | no | negative | rod-shaped |
colony morphology
- @ref: 3621
- incubation period: 1-2 days
pigmentation
- @ref: 121853
- production: no
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3621 | 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 |
41941 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
121853 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 | |
121853 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3621 | positive | growth | 30 | mesophilic |
41941 | positive | growth | 30 | mesophilic |
47799 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
121853 | positive | growth | 25-37 | mesophilic |
121853 | no | growth | 5 | psychrophilic |
121853 | no | growth | 10 | psychrophilic |
121853 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 121853
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 90 |
69480 | no | 99.987 |
compound production
- @ref: 3621
- compound: tropolone
observation
- @ref: 67770
- observation: quinones: Q-8
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 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | + | assimilation |
68369 | 16899 | D-mannitol | + | assimilation |
68369 | 16024 | D-mannose | + | assimilation |
68369 | 17634 | D-glucose | + | assimilation |
68369 | 5291 | gelatin | + | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | + | reduction |
121853 | 16947 | citrate | + | carbon source |
121853 | 4853 | esculin | - | hydrolysis |
121853 | 17632 | nitrate | + | reduction |
121853 | 16301 | nitrite | - | reduction |
121853 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 121853
- 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 |
121853 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
3621 | catalase | + | 1.11.1.6 |
3621 | 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 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
121853 | oxidase | + | |
121853 | beta-galactosidase | + | 3.2.1.23 |
121853 | alcohol dehydrogenase | - | 1.1.1.1 |
121853 | gelatinase | +/- | |
121853 | amylase | - | |
121853 | DNase | - | |
121853 | caseinase | + | 3.4.21.50 |
121853 | catalase | + | 1.11.1.6 |
121853 | tween esterase | - | |
121853 | lecithinase | + | |
121853 | lipase | + | |
121853 | lysine decarboxylase | - | 4.1.1.18 |
121853 | ornithine decarboxylase | - | 4.1.1.17 |
121853 | protease | + | |
121853 | tryptophan deaminase | - | |
121853 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121853 | - | + | + | + | + | + | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3621 | + | - | - | - | - | + | + | + | + | + | + | + | + | - | +/- | + | - | + | + | +/- | + |
3621 | + | - | - | - | - | - | + | + | + | + | + | + | + | - | + | + | - | + | + | - | |
3621 | + | - | - | - | - | - | + | - | + | +/- | + | + | + | - | - | + | - | + | - | - | + |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121853 | + | + | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | - | + | + | - | + | - | - | + | - | - | + | + | - | - | + | - | - | - | - | - | - | + | + | + | + | - | - | + | + | - | - | + | - | - | + | - | - | + | + | - | + | + | + | - | - | - | - | - | - | + | - | + | - | - | + | + | + | + | + | - | + | - | - | - | - | - | + | + | + | + | - | + | + | + | + | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date | isolation date |
---|---|---|---|---|---|---|---|
3621 | rice seedling | Omigawa | Japan | JPN | Asia | ||
47799 | Oryza sativa cv. Koshihikari | Japan | JPN | Asia | 1982 | ||
67770 | Rice seedling | Omigawa,Chiba | Japan | JPN | Asia | ||
121853 | Oryza sativa | Japan | JPN | Asia | 1982 |
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Herbaceous plants (Grass,Crops)
Safety information
risk assessment
@ref | pathogenicity plant | biosafety level | biosafety level comment |
---|---|---|---|
3621 | yes | 1 | Risk group (German classification) |
121853 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Burkholderia plantarii strain LMG 9035 16S ribosomal RNA gene, partial sequence | HQ849098 | 1124 | ena | 41899 |
3621 | Burkholderia plantarii 16S ribosomal RNA gene, partial sequence | U96933 | 1549 | ena | 41899 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Burkholderia plantarii ATCC 43733 | GCA_001411805 | complete | ncbi | 41899 |
66792 | Burkholderia plantarii LMG 9035 | GCA_902832905 | scaffold | ncbi | 41899 |
66792 | Burkholderia plantarii strain ATCC 43733 | 41899.12 | plasmid | patric | 41899 |
66792 | Burkholderia plantarii strain ATCC 43733 | 41899.3 | complete | patric | 41899 |
66792 | Burkholderia plantarii strain LMG 9035 | 41899.18 | wgs | patric | 41899 |
66792 | Burkholderia plantarii ATCC 43733 | 2687453568 | complete | img | 41899 |
GC content
@ref | GC-content | method |
---|---|---|
3621 | 64.8 | Buoyant density centrifugation (BD) |
3621 | 68.7 | |
67770 | 68.7 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 90 | no |
flagellated | no | 86.439 | no |
gram-positive | no | 97.715 | no |
anaerobic | no | 98.317 | no |
aerobic | yes | 91.234 | no |
halophile | no | 94.113 | no |
spore-forming | no | 93.95 | no |
glucose-util | yes | 91.151 | no |
thermophile | no | 99.161 | no |
motile | yes | 89.259 | no |
glucose-ferment | no | 90.239 | no |
External links
@ref: 3621
culture collection no.: DSM 9509, ATCC 43733, ICMP 9424, JCM 5492, LMG 9035, CCUG 23368, NIAES 1723, CIP 105769, KACC 10679, KCTC 2972, NBRC 104884, NCCB 95038, NCPPB 3590, CFBP 3997
straininfo link
- @ref: 71561
- straininfo: 4203
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 33555242 | Paraburkholderia acidiphila sp. nov., Paraburkholderia acidisoli sp. nov. and Burkholderia guangdongensis sp. nov., isolated from forest soil, and reclassification of Burkholderia ultramafica as Paraburkholderia ultramafica comb. nov. | Gao ZH, Zhang QM, Lv YY, Wang YQ, Zhao BN, Qiu LH | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004690 | 2021 | ||
Phylogeny | 34287810 | Burkholderia perseverans sp. nov., a bacterium isolated from the Restinga ecosystem, is a producer of volatile and diffusible compounds that inhibit plant pathogens. | Andrade JP, de Souza HG, Ferreira LC, Cnockaert M, De Canck E, Wieme AD, Peeters C, Gross E, De Souza JT, Marbach PAS, Goes-Neto A, Vandamme P | Braz J Microbiol | 10.1007/s42770-021-00560-w | 2021 | Agaricales/drug effects/physiology, *Antibiosis/physiology, Aspergillus/drug effects/physiology, Bacterial Typing Techniques, Brazil, *Burkholderia/chemistry/classification/genetics, DNA, Bacterial/genetics, *Ecosystem, Phospholipids/analysis, Phylogeny, Phytophthora/drug effects/physiology, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Species Specificity, Volatile Organic Compounds/metabolism/pharmacology | Pathogenicity |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3621 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9509) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9509 | |||
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 | |
41941 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17825 | ||||
47799 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 23368) | https://www.ccug.se/strain?id=23368 | |||
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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68369 | Automatically annotated from API 20NE | |||||
68382 | Automatically annotated from API zym | |||||
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 | |||
71561 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID4203.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121853 | Curators of the CIP | Collection of Institut Pasteur (CIP 105769) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105769 |