Strain identifier
BacDive ID: 13052
Type strain:
Species: Pseudomonas cannabina
Strain Designation: L01
Strain history: CIP <- 1999, CFBP <- NCPPB <- Z. Clement, Pseudomonas syringae pv cannabina: strain L01
NCBI tax ID(s): 86840 (species)
General
@ref: 6614
BacDive-ID: 13052
DSM-Number: 16822
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile
description: Pseudomonas cannabina L01 is an aerobe, mesophilic, motile bacterium that was isolated from Cannabis sativa.
NCBI tax id
- NCBI tax id: 86840
- Matching level: species
strain history
@ref | history |
---|---|
6614 | <- CFBP <- NCPPB <- Z. Klement; L01 |
117145 | CIP <- 1999, CFBP <- NCPPB <- Z. Clement, Pseudomonas syringae pv cannabina: strain L01 |
doi: 10.13145/bacdive13052.20230509.8.1
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 cannabina
- full scientific name: Pseudomonas cannabina (ex Šuti? and Dowson 1959) Gardan et al. 1999
@ref: 6614
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas cannabina
full scientific name: Pseudomonas cannabina (ex Šuti? and Dowson 1959) Gardan et al. 1999 emend. Bull et al. 2010
strain designation: L01
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 98.243 | ||
69480 | 99.997 | negative | ||
117145 | yes | negative | rod-shaped |
colony morphology
- @ref: 59232
- incubation period: 2 days
pigmentation
- @ref: 117145
- production: no
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6614 | YPGA (DSMZ Medium 1015) | yes | https://mediadive.dsmz.de/medium/1015 | Name: YPGA (DSMZ Medium 1015) Composition: Agar 15.0 g/l Glucose 7.0 g/l Bacto peptone 7.0 g/l Yeast extract 7.0 g/l Distilled water |
39480 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
117145 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6614 | positive | growth | 28 | mesophilic |
39480 | positive | growth | 25 | mesophilic |
59232 | positive | growth | 30 | mesophilic |
117145 | positive | growth | 5-30 | |
117145 | no | growth | 37 | mesophilic |
117145 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
59232 | aerobe |
117145 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.929 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
117145 | NaCl | positive | growth | 0 % |
117145 | NaCl | no | growth | 2 % |
117145 | NaCl | no | growth | 4 % |
117145 | NaCl | no | growth | 6 % |
117145 | NaCl | no | growth | 8 % |
117145 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
117145 | 16947 | citrate | + | carbon source |
117145 | 4853 | esculin | - | hydrolysis |
117145 | 17632 | nitrate | - | reduction |
117145 | 16301 | nitrite | - | reduction |
117145 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 117145
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
- @ref: 117145
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
117145 | oxidase | - | |
117145 | beta-galactosidase | - | 3.2.1.23 |
117145 | alcohol dehydrogenase | - | 1.1.1.1 |
117145 | gelatinase | - | |
117145 | amylase | - | |
117145 | DNase | - | |
117145 | caseinase | - | 3.4.21.50 |
117145 | catalase | + | 1.11.1.6 |
117145 | tween esterase | + | |
117145 | lecithinase | - | |
117145 | lipase | - | |
117145 | lysine decarboxylase | - | 4.1.1.18 |
117145 | ornithine decarboxylase | - | 4.1.1.17 |
117145 | protease | - | |
117145 | tryptophan deaminase | - | |
117145 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
117145 | - | + | + | + | - | + | - | - | + | - | + | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
117145 | + | + | + | - | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | + | + | - | - | - | + | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | + | - | + | - | - | + | - | - | + | + | - | - | - | - | - | - | - | - | + | + | + | - | + | + | + | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
6614 | Cannabis sativa | Cannabis sativa | Hungary | HUN | Europe | |
59232 | Cannabis sativa | Hungary | HUN | Europe | ||
117145 | Cannabis sativa | Hungary | HUN | Europe | 1957 |
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Herbaceous plants (Grass,Crops)
taxonmaps
- @ref: 69479
- File name: preview.99_108.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_108&stattab=map
- Last taxonomy: Pseudomonas
- 16S sequence: AJ492827
- Sequence Identity:
- Total samples: 1469
- soil counts: 744
- aquatic counts: 346
- animal counts: 234
- plant counts: 145
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6614 | 1 | Risk group (German classification) |
117145 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 6614
- description: Pseudomonas cannabina partial 16S rRNA gene, type strain CFBP 2341T
- accession: AJ492827
- length: 1531
- database: ena
- NCBI tax ID: 86840
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudomonas cannabina ICMP 2823 | GCA_900100365 | contig | ncbi | 86840 |
66792 | Pseudomonas cannabina ICMP 2823 | GCA_001400175 | scaffold | ncbi | 86840 |
66792 | Pseudomonas cannabina strain ICMP 2823 | 86840.5 | wgs | patric | 86840 |
66792 | Pseudomonas cannabina strain ICMP2823 | 86840.3 | wgs | patric | 86840 |
66792 | Pseudomonas cannabina ICMP 2823 | 2713896848 | draft | img | 86840 |
66792 | Pseudomonas cannabina CFBP 2341 | 2667527432 | draft | img | 86840 |
GC content
- @ref: 6614
- GC-content: 60.2
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | yes | 65.95 | no |
gram-positive | no | 98.436 | no |
anaerobic | no | 98.375 | yes |
aerobic | yes | 92.752 | no |
halophile | no | 94.442 | no |
spore-forming | no | 93.178 | no |
glucose-util | yes | 95.951 | no |
thermophile | no | 99.785 | yes |
motile | yes | 89.158 | no |
glucose-ferment | no | 90.2 | no |
External links
@ref: 6614
culture collection no.: DSM 16822, CFBP 2341, CIP 106140, ICMP 2823, LMG 5096, NCPPB 1437, CCUG 51523
straininfo link
- @ref: 82262
- straininfo: 13788
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
6614 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16822) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16822 | |
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 | |
39480 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18238 | ||
59232 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 51523) | https://www.ccug.se/strain?id=51523 | |
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 | |
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 | |
82262 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID13788.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
117145 | Curators of the CIP | Collection of Institut Pasteur (CIP 106140) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106140 |