Strain identifier
BacDive ID: 12927
Type strain:
Species: Pseudomonas savastanoi
Strain history: CIP <- 1993, J.D. Janse, Plant Protection Service, Wageningen, The Netherlands: strain PD 118 <- D. Sutic, Pseudomonas syringae subsp. savastanoi
NCBI tax ID(s): 29438 (species)
General
@ref: 8058
BacDive-ID: 12927
DSM-Number: 19341
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, motile, rod-shaped, plant pathogen
description: Pseudomonas savastanoi DSM 19341 is an obligate aerobe, mesophilic, Gram-negative plant pathogen that was isolated from Olea europaea.
NCBI tax id
- NCBI tax id: 29438
- Matching level: species
strain history
@ref | history |
---|---|
8058 | <- J.-M. Meyer,Inst. Botanique, Strasbourg <- CFBP |
122495 | CIP <- 1993, J.D. Janse, Plant Protection Service, Wageningen, The Netherlands: strain PD 118 <- D. Sutic, Pseudomonas syringae subsp. savastanoi |
doi: 10.13145/bacdive12927.20230509.8.1
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 savastanoi
- full scientific name: Pseudomonas savastanoi (Janse 1982 ex Smith 1908) Gardan et al. 1992
synonyms
- @ref: 20215
- synonym: Pseudomonas syringae subsp. savastanoi
@ref: 8058
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas savastanoi
full scientific name: Pseudomonas savastanoi (Janse 1982) Gardan et al. 1992
type strain: yes
Morphology
cell morphology
- @ref: 122495
- gram stain: negative
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 122495
- production: no
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8058 | 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 |
39851 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
122495 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8058 | positive | growth | 28 | mesophilic |
39851 | positive | growth | 30 | mesophilic |
122495 | positive | growth | 30 | mesophilic |
122495 | no | growth | 5 | psychrophilic |
122495 | no | growth | 41 | thermophilic |
122495 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 122495
- oxygen tolerance: obligate aerobe
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 |
122495 | 16947 | citrate | + | carbon source |
122495 | 4853 | esculin | - | hydrolysis |
122495 | 17632 | nitrate | - | reduction |
122495 | 16301 | nitrite | - | reduction |
122495 | 15882 | phenol | - | degradation |
122495 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 122495
- 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 |
122495 | 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 |
122495 | oxidase | - | |
122495 | beta-galactosidase | - | 3.2.1.23 |
122495 | alcohol dehydrogenase | - | 1.1.1.1 |
122495 | gelatinase | - | |
122495 | amylase | - | |
122495 | caseinase | - | 3.4.21.50 |
122495 | catalase | + | 1.11.1.6 |
122495 | tween esterase | - | |
122495 | lecithinase | - | |
122495 | lysine decarboxylase | - | 4.1.1.18 |
122495 | ornithine decarboxylase | - | 4.1.1.17 |
122495 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122495 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8058 | - | - | - | - | - | - | - | - | + | - | + | + | - | - | + | + | - | + | + | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | country | continent |
---|---|---|---|---|
8058 | Olea europaea | Olea europaea | Yugoslavia | Europe |
122495 | Food, Olea europea | Yugoslavia |
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Tree
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: HM190226
- Sequence Identity:
- Total samples: 1469
- soil counts: 744
- aquatic counts: 346
- animal counts: 234
- plant counts: 145
Safety information
risk assessment
@ref | pathogenicity plant | biosafety level | biosafety level comment |
---|---|---|---|
8058 | yes | 1 | Risk group (German classification) |
122495 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Pseudomonas savastanoi pv. savastanoi culture-collection CFBP:1670 16S ribosomal RNA gene, partial sequence | HM190226 | 1444 | ena | 360920 |
8058 | Pseudomonas savastanoi gene for 16S rRNA, strain: ATCC 13522 | AB021402 | 1502 | ena | 29438 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudomonas savastanoi pv. savastanoi ICMP 4352 | GCA_001401285 | scaffold | ncbi | 360920 |
66792 | Pseudomonas savastanoi pv. savastanoi strain ICMP4352 | 360920.13 | wgs | patric | 360920 |
66792 | Pseudomonas savastanoi pv. savastanoi ICMP 4352 | 2713896865 | draft | img | 360920 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | yes | 70.082 | no |
gram-positive | no | 98.199 | no |
anaerobic | no | 97.924 | no |
aerobic | yes | 93.335 | no |
halophile | no | 93.882 | no |
spore-forming | no | 94.251 | no |
glucose-util | yes | 95.291 | yes |
thermophile | no | 99.735 | yes |
motile | yes | 90.686 | no |
glucose-ferment | no | 89.565 | no |
External links
@ref: 8058
culture collection no.: DSM 19341, ATCC 13522, CFBP 1670, ICMP 4352, LMG 2209, NCPPB 639, CIP 103721, PD 118
straininfo link
- @ref: 82139
- straininfo: 377522
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8058 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19341) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19341 | |||
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 | |
39851 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15550 | ||||
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 | |||
82139 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID377522.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
122495 | Curators of the CIP | Collection of Institut Pasteur (CIP 103721) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103721 |