Strain identifier
BacDive ID: 13119
Type strain:
Species: Pseudomonas cedrina
Strain history: CIP <- 1998, F. Dabboussi, Fac. Med., Lille, France: strain CFML 96-198, "Pseudomonas cedrella"
NCBI tax ID(s): 651740 (species)
General
@ref: 7035
BacDive-ID: 13119
DSM-Number: 17516
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, rod-shaped
description: Pseudomonas cedrina DSM 17516 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from spring water.
NCBI tax id
- NCBI tax id: 651740
- Matching level: species
strain history
@ref | history |
---|---|
7035 | <- J. M. Meyer <- D. Izard; CFML 96-198 <- M. Hamze |
117228 | CIP <- 1998, F. Dabboussi, Fac. Med., Lille, France: strain CFML 96-198, "Pseudomonas cedrella" |
doi: 10.13145/bacdive13119.20230509.8.1
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 cedrina
- full scientific name: Pseudomonas cedrina corrig. Dabboussi et al. 2002
synonyms
- @ref: 20215
- synonym: Pseudomonas cedrella
@ref: 7035
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas cedrina
full scientific name: Pseudomonas cedrina Dabboussi et al. 2002 emend. Behrendt et al. 2009
type strain: yes
Morphology
cell morphology
- @ref: 117228
- gram stain: negative
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 117228
- production: no
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7035 | REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) | yes | https://mediadive.dsmz.de/medium/1a | Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
39310 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
117228 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7035 | positive | growth | 30 | mesophilic |
39310 | positive | growth | 30 | mesophilic |
117228 | positive | growth | 5-37 | |
117228 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 117228
- oxygen tolerance: obligate aerobe
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
117228 | NaCl | positive | growth | 0-6 % |
117228 | NaCl | no | growth | 8 % |
117228 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
117228 | 16947 | citrate | + | carbon source |
117228 | 4853 | esculin | + | hydrolysis |
117228 | 17632 | nitrate | + | reduction |
117228 | 16301 | nitrite | - | reduction |
117228 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 117228
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
- @ref: 117228
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
117228 | oxidase | + | |
117228 | beta-galactosidase | - | 3.2.1.23 |
117228 | alcohol dehydrogenase | + | 1.1.1.1 |
117228 | gelatinase | +/- | |
117228 | amylase | - | |
117228 | DNase | - | |
117228 | caseinase | + | 3.4.21.50 |
117228 | catalase | + | 1.11.1.6 |
117228 | tween esterase | - | |
117228 | lecithinase | - | |
117228 | lipase | - | |
117228 | lysine decarboxylase | - | 4.1.1.18 |
117228 | ornithine decarboxylase | - | 4.1.1.17 |
117228 | protease | + | |
117228 | tryptophan deaminase | - | |
117228 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
117228 | - | - | + | + | - | + | + | - | + | - | + | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
117228 | + | + | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | + | - | + | - | - | + | + | + | - | - | + | - | + | - | - | + | + | - | + | + | - | - | + | + | - | - | - | - | + | + | + | - | + | + | + | + | - | - | + | + | - | + | + | + | - | - | - | - | - | + | + | + | + | - | + | + | + | + | + | + | + | + | - | + | - | + | - | + | + | + | + | + | + | + | + | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | isolation date |
---|---|---|---|---|---|
7035 | spring water | Lebanon | LBN | Asia | |
117228 | Environment, Spring water | Lebanon | LBN | Asia | 1995 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Spring
taxonmaps
- @ref: 69479
- File name: preview.99_199.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_199&stattab=map
- Last taxonomy: Pseudomonas
- 16S sequence: AF064461
- Sequence Identity:
- Total samples: 8172
- soil counts: 874
- aquatic counts: 1631
- animal counts: 3216
- plant counts: 2451
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
7035 | 1 | Risk group (German classification) |
117228 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 7035
- description: Pseudomonas cedrella 16S ribosomal RNA gene, complete sequence
- accession: AF064461
- length: 1516
- database: ena
- NCBI tax ID: 651740
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudomonas cedrina subsp. cedrina DSM 17516 | GCA_001983175 | contig | ncbi | 76762 |
66792 | Pseudomonas cedrina subsp. cedrina strain DSM 17516 | 76762.3 | wgs | patric | 76762 |
66792 | Pseudomonas cedrina cedrina DSM 17516 | 2917190755 | draft | img | 76762 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 91.972 | no |
flagellated | yes | 82.508 | no |
gram-positive | no | 98.234 | no |
anaerobic | no | 98.408 | no |
halophile | no | 90.881 | no |
spore-forming | no | 94.852 | no |
glucose-util | yes | 94.783 | no |
aerobic | yes | 92.613 | no |
glucose-ferment | no | 88.636 | no |
thermophile | no | 99.883 | yes |
External links
@ref: 7035
culture collection no.: DSM 17516, CIP 105541, CFML 96-198
straininfo link
- @ref: 82327
- straininfo: 69782
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 10422691 | Taxonomic study of bacteria isolated from Lebanese spring waters: proposal for Pseudomonas cedrella sp. nov. and P. orientalis sp. nov. | Dabboussi F, Hamze M, Elomari M, Verhille S, Baida N, Izard D, Leclerc H | Res Microbiol | 10.1016/s0923-2508(99)80056-4 | 1999 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics/isolation & purification, DNA, Ribosomal/analysis, Fresh Water/microbiology, Genes, rRNA, Lebanon, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Pseudomonas/*classification/genetics/*isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Water Microbiology | Enzymology |
Phylogeny | 12361251 | Pseudomonas grimontii sp. nov. | Baida N, Yazourh A, Singer E, Izard D | Int J Syst Evol Microbiol | 10.1099/00207713-52-5-1497 | 2002 | DNA, Bacterial/genetics, Fresh Water/microbiology, Microscopy, Electron, Molecular Sequence Data, Phylogeny, Pseudomonas/*classification/genetics/isolation & purification/metabolism, Terminology as Topic | Genetics |
Phylogeny | 19502311 | Pseudomonas cedrina subsp. fulgida subsp. nov., a fluorescent bacterium isolated from the phyllosphere of grasses; emended description of Pseudomonas cedrina and description of Pseudomonas cedrina subsp. cedrina subsp. nov. | Behrendt U, Schumann P, Meyer JM, Ulrich A | Int J Syst Evol Microbiol | 10.1099/ijs.0.005025-0 | 2009 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fresh Water/*microbiology, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Poaceae/*microbiology, Pseudomonas/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Species Specificity, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization | Genetics |
Phylogeny | 34309505 | Pseudomonas lactucae sp. nov., a pathogen causing bacterial rot of lettuce in Japan. | Sawada H, Fujikawa T, Satou M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004917 | 2021 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Japan, Lettuce/*microbiology, Nucleic Acid Hybridization, *Phylogeny, Plant Diseases/*microbiology, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
7035 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17516) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17516 | |
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 | |
39310 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17572 | ||
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 | |
82327 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID69782.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
117228 | Curators of the CIP | Collection of Institut Pasteur (CIP 105541) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105541 |