Strain identifier

BacDive ID: 13119

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refhistory
7035<- J. M. Meyer <- D. Izard; CFML 96-198 <- M. Hamze
117228CIP <- 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

@refnamegrowthlinkcomposition
7035REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: 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
39310MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
117228CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
7035positivegrowth30mesophilic
39310positivegrowth30mesophilic
117228positivegrowth5-37
117228nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 117228
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
117228NaClpositivegrowth0-6 %
117228NaClnogrowth8 %
117228NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11722816947citrate+carbon source
1172284853esculin+hydrolysis
11722817632nitrate+reduction
11722816301nitrite-reduction
11722817632nitrate-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

@refvalueactivityec
117228oxidase+
117228beta-galactosidase-3.2.1.23
117228alcohol dehydrogenase+1.1.1.1
117228gelatinase+/-
117228amylase-
117228DNase-
117228caseinase+3.4.21.50
117228catalase+1.11.1.6
117228tween esterase-
117228lecithinase-
117228lipase-
117228lysine decarboxylase-4.1.1.18
117228ornithine decarboxylase-4.1.1.17
117228protease+
117228tryptophan deaminase-
117228urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117228--++-++-+-++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117228+++++--------------+++-+--+++--+-+--++-++--++----+++-++++--++-+++-----++++-++++++++-+-+-+++++++++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentisolation date
7035spring waterLebanonLBNAsia
117228Environment, Spring waterLebanonLBNAsia1995

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

@refbiosafety levelbiosafety level comment
70351Risk group (German classification)
1172281Risk 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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas cedrina subsp. cedrina DSM 17516GCA_001983175contigncbi76762
66792Pseudomonas cedrina subsp. cedrina strain DSM 1751676762.3wgspatric76762
66792Pseudomonas cedrina cedrina DSM 175162917190755draftimg76762

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes91.972no
flagellatedyes82.508no
gram-positiveno98.234no
anaerobicno98.408no
halophileno90.881no
spore-formingno94.852no
glucose-utilyes94.783no
aerobicyes92.613no
glucose-fermentno88.636no
thermophileno99.883yes

External links

@ref: 7035

culture collection no.: DSM 17516, CIP 105541, CFML 96-198

straininfo link

  • @ref: 82327
  • straininfo: 69782

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10422691Taxonomic 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 HRes Microbiol10.1016/s0923-2508(99)80056-41999Bacterial 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 MicrobiologyEnzymology
Phylogeny12361251Pseudomonas grimontii sp. nov.Baida N, Yazourh A, Singer E, Izard DInt J Syst Evol Microbiol10.1099/00207713-52-5-14972002DNA, Bacterial/genetics, Fresh Water/microbiology, Microscopy, Electron, Molecular Sequence Data, Phylogeny, Pseudomonas/*classification/genetics/isolation & purification/metabolism, Terminology as TopicGenetics
Phylogeny19502311Pseudomonas 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 AInt J Syst Evol Microbiol10.1099/ijs.0.005025-02009Bacterial 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-IonizationGenetics
Phylogeny34309505Pseudomonas lactucae sp. nov., a pathogen causing bacterial rot of lettuce in Japan.Sawada H, Fujikawa T, Satou MInt J Syst Evol Microbiol10.1099/ijsem.0.0049172021Bacterial 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, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitle
7035Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17516)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17516
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
39310Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17572
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68382Automatically annotated from API zym
69479João 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
82327Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID69782.1StrainInfo: A central database for resolving microbial strain identifiers
117228Curators of the CIPCollection of Institut Pasteur (CIP 105541)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105541