Strain identifier

BacDive ID: 13118

Type strain: Yes

Species: Pseudomonas grimontii

Strain history: CIP <- 2000, D. Izard, Lille Univ., Lille, France: strain 97-514

NCBI tax ID(s): 129847 (species)

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General

@ref: 7034

BacDive-ID: 13118

DSM-Number: 17515

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Pseudomonas grimontii DSM 17515 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from mineral water.

NCBI tax id

  • NCBI tax id: 129847
  • Matching level: species

strain history

@refhistory
7034<- J. M. Meyer <- D. Izard; CFML 97-514
119744CIP <- 2000, D. Izard, Lille Univ., Lille, France: strain 97-514

doi: 10.13145/bacdive13118.20250331.9.3

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 grimontii
  • full scientific name: Pseudomonas grimontii Baïda et al. 2002

@ref: 7034

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas grimontii

full scientific name: Pseudomonas grimontii Baïda et al. 2002

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
119744negativerod-shapedyes
125438negative98.5
125439negative95.2

pigmentation

  • @ref: 119744
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7034TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)yeshttps://mediadive.dsmz.de/medium/535aName: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
40388MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
119744CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
119744CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
119744CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperature
7034positivegrowth30
40388positivegrowth30
59518positivegrowth30
119744positivegrowth5-37
119744nogrowth41

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
59518aerobe
119744obligate aerobe
125438aerobe93.719

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 98.9

halophily

@refsaltgrowthtested relationconcentration
119744NaClpositivegrowth0-4 %
119744NaClnogrowth6 %
119744NaClnogrowth8 %
119744NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11974416947citrate+carbon source
1197444853esculin-hydrolysis
11974417632nitrate+reduction
11974416301nitrite+reduction
11974417632nitrate+respiration
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

antibiotic resistance

  • @ref: 119744
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
119744oxidase+
119744beta-galactosidase-3.2.1.23
119744alcohol dehydrogenase-1.1.1.1
119744gelatinase-
119744amylase-
119744DNase-
119744caseinase-3.4.21.50
119744catalase+1.11.1.6
119744tween esterase-
119744lecithinase-
119744lipase-
119744lysine decarboxylase-4.1.1.18
119744ornithine decarboxylase-4.1.1.17
119744protease-
119744urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119744-+++-++---++----+---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119744-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119744+++++-------------++++-+--+----+++--+--++--++---+++--+++++-++-+++++---++++-++++++++++-+++++++++++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dategeographic locationisolation date
7034mineral waterFranceFRAEurope
59518Water,mineralFranceFRAEurope1997Lille
119744Environment, Mineral waterFranceFRAEuropeLille1997

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_168.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_168&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: AF268029
  • Sequence Identity:
  • Total samples: 5463
  • soil counts: 555
  • aquatic counts: 976
  • animal counts: 2173
  • plant counts: 1759

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
70341Risk group (German classification)
1197441Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
7034Pseudomonas grimontii 16S ribosomal RNA gene, partial sequenceAF2680291501nuccore129847
124043Pseudomonas grimontii CIP 106645 gene for 16S ribosomal RNA, partial sequence.LC4090751418nuccore129847

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas grimontii DSM 17515GCA_007858185contigncbi129847
66792Pseudomonas grimontii strain DSM 17515129847.4wgspatric129847
66792Pseudomonas grimontii DSM 175152639762651draftimg129847
66792Pseudomonas grimontii DSM 17515GCA_900101085contigncbi129847

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno98.5no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.604yes
125438spore-formingspore-formingAbility to form endo- or exosporesno85.103no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes93.719yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno99yes
125438motile2+flagellatedAbility to perform flagellated movementyes89.772no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno98.9
125439BacteriaNetmotilityAbility to perform movementyes84.6
125439BacteriaNetgram_stainReaction to gram-stainingnegative95.2
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe76.2

External links

@ref: 7034

culture collection no.: DSM 17515, CIP 106645, CCUG 52345, ATCC BAA-140, CCM 7501, CFML 97-514, KCTC 12213

straininfo link

  • @ref: 82326
  • straininfo: 100887

literature

  • topic: Phylogeny
  • Pubmed-ID: 12361251
  • title: Pseudomonas grimontii sp. nov.
  • authors: Baida N, Yazourh A, Singer E, Izard D
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-52-5-1497
  • year: 2002
  • mesh: DNA, Bacterial/genetics, Fresh Water/microbiology, Microscopy, Electron, Molecular Sequence Data, Phylogeny, Pseudomonas/*classification/genetics/isolation & purification/metabolism, Terminology as Topic
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
7034Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17515)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17515
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
40388Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18798
59518Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52345)https://www.ccug.se/strain?id=52345
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)
68371Automatically annotated from API 50CH acid
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
82326Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100887.1StrainInfo: A central database for resolving microbial strain identifiers
119744Curators of the CIPCollection of Institut Pasteur (CIP 106645)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106645
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1