Strain identifier

BacDive ID: 13087

Type strain: Yes

Species: Pseudomonas brenneri

Strain Designation: 97-391

Strain history: CIP <- 2000, D. Izard, Lille Univ., Lille, France, strain 97-391

NCBI tax ID(s): 129817 (species)

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General

@ref: 5832

BacDive-ID: 13087

DSM-Number: 15294

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

description: Pseudomonas brenneri 97-391 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from natural mineral water.

NCBI tax id

  • NCBI tax id: 129817
  • Matching level: species

strain history

@refhistory
5832<- CIP <- D. Izard; 97-391
67770CIP 106646 <-- D. Izard CFML 97-391.
116999CIP <- 2000, D. Izard, Lille Univ., Lille, France, strain 97-391

doi: 10.13145/bacdive13087.20230509.8.1

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

@ref: 5832

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas brenneri

full scientific name: Pseudomonas brenneri Baïda et al. 2002 emend. van den Beld et al. 2016

strain designation: 97-391

type strain: yes

Morphology

cell morphology

  • @ref: 116999
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 116999
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5832CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
42004MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
116999CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
116999CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5832positivegrowth30mesophilic
42004positivegrowth30mesophilic
59224positivegrowth30mesophilic
67770positivegrowth30mesophilic
116999positivegrowth5-30
116999nogrowth37mesophilic
116999nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
59224aerobe
116999obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
116999NaClpositivegrowth0-6 %
116999NaClnogrowth8 %
116999NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate+assimilation
6836927689decanoate+assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine+hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
11699916947citrate+carbon source
1169994853esculin-hydrolysis
11699917632nitrate+reduction
11699916301nitrite+reduction
11699917632nitrate+respiration

antibiotic resistance

  • @ref: 116999
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11699935581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6
116999oxidase+
116999beta-galactosidase-3.2.1.23
116999alcohol dehydrogenase+1.1.1.1
116999gelatinase+/-
116999amylase-
116999DNase-
116999caseinase+3.4.21.50
116999catalase+1.11.1.6
116999tween esterase+
116999lecithinase+
116999lipase+
116999lysine decarboxylase-4.1.1.18
116999ornithine decarboxylase-4.1.1.17
116999protease+
116999tryptophan deaminase-
116999urease-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
116999-+++-++-++++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
5832+--+--+-+-+++-+++++-+
5832+--+--+-+-+++-+++++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116999+++++--------------+---+--+++--+++---+--+---+---++++-+--+--++-+++------+++-+++-++++++++++++++++++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
5832natural mineral waterLilleFranceFRAEurope
59224Water,natural mineral waterLilleFranceFRAEurope
67770Natural mineral water
116999Environment, Mineral waterLilleFranceFRAEurope1997

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

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: AF268968
  • 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
58321Risk group (German classification)
1169991Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5832
  • description: Pseudomonas brennerii 16S ribosomal RNA gene, complete sequence
  • accession: AF268968
  • length: 1502
  • database: ena
  • NCBI tax ID: 129817

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas brenneri JCM 13307GCA_014646715contigncbi129817
66792Pseudomonas brenneri CCUG 51514GCA_008386555contigncbi129817
66792Pseudomonas brenneri strain CCUG 51514129817.16wgspatric129817
66792Pseudomonas brenneri strain DSM 15294129817.15wgspatric129817
66792Pseudomonas brenneri strain JCM 13307129817.19wgspatric129817
66792Pseudomonas brenneri DSM 152942639762518draftimg129817
67770Pseudomonas brenneri DSM 15294GCA_007858285contigncbi129817
66792Pseudomonas brenneri DSM 15294GCA_900105815chromosomencbi129817

GC content

@refGC-contentmethod
583258
6777058high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes91.672no
glucose-fermentno88.806yes
flagellatedyes88.341no
gram-positiveno98.33no
anaerobicno98.457yes
aerobicyes92.723yes
halophileno90.82no
spore-formingno96.423no
thermophileno99.835yes
glucose-utilyes93.518no

External links

@ref: 5832

culture collection no.: DSM 15294, CFML 93-391, CIP 106646, CCUG 51514, JCM 13307, CFML 97-391

straininfo link

  • @ref: 82297
  • straininfo: 100884

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11446518Pseudomonas brenneri sp. nov., a new species isolated from natural mineral waters.Baida N, Yazourh A, Singer E, Izard DRes Microbiol10.1016/s0923-2508(01)01223-22001DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Mineral Waters/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polymerase Chain Reaction, Pseudomonas/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Water MicrobiologyGenetics
Phylogeny16957113Pseudomonas pohangensis sp. nov., isolated from seashore sand in Korea.Weon HY, Kim BY, Yoo SH, Baek YK, Lee SY, Kwon SW, Go SJ, Stackebrandt EInt J Syst Evol Microbiol10.1099/ijs.0.64274-02006Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Korea, Molecular Sequence Data, Pseudomonas/classification/genetics/*isolation & purification, RNA, Ribosomal, 16S/*analysis, Silicon Dioxide, Soil MicrobiologyGenetics
Phylogeny27259517Possible misidentification of species in the Pseudomonas fluorescens lineage as Burkholderia pseudomallei and Francisella tularensis, and emended descriptions of Pseudomonas brenneri,Pseudomonas gessardii and Pseudomonas proteolytica.van den Beld MJC, Reinders E, Notermans DW, Reubsaet FAGInt J Syst Evol Microbiol10.1099/ijsem.0.0012062016Bacterial Typing Techniques, Burkholderia pseudomallei/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Francisella tularensis/*classification/isolation & purification, Netherlands, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, *Water Microbiology, Water SupplyEnzymology
Phylogeny31334698Pseudomonas edaphica sp. nov., isolated from rhizospheric soil of Cistus ladanifer L. in Spain.Ramirez-Bahena MH, Salazar S, Santin PJ, Sanchez-Rodriguez JA, Fernandez-Pascual M, Igual JM, Santa-Regina I, Peix AInt J Syst Evol Microbiol10.1099/ijsem.0.0036032019Bacterial Typing Techniques, Base Composition, Cistus/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Spain, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
5832Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15294)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15294
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
42004Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18799
59224Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51514)https://www.ccug.se/strain?id=51514
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
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
82297Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100884.1StrainInfo: A central database for resolving microbial strain identifiers
116999Curators of the CIPCollection of Institut Pasteur (CIP 106646)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106646