Strain identifier

BacDive ID: 13115

Type strain: Yes

Species: Pseudomonas argentinensis

Strain Designation: CH01, CH01T

Strain history: CIP <- 2005, CECT <- A. Peix, Salamanca, Spain: strain CH01T

NCBI tax ID(s): 289370 (species)

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General

@ref: 6860

BacDive-ID: 13115

DSM-Number: 17259

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

description: Pseudomonas argentinensis CH01 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from rhizospere soil of Chloris ciliata.

NCBI tax id

  • NCBI tax id: 289370
  • Matching level: species

strain history

@refhistory
6860<- Velázquez, E., Salamanca <- A. Peix, Salamanca, Spain <- A. Abril
116492CIP <- 2005, CECT <- A. Peix, Salamanca, Spain: strain CH01T

doi: 10.13145/bacdive13115.20230509.8.1

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 argentinensis
  • full scientific name: Pseudomonas argentinensis Peix et al. 2005

@ref: 6860

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas argentinensis

full scientific name: Pseudomonas argentinensis Peix et al. 2005

strain designation: CH01, CH01T

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31385negative1.6 µm0.6 µmrod-shapedyes
69480yes98.576
69480negative99.991
116492negativerod-shapedyes

colony morphology

  • @ref: 116492

pigmentation

  • @ref: 31385
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6860CASO 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
34967MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116492CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116492CIP Medium 343yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=343

culture temp

@refgrowthtypetemperaturerange
6860positivegrowth30mesophilic
31385positivegrowth05-40
31385positiveoptimum25mesophilic
34967positivegrowth30mesophilic
58968positivegrowth30-37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31385aerobe
58968aerobe
116492obligate aerobe

spore formation

@refspore formationconfidence
31385no
69481no100
69480no99.896

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
31385168082-dehydro-D-gluconate+carbon source
3138522599arabinose+carbon source
3138518403L-arabitol+carbon source
3138527689decanoate+carbon source
3138516947citrate+carbon source
3138528757fructose+carbon source
3138533984fucose+carbon source
3138528260galactose+carbon source
3138517234glucose+carbon source
3138517754glycerol+carbon source
3138525115malate+carbon source
3138529864mannitol+carbon source
3138537684mannose+carbon source
3138528053melibiose+carbon source
3138533942ribose+carbon source
3138527082trehalose+carbon source
3138518222xylose+carbon source
3138517632nitrate+reduction
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
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
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-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
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
11649217632nitrate+reduction
11649216301nitrite-reduction

enzymes

@refvalueactivityec
31385catalase+1.11.1.6
116492oxidase+
116492alcohol dehydrogenase-1.1.1.1
116492catalase+1.11.1.6
116492lysine decarboxylase-4.1.1.18
116492ornithine decarboxylase-4.1.1.17
116492urease-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
116492-+++-++-+-++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116492---+/------+/-+/-+/-+/-----+/--------------+/------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
6860rhizospere soil of Chloris ciliataChloris ciliataCórdobaArgentinaARGMiddle and South America
58968SoilCórdobaArgentinaARGMiddle and South America
116492Environment, SoilCordobaArgentinaARGMiddle and South America2003

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_4640.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_64;98_2761;99_4640&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: AY691188
  • Sequence Identity:
  • Total samples: 120
  • soil counts: 4
  • aquatic counts: 30
  • animal counts: 60
  • plant counts: 26

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
68601Risk group (German classification)
1164921Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6860
  • description: Pseudomonas argentinensis strain CH01 16S ribosomal RNA gene, complete sequence
  • accession: AY691188
  • length: 1529
  • database: ena
  • NCBI tax ID: 289370

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas argentinensis LMG 22563GCA_900113905scaffoldncbi289370
66792Pseudomonas argentinensis CCUG 50743GCA_008801645contigncbi289370
66792Pseudomonas argentinensis strain CCUG 50743289370.11wgspatric289370
66792Pseudomonas argentinensis strain LMG 22563289370.10wgspatric289370
66792Pseudomonas argentinensis LMG 225632671180085draftimg289370

GC content

  • @ref: 6860
  • GC-content: 57.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.866no
flagellatedyes77.575no
gram-positiveno98.862yes
anaerobicno97.082yes
aerobicyes93.982no
halophileno85.696no
spore-formingno95.423no
glucose-fermentno90.386no
thermophileno99.61no
glucose-utilyes93.932no

External links

@ref: 6860

culture collection no.: DSM 17259, CECT 7010, LMG 22563, CCUG 50743, CIP 108775

straininfo link

  • @ref: 82323
  • straininfo: 132200

literature

  • topic: Phylogeny
  • Pubmed-ID: 15879241
  • title: Pseudomonas argentinensis sp. nov., a novel yellow pigment-producing bacterial species, isolated from rhizospheric soil in Cordoba, Argentina.
  • authors: Peix A, Berge O, Rivas R, Abril A, Velazquez E
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63445-0
  • year: 2005
  • mesh: Aerobiosis, Argentina, Bacterial Typing Techniques, Base Composition, Caseins/metabolism, Catalase/analysis, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Flagella, Gelatin/metabolism, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/analysis, Phylogeny, Pigments, Biological/*biosynthesis, Pseudomonas/*classification/cytology/*isolation & purification/physiology, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6860Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17259)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17259
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
31385Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2769628776041
34967Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6441
58968Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50743)https://www.ccug.se/strain?id=50743
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
82323Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID132200.1StrainInfo: A central database for resolving microbial strain identifiers
116492Curators of the CIPCollection of Institut Pasteur (CIP 108775)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108775