Strain identifier

BacDive ID: 13159

Type strain: Yes

Species: Pseudomonas chlororaphis subsp. aurantiaca

Strain history: CIP <- 2000, NCIMB <- CCM

NCBI tax ID(s): 86192 (subspecies)

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

@ref: 8206

BacDive-ID: 13159

DSM-Number: 19603

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

description: Pseudomonas chlororaphis subsp. aurantiaca DSM 19603 is an obligate aerobe, mesophilic, Gram-negative bacterium of the family Pseudomonadaceae.

NCBI tax id

  • NCBI tax id: 86192
  • Matching level: subspecies

strain history

@refhistory
8206<- NCIMB <- CCM
118247CIP <- 2000, NCIMB <- CCM

doi: 10.13145/bacdive13159.20230509.8.1

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 chlororaphis subsp. aurantiaca
  • full scientific name: Pseudomonas chlororaphis subsp. aurantiaca (Nakhimovskaya 1948) Peix et al. 2007

  • synonyms

    • @ref: 20215
    • synonym: Pseudomonas aurantiaca

@ref: 8206

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas chlororaphis subsp. aurantiaca

full scientific name: Pseudomonas chlororaphis subsp. aurantiaca (Nakhimovskaya 1948) Peix et al. 2007

type strain: yes

Morphology

cell morphology

  • @ref: 118247
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8206REACTIVATION 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
37249MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118247CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
8206positivegrowth28mesophilic
37249positivegrowth25mesophilic
118247positivegrowth5-37
118247nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118247
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
118247NaClpositivegrowth0-6 %
118247NaClnogrowth8 %
118247NaClnogrowth10 %

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
11824716947citrate+carbon source
1182474853esculin-hydrolysis
11824717632nitrate+reduction
11824716301nitrite-reduction
11824717632nitrate-respiration

antibiotic resistance

  • @ref: 118247
  • 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
11824735581indoleno

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
118247oxidase+
118247beta-galactosidase-3.2.1.23
118247alcohol dehydrogenase+1.1.1.1
118247gelatinase+
118247amylase-
118247DNase-
118247caseinase+3.4.21.50
118247catalase+1.11.1.6
118247tween esterase+
118247lecithinase+
118247lipase+
118247lysine decarboxylase-4.1.1.18
118247ornithine decarboxylase-4.1.1.17
118247protease+
118247tryptophan deaminase-
118247urease+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
118247-++++++-+-++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
8206---+--+-+++++-++-++++

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118247+++++--+-----------++-----+----+++---------++----+++-+--+--++++++--+---+++++++-+++--+--++++++++++++

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
82061Risk group (German classification)
1182471Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8206
  • description: Pseudomonas chlororaphis subsp. aurantiaca gene for 16S rRNA, strain: ATCC 33663
  • accession: AB021412
  • length: 1504
  • database: ena
  • NCBI tax ID: 86192

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas chlororaphis subsp. aurantiaca DSM 19603GCA_003851835completencbi86192
66792Pseudomonas chlororaphis LMG 21630GCA_900104985chromosomencbi587753
66792Pseudomonas chlororaphis strain LMG 21630587753.25completepatric587753
66792Pseudomonas chlororaphis subsp. aurantiaca strain DSM 1960386192.21completepatric86192
66792Pseudomonas chlororaphis aurantiaca DSM 196032908486269completeimg86192
66792Pseudomonas chlororaphis aurantiaca LMG 216302636416019draftimg86192

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes92.26no
flagellatedyes83.307no
gram-positiveno98.268no
anaerobicno98.649no
aerobicyes95.335no
halophileno89.696no
spore-formingno94.044no
thermophileno99.855yes
glucose-utilyes94.994yes
glucose-fermentno90.955yes

External links

@ref: 8206

culture collection no.: DSM 19603, ATCC 33663, CIP 106718, LMG 21630, NCIMB 10068

straininfo link

  • @ref: 82367
  • straininfo: 323069

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17551044Reclassification of Pseudomonas aurantiaca as a synonym of Pseudomonas chlororaphis and proposal of three subspecies, P. chlororaphis subsp. chlororaphis subsp. nov., P. chlororaphis subsp. aureofaciens subsp. nov., comb. nov. and P. chlororaphis subsp. aurantiaca subsp. nov., comb. nov.Peix A, Valverde A, Rivas R, Igual JM, Ramirez-Bahena MH, Mateos PF, Santa-Regina I, Rodriguez-Barrueco C, Martinez-Molina E, Velazquez EInt J Syst Evol Microbiol10.1099/ijs.0.64621-02007Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pseudomonas/chemistry/*classification/genetics, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic AcidGenetics
Phylogeny23653264Luteibacter rhizovicinus MIMR1 promotes root development in barley (Hordeum vulgare L.) under laboratory conditions.Guglielmetti S, Basilico R, Taverniti V, Arioli S, Piagnani C, Bernacchi AWorld J Microbiol Biotechnol10.1007/s11274-013-1365-62013DNA, Bacterial/*genetics, Evolution, Molecular, Germination, Hordeum/*growth & development/microbiology, Phylogeny, Plant Roots/*growth & development/microbiology, Pseudomonas/genetics/isolation & purification/*physiology, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Seeds/growth & development, Soil Microbiology, Xanthomonadaceae/classification/isolation & purification/*physiologyEnzymology
Pathogenicity30219510Demonstration of the adhesive properties of the medium-chain-length polyhydroxyalkanoate produced by Pseudomonas chlororaphis subsp. aurantiaca from glycerol.Pereira JR, Araujo D, Marques AC, Neves LA, Grandfils C, Sevrin C, Alves VD, Fortunato E, Reis MAM, Freitas FInt J Biol Macromol10.1016/j.ijbiomac.2018.09.0642018Adhesiveness, Animals, Glycerol/*chemistry, Humans, Materials Testing, Molecular Weight, Polyhydroxyalkanoates/*chemistry, Pseudomonas chlororaphis/*chemistry, Stress, Mechanical, Swine, Temperature
Metabolism31605767Pseudomonas chlororaphis as a multiproduct platform: Conversion of glycerol into high-value biopolymers and phenazines.de Meneses L, Pereira JR, Sevrin C, Grandfils C, Paiva A, Reis MAM, Freitas FN Biotechnol10.1016/j.nbt.2019.10.0022019Biomass, Biopolymers/*metabolism, Glycerol/*metabolism, Kinetics, Phenazines/*metabolism, Polyhydroxyalkanoates/metabolism, Polysaccharides, Bacterial/metabolism, Pseudomonas chlororaphis/cytology/growth & development/*metabolism, X-Ray DiffractionEnzymology
Metabolism32125450Control of pyrimidine nucleotide formation in Pseudomonas aurantiaca.Domakonda A, West TPArch Microbiol10.1007/s00203-020-01842-x2020Aspartate Carbamoyltransferase/genetics/*metabolism, Biosynthetic Pathways, Diphosphates, Gene Expression Regulation, Bacterial, Orotate Phosphoribosyltransferase/genetics, Orotidine-5'-Phosphate Decarboxylase/metabolism, Pseudomonas/enzymology/*metabolism, Pyrimidine Nucleotides/*biosynthesis/metabolism, Pyrimidines/*metabolism, Succinic Acid/metabolism, Uracil/metabolismEnzymology
Enzymology33249156Production of medium-chain-length polyhydroxyalkanoates by Pseudomonas chlororaphis subsp. aurantiaca: Cultivation on fruit pulp waste and polymer characterization.Pereira JR, Araujo D, Freitas P, Marques AC, Alves VD, Sevrin C, Grandfils C, Fortunato E, Reis MAM, Freitas FInt J Biol Macromol10.1016/j.ijbiomac.2020.11.1622020Biopolymers/*chemistry, Bioreactors, Chemical Fractionation, Chemical Phenomena, *Fermentation, Fruit/*chemistry, Kinetics, Malus, Mechanical Phenomena, Molecular Weight, Polyhydroxyalkanoates/*biosynthesis/chemistry/isolation & purification, Pseudomonas/*metabolism, *Waste ProductsBiotechnology
Biotechnology35577193Enhanced co-production of medium-chain-length polyhydroxyalkanoates and phenazines from crude glycerol by high cell density cultivation of Pseudomonas chlororaphis in membrane bioreactor.Aloui H, Khomlaem C, Torres CAV, Freitas F, Reis MAM, Kim BSInt J Biol Macromol10.1016/j.ijbiomac.2022.05.0892022Bioreactors, Cell Count, Glycerol/chemistry, Phenazines, *Polyhydroxyalkanoates, Pseudomonas, *Pseudomonas chlororaphisCultivation

Reference

@idauthorscataloguedoi/urltitle
8206Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19603)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19603
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
37249Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18880
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)
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
82367Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID323069.1StrainInfo: A central database for resolving microbial strain identifiers
118247Curators of the CIPCollection of Institut Pasteur (CIP 106718)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106718