Strain identifier

BacDive ID: 13122

Type strain: Yes

Species: Pseudomonas abietaniphila

Strain Designation: BKME-9

Strain history: CIP <- 2000, W.W. Mohn, British Columbia Univ., Vancouver, Canada: strain BKME-9 <- P. Bicho

NCBI tax ID(s): 89065 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 6970

BacDive-ID: 13122

DSM-Number: 17554

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Pseudomonas abietaniphila BKME-9 is an aerobe, mesophilic, motile bacterium that was isolated from bleached kraft mill effluent.

NCBI tax id

  • NCBI tax id: 89065
  • Matching level: species

strain history

@refhistory
6970<- W. W. Mohn <- P. Bicho; BKME-9
115975CIP <- 2000, W.W. Mohn, British Columbia Univ., Vancouver, Canada: strain BKME-9 <- P. Bicho

doi: 10.13145/bacdive13122.20230509.8.1

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 abietaniphila
  • full scientific name: Pseudomonas abietaniphila Mohn et al. 1999

@ref: 6970

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas abietaniphila

full scientific name: Pseudomonas abietaniphila Mohn et al. 1999

strain designation: BKME-9

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.698
6948099.999negative
115975yesnegativerod-shaped

pigmentation

  • @ref: 115975
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6970TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
40385MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
115975CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6970positivegrowth30mesophilic
40385positivegrowth30mesophilic
58992positivegrowth30mesophilic
115975positivegrowth5-30
115975nogrowth37mesophilic
115975nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
58992aerobe
115975obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.979

halophily

@refsaltgrowthtested relationconcentration
115975NaClpositivegrowth0-6 %
115975NaClnogrowth8 %
115975NaClnogrowth10 %

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
11597516947citrate+carbon source
1159754853esculin-hydrolysis
11597517632nitrate-reduction
11597516301nitrite-reduction
11597517632nitrate-respiration

antibiotic resistance

  • @ref: 115975
  • 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
11597535581indoleno

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
115975oxidase-
115975beta-galactosidase-3.2.1.23
115975alcohol dehydrogenase-1.1.1.1
115975gelatinase+/-
115975amylase+
115975DNase-
115975caseinase-3.4.21.50
115975catalase+1.11.1.6
115975tween esterase+
115975lecithinase-
115975lipase-
115975lysine decarboxylase-4.1.1.18
115975ornithine decarboxylase-4.1.1.17
115975protease-
115975tryptophan deaminase-
115975urease-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
115975-++++++---++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6970--------++++--++-++--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
115975+++-+--------------+++-++-+++--+++---+-----+++++++++++--+---+-+++------+++-+++-++++++-+++++++++++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
6970bleached kraft mill effluentKamloops, B.C.CanadaCANNorth America
58992Bleached kraft mill effluentBritish ColumbiaCanadaCANNorth America1995
115975Bleached kraft mill effluentBritish ColumbiaCanadaCANNorth America1995

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Industrial wastewater

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
69701Risk group (German classification)
1159751Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6970
  • description: Pseudomonas abietaniphila partial 16S rRNA gene, type strain ATCC 700689T
  • accession: AJ011504
  • length: 1448
  • database: ena
  • NCBI tax ID: 89065

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas abietaniphila ATCC 700689GCA_900100795contigncbi89065
66792Pseudomonas abietaniphila strain ATCC 70068989065.12wgspatric89065

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.503no
flagellatedyes75.762no
gram-positiveno98.094no
anaerobicno98.241no
halophileno91.112no
spore-formingno94.792no
thermophileno99.858yes
glucose-utilyes94.845no
aerobicyes93.33yes
glucose-fermentno91.51no

External links

@ref: 6970

culture collection no.: DSM 17554, ATCC 700689, CIP 106708, CCUG 50779

straininfo link

  • @ref: 82330
  • straininfo: 44082

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology10192049An alternative inverse PCR (IPCR) method to amplify DNA sequences flanking Tn5 transposon insertions.Martin VJ, Mohn WWJ Microbiol Methods10.1016/s0167-7012(98)00115-81999*Abietanes, Blotting, Southern, *DNA Transposable Elements, DNA, Bacterial/*analysis/isolation & purification, Diterpenes/metabolism, Mutagenesis, Insertional, Polymerase Chain Reaction/*methods, Pseudomonas/*genetics/growth & developmentPhylogeny
Metabolism10217753A novel aromatic-ring-hydroxylating dioxygenase from the diterpenoid-degrading bacterium Pseudomonas abietaniphila BKME-9.Martin VJ, Mohn WWJ Bacteriol10.1128/JB.181.9.2675-2682.19991999*Abietanes, Amino Acid Sequence, *Bacterial Proteins, Cloning, Molecular, *Dioxygenases, Diterpenes/*metabolism, Ferredoxins/*genetics/metabolism, Genes, Bacterial, Hydroxylation, Isoenzymes/genetics/metabolism, Molecular Sequence Data, Mutagenesis, Insertional, Oxygenases/classification/*genetics/metabolism, Phenanthrenes/metabolism, Pseudomonas/enzymology/*genetics, Recombinant Proteins/metabolism, Sequence Analysis, DNA, Sequence Homology, Amino AcidEnzymology
Metabolism10441704Occurrence of Two Resin Acid-Degrading Bacteria and a Gene Encoding Resin Acid Biodegradation in Pulp and Paper Mill Effluent Biotreatment Systems Assayed by PCR.Yu Z, Martin VJ, Mohn WWMicrob Ecol10.1007/s0024899001631999
Metabolism10460883Recent advances in understanding resin acid biodegradation: microbial diversity and metabolism.Martin VJ, Yu Z, Mohn WWArch Microbiol10.1007/s0020300507521999Bacteria, Aerobic/*metabolism, Biodegradation, Environmental, Diterpenes/*metabolism, Ecology, Phylogeny, Pseudomonas/genetics/metabolism, Resins, Plant/chemistry/*metabolism, Trees, Yeasts/metabolismPhylogeny
Metabolism10850995Genetic investigation of the catabolic pathway for degradation of abietane diterpenoids by Pseudomonas abietaniphila BKME-9.Martin VJ, Mohn WWJ Bacteriol10.1128/JB.182.13.3784-3793.20002000*Abietanes, *Bacterial Proteins, Base Sequence, DNA, Bacterial, *Dioxygenases, Diterpenes/*metabolism, Ferredoxins/*genetics, Gene Expression Regulation, Bacterial, Gene Expression Regulation, Enzymologic, *Genes, Bacterial, Molecular Sequence Data, *Multigene Family, Mutagenesis, Open Reading Frames, Oxygenases/*genetics, Phenanthrenes/*metabolism, Pseudomonas/*enzymology/genetics/metabolismGenetics
Metabolism11235883Bioaugmentation with resin-acid-degrading bacteria enhances resin acid removal in sequencing batch reactors treating pulp mill effluents.Yu Z, Mohn WWWater Res10.1016/s0043-1354(00)00335-32001*Abietanes, Base Sequence, Betaproteobacteria/genetics/*metabolism, Biodegradation, Environmental, Bioreactors, DNA Primers/genetics, Diterpenes/*metabolism, Hydrogen-Ion Concentration, Paper, Polymerase Chain Reaction, Pseudomonas/genetics/*metabolism, *Waste Disposal, Fluid, Water Pollutants, Chemical/*metabolism, Water Purification/methodsEnzymology
Metabolism11888163Characterization of tdt genes for the degradation of tricyclic diterpenes by Pseudomonas diterpeniphila A19-6a.Morgan CA, Wyndham RCCan J Microbiol10.1139/w01-1272002*Abietanes, Bacterial Proteins/*genetics/metabolism, Biodegradation, Environmental, Coenzyme A Ligases/genetics/metabolism, Culture Media, Cytochrome P-450 Enzyme System/genetics/metabolism, Diterpenes/*metabolism, Molecular Sequence Data, Mutagenesis, Oxygenases/genetics/metabolism, Phenanthrenes/metabolism, Pseudomonas/*enzymology/*genetics, Recombination, Genetic, Resins, Plant/metabolism, Sequence Analysis, DNACultivation
Metabolism15150251A cytochrome P450 involved in the metabolism of abietane diterpenoids by Pseudomonas abietaniphila BKME-9.Smith DJ, Martin VJ, Mohn WWJ Bacteriol10.1128/JB.186.11.3631-3639.20042004Abietanes/*metabolism, Carbon Monoxide/metabolism, Cytochrome P-450 Enzyme System/genetics/*physiology, Multigene Family, Open Reading Frames, Pseudomonas/genetics/*metabolism
Phylogeny17472635Molecular detection and diversity of novel diterpenoid dioxygenase DitA1 genes from proteobacterial strains and soil samples.Witzig R, Aly HA, Strompl C, Wray V, Junca H, Pieper DHEnviron Microbiol10.1111/j.1462-2920.2007.01242.x2007Abietanes/*metabolism, Bacterial Proteins/classification/*genetics, Burkholderia/classification/genetics/metabolism, DNA Fingerprinting, Dioxygenases/classification/*genetics, Diterpenes/metabolism, Ferredoxins/classification/*genetics, Molecular Sequence Data, Phylogeny, Proteobacteria/classification/*genetics/*physiology, Pseudomonas/classification/genetics/metabolism, *Soil MicrobiologyMetabolism
Metabolism17586638A large gene cluster in Burkholderia xenovorans encoding abietane diterpenoid catabolism.Smith DJ, Park J, Tiedje JM, Mohn WWJ Bacteriol10.1128/JB.00179-072007Abietanes/*metabolism, Burkholderia/*genetics/growth & development/*metabolism, Cytochrome P-450 Enzyme System/genetics, Dioxygenases/genetics, Gene Deletion, Gene Expression Profiling, Gene Expression Regulation, Bacterial, Genes, Bacterial, Genome, Bacterial, Membrane Transport Proteins/genetics, Metabolism/*genetics, *Multigene Family, Mutagenesis, Insertional, Oligonucleotide Array Sequence Analysis, Oxidoreductases/genetics, Phenanthrenes/metabolism, Plasmids/genetics, Pseudomonas/genetics, Sequence Homology, Up-RegulationGenetics
Phylogeny29867824Discovery of Phloeophagus Beetles as a Source of Pseudomonas Strains That Produce Potentially New Bioactive Substances and Description of Pseudomonas bohemica sp. nov.Saati-Santamaria Z, Lopez-Mondejar R, Jimenez-Gomez A, Diez-Mendez A, Vetrovsky T, Igual JM, Velazquez E, Kolarik M, Rivas R, Garcia-Fraile PFront Microbiol10.3389/fmicb.2018.009132018

Reference

@idauthorscataloguedoi/urltitle
6970Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17554)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17554
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
40385Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18869
58992Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50779)https://www.ccug.se/strain?id=50779
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
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
82330Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44082.1StrainInfo: A central database for resolving microbial strain identifiers
115975Curators of the CIPCollection of Institut Pasteur (CIP 106708)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106708