Strain identifier

BacDive ID: 132438

Type strain: Yes

Species: Pseudomonas weihenstephanensis

Strain Designation: WS 4993

Strain history: <- M. Wenning, (ZIEL) TU Munich, Microbiology, Freising-Weihenstephan, Germany; WS4993 <- M. Freiherr von Neubeck, ZIEL

NCBI tax ID(s): 1608994 (species)

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

@ref: 24227

BacDive-ID: 132438

DSM-Number: 29166

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

description: Pseudomonas weihenstephanensis WS 4993 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from raw cow’s milk.

NCBI tax id

  • NCBI tax id: 1608994
  • Matching level: species

strain history

  • @ref: 24227
  • history: <- M. Wenning, (ZIEL) TU Munich, Microbiology, Freising-Weihenstephan, Germany; WS4993 <- M. Freiherr von Neubeck, ZIEL

doi: 10.13145/bacdive132438.20230509.8.1

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 weihenstephanensis
  • full scientific name: Pseudomonas weihenstephanensis von Neubeck et al. 2016

@ref: 24227

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas weihenstephanensis

full scientific name: Pseudomonas weihenstephanensis von Neubeck et al. 2016

strain designation: WS 4993

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43746negative2.1 µm0.75 µmrod-shapedyes
69480yes96.741
69480negative99.996

colony morphology

  • @ref: 43746
  • type of hemolysis: gamma
  • colony size: 0.5-1 mm
  • colony color: Beige
  • colony shape: circular
  • incubation period: 1 day
  • medium used: TSG

multimedia

  • @ref: 24227
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_29166.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43746Cetrimide agaryes
43746Reasoner's 2A agar (R2A)yes
43746TSGyes
24227REACTIVATION 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

culture temp

@refgrowthtypetemperaturerange
43746positivegrowth4-33
43746positiveoptimum23-27
24227positivegrowth28mesophilic

culture pH

  • @ref: 43746
  • ability: positive
  • type: growth
  • pH: 5-8

Physiology and metabolism

oxygen tolerance

  • @ref: 43746
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
43746no
69481no100
69480no99.953

halophily

  • @ref: 43746
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 5 %(w/v)

observation

  • @ref: 43746
  • observation: Fluorescent on King B agar

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4374627613amygdalin-assimilation
4374618305arbutin-assimilation
4374617057cellobiose-assimilation
4374615963ribitol-assimilation
4374617108D-arabinose-assimilation
4374618333D-arabitol-assimilation
4374628847D-fucose-assimilation
4374612936D-galactose-assimilation
4374662318D-lyxose-assimilation
4374616899D-mannitol-assimilation
4374617924D-sorbitol-assimilation
4374616443D-tagatose-assimilation
4374616813galactitol-assimilation
4374617113erythritol-assimilation
4374628066gentiobiose-assimilation
4374628087glycogen-assimilation
4374630849L-arabinose-assimilation
4374618403L-arabitol-assimilation
4374618287L-fucose-assimilation
4374662345L-rhamnose-assimilation
4374617266L-sorbose-assimilation
4374665328L-xylose-assimilation
4374617716lactose-assimilation
4374617306maltose-assimilation
437466731melezitose-assimilation
4374628053melibiose-assimilation
4374643943methyl alpha-D-mannoside-assimilation
4374674863methyl beta-D-xylopyranoside-assimilation
4374637657methyl D-glucoside-assimilation
43746506227N-acetylglucosamine-assimilation
4374616634raffinose-assimilation
4374617814salicin-assimilation
4374617992sucrose-assimilation
4374632528turanose-assimilation
4374617151xylitol-assimilation
437465291gelatin-hydrolysis
4374628017starch-hydrolysis
4374617632nitrate-reduction
4374616301nitrite-reduction
4374615824D-fructose+assimilation
4374617634D-glucose+assimilation
4374616024D-mannose+assimilation
4374616988D-ribose+assimilation
4374665327D-xylose+assimilation
4374617754glycerol+assimilation
4374617268myo-inositol+assimilation
4374632032potassium gluconate+assimilation
4374627082trehalose+assimilation

metabolite production

@refChebi-IDmetaboliteproduction
4374616136hydrogen sulfideno
4374635581indoleno

enzymes

@refvalueactivityec
43746beta-galactosidase-3.2.1.23
43746catalase+1.11.1.6
43746cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
24227raw cow’s milkGermanyDEUEurope
43746Raw cow's milk

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body Product#Fluids#Milk

taxonmaps

  • @ref: 69479
  • File name: preview.99_442.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_368;99_442&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: KP738720
  • Sequence Identity:
  • Total samples: 2942
  • soil counts: 460
  • aquatic counts: 830
  • animal counts: 1081
  • plant counts: 571

Safety information

risk assessment

  • @ref: 24227
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24227
  • description: Pseudomonas weihenstephanensis strain DSM 29166 16S ribosomal RNA gene, partial sequence
  • accession: KP738720
  • length: 1525
  • database: ena
  • NCBI tax ID: 1608994

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas weihenstephanensis DSM 29166GCA_001043055contigncbi1608994
66792Pseudomonas sp. DSM 291661608994.3wgspatric1608994
66792Pseudomonas weihenstephanensis DSM 291662806310669draftimg1608994

GC content

@refGC-contentmethod
4374657.3genome sequence analysis
2422757.3sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.457yes
gram-positiveno98.632yes
anaerobicno97.78no
aerobicyes91.671no
halophileno87.454no
spore-formingno95.799no
thermophileno99.743yes
glucose-utilyes88.241no
flagellatedyes87.711no
glucose-fermentno85.547no

External links

@ref: 24227

culture collection no.: DSM 29166, LMG 28437

straininfo link

  • @ref: 90777
  • straininfo: 396473

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26675012Pseudomonas helleri sp. nov. and Pseudomonas weihenstephanensis sp. nov., isolated from raw cow's milk.von Neubeck M, Huptas C, Gluck C, Krewinkel M, Stoeckel M, Stressler T, Fischer L, Hinrichs J, Scherer S, Wenning MInt J Syst Evol Microbiol10.1099/ijsem.0.0008522015Animals, Bacterial Typing Techniques, Base Composition, Cattle, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Milk/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pseudomonas/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny28501448Pseudomonas versuta sp. nov., isolated from Antarctic soil.See-Too WS, Salazar S, Ee R, Convey P, Chan KG, Peix ASyst Appl Microbiol10.1016/j.syapm.2017.03.0022017Antarctic Regions, Bacterial Typing Techniques, Base Composition/genetics, Base Sequence, DNA Gyrase/genetics, DNA, Bacterial/genetics, DNA-Directed RNA Polymerases/genetics, Fatty Acids/analysis, Phylogeny, *Pseudomonas/classification/genetics/isolation & purification, Quorum Sensing/*genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, *Soil MicrobiologyTranscriptome
Phylogeny34097596Pseudomonas paraversuta sp. nov. isolated from refrigerated dry-aged beef.Lick S, Wibberg D, Winkler A, Blom J, Grimmler C, Goesmann A, Kalinowski J, Krockel LInt J Syst Evol Microbiol10.1099/ijsem.0.0048222021Animals, Bacterial Typing Techniques, Base Composition, Cattle, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Food Microbiology, Genes, Bacterial, Germany, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Red Meat/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryBiotechnology

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
24227Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29166Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29166)
43746M. von Neubeck, C. Huptas, C. Glück, M. Krewinkel, M. Stoeckel, T. Stressler, L. Fischer, J. Hinrichs, S. Scherer, M. WenningPseudomonas helleri sp. nov. and Pseudomonas weihenstephanensis sp. nov., isolated from raw cow's milk10.1099/ijsem.0.000852IJSEM 66: 1163-1173 201626675012
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90777Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID396473.1