Strain identifier
BacDive ID: 132438
Type strain:
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)
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
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
43746 | negative | 2.1 µm | 0.75 µm | rod-shaped | yes | |
69480 | yes | 96.741 | ||||
69480 | negative | 99.996 |
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
@ref | name | growth | link | composition |
---|---|---|---|---|
43746 | Cetrimide agar | yes | ||
43746 | Reasoner's 2A agar (R2A) | yes | ||
43746 | TSG | yes | ||
24227 | REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) | yes | https://mediadive.dsmz.de/medium/1a | Name: 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
@ref | growth | type | temperature | range |
---|---|---|---|---|
43746 | positive | growth | 4-33 | |
43746 | positive | optimum | 23-27 | |
24227 | positive | growth | 28 | mesophilic |
culture pH
- @ref: 43746
- ability: positive
- type: growth
- pH: 5-8
Physiology and metabolism
oxygen tolerance
- @ref: 43746
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
43746 | no | |
69481 | no | 100 |
69480 | no | 99.953 |
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
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
43746 | 27613 | amygdalin | - | assimilation |
43746 | 18305 | arbutin | - | assimilation |
43746 | 17057 | cellobiose | - | assimilation |
43746 | 15963 | ribitol | - | assimilation |
43746 | 17108 | D-arabinose | - | assimilation |
43746 | 18333 | D-arabitol | - | assimilation |
43746 | 28847 | D-fucose | - | assimilation |
43746 | 12936 | D-galactose | - | assimilation |
43746 | 62318 | D-lyxose | - | assimilation |
43746 | 16899 | D-mannitol | - | assimilation |
43746 | 17924 | D-sorbitol | - | assimilation |
43746 | 16443 | D-tagatose | - | assimilation |
43746 | 16813 | galactitol | - | assimilation |
43746 | 17113 | erythritol | - | assimilation |
43746 | 28066 | gentiobiose | - | assimilation |
43746 | 28087 | glycogen | - | assimilation |
43746 | 30849 | L-arabinose | - | assimilation |
43746 | 18403 | L-arabitol | - | assimilation |
43746 | 18287 | L-fucose | - | assimilation |
43746 | 62345 | L-rhamnose | - | assimilation |
43746 | 17266 | L-sorbose | - | assimilation |
43746 | 65328 | L-xylose | - | assimilation |
43746 | 17716 | lactose | - | assimilation |
43746 | 17306 | maltose | - | assimilation |
43746 | 6731 | melezitose | - | assimilation |
43746 | 28053 | melibiose | - | assimilation |
43746 | 43943 | methyl alpha-D-mannoside | - | assimilation |
43746 | 74863 | methyl beta-D-xylopyranoside | - | assimilation |
43746 | 37657 | methyl D-glucoside | - | assimilation |
43746 | 506227 | N-acetylglucosamine | - | assimilation |
43746 | 16634 | raffinose | - | assimilation |
43746 | 17814 | salicin | - | assimilation |
43746 | 17992 | sucrose | - | assimilation |
43746 | 32528 | turanose | - | assimilation |
43746 | 17151 | xylitol | - | assimilation |
43746 | 5291 | gelatin | - | hydrolysis |
43746 | 28017 | starch | - | hydrolysis |
43746 | 17632 | nitrate | - | reduction |
43746 | 16301 | nitrite | - | reduction |
43746 | 15824 | D-fructose | + | assimilation |
43746 | 17634 | D-glucose | + | assimilation |
43746 | 16024 | D-mannose | + | assimilation |
43746 | 16988 | D-ribose | + | assimilation |
43746 | 65327 | D-xylose | + | assimilation |
43746 | 17754 | glycerol | + | assimilation |
43746 | 17268 | myo-inositol | + | assimilation |
43746 | 32032 | potassium gluconate | + | assimilation |
43746 | 27082 | trehalose | + | assimilation |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
43746 | 16136 | hydrogen sulfide | no |
43746 | 35581 | indole | no |
enzymes
@ref | value | activity | ec |
---|---|---|---|
43746 | beta-galactosidase | - | 3.2.1.23 |
43746 | catalase | + | 1.11.1.6 |
43746 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
24227 | raw cow’s milk | Germany | DEU | Europe |
43746 | Raw cow's milk |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudomonas weihenstephanensis DSM 29166 | GCA_001043055 | contig | ncbi | 1608994 |
66792 | Pseudomonas sp. DSM 29166 | 1608994.3 | wgs | patric | 1608994 |
66792 | Pseudomonas weihenstephanensis DSM 29166 | 2806310669 | draft | img | 1608994 |
GC content
@ref | GC-content | method |
---|---|---|
43746 | 57.3 | genome sequence analysis |
24227 | 57.3 | sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 91.457 | yes |
gram-positive | no | 98.632 | yes |
anaerobic | no | 97.78 | no |
aerobic | yes | 91.671 | no |
halophile | no | 87.454 | no |
spore-forming | no | 95.799 | no |
thermophile | no | 99.743 | yes |
glucose-util | yes | 88.241 | no |
flagellated | yes | 87.711 | no |
glucose-ferment | no | 85.547 | no |
External links
@ref: 24227
culture collection no.: DSM 29166, LMG 28437
straininfo link
- @ref: 90777
- straininfo: 396473
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 26675012 | Pseudomonas 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 M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000852 | 2015 | Animals, 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/chemistry | Transcriptome |
Phylogeny | 28501448 | Pseudomonas versuta sp. nov., isolated from Antarctic soil. | See-Too WS, Salazar S, Ee R, Convey P, Chan KG, Peix A | Syst Appl Microbiol | 10.1016/j.syapm.2017.03.002 | 2017 | Antarctic 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 Microbiology | Transcriptome |
Phylogeny | 34097596 | Pseudomonas paraversuta sp. nov. isolated from refrigerated dry-aged beef. | Lick S, Wibberg D, Winkler A, Blom J, Grimmler C, Goesmann A, Kalinowski J, Krockel L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004822 | 2021 | Animals, 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/chemistry | Biotechnology |
Reference
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
24227 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29166 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29166) | |||
43746 | M. von Neubeck, C. Huptas, C. Glück, M. Krewinkel, M. Stoeckel, T. Stressler, L. Fischer, J. Hinrichs, S. Scherer, M. Wenning | Pseudomonas helleri sp. nov. and Pseudomonas weihenstephanensis sp. nov., isolated from raw cow's milk | 10.1099/ijsem.0.000852 | IJSEM 66: 1163-1173 2016 | 26675012 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
69479 | João 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 beta | https://microbeatlas.org/ | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
90777 | Reimer, 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 identifiers | 10.60712/SI-ID396473.1 |