Strain identifier
BacDive ID: 11945
Type strain:
Species: Schlesneria paludicola
Strain history: <- S. N. Dedysh, RAS, Moscow; MPL 7 <- I. S. Kulichevskaya, RAS, Moscow
NCBI tax ID(s): 1123242 (strain), 360056 (species)
General
@ref: 7634
BacDive-ID: 11945
DSM-Number: 18645
keywords: genome sequence, 16S sequence, Bacteria, facultative aerobe, mesophilic, motile, ovoid-shaped
description: Schlesneria paludicola DSM 18645 is a facultative aerobe, mesophilic, motile bacterium that was isolated from sphagnum peat bog. Bakchar.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1123242 | strain |
360056 | species |
strain history
- @ref: 7634
- history: <- S. N. Dedysh, RAS, Moscow; MPL 7 <- I. S. Kulichevskaya, RAS, Moscow
doi: 10.13145/bacdive11945.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/planctomycetota
- domain: Bacteria
- phylum: Planctomycetota
- class: Planctomycetia
- order: Planctomycetales
- family: Planctomycetaceae
- genus: Schlesneria
- species: Schlesneria paludicola
- full scientific name: Schlesneria paludicola Kulichevskaya et al. 2007
@ref: 7634
domain: Bacteria
phylum: Planctomycetes
class: Planctomycetia
order: Planctomycetales
family: Planctomycetaceae
genus: Schlesneria
species: Schlesneria paludicola
full scientific name: Schlesneria paludicola Kulichevskaya et al. 2007
type strain: yes
Morphology
cell morphology
@ref | cell length | cell width | cell shape | motility | gram stain | confidence |
---|---|---|---|---|---|---|
32224 | 1.7 µm | 1.05 µm | ovoid-shaped | yes | ||
69480 | negative | 99.969 |
pigmentation
- @ref: 32224
- production: no
Culture and growth conditions
culture medium
- @ref: 7634
- name: SCHLESNERIA PALUDICOLA MEDIUM (DSMZ Medium 1244)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1244
- composition: Name: SCHLESNERIA PALUDICOLA MEDIUM (DSMZ Medium 1244) Composition: Agar 18.0 g/l N-Acetylglucosamine 1.0 g/l MgSO4 x 7 H2O 0.594 g/l Na-ampicillin 0.2 g/l Nitrilotriacetic acid 0.2 g/l Yeast extract 0.1 g/l Peptone 0.1 g/l KH2PO4 0.1 g/l CaCl2 x 2 H2O 0.0668 g/l ZnSO4 x 7 H2O 0.001095 g/l FeSO4 x 7 H2O 0.0005 g/l Na-EDTA 0.00025 g/l (NH4)6Mo7O24 x 4 H2O 0.000185 g/l MnSO4 x H2O 0.000154 g/l CuSO4 x 5 H2O 3.92e-05 g/l Co(NO3)2 x 6 H2O 2.48e-05 g/l Na2B4O7 x 10 H2O 1.77e-05 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7634 | positive | growth | 25 | mesophilic |
32224 | positive | growth | 4-32 | |
32224 | positive | optimum | 20.5 | psychrophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
32224 | positive | growth | 4.2-7.5 |
32224 | positive | optimum | 5.6 |
Physiology and metabolism
oxygen tolerance
- @ref: 32224
- oxygen tolerance: facultative aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.98 |
halophily
- @ref: 32224
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <0.5 %
observation
- @ref: 32224
- observation: aggregates in clumps
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32224 | 17057 | cellobiose | + | carbon source |
32224 | 33984 | fucose | + | carbon source |
32224 | 17234 | glucose | + | carbon source |
32224 | 17716 | lactose | + | carbon source |
32224 | 17306 | maltose | + | carbon source |
32224 | 506227 | N-acetylglucosamine | + | carbon source |
32224 | 17814 | salicin | + | carbon source |
32224 | 17992 | sucrose | + | carbon source |
32224 | 27082 | trehalose | + | carbon source |
32224 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
32224 | catalase | + | 1.11.1.6 |
32224 | gelatinase | + | |
32224 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 7634
- sample type: sphagnum peat bog. Bakchar
- geographic location: Tomsk Region
- country: Russia
- origin.country: RUS
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Wetland (Swamp) |
#Host | #Plants | #Peat moss |
taxonmaps
- @ref: 69479
- File name: preview.99_3594.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_412;96_1868;97_2245;98_2754;99_3594&stattab=map
- Last taxonomy: Schlesneria paludicola subclade
- 16S sequence: AM162407
- Sequence Identity:
- Total samples: 1643
- soil counts: 911
- aquatic counts: 593
- animal counts: 87
- plant counts: 52
Safety information
risk assessment
- @ref: 7634
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7634
- description: Schlesneria paludicola partial 16S rRNA gene, type strain MPL7T
- accession: AM162407
- length: 1446
- database: ena
- NCBI tax ID: 360056
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Schlesneria paludicola DSM 18645 | GCA_000255655 | scaffold | ncbi | 1123242 |
66792 | Schlesneria paludicola DSM 18645 | 1123242.3 | wgs | patric | 1123242 |
66792 | Schlesneria paludicola DSM 18645 | 2548877001 | draft | img | 1123242 |
66792 | Schlesneria paludicola DSM 18645 MH-08apr19-81 | GCA_945862235 | contig | ncbi | 1123242 |
66792 | Schlesneria paludicola DSM 18645 GE-03apr19-10 | GCA_945869955 | contig | ncbi | 1123242 |
66792 | Schlesneria paludicola DSM 18645 MsH-30jul19-291 | GCA_945876035 | contig | ncbi | 1123242 |
66792 | Schlesneria paludicola DSM 18645 MiH-16apr19-66 | GCA_945902765 | contig | ncbi | 1123242 |
66792 | Schlesneria paludicola DSM 18645 ZH-03apr19-85 | GCA_945908225 | contig | ncbi | 1123242 |
66792 | Schlesneria paludicola DSM 18645 strain ZH-03apr19-85 | 1123242.10 | wgs | patric | 1123242 |
66792 | Schlesneria paludicola DSM 18645 strain MsH-30jul19-291 | 1123242.9 | wgs | patric | 1123242 |
66792 | Schlesneria paludicola DSM 18645 strain MH-08apr19-81 | 1123242.11 | wgs | patric | 1123242 |
66792 | Schlesneria paludicola DSM 18645 strain GE-03apr19-10 | 1123242.8 | wgs | patric | 1123242 |
GC content
- @ref: 32224
- GC-content: 56.3
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 86.551 | yes |
flagellated | no | 73.509 | no |
gram-positive | no | 98.079 | no |
anaerobic | no | 96.739 | yes |
aerobic | yes | 77.347 | yes |
halophile | no | 93.217 | yes |
spore-forming | no | 85.069 | no |
glucose-util | yes | 83.159 | yes |
glucose-ferment | no | 90.468 | no |
thermophile | no | 97.461 | yes |
External links
@ref: 7634
culture collection no.: DSM 18645, MPL 7
straininfo link
- @ref: 81158
- straininfo: 404813
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17978240 | Schlesneria paludicola gen. nov., sp. nov., the first acidophilic member of the order Planctomycetales, from Sphagnum-dominated boreal wetlands. | Kulichevskaya IS, Ivanova AO, Belova SE, Baulina OI, Bodelier PLE, Rijpstra WIC, Sinninghe Damste JS, Zavarzin GA, Dedysh SN | Int J Syst Evol Microbiol | 10.1099/ijs.0.65157-0 | 2007 | Bacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Russia, Sequence Analysis, DNA, Species Specificity, *Sphagnopsida, *Wetlands | Genetics |
Genetics | 22740668 | Genome sequences of three species in the family Planctomycetaceae. | Guo M, Han X, Jin T, Zhou L, Yang J, Li Z, Chen J, Geng B, Zou Y, Wan D, Li D, Dai W, Wang H, Chen Y, Ni P, Fang C, Yang R | J Bacteriol | 10.1128/JB.00639-12 | 2012 | Gene Expression Regulation, Bacterial/physiology, *Genome, Bacterial, Molecular Sequence Data, Planctomycetales/classification/*genetics, Species Specificity | Phylogeny |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
7634 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18645) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18645 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
32224 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28466 | 28776041 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
81158 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID404813.1 | StrainInfo: A central database for resolving microbial strain identifiers |