Strain identifier
BacDive ID: 11665
Type strain: 
Species: Paenibacillus xylaniclasticus
Strain Designation: TW1
Strain history: <- NBRC; NBRC 106381
NCBI tax ID(s): 588083 (species)
version 9.1 (current version)
General
@ref: 18253
BacDive-ID: 11665
DSM-Number: 26531
keywords: genome sequence, 16S sequence, Bacteria, spore-forming
description: Paenibacillus xylaniclasticus TW1 is a spore-forming bacterium that was isolated from sludge in an anaerobic digester fed with pineapple waste.
NCBI tax id
- NCBI tax id: 588083
- Matching level: species
strain history
- @ref: 18253
- history: <- NBRC; NBRC 106381
doi: 10.13145/bacdive11665.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Paenibacillaceae
- genus: Paenibacillus
- species: Paenibacillus xylaniclasticus
- full scientific name: Paenibacillus xylaniclasticus Tachaapaikoon et al. 2012
@ref: 18253
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Paenibacillaceae
genus: Paenibacillus
species: Paenibacillus xylaniclasticus
full scientific name: Paenibacillus xylaniclasticus Tachaapaikoon et al. 2012
strain designation: TW1
type strain: yes
Culture and growth conditions
culture medium
- @ref: 18253
- name: GLUCOSE MINERAL SALTS MEDIUM (DSMZ Medium 1458)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1458
- composition: Name: Glucose minerals salts medium (DSMZ Medium 1458) Composition: Agar 15.0 g/l Glucose 5.0 g/l NaNO3 2.0 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 7 H2O 0.02 g/l FeSO4 x 7 H2O 0.02 g/l MnSO4 x 5 H2O 0.02 g/l Distilled water
culture temp
- @ref: 18253
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | yes | 92.104 |
| 69481 | yes | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 18253
- sample type: sludge in an anaerobic digester fed with pineapple waste
- country: Thailand
- origin.country: THA
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Biodegradation | #Anaerobic digestor |
| #Engineered | #Waste | |
| #Environmental | #Terrestrial | #Mud (Sludge) |
| #Condition | #Anoxic (anaerobic) |
Sequence information
16S sequences
- @ref: 18253
- description: Paenibacillus xylaniclasticus strain TW1 16S ribosomal RNA gene, partial sequence
- accession: FJ532373
- length: 1513
- database: nuccore
- NCBI tax ID: 588083
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Paenibacillus xylaniclasticus NBRC 106381 | GCA_004001065 | contig | ncbi | 588083 |
| 66792 | Paenibacillus xylaniclasticus strain NBRC 106381 | 588083.3 | wgs | patric | 588083 |
GC content
- @ref: 18253
- GC-content: 49.5
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 67.237 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.713 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 92.104 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 67.049 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 83.36 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 84.816 | no |
External links
@ref: 18253
culture collection no.: DSM 26531, KCTC 13719, NBRC 106381, TISTR 1914
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22752902 | Paenibacillus xylaniclasticus sp. nov., a xylanolytic-cellulolytic bacterium isolated from sludge in an anaerobic digester. | Tachaapaikoon C, Tanasupawat S, Pason P, Sornyotha S, Waeonukul R, Kyu KL, Ratanakhanokchai K | J Microbiol | 10.1007/s12275-012-1480-3 | 2012 | Aerobiosis, Anaerobiosis, Ananas/metabolism, Base Composition, Cellulose/*metabolism, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/*isolation & purification/metabolism, Peptidoglycan/chemistry, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Spores, Bacterial/cytology, Temperature, Xylans/*metabolism | Metabolism |
| Phylogeny | 25516431 | Paenibacillus ginsengiterrae sp. nov., a ginsenoside-hydrolyzing bacteria isolated from soil of ginseng field. | Huq MA, Kim YJ, Hoang VA, Siddiqi MZ, Yang DC | Arch Microbiol | 10.1007/s00203-014-1073-0 | 2014 | Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Ginsenosides/*metabolism, Lipids/analysis, Molecular Sequence Data, Oxidoreductases/metabolism, Paenibacillus/chemistry/*classification/genetics/isolation & purification/metabolism, Panax, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Species Specificity | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 18253 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26531) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26531 | |
| 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 | |
| 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) | |
| 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 |