Strain identifier
BacDive ID: 11659
Type strain: 
Species: Paenibacillus sacheonensis
Strain Designation: SY01
Strain history: CIP <- 2013, DSMZ <- S.Y. Lee, Gyeongsang Natl. Univ., Jinju, Korea <- J.C. Moon, Sacheon Bay, South Korea: strain SY01
NCBI tax ID(s): 742054 (species)
version 8.1 (current version)
General
@ref: 16677
BacDive-ID: 11659
DSM-Number: 23054
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, motile
description: Paenibacillus sacheonensis SY01 is a spore-forming, mesophilic, motile bacterium that was isolated from tidal flat sediment.
NCBI tax id
- NCBI tax id: 742054
- Matching level: species
strain history
| @ref | history |
|---|---|
| 16677 | <- S. Y. Lee, Gyeongsang Natl. Univ. (GNU), Jinju, Korea; SY01 <- J. C. Moon |
| 122343 | CIP <- 2013, DSMZ <- S.Y. Lee, Gyeongsang Natl. Univ., Jinju, Korea <- J.C. Moon, Sacheon Bay, South Korea: strain SY01 |
doi: 10.13145/bacdive11659.20230509.8.1
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 sacheonensis
- full scientific name: Paenibacillus sacheonensis Moon et al. 2011
@ref: 16677
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Paenibacillaceae
genus: Paenibacillus
species: Paenibacillus sacheonensis
full scientific name: Paenibacillus sacheonensis Moon et al. 2011
strain designation: SY01
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain | cell shape |
|---|---|---|---|---|
| 69480 | yes | 98.536 | ||
| 69480 | 100 | positive | ||
| 122343 | rod-shaped |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 16677 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water |
| 33585 | MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati | yes | Distilled water make up to (1000.000 ml);R2A agar (18.200 g) | |
| 122343 | CIP Medium 566 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566 |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 16677 | positive | growth | 28 | mesophilic |
| 33585 | positive | growth | 30 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 16677 | tidal flat sediment | Sacheon Bay | Republic of Korea | KOR | Asia |
| 122343 | Environment, Tidal flat sediment | Sacheon Bay | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Tidal flat |
| #Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_31707.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_11793;97_14280;98_23546;99_31707&stattab=map
- Last taxonomy: Paenibacillus sacheonensis
- 16S sequence: GU124597
- Sequence Identity:
- Total samples: 10
- soil counts: 8
- plant counts: 2
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 16677 | 1 | Risk group (German classification) |
| 122343 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 16677
- description: Paenibacillus sacheonensis strain SY01 16S ribosomal RNA gene, partial sequence
- accession: GU124597
- length: 1405
- database: ena
- NCBI tax ID: 742054
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Paenibacillus sacheonensis DSM 23054 | GCA_016908255 | contig | ncbi | 742054 |
| 66792 | Paenibacillus sacheonensis DSM 23054 | GCA_009909195 | contig | ncbi | 742054 |
| 66792 | Paenibacillus sacheonensis strain DSM 23054 | 742054.3 | wgs | patric | 742054 |
| 66792 | Paenibacillus sacheonensis strain DSM 23054 | 742054.6 | wgs | patric | 742054 |
| 66792 | Paenibacillus sacheonensis DSM 23054 | 2901100504 | draft | img | 742054 |
GC content
- @ref: 16677
- GC-content: 56.1
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | yes | 81.205 | no |
| flagellated | yes | 77.954 | no |
| gram-positive | yes | 85.72 | no |
| anaerobic | no | 99.102 | no |
| aerobic | yes | 94.722 | no |
| halophile | no | 96.598 | no |
| spore-forming | yes | 92.964 | no |
| glucose-util | yes | 87.364 | no |
| thermophile | no | 99.588 | yes |
| glucose-ferment | no | 93.723 | no |
External links
@ref: 16677
culture collection no.: DSM 23054, CIP 110612, KACC 14895
straininfo link
- @ref: 80883
- straininfo: 405598
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21216922 | Paenibacillus sacheonensis sp. nov., a xylanolytic and cellulolytic bacterium isolated from tidal flat sediment. | Moon JC, Jung YJ, Jung JH, Jung HS, Cheong YR, Jeon CO, Lee KO, Lee SY | Int J Syst Evol Microbiol | 10.1099/ijs.0.029066-0 | 2011 | Base Composition, Cellulose/*metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Paenibacillus/*classification/genetics/*isolation & purification/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Xylans/*metabolism | Metabolism |
| Phylogeny | 23625256 | Paenibacillus taihuensis sp. nov., isolated from an eutrophic lake. | Wu YF, Wu QL, Liu SJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.050419-0 | 2013 | Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, *Eutrophication, Fatty Acids/analysis, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, Water Microbiology | Genetics |
| Phylogeny | 26294902 | Paenibacillus panaciterrae sp. nov., isolated from ginseng-cultivated soil. | Nguyen NL, Kim YJ, Hoang VA, Kang JP, Singh P, Yang DC | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000540 | 2015 | Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/isolation & purification, Panax/*microbiology, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vietnam, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 33666748 | Paenibacillus glycinis sp. nov., an Endophytic Bacterium Isolated from the Nodules of Soybean (Glycine max (L.) Merr). | Wang H, Hu D, Wang Z, Yang C, Zhu S, Gu C, Wang ET | Curr Microbiol | 10.1007/s00284-021-02403-1 | 2021 | Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/analysis, *Paenibacillus/genetics, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soybeans | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 16677 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23054) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23054 | |
| 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 | |
| 33585 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/30414 | ||
| 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 | |
| 80883 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID405598.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 122343 | Curators of the CIP | Collection of Institut Pasteur (CIP 110612) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110612 |