Strain identifier
BacDive ID: 132183
Type strain: 
Species: Undibacterium squillarum
Strain Designation: CMJ-15
Strain history: <- KCTC <- S.-Y. Sheu, Department of Marine Biotechnology, National Kaohsiung Marine University, Taiwan, and others
NCBI tax ID(s): 1131567 (species)
version 8.1 (current version)
General
@ref: 23972
BacDive-ID: 132183
DSM-Number: 103672
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Undibacterium squillarum CMJ-15 is a mesophilic, motile bacterium that was isolated from freshwater shrimp culture pond, pH 8.5.
NCBI tax id
- NCBI tax id: 1131567
- Matching level: species
strain history
- @ref: 23972
- history: <- KCTC <- S.-Y. Sheu, Department of Marine Biotechnology, National Kaohsiung Marine University, Taiwan, and others
doi: 10.13145/bacdive132183.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Oxalobacteraceae
- genus: Undibacterium
- species: Undibacterium squillarum
- full scientific name: Undibacterium squillarum Sheu et al. 2014
@ref: 23972
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Oxalobacteraceae
genus: Undibacterium
species: Undibacterium squillarum
full scientific name: Undibacterium squillarum Sheu et al. 2014
strain designation: CMJ-15
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.222 | |
| 69480 | 99.999 | negative |
Culture and growth conditions
culture medium
- @ref: 23972
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: 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
culture temp
- @ref: 23972
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.999 |
Isolation, sampling and environmental information
isolation
- @ref: 23972
- sample type: freshwater shrimp culture pond, pH 8.5
- geographic location: Pingtung countryside
- country: Taiwan
- origin.country: TWN
- continent: Asia
- latitude: 22.5781
- longitude: 120.604
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Aquaculture |
| #Environmental | #Aquatic | #Freshwater |
| #Environmental | #Aquatic | #Pond (small) |
| #Host | #Arthropoda | #Crustacea |
Safety information
risk assessment
- @ref: 23972
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 23972
- description: Undibacterium squillarum partial 16S rRNA gene, type strain CMJ-15T
- accession: HE648174
- length: 1525
- database: ena
- NCBI tax ID: 1131567
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Undibacterium squillarum KCTC 23917 | GCA_014652435 | contig | ncbi | 1131567 |
| 66792 | Undibacterium squillarum strain KCTC 23917 | 1131567.3 | wgs | patric | 1131567 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 86.72 | no |
| flagellated | yes | 80.766 | no |
| gram-positive | no | 98.587 | no |
| anaerobic | no | 98.765 | no |
| aerobic | yes | 80.754 | no |
| halophile | no | 98.169 | no |
| spore-forming | no | 91.884 | no |
| glucose-util | yes | 72.635 | no |
| thermophile | no | 98.8 | yes |
| glucose-ferment | no | 89.666 | no |
External links
@ref: 23972
culture collection no.: DSM 103672, BCRC 80404, KCTC 23917, LMG 26892
straininfo link
- @ref: 90538
- straininfo: 379389
literature
- topic: Phylogeny
- Pubmed-ID: 25033822
- title: Undibacterium squillarum sp. nov., isolated from a freshwater shrimp culture pond.
- authors: Sheu SY, Lin YS, Chen JC, Kwon SW, Chen WM
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.065185-0
- year: 2014
- mesh: Animals, Aquaculture, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Decapoda, Fatty Acids/chemistry, Molecular Sequence Data, Oxalobacteraceae/*classification/genetics/isolation & purification, *Phylogeny, Pigmentation, Ponds/*microbiology, Putrescine/analogs & derivatives/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 23972 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103672 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103672) | |
| 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 | |
| 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 | |
| 90538 | 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-ID379389.1 |