Strain identifier
BacDive ID: 130506
Type strain: 
Species: Undibacterium macrobrachii
Strain Designation: CMJ-9
Strain history: <- KCTC <- S.-Y. Sheu et al., National Kaohsiung Marine University
NCBI tax ID(s): 1119058 (species)
version 8.1 (current version)
General
@ref: 22054
BacDive-ID: 130506
DSM-Number: 29770
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Undibacterium macrobrachii CMJ-9 is a mesophilic, motile bacterium that was isolated from freshwater shrimp culture pond.
NCBI tax id
- NCBI tax id: 1119058
- Matching level: species
strain history
- @ref: 22054
- history: <- KCTC <- S.-Y. Sheu et al., National Kaohsiung Marine University
doi: 10.13145/bacdive130506.20230509.8.1
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 macrobrachii
- full scientific name: Undibacterium macrobrachii Sheu et al. 2014
@ref: 22054
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Oxalobacteraceae
genus: Undibacterium
species: Undibacterium macrobrachii
full scientific name: Undibacterium macrobrachii Sheu et al. 2014
strain designation: CMJ-9
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 97.245 | |
| 69480 | 99.995 | negative |
multimedia
- @ref: 22054
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_29770.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 22054
- 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: 22054
- growth: positive
- type: growth
- temperature: 28
- 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: 22054
- sample type: freshwater shrimp culture pond
- 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 |
taxonmaps
- @ref: 69479
- File name: preview.99_51005.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_6220;97_28738;98_36633;99_51005&stattab=map
- Last taxonomy: Undibacterium macrobrachii
- 16S sequence: JQ029110
- Sequence Identity:
- Total samples: 4770
- soil counts: 206
- aquatic counts: 3959
- animal counts: 449
- plant counts: 156
Safety information
risk assessment
- @ref: 22054
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22054
- description: Undibacterium macrobrachii strain CMJ-9 16S ribosomal RNA gene, partial sequence
- accession: JQ029110
- length: 1422
- database: ena
- NCBI tax ID: 1119058
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Undibacterium macrobrachii KCTC 23916 | GCA_014652415 | contig | ncbi | 1119058 |
| 66792 | Undibacterium macrobrachii strain KCTC 23916 | 1119058.3 | wgs | patric | 1119058 |
GC content
- @ref: 22054
- GC-content: 47.7
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 82.647 | no |
| flagellated | yes | 71.637 | no |
| gram-positive | no | 98.871 | no |
| anaerobic | no | 98.475 | no |
| aerobic | yes | 85.738 | no |
| halophile | no | 96.989 | no |
| spore-forming | no | 94.053 | no |
| thermophile | no | 98.121 | yes |
| glucose-util | yes | 65.911 | no |
| glucose-ferment | no | 89.729 | no |
External links
@ref: 22054
culture collection no.: DSM 29770, BCRC 80406, KCTC 23916, LMG 26891
straininfo link
- @ref: 89029
- straininfo: 379388
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24363293 | Undibacterium macrobrachii sp. nov., isolated from a freshwater shrimp culture pond. | Sheu SY, Lin YS, Chen JC, Chen WM | Int J Syst Evol Microbiol | 10.1099/ijs.0.057661-0 | 2013 | Animals, Aquaculture, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Decapoda, Fatty Acids/chemistry, Hydroxybutyrates/chemistry, Molecular Sequence Data, Oxalobacteraceae/*classification/genetics/isolation & purification, *Phylogeny, Polyamines/chemistry, Polyesters/chemistry, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, Ubiquinone/chemistry | Genetics |
| Phylogeny | 29058644 | Undibacterium amnicola sp. nov., isolated from a freshwater stream. | Chen WM, Hsieh TY, Young CC, Sheu SY | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002422 | 2017 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, *Phylogeny, Pigmentation, Putrescine/analogs & derivatives/chemistry, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Taiwan, Ubiquinone/chemistry | Transcriptome |
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 | |
| 22054 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29770 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29770) | |
| 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 | |
| 89029 | 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-ID379388.1 |