Strain identifier
BacDive ID: 2976
Type strain: 
Species: Macromonas bipunctata
Strain Designation: D405
Strain history: <- G. A. Dubinina, Russian Academy of Sciences, Inst. of Microbiology, Moscow, Russia; D405 <- G. A. Dubinina {1982}
NCBI tax ID(s): 183670 (species)
version 8.1 (current version)
General
@ref: 4792
BacDive-ID: 2976
DSM-Number: 12705
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Macromonas bipunctata D405 is a mesophilic, Gram-negative bacterium that was isolated from sediment in a sewage aeration tank.
NCBI tax id
- NCBI tax id: 183670
- Matching level: species
strain history
- @ref: 4792
- history: <- G. A. Dubinina, Russian Academy of Sciences, Inst. of Microbiology, Moscow, Russia; D405 <- G. A. Dubinina {1982}
doi: 10.13145/bacdive2976.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Macromonas
- species: Macromonas bipunctata
- full scientific name: Macromonas bipunctata (ex Gicklhorn 1920) Dubinina and Grabovich 1989
@ref: 4792
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Macromonas
species: Macromonas bipunctata
full scientific name: Macromonas bipunctata (ex Gicklhorn 1920) Dubinina and Grabovich 1989
strain designation: D405
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 4792
- name: MACROMONAS MEDIUM (DSMZ Medium 847)
- growth: yes
- link: https://mediadive.dsmz.de/medium/847
- composition: Name: MACROMONAS MEDIUM (DSMZ Medium 847) Composition: Na2S2O3 x 5 H2O 1.0 g/l Agar 1.0 g/l Disodium succinate 0.5 g/l MgSO4 x 7 H2O 0.3 g/l (NH4)2SO4 0.3 g/l Yeast extract 0.2 g/l CaCl2 x 2 H2O 0.15 g/l Na2-EDTA x 2 H2O 0.0052 g/l FeCl2 x 4 H2O 0.0015 g/l Pyridoxine hydrochloride 0.0003 g/l Thiamine-HCl x 2 H2O 0.0002 g/l Nicotinic acid 0.0002 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l Vitamin B12 0.0001 g/l Calcium pantothenate 0.0001 g/l p-Aminobenzoic acid 8e-05 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l D-(+)-biotin 2e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
- @ref: 4792
- 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: 4792
- sample type: sediment in a sewage aeration tank
- geographic location: Jaroslavl region
- country: Russia
- origin.country: RUS
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Built environment | #Container (Reservoir) |
| #Environmental | #Aquatic | |
| #Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_144075.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_6912;97_8286;98_10175;99_144075&stattab=map
- Last taxonomy: Macromonas bipunctata subclade
- 16S sequence: AB077037
- Sequence Identity:
- Total samples: 387
- soil counts: 7
- aquatic counts: 315
- animal counts: 62
- plant counts: 3
Safety information
risk assessment
- @ref: 4792
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4792
- description: Macromonas bipunctata gene for 16S rRNA, partial sequence
- accession: AB077037
- length: 1461
- database: ena
- NCBI tax ID: 183670
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Macromonas bipunctata DSM 12705 | GCA_002837135 | scaffold | ncbi | 183670 |
| 66792 | Macromonas bipunctata strain DSM 12705 | 183670.3 | wgs | patric | 183670 |
| 66792 | Macromonas bipunctata DSM 12705 | 2831581866 | draft | img | 183670 |
GC content
- @ref: 4792
- GC-content: 67.6
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | yes | 60.436 | no |
| gram-positive | no | 99.121 | no |
| anaerobic | no | 96.81 | no |
| halophile | no | 93.952 | no |
| spore-forming | no | 94.549 | no |
| glucose-util | no | 84.789 | no |
| aerobic | yes | 74.38 | no |
| thermophile | no | 87.458 | no |
| motile | yes | 84.727 | no |
| glucose-ferment | no | 88.788 | no |
External links
@ref: 4792
culture collection no.: DSM 12705, IAM 14880, VKM 1366
straininfo link
- @ref: 72498
- straininfo: 49344
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 4792 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12705) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12705 | |
| 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) | |
| 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 | |
| 72498 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49344.1 | StrainInfo: A central database for resolving microbial strain identifiers |