Strain identifier
BacDive ID: 17878
Type strain: 
Species: Rhizomicrobium electricum
Strain history: Y. Kodama Mfc52.
NCBI tax ID(s): 480070 (species)
version 9.1 (current version)
General
@ref: 15519
BacDive-ID: 17878
DSM-Number: 21034
keywords: genome sequence, 16S sequence, Bacteria, obligate anaerobe, Gram-negative
description: Rhizomicrobium electricum DSM 21034 is an obligate anaerobe, Gram-negative bacterium that was isolated from biofilm attached to anode graphite of a cellulose-fed microbial fuel cell.
NCBI tax id
- NCBI tax id: 480070
- Matching level: species
strain history
| @ref | history |
|---|---|
| 15519 | <- Y. Kodama, MBIC; MfC52 <- Y. Kodama |
| 67770 | Y. Kodama Mfc52. |
doi: 10.13145/bacdive17878.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Micropepsales
- family: Micropepsaceae
- genus: Rhizomicrobium
- species: Rhizomicrobium electricum
- full scientific name: Rhizomicrobium electricum Kodama and Watanabe 2011
@ref: 15519
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Micropepsaceae
genus: Rhizomicrobium
species: Rhizomicrobium electricum
full scientific name: Rhizomicrobium electricum Kodama and Watanabe 2011
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 96.042
Culture and growth conditions
culture medium
- @ref: 15519
- name: 1/10 PYGV MEDIUM MODIFIED (DSMZ Medium 1398)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1398
- composition: Name: 1/10 PYGV MEDIUM modified (DSMZ Medium 1398) Composition: Trypticase 1.0 g/l Glucose 1.0 g/l (NH4)2SO4 0.9 g/l NaCl 0.9 g/l K2HPO4 0.45 g/l KH2PO4 0.45 g/l MgSO4 x 7 H2O 0.09 g/l CaCl2 x 2 H2O 0.09 g/l Pyridoxine 0.015 g/l Folic acid 0.005 g/l Riboflavin 0.005 g/l Thiamine-HCl x 2 H2O 0.005 g/l p-Aminobenzoic acid 0.003 g/l Biotin 0.001 g/l Cobalamine 0.001 g/l Resazurin 0.0005 g/l Yeast extract 0.0005 g/l L-Cysteine HCl 0.0003 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 15519 | positive | growth | 30 |
| 67770 | positive | growth | 30 |
Physiology and metabolism
oxygen tolerance
- @ref: 15519
- oxygen tolerance: obligate anaerobe
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
observation
- @ref: 67770
- observation: quinones: Q-10
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 15519 | biofilm attached to anode graphite of a cellulose-fed microbial fuel cell | Iwate, Kamaishi City | Japan | JPN | Asia |
| 67770 | Biofilm attached to anode graphite of a cellulose-fed microbial fuel cell |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Engineered product |
| #Environmental | #Biofilm |
Safety information
risk assessment
- @ref: 15519
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15519
- description: Rhizomicrobium electricum gene for 16S rRNA, partial sequence
- accession: AB365487
- length: 1423
- database: nuccore
- NCBI tax ID: 480070
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhizomicrobium electricum strain DSM 21034 | 480070.3 | wgs | patric | 480070 |
| 66792 | Rhizomicrobium electricum DSM 21034 | 2828326373 | draft | img | 480070 |
| 67770 | Rhizomicrobium electricum DSM 21034 | GCA_011762045 | scaffold | ncbi | 480070 |
GC content
- @ref: 15519
- GC-content: 64.7
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 96.042 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 60.673 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 85.958 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 54.843 | yes |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 91.654 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 65.723 | no |
External links
@ref: 15519
culture collection no.: DSM 21034, JCM 15089, KCTC 5806, MFC MfC52, MFC 52
straininfo link
- @ref: 86867
- straininfo: 403142
literature
- topic: Phylogeny
- Pubmed-ID: 20802060
- title: Rhizomicrobium electricum sp. nov., a facultatively anaerobic, fermentative, prosthecate bacterium isolated from a cellulose-fed microbial fuel cell.
- authors: Kodama Y, Watanabe K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.023580-0
- year: 2010
- mesh: Alphaproteobacteria/*classification/genetics/*isolation & purification/metabolism, Bacteria, Anaerobic/*classification/genetics/*isolation & purification/metabolism, Base Composition, Bioelectric Energy Sources/*microbiology, Cellulose/*metabolism, DNA, Bacterial/metabolism, DNA, Ribosomal/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 15519 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21034) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21034 | |
| 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) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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 | |
| 86867 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID403142.1 | StrainInfo: A central database for resolving microbial strain identifiers |