Strain identifier
BacDive ID: 132391
Type strain: 
Species: Desulforamulus reducens
Strain Designation: MI-1
Strain history: <- R. Bernier-Latmani, Ecole Polytechnique Fédérale de Lausanne, Switzerland; MI-1 <- A. Y. Obraztsova {1997}
NCBI tax ID(s): 59610 (species)
version 8.1 (current version)
General
@ref: 24180
BacDive-ID: 132391
DSM-Number: 100696
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, motile, rod-shaped
description: Desulforamulus reducens MI-1 is a spore-forming, mesophilic, motile bacterium that was isolated from heavy metal contaminated estuarine sediment from a shipyard.
NCBI tax id
- NCBI tax id: 59610
- Matching level: species
strain history
- @ref: 24180
- history: <- R. Bernier-Latmani, Ecole Polytechnique Fédérale de Lausanne, Switzerland; MI-1 <- A. Y. Obraztsova {1997}
doi: 10.13145/bacdive132391.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Peptococcaceae
- genus: Desulforamulus
- species: Desulforamulus reducens
- full scientific name: Desulforamulus reducens (Visser et al. 2016) Watanabe et al. 2021
synonyms
- @ref: 20215
- synonym: Desulfotomaculum reducens
@ref: 24180
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Peptococcaceae
genus: Desulfotomaculum
species: Desulfotomaculum reducens
full scientific name: Desulfotomaculum reducens Visser et al. 2016
strain designation: MI-1
type strain: yes
Morphology
cell morphology
- @ref: 43783
- cell length: 5-10 µm
- cell width: 0.8-1 µm
- cell shape: rod-shaped
- motility: yes
Culture and growth conditions
culture medium
- @ref: 24180
- name: DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63)
- growth: yes
- link: https://mediadive.dsmz.de/medium/63
- composition: Name: DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63) Composition: MgSO4 x 7 H2O 2.0 g/l Na-DL-lactate 2.0 g/l NH4Cl 1.0 g/l Yeast extract 1.0 g/l Na2SO4 1.0 g/l FeSO4 x 7 H2O 0.5 g/l K2HPO4 0.5 g/l CaCl2 x 2 H2O 0.1 g/l Na-thioglycolate 0.1 g/l Ascorbic acid 0.1 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 43783 | positive | optimum | 37 | mesophilic |
| 24180 | positive | growth | 37 | mesophilic |
culture pH
- @ref: 43783
- ability: positive
- type: optimum
- pH: 7-7.2
Physiology and metabolism
spore formation
- @ref: 43783
- spore description: Oval, subterminal to terminal spores are formed at the end of the exponential growth phase
- type of spore: spore
- spore formation: yes
halophily
- @ref: 43783
- salt: NaCl
- growth: positive
- tested relation: optimum
- concentration: 0-2 g/L
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 43783 | 30089 | acetate | - | assimilation |
| 43783 | 17245 | carbon monoxide | - | fermentation |
| 43783 | 28757 | fructose | - | fermentation |
| 43783 | 29806 | fumarate | - | fermentation |
| 43783 | 17234 | glucose | - | fermentation |
| 43783 | 24996 | lactate | - | fermentation |
| 43783 | 33403 | elemental sulfur | + | electron acceptor |
| 43783 | 29034 | ferric iron | + | electron acceptor |
| 43783 | 18291 | manganese | + | electron acceptor |
| 43783 | 16189 | sulfate | + | electron acceptor |
| 43783 | 16094 | thiosulfate | + | electron acceptor |
| 43783 | 15361 | pyruvate | + | fermentation |
| 43783 | 28885 | butanol | + | growth |
| 43783 | 17968 | butyrate | + | growth |
| 43783 | 16236 | ethanol | + | growth |
| 43783 | 28757 | fructose | + | growth |
| 43783 | 17234 | glucose | + | growth |
| 43783 | 24996 | lactate | + | growth |
| 43783 | 17790 | methanol | + | growth |
| 43783 | 28831 | propanol | + | growth |
| 43783 | 17272 | propionate | + | growth |
| 43783 | 15361 | pyruvate | + | growth |
| 43783 | 31011 | valerate | + | growth |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 24180 | heavy metal contaminated estuarine sediment from a shipyard | California, Mare Island Naval Shipyard | USA | USA | North America |
| 43783 | Sediments from Mare Island Naval Shipyard located in San Francisco Bay estuary, that were contaminated with high concentrations of Cr(VI) and other heavy metals | San Francisco Bay estuary, California |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Contamination | #Heavy metal |
| #Environmental | #Aquatic | #Estuary |
| #Environmental | #Aquatic | #Sediment |
Safety information
risk assessment
- @ref: 24180
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24180
- description: Desulfotomaculum reducens MI-1 16S ribosomal RNA, partial sequence
- accession: NR_102770
- length: 1544
- database: nuccore
- NCBI tax ID: 349161
Genome sequences
- @ref: 66792
- description: Desulforamulus reducens MI-1
- accession: GCA_000016165
- assembly level: complete
- database: ncbi
- NCBI tax ID: 349161
GC content
| @ref | GC-content | method |
|---|---|---|
| 43783 | 42.3 | genome sequence analysis |
| 24180 | 42.3 | sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 89.811 | yes |
| flagellated | no | 86.226 | no |
| gram-positive | no | 84.77 | no |
| anaerobic | yes | 99.279 | no |
| halophile | no | 93.308 | yes |
| spore-forming | yes | 95.241 | no |
| thermophile | yes | 75.49 | yes |
| glucose-util | yes | 86.46 | yes |
| aerobic | no | 96.301 | no |
| glucose-ferment | no | 84.423 | yes |
External links
@ref: 24180
culture collection no.: DSM 100696, ATCC BAA 1160
straininfo link
- @ref: 90734
- straininfo: 400534
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 24180 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100696 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100696) | |||
| 43783 | Michael Visser, Alfons J. M. Stams, Manon Frutschi, Rizlan Bernier-Latmani | Phylogenetic comparison of Desulfotomaculum species of subgroup 1a and description of Desulfotomaculum reducens sp. nov. | 10.1099/ijsem.0.000786 | IJSEM 66: 762-767 2016 | 26597812 | |
| 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 | |||
| 90734 | 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-ID400534.1 |