Strain identifier
BacDive ID: 169769
Type strain: 
Species: Variimorphobacter saccharofermentans
Strain Designation: MD1
Strain history: <- R. Rettenmaier, TU Munich, Freising-Weihenstephan, Germany; MD1 <- R. Rettenmaier {2019}
NCBI tax ID(s): 2755051 (species)
version 9.1 (current version)
General
@ref: 69189
BacDive-ID: 169769
DSM-Number: 110715
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming
description: Variimorphobacter saccharofermentans MD1 is an anaerobe, spore-forming bacterium that was isolated from silage of 80% maize and 20% gras.
NCBI tax id
- NCBI tax id: 2755051
- Matching level: species
strain history
- @ref: 69189
- history: <- R. Rettenmaier, TU Munich, Freising-Weihenstephan, Germany; MD1 <- R. Rettenmaier {2019}
doi: 10.13145/bacdive169769.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Lachnospiraceae
- genus: Variimorphobacter
- species: Variimorphobacter saccharofermentans
- full scientific name: Variimorphobacter saccharofermentans Rettenmaier et al. 2021
@ref: 69189
domain: Bacteria
phylum: Bacillota
class: Clostridia
order: Eubacteriales
family: Lachnospiraceae
genus: Variimorphobacter
species: Variimorphobacter saccharofermentans
full scientific name: Variimorphobacter saccharofermentans
strain designation: MD1
type strain: yes
Culture and growth conditions
culture medium
- @ref: 69189
- name: CLOSTRIDIUM (GS) MEDIUM (DSMZ Medium 255)
- growth: yes
- link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium255.pdf
culture temp
- @ref: 69189
- growth: positive
- type: growth
- temperature: 40
Isolation, sampling and environmental information
isolation
- @ref: 69189
- sample type: silage of 80% maize and 20% gras
- geographic location: Freising, Eggertshofen, Biogas Plant
- country: Germany
- origin.country: DEU
- continent: Europe
- latitude: 48.358
- longitude: 11.7175
Sequence information
16S sequences
- @ref: 69189
- description: Variimorphobacter saccharofermentans strain MD1 16S ribosomal RNA gene, partial sequence
- accession: MW180938
- length: 1451
- database: nuccore
- NCBI tax ID: 2755051
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Variimorphobacter saccharofermentans MD1 | GCA_014174405 | contig | ncbi | 2755051 |
| 66792 | Lachnospiraceae bacterium MD1 | 2755051.3 | wgs | patric | 2755051 |
GC content
- @ref: 69189
- GC-content: 38.5
- method: sequence analysis
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 64.924 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 87.947 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 60.135 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 94.374 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 80.176 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 79.454 | no |
External links
@ref: 69189
culture collection no.: DSM 110715, JCM 39125
straininfo link
- @ref: 115910
- straininfo: 404574
literature
- topic: Phylogeny
- Pubmed-ID: 34731077
- title: Variimorphobacter saccharofermentans gen. nov., sp. nov., a new member of the family Lachnospiraceae, isolated from a maize-fed biogas fermenter.
- authors: Rettenmaier R, Thieme N, Streubel J, Di Bello L, Kowollik ML, Huang L, Maus I, Klingl A, Liebl W, Zverlov VV
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.005044
- year: 2021
- mesh: Bacterial Typing Techniques, Base Composition, *Biofuels/microbiology, Clostridiales/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Silage/*microbiology, *Zea mays/microbiology
- topic2: 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 | |
| 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 | |
| 69189 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-110715 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 110715) | |
| 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 | |
| 115910 | 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-ID404574.1 |