Strain identifier
BacDive ID: 157972
Type strain: 
Species: Acetivibrio mesophilus
Strain Designation: N2K1
Strain history: <- R. Rettenmaier, TU Munich, Chair of Microbiology, Freising-Weihenstephan, Germany; N2K1 <- R. Rettenmaier; {2018}
NCBI tax ID(s): 2487273 (species)
version 9.3 (current version)
General
@ref: 64545
BacDive-ID: 157972
DSM-Number: 107956
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive, rod-shaped
description: Acetivibrio mesophilus N2K1 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from lab scale biogas plant fed with maize silage.
NCBI tax id
- NCBI tax id: 2487273
- Matching level: species
strain history
- @ref: 64545
- history: <- R. Rettenmaier, TU Munich, Chair of Microbiology, Freising-Weihenstephan, Germany; N2K1 <- R. Rettenmaier; {2018}
doi: 10.13145/bacdive157972.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Oscillospiraceae
- genus: Acetivibrio
- species: Acetivibrio mesophilus
- full scientific name: Acetivibrio mesophilus (Rettenmaier et al. 2019) Tindall 2019
synonyms
- @ref: 20215
- synonym: Hungateiclostridium mesophilum
@ref: 64545
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Oscillospiraceae
genus: Acetivibrio
species: Acetivibrio mesophilus
full scientific name: Acetivibrio mesophilus (Rettenmaier et al. 2019) Tindall 2019
strain designation: N2K1
type strain: yes
Morphology
cell morphology
- @ref: 68222
- gram stain: positive
- cell length: 0.66-1.33
- cell shape: rod-shaped
- motility: no
Culture and growth conditions
culture medium
- @ref: 64545
- name: ACETIVIBRIO MEDIUM (DSMZ Medium 122)
- growth: yes
- link: https://mediadive.dsmz.de/medium/122
- composition: Name: ACETIVIBRIO MEDIUM (DSMZ Medium 122) Composition: Cellulose 10.0 g/l (optional) Na2-ß-glycerophosphate x 5 H2O 6.0 g/l K2HPO4 5.5 g/l Cellobiose 5.0 g/l Yeast extract 4.5 g/l MgCl2 x 6 H2O 2.6 g/l KH2PO4 1.43 g/l (NH4)2SO4 1.3 g/l L-Glutathione 0.25 g/l CaCl2 x 2 H2O 0.13 g/l FeSO4 x 7 H2O 0.0011 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 64545 | positive | growth | 45 |
| 68222 | positive | optimum | 45 |
| 68222 | positive | growth | 30-50 |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 68222 | positive | optimum | 7.5 |
| 68222 | positive | growth | 6-8 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 68222 | anaerobe | |
| 125438 | anaerobe | 95.206 |
| 125439 | anaerobe | 98.9 |
spore formation
- @ref: 68222
- type of spore: endospore
- spore formation: yes
halophily
- @ref: 68222
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 1.8 %(w/v)
observation
| @ref | observation |
|---|---|
| 68222 | can adhere directly to cellulose fibre |
| 68222 | occur single or in pairs |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68222 | 62968 | cellulose | + | growth |
| 68222 | 17057 | cellobiose | + | growth |
| 68222 | 22599 | arabinose | - | growth |
| 68222 | 28757 | fructose | - | growth |
| 68222 | 17234 | glucose | - | growth |
| 68222 | 17716 | lactose | - | growth |
| 68222 | 29864 | mannitol | - | growth |
| 68222 | 37684 | mannose | - | growth |
| 68222 | 33942 | ribose | - | growth |
| 68222 | 28017 | starch | - | growth |
| 68222 | 17992 | sucrose | - | growth |
| 68222 | 27082 | trehalose | - | growth |
| 68222 | 37166 | xylan | - | growth |
| 68222 | 18222 | xylose | - | growth |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | enrichment culture | enrichment culture temperature |
|---|---|---|---|---|---|---|---|---|---|
| 64545 | lab scale biogas plant fed with maize silage | Freising | Germany | DEU | Europe | ||||
| 68222 | lab-scale biogas fermenter | Freising | Germany | DEU | Europe | 48.358 | 11.7175 | GR20 | 37 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Engineered | #Industrial | #Plant (Factory) |
| #Engineered | #Bioreactor | |
| #Engineered | #Laboratory |
taxonmaps
- @ref: 69479
- File name: preview.99_6275.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_196;96_2987;97_3672;98_4648;99_6275&stattab=map
- Last taxonomy: Acetivibrio
- 16S sequence: MK138666
- Sequence Identity:
- Total samples: 831
- soil counts: 255
- aquatic counts: 246
- animal counts: 227
- plant counts: 103
Sequence information
16S sequences
- @ref: 64545
- description: Acetivibrio mesophilus strain N2K1 16S ribosomal RNA gene, partial sequence
- accession: MK138666
- length: 1412
- database: nuccore
- NCBI tax ID: 2487273
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Hungateiclostridium sp. N2K1 | 2487273.3 | wgs | patric | 2487273 |
| 66792 | Acetivibrio mesophilus N2K1 | 2880951795 | draft | img | 2487273 |
| 68222 | Acetivibrio mesophilus N2K1 | GCA_004102745 | contig | ncbi | 2487273 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 64545 | 38.36 | sequence analysis |
| 68222 | 38.36 | genome sequence analysis |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 59.899 | yes |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 95.206 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 83.608 | yes |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 96.017 | yes |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 52.57 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 80.781 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 85 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 84.7 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | variable | 86.2 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | anaerobe | 98.9 |
External links
@ref: 64545
culture collection no.: DSM 107956, CECT 9704
straininfo link
- @ref: 110821
- straininfo: 402063
literature
- topic: Phylogeny
- Pubmed-ID: 31429816
- title: Hungateiclostridium mesophilum sp. nov., a mesophilic, cellulolytic and spore-forming bacterium isolated from a biogas fermenter fed with maize silage.
- authors: Rettenmaier R, Gerbaulet M, Liebl W, Zverlov VV
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003663
- year: 2019
- mesh: Bacterial Typing Techniques, Base Composition, *Biofuels, Bioreactors/*microbiology, Cellulose/metabolism, Clostridiales/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Germany, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Silage/*microbiology, *Zea mays
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url | catalogue | journal |
|---|---|---|---|---|---|
| 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 | ||
| 64545 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-107956 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 107956) | ||
| 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 | ||
| 68222 | Regina Rettenmaier, Martin Gerbaulet, Wolfgang Liebl and Vladimir V. Zverlov | Hungateiclostridium mesophilum sp. nov., a mesophilic, cellulolytic and spore-forming bacterium isolated from a biogas fermenter fed with maize silage | 10.1099/ijsem.0.003663 | IJSEM 69: 3567-3573 2019 | |
| 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/ | ||
| 110821 | 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-ID402063.1 | ||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | ||
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |