Strain identifier
BacDive ID: 24155
Type strain: 
Species: Methanobacterium paludis
Strain Designation: SWAN1
Strain history: H. Cadillo-Quiroz SWAN1.
NCBI tax ID(s): 868131 (species)
version 8.1 (current version)
General
@ref: 21010
BacDive-ID: 24155
DSM-Number: 25820
keywords: genome sequence, 16S sequence, Archaea, anaerobe, psychrophilic, Gram-negative
description: Methanobacterium paludis SWAN1 is an anaerobe, psychrophilic, Gram-negative archaeon that was isolated from peat soil from a minerotrophic circumneutral peatland.
NCBI tax id
- NCBI tax id: 868131
- Matching level: species
strain history
| @ref | history |
|---|---|
| 21010 | <- H. Cadillo-Quiroz, School of Life Sciences, Arizona State University, USA; SWAN1 <- H. Cadillo-Quiroz, Dept. Microbiology, Cornell Univ., Ithaca, USA {2008} |
| 67770 | H. Cadillo-Quiroz SWAN1. |
doi: 10.13145/bacdive24155.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanobacteria
- order: Methanobacteriales
- family: Methanobacteriaceae
- genus: Methanobacterium
- species: Methanobacterium paludis
- full scientific name: Methanobacterium paludis Cadillo-Quiroz et al. 2014
@ref: 21010
domain: Archaea
phylum: Euryarchaeota
class: Methanobacteria
order: Methanobacteriales
family: Methanobacteriaceae
genus: Methanobacterium
species: Methanobacterium paludis
full scientific name: Methanobacterium paludis Cadillo-Quiroz et al. 2014
strain designation: SWAN1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.813
colony morphology
- @ref: 21010
- incubation period: >14 days
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 24
- range: psychrophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 21010 | anaerobe | |
| 69480 | anaerobe | 99.699 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.508 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 21010 | peat soil from a minerotrophic circumneutral peatland | New York, Ithaca; Michigan Hollow fen near Danby | USA | USA | North America | 42.3167 | -76.4833 |
| 67770 | Near circumneutral temperate minerotrophic fen | NY | USA | USA | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Environmental | #Terrestrial | #Wetland (Swamp) |
taxonmaps
- @ref: 69479
- File name: preview.99_187264.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17808;96_68803;97_89445;98_121831;99_187264&stattab=map
- Last taxonomy: Methanobacterium paludis subclade
- 16S sequence: CP002772
- Sequence Identity:
- Total samples: 1770
- soil counts: 279
- aquatic counts: 1208
- animal counts: 93
- plant counts: 190
Safety information
risk assessment
- @ref: 21010
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 67770
- description: Methanobacterium paludis strain SWAN1, complete genome
- accession: CP002772
- length: 2546541
- database: ena
- NCBI tax ID: 868131
Genome sequences
- @ref: 66792
- description: Methanobacterium paludis SWAN1
- accession: GCA_000214725
- assembly level: complete
- database: ncbi
- NCBI tax ID: 868131
GC content
| @ref | GC-content | method |
|---|---|---|
| 21010 | 35.7 | sequence analysis |
| 67770 | 35.7 | genome sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 89.513 | no |
| flagellated | no | 96.629 | no |
| gram-positive | no | 97.038 | no |
| anaerobic | yes | 96.855 | yes |
| aerobic | no | 93.012 | no |
| halophile | no | 88.12 | no |
| spore-forming | no | 96.266 | no |
| thermophile | no | 90.303 | yes |
| glucose-util | yes | 65.261 | no |
| glucose-ferment | no | 63.102 | no |
External links
@ref: 21010
culture collection no.: DSM 25820, JCM 18151
straininfo link
- @ref: 88113
- straininfo: 404826
literature
- topic: Phylogeny
- Pubmed-ID: 24449792
- title: Methanobacterium paludis sp. nov. and a novel strain of Methanobacterium lacus isolated from northern peatlands.
- authors: Cadillo-Quiroz H, Brauer SL, Goodson N, Yavitt JB, Zinder SH
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.059964-0
- year: 2014
- mesh: Alaska, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Ecosystem, Methanobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, New York, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
- topic2: Genetics
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 | |
| 21010 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25820 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25820) | |
| 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 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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/ | |
| 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 | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 88113 | 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-ID404826.1 |