Strain identifier
BacDive ID: 7108
Type strain: 
Species: Methanosarcina sp.
Strain Designation: WH1
Strain history: <- P.E. Rouviere and R.S. Wolfe, WH1
NCBI tax ID(s): 2213 (species)
version 8.1 (current version)
General
@ref: 1670
BacDive-ID: 7108
DSM-Number: 4659
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic
description: Methanosarcina sp. WH1 is an anaerobe, mesophilic archaeon that was isolated from anaerobic sands.
NCBI tax id
- NCBI tax id: 2213
- Matching level: species
strain history
- @ref: 1670
- history: <- P.E. Rouviere and R.S. Wolfe, WH1
doi: 10.13145/bacdive7108.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanomicrobia
- order: Methanosarcinales
- family: Methanosarcinaceae
- genus: Methanosarcina
- species: Methanosarcina sp.
- full scientific name: Methanosarcina Kluyver and van Niel 1936 (Approved Lists 1980)
@ref: 1670
domain: Archaea
phylum: Euryarchaeota
class: Methanomicrobia
order: Methanosarcinales
family: Methanosarcinaceae
genus: Methanosarcina
species: Methanosarcina sp.
full scientific name: Methanosarcina sp.
strain designation: WH1
type strain: no
Culture and growth conditions
culture medium
- @ref: 1670
- name: METHANOCOCCOIDES MEDIUM (DSMZ Medium 141c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/141c
- composition: Name: METHANOCOCCOIDES MEDIUM (DSMZ Medium 141c; with strain-specific modifications) Composition: NaHCO3 4.89237 g/l MgCl2 x 6 H2O 3.91389 g/l Methanol 3.87476 g/l Yeast extract 1.95695 g/l Trypticase peptone 1.95695 g/l Na-acetate 0.978474 g/l Na2S x 9 H2O 0.489237 g/l L-Cysteine HCl x H2O 0.489237 g/l KCl 0.332681 g/l NH4Cl 0.244618 g/l K2HPO4 0.136986 g/l MgSO4 x 7 H2O 0.0293542 g/l Nitrilotriacetic acid 0.0146771 g/l NaCl 0.00978474 g/l MnSO4 x H2O 0.00489237 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.00195695 g/l CoSO4 x 7 H2O 0.00176125 g/l ZnSO4 x 7 H2O 0.00176125 g/l CaCl2 x 2 H2O 0.000978474 g/l FeSO4 x 7 H2O 0.000978474 g/l Sodium resazurin 0.000489237 g/l NiCl2 x 6 H2O 0.000293542 g/l AlK(SO4)2 x 12 H2O 0.000195695 g/l CuSO4 x 5 H2O 9.78474e-05 g/l Pyridoxine hydrochloride 9.78474e-05 g/l Na2MoO4 x 2 H2O 9.78474e-05 g/l H3BO3 9.78474e-05 g/l (DL)-alpha-Lipoic acid 4.89237e-05 g/l Thiamine HCl 4.89237e-05 g/l Riboflavin 4.89237e-05 g/l Nicotinic acid 4.89237e-05 g/l Calcium D-(+)-pantothenate 4.89237e-05 g/l p-Aminobenzoic acid 4.89237e-05 g/l Biotin 1.95695e-05 g/l Folic acid 1.95695e-05 g/l Na2WO4 x 2 H2O 3.91389e-06 g/l Na2SeO3 x 5 H2O 2.93542e-06 g/l Vitamin B12 9.78474e-07 g/l Distilled water
culture temp
- @ref: 1670
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 1670
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 1670
- sample type: anaerobic sands
- geographic location: Madison, Sippewisset Marsh
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Sandy |
| #Condition | #Anoxic (anaerobic) |
Sequence information
16S sequences
- @ref: 20218
- description: Methanosarcina sp. 16S ribosomal RNA gene, partial sequence
- accession: M59136
- length: 1425
- database: ena
- NCBI tax ID: 2213
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanosarcina sp. WH1 | GCA_000970005 | complete | ncbi | 1434102 |
| 66792 | Methanosarcina sp. WH1 | 2627853658 | complete | img | 1434102 |
| 66792 | Methanosarcina sp. WH1 | 1434102.4 | complete | patric | 1434102 |
GC content
- @ref: 1670
- GC-content: 43.0
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 90.715 | no |
| flagellated | no | 97.152 | no |
| gram-positive | no | 96.063 | no |
| anaerobic | yes | 98.116 | yes |
| aerobic | no | 96.04 | yes |
| halophile | no | 85.963 | no |
| spore-forming | no | 96.04 | no |
| thermophile | no | 96.594 | yes |
| glucose-util | yes | 69.382 | no |
| glucose-ferment | no | 61.822 | no |
External links
@ref: 1670
culture collection no.: DSM 4659
straininfo link
- @ref: 76563
- straininfo: 47862
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1670 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4659) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-4659 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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) | |||
| 76563 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47862.1 | StrainInfo: A central database for resolving microbial strain identifiers |