Strain identifier
BacDive ID: 7110
Type strain: 
Species: Methanosarcina sp.
Strain Designation: Kolksee
Strain history: <- H. Hippe; Kolksee <- H. Hippe {1976}
NCBI tax ID(s): 2213 (species)
version 8.1 (current version)
General
@ref: 3350
BacDive-ID: 7110
DSM-Number: 8688
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic
description: Methanosarcina sp. Kolksee is an anaerobe, mesophilic archaeon that was isolated from mud.
NCBI tax id
- NCBI tax id: 2213
- Matching level: species
strain history
- @ref: 3350
- history: <- H. Hippe; Kolksee <- H. Hippe {1976}
doi: 10.13145/bacdive7110.20230509.8.1
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: 3350
domain: Archaea
phylum: Euryarchaeota
class: Methanomicrobia
order: Methanosarcinales
family: Methanosarcinaceae
genus: Methanosarcina
species: Methanosarcina sp.
full scientific name: Methanosarcina sp.
strain designation: Kolksee
type strain: no
Culture and growth conditions
culture medium
- @ref: 3350
- name: METHANOSARCINA BARKERI MEDIUM (DSMZ Medium 120a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/120a
- composition: Name: METHANOSARCINA BARKERI MEDIUM (DSMZ Medium 120a) Composition: Methanol 15.4688 g/l NaCl 2.19727 g/l Yeast extract 1.95312 g/l Casitone 1.95312 g/l NaHCO3 0.830078 g/l NH4Cl 0.488281 g/l MgSO4 x 7 H2O 0.488281 g/l K2HPO4 0.341797 g/l Na2S x 9 H2O 0.292969 g/l L-Cysteine HCl x H2O 0.292969 g/l CaCl2 x 2 H2O 0.244141 g/l KH2PO4 0.224609 g/l HCl 0.00244141 g/l FeSO4 x 7 H2O 0.00195312 g/l FeCl2 x 4 H2O 0.00146484 g/l Sodium resazurin 0.000488281 g/l CoCl2 x 6 H2O 0.000185547 g/l Pyridoxine hydrochloride 9.76563e-05 g/l MnCl2 x 4 H2O 9.76563e-05 g/l ZnCl2 6.83594e-05 g/l Thiamine HCl 4.88281e-05 g/l Riboflavin 4.88281e-05 g/l Calcium D-(+)-pantothenate 4.88281e-05 g/l Nicotinic acid 4.88281e-05 g/l p-Aminobenzoic acid 4.88281e-05 g/l (DL)-alpha-Lipoic acid 4.88281e-05 g/l Na2MoO4 x 2 H2O 3.51562e-05 g/l NiCl2 x 6 H2O 2.34375e-05 g/l Folic acid 1.95312e-05 g/l Biotin 1.95312e-05 g/l H3BO3 5.85938e-06 g/l CuCl2 x 2 H2O 1.95313e-06 g/l Vitamin B12 9.76563e-07 g/l H2SO4 Distilled water
culture temp
- @ref: 3350
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 3350
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 3350
- sample type: mud
- geographic location: Lake Kolksee
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Mud (Sludge)
Sequence information
16S sequences
- @ref: 20218
- description: Enterococcus faecalis clone OCM094 16S ribosomal RNA gene, partial sequence
- accession: GU417259
- length: 452
- database: ena
- NCBI tax ID: 1351
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanosarcina sp. Kolksee | GCA_000969945 | complete | ncbi | 1434099 |
| 66792 | Methanosarcina sp. Kolksee | 2627853629 | complete | img | 1434099 |
| 66792 | Methanosarcina sp. Kolksee | 1434099.6 | plasmid | patric | 1434099 |
| 66792 | Methanosarcina sp. Kolksee | 1434099.4 | complete | patric | 1434099 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 91.356 | no |
| flagellated | no | 96.428 | no |
| gram-positive | no | 96.256 | no |
| anaerobic | yes | 97.756 | yes |
| aerobic | no | 94.588 | yes |
| halophile | no | 91.578 | no |
| spore-forming | no | 94.259 | no |
| thermophile | no | 94.896 | yes |
| glucose-util | yes | 74.032 | no |
| glucose-ferment | no | 60.984 | no |
External links
@ref: 3350
culture collection no.: DSM 8688, OCM 94
straininfo link
- @ref: 76565
- straininfo: 48514
literature
- topic: Genetics
- Pubmed-ID: 34611238
- title: Microbiome signature and diversity regulates the level of energy production under anaerobic condition.
- authors: Rahman MS, Hoque MN, Puspo JA, Islam MR, Das N, Siddique MA, Hossain MA, Sultana M
- journal: Sci Rep
- DOI: 10.1038/s41598-021-99104-3
- year: 2021
- mesh: *Anaerobiosis, *Biodiversity, Chemical Phenomena, Computational Biology/methods, Metagenome, Metagenomics/methods, *Microbiota, Phylogeny, *Renewable Energy
- topic2: Phylogeny
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3350 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8688) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8688 | |||
| 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) | |||
| 76565 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48514.1 | StrainInfo: A central database for resolving microbial strain identifiers |