Methanosarcina sp. (DSM 8688, OCM 94, Kolksee)

Name: Methanosarcina sp. (DSM 8688, OCM 94, Kolksee)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7110

Type strain

Strain Designation Kolksee

Culture col. no. DSM 8688 OCM 94 Kolksee

NCBI tax ID(s) 2213

Special Collections DSMZ

Links

Kolksee is an anaerobe, mesophilic prokaryote that was isolated from mud.

anaerobe mesophilic genome sequence

Name and taxonomic classification

SI-ID 48514

DSM 8688

@ref 20215

Last LPSN update 2025-12-16 09:48:30

Domain Methanobacteriati

Phylum Methanobacteriota

Class Methanosarcinia

Order Methanosarcinales

Family Methanosarcinaceae

Genus Methanosarcina

Full scientific name Methanosarcina Kluyver and van Niel 1936 (Approved Lists 1980)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	97.4

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
3350	METHANOSARCINA BARKERI MEDIUM (DSMZ Medium 120a)		Medium recipe at MediaDive	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	Growth	Type	Temperature (°C)	Range
3350	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

3350

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
125439		95.4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Mud (Sludge)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
3350	mud	Lake Kolksee	Germany	DEU	Europe

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM96994v1 assembly for Methanosarcina sp. Kolksee	complete	GCA_000969945	1434099.4	2627853629	1434099	96.49

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Methanosarcina sp. Kolksee
NCBI: GCA_000969945

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.40	no
125439	motility	BacteriaNetⓘ	no	75.90	no
125439	gram_stain	BacteriaNetⓘ	negative	97.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative aerobe	60.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Methanosarcina sp. Kolksee Kolksee
NCBI: GCA_000969945.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	67.16	no
125438	anaerobic	anaerobicⓘ	yes	83.85	yes
125438	aerobic	aerobicⓘ	no	87.58	yes
125438	spore-forming	spore-formingⓘ	no	83.61	no
125438	thermophilic	thermophileⓘ	no	86.40	yes
125438	flagellated	motile2+ⓘ	no	82.21	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Microbiome signature and diversity regulates the level of energy production under anaerobic condition.	Rahman MS, Hoque MN, Puspo JA, Islam MR, Das N, Siddique MA, Hossain MA, Sultana M	Sci Rep	10.1038/s41598-021-99104-3	2021

References

#3350	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 8688
#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. IJSEM ( DOI 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) .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Methanosarcina sp. (DSM 8688, OCM 94, Kolksee)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000969945

Genome-based predictions

Predictions

Literature

Literature

References

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