General

@ref: 21020

BacDive-ID: 24167

DSM-Number: 22503

keywords: 16S sequence, Archaea, anaerobe, mesophilic

description: Methanosarcina subterranea HC-2 is an anaerobe, mesophilic archaeon that was isolated from deep subsurface groundwater within a diatomaceous shale formation.

NCBI tax id

• NCBI tax id: 418010
• Matching level: species

strain history

doi: 10.13145/bacdive24167.20230509.8.1

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 subterranea
• full scientific name: Methanosarcina subterranea Shimizu et al. 2015

@ref: 21020

domain: Archaea

phylum: Euryarchaeota

class: Methanomicrobia

order: Methanosarcinales

family: Methanosarcinaceae

genus: Methanosarcina

species: Methanosarcina subterranea

full scientific name: Methanosarcina subterranea Shimizu et al. 2015

strain designation: HC-2

type strain: yes

Morphology

colony morphology

• @ref: 21020
• incubation period: 3-7 days

Culture and growth conditions

culture medium

• @ref: 21020
• name: METHANOMICROCOCCUS MEDIUM (DSMZ Medium 120b)
• growth: yes
• link: https://mediadive.dsmz.de/medium/120b
• composition: Name: METHANOMICROCOCCUS MEDIUM (DSMZ Medium 120b; with strain-specific modifications) Composition: Methanol 15.4688 g/l NaCl 5.85938 g/l NaHCO3 2.44141 g/l Na-acetate 2.44141 g/l Yeast extract 1.95312 g/l Casitone 1.95312 g/l NH4Cl 0.488281 g/l MgSO4 x 7 H2O 0.488281 g/l Na2S x 9 H2O 0.351562 g/l L-Cysteine HCl x H2O 0.351562 g/l K2HPO4 0.341797 g/l CaCl2 x 2 H2O 0.244141 g/l KH2PO4 0.224609 g/l 2-Mercaptoethanesulfonate 0.136719 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 p-Aminobenzoic acid 4.88281e-05 g/l (DL)-alpha-Lipoic acid 4.88281e-05 g/l Calcium D-(+)-pantothenate 4.88281e-05 g/l Nicotinic acid 4.88281e-05 g/l Riboflavin 4.88281e-05 g/l Thiamine HCl 4.88281e-05 g/l Na2MoO4 x 2 H2O 3.51562e-05 g/l NiCl2 x 6 H2O 2.34375e-05 g/l Biotin 1.95312e-05 g/l Folic acid 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

Physiology and metabolism

oxygen tolerance

• @ref: 21020
• oxygen tolerance: anaerobe

Isolation, sampling and environmental information

isolation

isolation source categories

Safety information

risk assessment

• @ref: 21020
• biosafety level: 1
• biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

• @ref: 21020
• description: Methanosarcina subterranea gene for 16S rRNA, partial sequence
• accession: AB288264
• length: 1445
• database: ena
• NCBI tax ID: 418010

GC content

• @ref: 21020
• GC-content: 41.5
• method: high performance liquid chromatography (HPLC)

External links

@ref: 21020

culture collection no.: DSM 22503, JCM 15540, NBRC 102578

straininfo link

• @ref: 88122
• straininfo: 403909

literature

• topic: Phylogeny
• Pubmed-ID: 25604340
• title: Methanosarcina subterranea sp. nov., a methanogenic archaeon isolated from a deep subsurface diatomaceous shale formation.
• authors: Shimizu S, Ueno A, Naganuma T, Kaneko K
• journal: Int J Syst Evol Microbiol
• DOI: 10.1099/ijs.0.000072
• year: 2015
• mesh: Base Composition, DNA, Archaeal/genetics, Genes, Archaeal, Groundwater/*microbiology, Japan, Methanosarcina/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
• topic2: Genetics

Reference