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Strain identifier

BacDive ID: 6952

Type strain: Yes

Species: Methanobacterium petrolearium

Strain Designation: Mic5c12

Strain history: <- K. Mori, Natl. Inst. of Technol. and Evaluation (NITE), Japan

NCBI tax ID(s): 710190 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 16309

BacDive-ID: 6952

DSM-Number: 22353

keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic, Gram-variable, rod-shaped

description: Methanobacterium petrolearium Mic5c12 is an anaerobe, mesophilic, Gram-variable archaeon that was isolated from oil sludge.

NCBI tax id

  • NCBI tax id: 710190
  • Matching level: species

strain history: <- K. Mori, Natl. Inst. of Technol. and Evaluation (NITE), Japan

doi: 10.13145/bacdive6952.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/euryarchaeota
  • domain: Archaea
  • phylum: Euryarchaeota
  • class: Methanobacteria
  • order: Methanobacteriales
  • family: Methanobacteriaceae
  • genus: Methanobacterium
  • species: Methanobacterium petrolearium
  • full scientific name: Methanobacterium petrolearium Mori and Harayama 2011

@ref: 16309

domain: Archaea

phylum: Euryarchaeota

class: Methanobacteria

order: Methanobacteriales

family: Methanobacteriaceae

genus: Methanobacterium

species: Methanobacterium petrolearium

full scientific name: Methanobacterium petrolearium Mori and Harayama 2011

strain designation: Mic5c12

type strain: yes

Morphology

cell morphology

  • @ref: 29854
  • gram stain: variable
  • cell length: 3.55 µm
  • cell width: 0.3 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 16309
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

  • @ref: 16309
  • name: METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/141
  • composition: Name: METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141) Composition: NaHCO3 4.89237 g/l MgCl2 x 6 H2O 3.91389 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 FeSO4 x 7 H2O 0.000978474 g/l CaCl2 x 2 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 Nicotinic acid 4.89237e-05 g/l Riboflavin 4.89237e-05 g/l (DL)-alpha-Lipoic acid 4.89237e-05 g/l Thiamine HCl 4.89237e-05 g/l Calcium D-(+)-pantothenate 4.89237e-05 g/l p-Aminobenzoic acid 4.89237e-05 g/l Folic acid 1.95695e-05 g/l Biotin 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

@refgrowthtypetemperaturerange
16309positivegrowth35mesophilic
29854positivegrowth20-40
29854positiveoptimum35mesophilic

culture pH

@refabilitytypepHPH range
29854positivegrowth5.5-9.0alkaliphile
29854positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
16309anaerobe
29854anaerobe

halophily

@refsaltgrowthtested relationconcentration
29854NaClpositivegrowth0-6.96 %
29854NaClpositiveoptimum1.972 %

Isolation, sampling and environmental information

isolation

  • @ref: 16309
  • sample type: oil sludge
  • geographic location: Kagoshima
  • country: Japan
  • origin.country: JPN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Oil reservoir
#Environmental#Terrestrial#Mud (Sludge)

Safety information

risk assessment

  • @ref: 16309
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16309
  • description: Methanobacterium petrolearium gene for 16S ribosomal RNA, partial sequence
  • accession: AB542742
  • length: 1392
  • database: ena
  • NCBI tax ID: 710190

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Methanobacterium petrolearium DSM 22353GCA_017873625contigncbi710190
66792Methanobacterium petrolearium DSM 223532913397459draftimg710190
66792Acinetobacter baumannii 29R1GCA_002573735contigpatric470

GC content

@refGC-contentmethod
1630938.3high performance liquid chromatography (HPLC)
2985438.3

External links

@ref: 16309

culture collection no.: DSM 22353, NBRC 105198

straininfo link

@refpassport
20218http://www.straininfo.net/strains/863853
20218http://www.straininfo.net/strains/863854

literature

  • topic: Phylogeny
  • Pubmed-ID: 20173004
  • title: Methanobacterium petrolearium sp. nov. and Methanobacterium ferruginis sp. nov., mesophilic methanogens isolated from salty environments.
  • authors: Mori K, Harayama S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.022723-0
  • year: 2010
  • mesh: Alcohols/metabolism, Archaeal Proteins/genetics, Carbon Dioxide/metabolism, Cluster Analysis, DNA, Archaeal/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Hydrogen/metabolism, Hydrogen-Ion Concentration, Methane/metabolism, Methanobacterium/*classification/genetics/*isolation & purification, Molecular Sequence Data, Oxidoreductases/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Sodium Chloride/metabolism, Temperature
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
16309Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22353)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22353
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
2622810.1099/ijs.0.022723-020173004
29854Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604126228
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)