Methanobacterium petrolearium (DSM 22353, NBRC 105198, Mic5c12)

Name: Methanobacterium petrolearium (DSM 22353, NBRC 105198, Mic5c12)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6952

Type strain

Strain Designation Mic5c12

Culture col. no. DSM 22353 NBRC 105198 Mic5c12

NCBI tax ID(s) 710190

Special Collections DSMZ Literature strains

History <- K. Mori, NITE-NBRC; NBRC 105198 <- K. Mori; Mic5c12

Links

Methanobacterium petrolearium Mic5c12 is an anaerobe, Gram-variable, rod-shaped archaeon that was isolated from oil sludge.

Gram-variable rod-shaped anaerobe genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 402151

NBRC 105198,DSM 22353

@ref 20215

Last LPSN update 2026-02-09 11:19:21

Domain Archaea

Phylum Methanobacteriota

Class Methanobacteria

Order Methanobacteriales

Family Methanobacteriaceae

Genus Methanobacterium

Species Methanobacterium petrolearium

Full scientific name Methanobacterium petrolearium Mori and Harayama 2011

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
29854	variable	3.55 µm	0.3 µm	rod-shaped

Colony morphology

16309

Incubation period3-7 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16309	METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141)		Medium recipe at MediaDive	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

@ref	Growth	Type	Temperature (°C)
16309	positive	growth	35
29854	positive	growth	20-40
29854	positive	optimum	35

Culture pH

@ref	Ability	Type	PH	PH range
29854	positive	optimum	6.5
29854	positive	growth	5.5-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
16309	anaerobe
29854	anaerobe
125439	anaerobe	93.3

Spore formation

@ref	Spore formation	Confidence
125439		95.6

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29854	NaCl	positive	growth	0-6.96 %
29854	NaCl	positive	optimum	1.972 %

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Industrial	#Oil reservoir
#Environmental	#Terrestrial	#Mud (Sludge)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16309	oil sludge	Kagoshima	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16309	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM3029673v1 assembly for Methanobacterium petrolearium NBRC 105198	complete	GCA_030296735		8089670261	710190	82.58
66792	ASM1787362v1 assembly for Methanobacterium petrolearium DSM 22353	contig	GCA_017873625	710190.3	2913397459	710190	70.01

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16309	Methanobacterium petrolearium gene for 16S ribosomal RNA, partial sequence	AB542742	1392		710190

GC content

@ref	GC-content (mol%)	Method
16309	38.3	high performance liquid chromatography (HPLC)
29854	38.3

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Methanobacterium petrolearium DSM 22353
NCBI: GCA_017873625

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.60	no
125439	motility	BacteriaNetⓘ	no	82.20	no
125439	gram_stain	BacteriaNetⓘ	variable	78.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	93.30	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Draft Genome Sequence of Methanobacterium paludis IBT-C12, Recovered from Sediments of the Apatlaco River, Mexico.	Sanchez-Salazar EA, Hernandez-Jaimes L, Breton-Deval L, Sanchez-Reyes A.	Microbiol Resour Announc	10.1128/mra.00906-21	2022
Phylogeny	Methanobacterium petrolearium sp. nov. and Methanobacterium ferruginis sp. nov., mesophilic methanogens isolated from salty environments.	Mori K, Harayama S	Int J Syst Evol Microbiol	10.1099/ijs.0.022723-0	2010

References

#16309	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22353
#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 )
#26228	IJSEM 138 2011 ( DOI 10.1099/ijs.0.022723-0 , PubMed 20173004 )
#29854	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26228
#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) .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Methanobacterium petrolearium (DSM 22353, NBRC 105198, Mic5c12)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_030296735

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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