Methanoculleus bourgensis (DSM 3045, ATCC 43281, OCM 15)

Name: Methanoculleus bourgensis (DSM 3045, ATCC 43281, OCM 15)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7016

Type strain

Strain Designation MS2

Culture col. no. DSM 3045 ATCC 43281 OCM 15 MS2

NCBI tax ID(s) 1201294 83986

Special Collections DSMZ

Links

Methanoculleus bourgensis MS2 is an anaerobe prokaryote that was isolated from sewage sludge digester.

anaerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 45124

ATCC 43281,DSM 3045

@ref 20215

Last LPSN update 2025-12-16 09:48:28

Domain Methanobacteriati

Phylum Methanobacteriota

Class "Methanomicrobia"

Order Methanomicrobiales

Family Methanomicrobiaceae

Genus Methanoculleus

Species Methanoculleus bourgensis

Full scientific name Methanoculleus bourgensis corrig. (Ollivier et al. 1986) Maestrojuán et al. 1990

Synonyms (5)

Methanogenium bourgense
Methanogenium olentangyi
Methanoculleus oldenburgensis
Methanoculleus olentangyi
Methanoculleus bourgense

BacDive ID	Other strains from **Methanoculleus bourgensis** (4)	Type strain
7015	M. bourgensis RC/ER, DSM 2772, ATCC 35293, OCM 52
7017	M. bourgensis LX1, DSM 4307, ATCC 43575, OCM 24
7018	M. bourgensis CB 1, DSM 6216
7019	M. bourgensis EBac, DSM 8220

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	93.3

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1284	MODIFIED METHANOBACTERIUM MEDIUM (DSMZ Medium 1523)		Medium recipe at MediaDive	Name: MODIFIED METHANOBACTERIUM MEDIUM (DSMZ Medium 1523) Composition: Brain heart infusion 5.98802 g/l Proteose peptone 5.98802 g/l NaHCO3 3.99202 g/l Yeast extract 1.99601 g/l Na-formate 1.99601 g/l Na-acetate 0.998004 g/l Na2S x 9 H2O 0.499002 g/l KH2PO4 0.499002 g/l L-Cysteine HCl x H2O 0.499002 g/l MgSO4 x 7 H2O 0.399202 g/l NH4Cl 0.399202 g/l NaCl 0.399202 g/l CaCl2 x 2 H2O 0.0499002 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l Sodium resazurin 0.000499002 g/l Pyridoxine hydrochloride 0.000299401 g/l Thiamine-HCl x 2 H2O 0.000199601 g/l Nicotinic acid 0.000199601 g/l CoCl2 x 6 H2O 0.000189621 g/l Calcium pantothenate 9.98004e-05 g/l Vitamin B12 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l p-Aminobenzoic acid 7.98403e-05 g/l ZnCl2 6.98603e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l D-(+)-biotin 1.99601e-05 g/l H3BO3 5.98802e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
1284	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
1284	anaerobe
125439	obligate anaerobe	95.5

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	acetate fermentation	100	4 of 4
66794	ethanol fermentation	100	2 of 2
66794	factor 420 biosynthesis	100	5 of 5
66794	ribulose monophosphate pathway	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	87.5	7 of 8
66794	photosynthesis	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	vitamin B12 metabolism	82.35	28 of 34
66794	flavin biosynthesis	80	12 of 15
66794	starch degradation	80	8 of 10
66794	coenzyme M biosynthesis	80	8 of 10
66794	glycine betaine biosynthesis	80	4 of 5
66794	hydrogen production	80	4 of 5
66794	methanofuran biosynthesis	80	4 of 5
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	palmitate biosynthesis	77.27	17 of 22
66794	vitamin B1 metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	glycogen biosynthesis	75	3 of 4
66794	methanogenesis from CO2	75	9 of 12
66794	isoleucine metabolism	75	6 of 8
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	NAD metabolism	72.22	13 of 18
66794	heme metabolism	71.43	10 of 14
66794	pyrimidine metabolism	71.11	32 of 45
66794	threonine metabolism	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	purine metabolism	69.15	65 of 94
66794	glutamate and glutamine metabolism	67.86	19 of 28
66794	nitrate assimilation	66.67	6 of 9
66794	serine metabolism	66.67	6 of 9
66794	valine metabolism	66.67	6 of 9
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	arginine metabolism	66.67	16 of 24
66794	gluconeogenesis	62.5	5 of 8
66794	lysine metabolism	61.9	26 of 42
66794	oxidative phosphorylation	60.44	55 of 91
66794	glycogen metabolism	60	3 of 5
66794	methylglyoxal degradation	60	3 of 5
66794	tetrahydrofolate metabolism	57.14	8 of 14
66794	histidine metabolism	55.17	16 of 29
66794	sulfate reduction	53.85	7 of 13
66794	urea cycle	53.85	7 of 13
66794	alanine metabolism	51.72	15 of 29
66794	lipid metabolism	51.61	16 of 31
66794	degradation of sugar alcohols	50	8 of 16
66794	adipate degradation	50	1 of 2
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	myo-inositol biosynthesis	50	5 of 10
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	selenocysteine biosynthesis	50	3 of 6
66794	ketogluconate metabolism	50	4 of 8
66794	phenylmercury acetate degradation	50	1 of 2
66794	tyrosine metabolism	50	7 of 14
66794	leucine metabolism	46.15	6 of 13
66794	methionine metabolism	46.15	12 of 26
66794	metabolism of disaccharids	45.45	5 of 11
66794	proline metabolism	45.45	5 of 11
66794	non-pathway related	44.74	17 of 38
66794	CO2 fixation in Crenarchaeota	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	citric acid cycle	42.86	6 of 14
66794	propanol degradation	42.86	3 of 7
66794	tryptophan metabolism	42.11	16 of 38
66794	degradation of hexoses	38.89	7 of 18
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	vitamin B6 metabolism	36.36	4 of 11
66794	pentose phosphate pathway	36.36	4 of 11
66794	polyamine pathway	34.78	8 of 23
66794	cyanate degradation	33.33	1 of 3
66794	L-lactaldehyde degradation	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	IAA biosynthesis	33.33	1 of 3
66794	octane oxidation	33.33	1 of 3
66794	formaldehyde oxidation	33.33	1 of 3
66794	isoprenoid biosynthesis	30.77	8 of 26
66794	propionate fermentation	30	3 of 10
66794	Entner Doudoroff pathway	30	3 of 10
66794	mevalonate metabolism	28.57	2 of 7
66794	glutathione metabolism	28.57	4 of 14
66794	degradation of pentoses	28.57	8 of 28
66794	cysteine metabolism	27.78	5 of 18
66794	ascorbate metabolism	27.27	6 of 22
66794	carotenoid biosynthesis	27.27	6 of 22
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	peptidoglycan biosynthesis	26.67	4 of 15
66794	catecholamine biosynthesis	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	butanoate fermentation	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Biodegradation	-
#Engineered	#Waste	#Sewage sludge

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
1284	sewage sludge digester	Bourg en Bresse	France	FRA	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1284	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score	IMG accession
66792	Methanoculleus bourgensis MS2	complete			1201294	98.31	2540341105
66792	Mb_MS2 assembly for Methanoculleus bourgensis MS2 MS2T	complete	GCA_000304355	1201294.9	1201294	97.07

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Methanoculleus bourgensis 16S small subunit ribosomal RNA gene, partial sequence	AF095269	1411		1201294
1284	Methanoculleus bourgensis 16S ribosomal RNA gene, partial sequence	AY196674	1255		1201294

GC content

@ref	GC-content (mol%)	Method
1284	60.6	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Methanoculleus bourgensis MS2
IMG: 2540341105

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	95.50	no
125439	gram_stain	BacteriaNetⓘ	negative	93.30	no
125439	motility	BacteriaNetⓘ	no	53.90	no
125439	spore_formation	BacteriaNetⓘ	no	83.30	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Characterization of Blf4, an Archaeal Lytic Virus Targeting a Member of the Methanomicrobiales.	Weidenbach K, Wolf S, Kupczok A, Kern T, Fischer MA, Reetz J, Urbanska N, Kunzel S, Schmitz RA, Rother M.	Viruses	10.3390/v13101934	2021
	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
Metabolism	Development and Validation of Broad-Range Qualitative and Clade-Specific Quantitative Molecular Probes for Assessing Mercury Methylation in the Environment.	Christensen GA, Wymore AM, King AJ, Podar M, Hurt RA, Santillan EU, Soren A, Brandt CC, Brown SD, Palumbo AV, Wall JD, Gilmour CC, Elias DA.	Appl Environ Microbiol	10.1128/aem.01271-16	2016
	Genome-resolved metagenomics and metatranscriptomics reveal niche differentiation in functionally redundant microbial communities at deep-sea hydrothermal vents.	Galambos D, Anderson RE, Reveillaud J, Huber JA.	Environ Microbiol	10.1111/1462-2920.14806	2019

References

#1284	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3045
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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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Methanoculleus bourgensis (DSM 3045, ATCC 43281, OCM 15)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000304355

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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