Genome Property Definition Page

Accession

GenProp0722

Name

methanogenesis marker set

Type

SYSTEM

Description

Members of this genome property are, at least for now, largely uncharacterized proteins that appear to represent marker proteins for methanogenic archaea, as detected by our novel algorithm, partial phylogenetic profiling. Substrates that can be reduced wih H2 to methane may include methanol only, as in Methanosphaera stadtmanae, or carbon dioxide and other compounds. This Genome Property represents proteins that both are universal in the first ten completed genomes of archaeal methanogens and can serve as markers for methanogenesis (are found nowhere else). These markers have the same phylogenetic distribution, among completely sequenced genomes, as the enzyme methyl-coenzyme M reductase, whose components (for now) are represented in a separate Genome Property, GenProp0719. This analysis was performed without the availability of an anaerobic methane-oxidizing archaeal genome sequence, and it is unclear how such a genome would affect the results.

JCVI Role

Methanogenesis

Parent Property

GenProp0011: methanogenesis

Literature References

[ 1 ]Fricke WF, Seedorf H, Henne A, Kruer M, Liesegang H, Hedderich R, Gottschalk G, Thauer RK The genome sequence of Methanosphaera stadtmanae reveals why this human intestinal archaeon is restricted to methanol and H2 for methane formation and ATP synthesis. J Bacteriol. 2006 Jan;188(2):642-58. PMID 16385054

Components

Parent Properties

Accession	Name
GenProp0011	methanogenesis

Sibling Properties

Accession	Name
GenProp0288	tetrahydromethanopterin S-methyltransferase complex
GenProp0719	methyl-coenzyme M reductase

Step Name	Step Num	Required	Evidence (Method)
CoB--CoM heterodisulfide reductase, subunit B	me_hdrB	YES	TIGR03288 (HMM): CoB--CoM heterodisulfide reductase, subunit B
CoB--CoM heterodisulfide reductase, subunit C	me_hdrC	YES	TIGR03290 (HMM): CoB--CoM heterodisulfide reductase, subunit C
methyl coenzyme M reductase system, component A2	me_mcr2	YES	TIGR03269 (HMM): methyl coenzyme M reductase system, component A2
methyl-coenzyme M reductase, alpha subunit	me_mcrA	YES	TIGR03256 (HMM): methyl-coenzyme M reductase, alpha subunit
methyl-coenzyme M reductase, beta subunit	me_mcrB	YES	TIGR03257 (HMM): methyl-coenzyme M reductase, beta subunit
methyl-coenzyme M reductase I operon protein C	me_mcrC	YES	TIGR03264 (HMM): methyl-coenzyme M reductase I operon protein C
methyl-coenzyme M reductase operon protein D	me_mcrD	YES	TIGR03260 (HMM): methyl-coenzyme M reductase operon protein D
methyl-coenzyme M reductase, gamma subunit	me_mcrG	YES	TIGR03259 (HMM): methyl-coenzyme M reductase, gamma subunit
tetrahydromethanopterin S-methyltransferase, subunit A	me_mtrA	YES	TIGR01111 (HMM): tetrahydromethanopterin S-methyltransferase, subunit A
tetrahydromethanopterin S-methyltransferase, subunit B	me_mtrB	YES	TIGR04166 (HMM): tetrahydromethanopterin S-methyltransferase, subunit B
tetrahydromethanopterin S-methyltransferase, subunit C	me_mtrC	YES	TIGR01148 (HMM): tetrahydromethanopterin S-methyltransferase, subunit C
tetrahydromethanopterin S-methyltransferase, subunit D	me_mtrD	YES	TIGR01112 (HMM): tetrahydromethanopterin S-methyltransferase, subunit D
tetrahydromethanopterin S-methyltransferase, subunit E	me_mtrE	YES	TIGR01113 (HMM): tetrahydromethanopterin S-methyltransferase, subunit E
tetrahydromethanopterin S-methyltransferase, subunit F	me_mtrF	YES	TIGR02507 (HMM): tetrahydromethanopterin S-methyltransferase, F subunit
tetrahydromethanopterin S-methyltransferase, subunit G	me_mtrG	YES	TIGR01149 (HMM): tetrahydromethanopterin S-methyltransferase, subunit G
tetrahydromethanopterin S-methyltransferase, subunit H	me_mtrH	YES	TIGR01114 (HMM): N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit H
methanogenesis marker protein 1	meth_01	YES	TIGR03266 (HMM): putative methanogenesis marker protein 1
methanogenesis marker protein 2	meth_02	YES	TIGR03267 (HMM): putative methanogenesis marker protein 2
methanogenesis marker protein 3	meth_03	YES	TIGR03268 (HMM): putative methanogenesis marker protein 3
methanogenesis marker protein 4	meth_04	YES	TIGR03270 (HMM): putative methanogen marker protein 4
methanogenesis marker protein 5	meth_05	YES	TIGR03271 (HMM): putative methanogenesis marker protein 5
methanogenesis marker protein 6	meth_06	YES	TIGR03272 (HMM): putative methanogenesis marker protein 6
methanogenesis marker protein 7	meth_07	YES	TIGR03274 (HMM): putative methanogenesis marker protein 7
methanogenesis marker protein 8	meth_08	YES	TIGR03275 (HMM): putative methanogenesis marker protein 8
methanogenesis marker domain 9	meth_09	YES	TIGR03277 (HMM): putative methanogenesis marker domain 9
methanogenesis radical SAM marker protein	meth_10	YES	TIGR03278 (HMM): methanogenesis marker radical SAM protein
methanogenesis imperfect marker 11	meth_11	YES	TIGR03280 (HMM): methanogenesis imperfect marker protein 11
methanogenesis marker protein 12	meth_12	YES	TIGR03281 (HMM): putative methanogenesis marker protein 12
methanogenesis marker 13 metalloprotein	meth_13	YES	TIGR03282 (HMM): putative methanogenesis marker 13 metalloprotein
methanogenesis marker protein 14	meth_14	YES	TIGR03285 (HMM): putative methanogenesis marker protein 14
methanogenesis marker protein 15	meth_15	YES	TIGR03286 (HMM): putative methanogenesis marker protein 15
methanogenesis marker 16 metalloprotein	meth_16	YES	TIGR03287 (HMM): putative methanogenesis marker 16 metalloprotein
methanogenesis marker protein 17	meth_17	YES	TIGR03291 (HMM): putative methanogenesis marker protein 17