Genome Property Definition Page

Accession

GenProp0800

Name

bacterial core gene set, 1 or more per genome

Type

GUILD

Description

This set of genes includes those which are found in every bacterial genome but may be present in multiple copies generally or in greater than 5% of genomes. An evaluation of 311 publicly available bacterial genomes found greater than 95% having at least one copy of each of these genes.

Parent Property

GenProp0067: quantitative content

Literature References

[ 1 ]Makarova KS, Ponomarev VA, Koonin EV Two C or not two C: recurrent disruption of Zn-ribbons, gene duplication, lineage-specific gene loss, and horizontal gene transfer in evolution of bacterial ribosomal proteins. Genome Biol. 2001;2(9):RESEARCH 0033. PMID 11574053

Components

Step Name	Step Num	Required	Evidence (Method)
chaperonin GroS	GroES	YES	PF00166 (HMM): chaperonin GroS
ATP synthase F1, alpha subunit	atpA	YES	TIGR00962 (HMM): ATP synthase F1, alpha subunit
replicative DNA helicase	dnaB	YES	TIGR00665 (HMM): replicative DNA helicase
DNA polymerase III, alpha subunit	dnaE	YES	TIGR00594 (HMM): DNA polymerase III, alpha subunit
translation elongation factor P	efp	YES	TIGR00038 (HMM): translation elongation factor P
phosphopyruvate hydratase, enolase	eno	YES	TIGR01060 (HMM): phosphopyruvate hydratase
translation elongation factor G	fusA	YES	TIGR00484 (HMM): translation elongation factor G
glutamyl-tRNA synthetase	gltX	YES	TIGR00464 (HMM): glutamate--tRNA ligase
serine hydroxymethyltransferase	glyA	YES	PF00464 (HMM): glycine hydroxymethyltransferase
Class I heat shock protein (TCP-1/cpn60 chaperonin family)	groEL	YES	PF00118 (HMM): TCP-1/cpn60 chaperonin family
ATP-dependent metallopeptidase HflB	hflB	YES	TIGR01241 (HMM): ATP-dependent metallopeptidase HflB
translation initiation factor IF-1	infA	YES	TIGR00008 (HMM): translation initiation factor IF-1
lysyl-tRNA synthetase	lysS	YES	TIGR00467 (HMM): lysine--tRNA ligase TIGR00499 (HMM): lysine--tRNA ligase
methionine adenosyltransferase	metK	YES	TIGR01034 (HMM): methionine adenosyltransferase
ribose-phosphate diphosphokinase	prsA	YES	TIGR01251 (HMM): ribose-phosphate diphosphokinase
ribosomal protein L31	rpmE	YES	TIGR00105 (HMM): ribosomal protein bL31
ribosomal protein L33	rpmG	YES	TIGR01023 (HMM): ribosomal protein bL33
ribosomal protein S14	rpsN	YES	PF00253 (HMM): ribosomal protein uS14
single-strand binding protein	ssb	YES	TIGR00621 (HMM): single-stranded DNA-binding protein
tryptophanyl-tRNA synthetase	trpS	YES	TIGR00233 (HMM): tryptophan--tRNA ligase
thioredoxin	trxA	YES	TIGR01068 (HMM): thioredoxin
translation elongation factor Tu	tufA	YES	TIGR00485 (HMM): translation elongation factor Tu
membrane protein insertase, YidC/Oxa1 family	yidC	YES	TIGR03592 (HMM): membrane protein insertase, YidC/Oxa1 family

Parent Properties

Accession	Name
GenProp0067	quantitative content

Sibling Properties

Accession	Name
GenProp0003	count of DNA molecules
GenProp0004	count of predicted proteins
GenProp0005	count of tRNAs
GenProp0020	HMM hit percentage
GenProp0085	DNA GC content
GenProp0086	DNA size (megabases)
GenProp0108	amino acid abundance (order)
GenProp0122	protein average length
GenProp0134	functional gene clustering - property level
GenProp0152	DNA dinucleotide thermophily metric RR+YY-RY-YR
GenProp0495	sequenced plasmids
GenProp0799	bacterial core gene set, exactly 1 per genome
GenProp0805	number of ambiguous nucleotide characters
GenProp0815	archaeal-only core gene set
GenProp0831	archaeal core gene set, exactly 1 per genome
GenProp0832	archaeal core gene set, 1 or more per genome