Table 1.

Core gene functions in S. Typhimurium

Biological process	Sub-process	Required genes	Non-required genes
Cell division		ftsALKQWYZ, minE, mukB, SL2391	ftsHJNX*, minCD, sdiA, cedA, sulA
DNA replication	Polymerases I, II and III	dnaENQX, holAB	polAB, holCDE
	Supercoiling	gyrAB, parCE
	Primosome-associated	dnaBCGT, priA, ssb	priB*C, rep
Transcription	RNA polymerase	rpoABC
	Sigma, elongation, anti- and termination factors	nusBG, rpoDH, rho	nusA, rpoENS
Translation	tRNA-synthetases	alaS, argS, asnS, aspS, cysS, glnS, gltX, glyQS, hisS, ileS, leuS, lysS, metG, pheST, proS, serS, thrS, tyrS, valS,	trpS, trpS2
	Ribosome components	rplBCDEFJKLMNOPQRSTUVWXY, rpmABCDHI, rpsABCDEFGHIJKLMNPQST	rplAI, rpmEE2, rpmFGJJ2, rpsOR*U*V
	Initiation, elongation and peptide chain release factors	fusA, infABC, prfAB, tsf, yrdC	efp, prfCH, selB, tuf
Biosynthetic pathways
Peptidoglycan		murABCDEFGI,	ddl, ddlA
Fatty acids		accABCD, fabABDGHIZ	–

Protein-coding genes providing fundamental biological functions in S. Typhimurium. Genes in bold are required in S. Typhi (LLR between required and non-required models less than −2; see ‘Materials and Methods’ section). Asterisk indicates genes ambiguous in S. Typhimurium, having a LLR between −2 and 2.