TABLE 2.

Postgenomic molecular studies of chlamydial persistence

Induction	Infecting strain(s)	Method of analysis	Gene or protein expression that was:				Reference
			Up-regulated	Down-regulated	Unchanged	Variable
Antibiotic exposure	C. trachomatis serovar D	Microarray	fabH, ftsK, himD, htrA, icc, mutS, pdhC, r16, tolB, yaeT, CT265, CT296, CT476, CT598, CT790	aroB, bpl, glgA, hctB, hemN, ltuB, sfhB, CT073, CT082, CT181, CT249, CT456, CT694, CT814, CT875	dnaA, ftsW, groEL-1, incA, nlpD, ompA, porB, pyk		82
Amino acid deficiency	C. trachomatis serovars E and L2	Immunoblotting				60-kDa CRP, cHSP60, DnaK, LPS, Mip, MOMP, S1	52
Glucose deficiency	C. trachomatis serovar L2	sqRT-PCR		glgA, glgP, gltT, omcB, ompA, pckA, ptsN, uhpC MOMPa	euo		51
IFN-γ exposure	C. trachomatis serovars A, D, and L2	2-D gel	TrpA, TrpB				108, 109
	C. trachomatis serovars E and L2	Immunoblotting		Hc1, Hc2		60-kDa CRP, cHSP60, DnaK, LPS, Mip, MOMP, S1	52
	C. pneumoniae IOL-207	sqRT-PCR	nlpD, ompA, porB, pyk, CPn0585		76kDa, groESL, omcB, pmpI, yaeT, CPn1046		68
	C. pneumoniae TW-183	sqRT-PCR		ftsK, ftsW	dnaA, minD, mutS, polA		19
	C. pneumoniae A-03	2-D gel	AmiB, Amn, cHSP60, GlgP, GyrA, MOMP, Pgk, Pnp, RpoA, Rrf, YscN		DnaK, GatA, PepA, Pyk, ThrS, TufA, CPn0425, CPn0512, CPn0763, CPn0820		75
	C. pneumoniae CM-1	sqRT-PCR	groEL-1, omcB, ompA	ftsK, lcrD, lcrE, lcrH-1, sycE	lcrH-2, yscC, yscJ, yscL, yscN, yscR, yscS, yscT		114
	C. trachomatis serovars A and E	rtRT-PCR	trpBA, trpRb				20
	C. trachomatis serovars A and L2	rtRT-PCR, immunoblotting	trpBA, trpR, TrpA, TrpBb				124
	C. trachomatis serovar D	Microarray, rtRT-PCRc	euo, fusA, pgsA-2, recA, trpB, CT228	ftsW, hctA, ihfA, ltuB, omcB, ompA, oppA-4, CT546, CT780			13
Monocyte infection	C. trachomatis serovar K	sqRT-PCR		ftsK, ftsW, ompA	dnaA, mutS, parB, polA		38
				cydA, gap, gnd, ompA, pgk, pyk, tal	cydB, fumC, mdhC, rpoD, rpoN, rpsD		36
Continuous infection	C. pneumoniae TW-183	rtRT-PCR	nlpD, ompA, pmpI, porB, CPn0483		ftsK, groESL	76kDa, omcB, pyk, yaeT, CPn0585, CPn1046	47

^aMOMP was only down-regulated in serovar A.

^bExpression of these genes and proteins was normalized in genital serovars but not in serovar A after the addition of indole.

^cOnly genes that were confirmed by rtRT-PCR to be differentially expressed have been included.