TABLE 4.

Loci, primers, and probes used in molecular assays in this study

Locus	PCR assay	Primer or probe sequencea (5′ → 3′)	Amplicon size (bp)	Reference
gltA	Real-time	TCG CAA ATG TTC ACG GTA CTT T	74	67
		TCG TGC ATT TCT TTC CAT TGT G		67
		FAM-TGC AAT AGC AAG AAC CGT AGG CTG GAT G-BHQ1		68
gltA	Real-time	ATC CTG ATT TGC TGA ATT TTT T	338	17
		TGC AAT ACC AGT ACT GAC G		17
		FAM-ATG ATG TTT GCC ACA CCT TGT GAA AA-BHQ1		69
sca0	Conventional	ATG GCG AAT ATT TCT CCA AAA	590	70
		GTT CCG TTA ATG GCA GCA TCT		71
	Heminested	AGT GCA GCA TTC GCT CCC CCT	532	70
rrs	Conventional	AGA GTT TGA TCC TGG CTC AG	1,462	75
		ACG GCT ACC TTG TTA CGA CTT		75
	Conventional	CGA AAG CCT GAT CCA GCA AT	812	75
		TAA GGG CCA TGA TGA CTT GA		75
gltA	Conventional	ATG ACT AAT GGC AAT AAT AA	1,047	76
		CAT AAC CAG TGT AAA GCT G		76
sca5	Conventional	CCG CAG GGT TGG TAA CTG C	2,929	77
		CCG GCT ATA CCG CCT GTA GT		77
	Conventional	AAA CAA TAA TCA AGG TAC TGT	2,091	77
		TTA GAA GTT TAC ACG GAC TTT T		77
sca4	Conventional	ATG AGT AAA GAC GGT AAC CT	1,876	78
		TAG TTT GTT CTG CCA TAA TC		78
	Conventional	CGA TGG TAG CAT TAA AAG CT	2,302	78
		TCA GCG TTG TGG AGG GGA AG		78

^aFAM, 6-carboxyfluorescein; BHQ1, black hole quencher 1.