Table 1.

Identified primer and probe sequences for detection and typing of Echinococcus granulosus sensu lato species by TaqMan^® quantitative real-time polymerase chain reaction (qPCR).

Assay Name	Primer Name	Product Size	Specificity	Sequence	Final Concentration	Gene	Accession No	Position in Mitochondrial Genome
G1_3_qPCR	Eg_G1-3_cox1_7122_F	109	E. granulosus sensu stricto (G1, G3)	AGGGGCTGGTGTTGGTTGGA	200 nM	Cox1	KJ559023, NC_008075.1, KJ162553	7122–7141
	Eg_G1-3_cox1_7230_R			TGAAACACCAGCCAAATGCAGAGA	200 nM			7230–7207
	Eg_G1-3_cox1_7149_P			6-Fam or Cy5-TCC GCC GTT GTC CTC GTC GT-BHQ-1	200 nM			7149–7168
G4_qPCR	g4_cox1_F	109	E. equinus (G4)	AGG TGC TGG TGT TGG TTG AA	200 nM	Cox1	NC_020374	9408–9427
	g4_cox1_R			AGA AAC ACC TGC CAA ATG CAA AGA	200 nM			9516–9493
	g4_cox1_P			Cy3.5-TCC GCC GTT GTC TTC TTC AT-BMN-Q590	200 nM			9435–9454
G5_qPCR	ND5_1433_G5_F	127	E. ortleppi (G5)	TGATGGCTGGTAGCGGTGGT	200 nM	Nad5	AB235846	1433–1452
	ND5_1475_G5_P			Cy5.5-ACAGGCCTGTTGTGTATGGGTCA-BMN-Q650	200 nM			1475–1497
	ND5_1559_G5_R			ACCCCAATAAACGGAACCCCAGA	200 nM			1559–1537
G6_10_qPCR	COX3_2458_Ec_F	123	E. canadensis (G6–8, G10)	GTTGTTTTGGTTTGTGTTGGGTTGT	200 nM	Cox3	NC_011121.1 MH301022	2458–2482
	COX3_2505_Ec_P			FAM or Cy5-TGGGTTGTGTGCTAGGGTTCATCA-MGB	200 nM			2505–2528
	COX3_2580_Ec_R			ACCAAAAATCGCCACCTCACT	200 nM			2580–2560
Internal control PCR, IC2 PCR	EGFP1-F	Hoffmann et al., 2006	Hoffmann et al., 2006	GAC CAC TAC CAG CAG AAC AC	500 nM	EGFP		Hoffmann et al., 2006
	EGFP1			5′-HEX- AGC ACC CAG TCC GCC CTG AGC A -BHQ1	160 nM
	EGFP2-R			GAA CTC CAG CAG GAC CAT G	500 nM