Table 1.

Primers and Probes Used in This Study

Oligo	Sequence (5′ to 3′) and Fluorophore	Target	Reference
Cloning primers
ST-Fc	GGAGTCGCCGTTTTTAGACA	Salmonella Typhi STY0201	This work
ST-Rc	TCCTTCAGCCAGCAGAGAAT	Salmonella Typhi STY0201	This work
PA-Fc	AATTGGCGGCGTAGTGATAG	Salmonella Paratyphi A SSPA2308	This work
PA-Rc	GTGAGGGGACAGATGTGGAG	Salmonella Paratyphi A SSPA2308	This work
clyA559-F	ATAGTCGCCGGTCCGTTTG	Salmonella Typhi clyA	This work
clyA722-R	GCCGCATCGATATCTTTATTCG	Salmonella Typhi clyA	This work
Diagnostic primers and probes
ST-Probe	FAM-CATTTGTTCTGGAGCAGGCTGACGG-TAMRA	Salmonella Typhi STY0201	[22]
ST-Frt	CGCGAAGTCAGAGTCGACATAG	Salmonella Typhi STY0201	[22]
ST-Rrt	AAGACCTCAACGCCGATCAC	Salmonella Typhi STY0201	[22]
Pa-Probe	CY5-CCCATACAATTTCATTCTTATTGAGAATGCGC-BHQ2	Salmonella Paratyphi A SSPA2308	[22]
Pa-Frt	ACGATGATGACTGATTTATCGAAC	Salmonella Paratyphi A SSPA2308	[22]
Pa-Rrt	TGAAAAGATATCTCTCAGAGCTGG	Salmonella Paratyphi A SSPA2308	[22]
phHV-Probe	CY5-TTTTTATGTGTCCGCCACCATCTGGATC-BHQ2	Recombinant pCR TOPO 2.1 gB	[22]
PhHV-Frt	GGGCGAATCACAGATTGAATC	Recombinant pCR TOPO 2.1 gB	[22]
PhHV-Rrt	GCGGTTCCAAACGTACCAA	Recombinant pCR TOPO 2.1 gB	[22]
clyA542-Probe	FAM-CCGGTGCTGCAGCAGGCATA-TAMRA	Salmonella Typhi and Salmonella Paratyphi A clyA	This work
clyA498-F	TTATTTCCAGTCACAGGTGGATAG	Salmonella Typhi and Salmonella Paratyphi A clyA	This work
clyA677-R	CTAGTAAAGAAATTTTGCACTGCTTTTA	Salmonella Typhi and Salmonella Paratyphi A clyA	This work
clyA383-Probe	FAM-AACTGAATGAAGCGCAAAAATCTCTCCTGG-TAMRA	Salmonella Typhi and Salmonella Paratyphi A clyA	This work
clyA335-F	CAGCGCAGAAAGACATTCTCATC	Salmonella Typhi and Salmonella Paratyphi A clyA	This work
clyA440-R	GAAGCGTTGTTGAAACTTTGTGAA	Salmonella Typhi and Salmonella Paratyphi A clyA	This work
clyA598-Probe	FAM-ATTGCTGCGGGCGTGATTGAAGGGA-TAMRA	Salmonella Typhi and Salmonella Paratyphi A clyA	This work