TABLE 2.

Primers and probes selected for the analysis of Salmonella spp.

Gene	Name	Sequence 5′-3′	Amplicon sequence	Amplicon size (pb)	References
invA	invA_176F	CAACGTTTCCTGCGGTACTGT	CAACGTTTCCTGCGGTACTGTTAATTAC	119	González-Escalona et al., 2012
	invA_291R	CCCGAACGTGGCGATAATT	CACGCTCTTTCGTCTGGCATTATCG
	invA_Tx_208 TXa-	FAM-CTCTTTCGTCTGGCATTATC GATCAGTACCA-BHQ1	ATCAGTACCAGTCGTCTTATCTT GATTGAAGCCGATGCCGGTGAAAT TATCGCCACGTTCGGGCAA
ttr	ttr6F4287 – Directo	CTCACCAGGAGATTACAACATGG	CTCACCAGGAGATTACAACATGG	95	Rothrock et al., 2013;
	ttr4R4381 – Reverso	AGCTCAGACCAAAAGTGACCATC	CTAATTTAACCCGTCGTCAGTGGCTA		Ssemanda et al., 2018;
	ttr5p4336 – Sonda	CFO-CACCGACGGCGAGACCG ACTTT-BHQ1	AAAGTCGGTCTCGCCGTCGGTG GGATGGTCACTTTTGGTCTGAGCT		Boer et al., 2019
siiA	siiA Fw	ACGACTGGGATATGAACGGGGAA	ACGACTGGGATATGAACGGGGAATT	107	Ben Hassena et al., 2015
	siiA Rv	TCGTTGTACTTGATGCTGCGGAG	ATTTTAATGAAAGAGATTAAG
	siiaA Tr	FAM-ATCCTGATGTAGTTATTGAC ATGAG-BHQ1*	AAGATATATCCTGATGTA GTTATTGACATGAGTGTTAACT CCGCAGCATCAAGTACAACGA
hilA	hilA F	ACTGTACGGACAGGGCTAT*	ACTGTACGGACAGGGCTATCGGTT	129	McCabe et al., 2011;
	hilA R	AGA CTC TCG GAT TGA ACC TGA-3′	TAATCGTCCGGTCGTAGTGGTGT		Wang et al., 2016
	hilA Lc640	HEX-TCGTCCGGTCGTAGTGGTG TCTCC-BHQ1	CTCCGCCAGCGCCGCAACCTACGACT CATACATTGGCGATACTTCCTTTTCAGAT GCAGGATCAGGTTCAATCCGAGAGTCT
spaQ	spaQ Fw	CCTGACGCCCGTAAGAGA	CCTGACGCCCGTAAGAGAGTAAAACTTA	113	Kurowski et al., 2002;
	spaQ Rv	GCAATTACAGGAACAGACGCT	CGCCATACCAGCCAGACAGTAAA		Ekiri et al., 2016
	spaQ P	FAM-TAAAACTTCGCCATACCAGC CAGACA-BHQ1	ACAAGCATAAACACACGCCA AGTAATTTAATGCCAAAAGG CAGCGTCTGTTCCTGTAATTGC

FAM: 6-Carboxyfluorescein, HEX: Hexachlorofluorescein, CFO: Cal Fluor Orange 560, equivalent to HEX dye. BHQ1: Black Hole Quencher 1. *Modified in this study from references.