A Solanum lycopersicum × Solanum pimpinellifolium Linkage Map of Tomato Displaying Genomic Locations of R-Genes, RGAs, and Candidate Resistance/Defense-Response ESTs

Table 2

Oligonucleotide primers designed based on the conserved amino acid sequences within the LRR, NBS, and Pto protein domains encoded by various R-genes.

Group	Primers	Sequences (5^′-3^′)a	Design basis	References
LRR	CLRR for	TTTTCGTGTTCAACGACG	LRR domain of the tomato Cf-9 gene conferring resistance to Cladosporium fulvum	[30]
	CLRR rev	TAACGTCTATCGACTTCT
	NLRR for	TAGGGCCTCTTGCATCGT	LRR domain of the tobacco N gene conferring resistance to TMV
	NLRR rev	TATAAAAAGTGCCGGACT
	RLRR for	CGCAACCACTAGAGTAAC	LRR domain in the RPS2 gene conferring resistance to Pseudomonas syringae in Arabidopsis
	RLRR rev	ACACTGGTCCATGAGGTT
	XLRR for	CCGTTGGACAGGAAGGAG	LRR domain of the rice Xa21 gene conferring resistance to Xanthomonas campestris pv oryzae
	XLRR rev	CCCATAGACCGGACTGTT
		ANo. 2	TATAGCGGCCGCIARIGCIARIGGIARNCC		Conserved P-loop and hydrophobic NBS regions of the N and RPS2 genes from tobacco and Arabidopsis respectively	[29]
		ANo. 3	ATATGCGGCCGCGGIGGIGTIGGIAARACNAC
	NBS	S1	GGTGGGGTTGGGAAGACAACG		Hydrophobic domain and P-loop of conserved NBSs from the N and RPS2 genes from Arabidopsis and the L6 gene from flax conferring resistance to rust	[18, 31]
	S2	GGIGGIGTIGGIAAIACIAC
	AS1	CAACGCTAGTGGCAATCC
	AS3	IAGIGCIAGIGGIAGICC
	Ptokin1	GCATTGGAACAAGGTGAA	Serine/threonine protein kinase domain of the Pto gene conferring resistance to the bacterial pathogen Pseudomonas syringae pv tomato in tomato	[30]
	Ptokin2	AGGGGGACCACCACGTAG
	Ptokin3	TAGTTCGGACGTTTACAT
PtoKin	Ptokin4	AGTGTCTTGTAGGGTATC
	RLK for	GAYGTNAARCCIGARAA	Serine/threonine kinase sequence subdomains of the wheat Lr10 gene conferring resistance to Puccinia recondita	[20]
	RLK rev	TCYGGYGCRATRTANCCNGGITGICC

aCode for mixed bases: D  =  A/G/T; I  =  Inosine; N  =  A/G/C/T; R  =  A/G; Y  =  C/T.