Development of Clustered Resistance Gene Analogs-Based Markers of Resistance to Phytophthora capsici in Chili Pepper

Table 2

Comparison of SNPs between P. capsici-resistant and P. capsici-susceptible germplasms.

Marker	‘CM334’ allele^‡	‘Daepoongcho’ allele^§	Flanking sequence
CaNB-5390	T	C	AAGCCGGGTCTTATAAACTTCCATAGTGGTTTCCAACATGG­CATAATACATAAAAATGCCCTT(T/C)AACTCGTCCTCAA­ATCACACCTACGACCCCTAACTTTGGATGTTCACAAG
CaNB-5410	G, G	T, A	TAGAATCCATCAACCGTACGTAGAT(G/T)CTAAGTTTTT(G/A)T­TTTTTTATGAAGAAGAAAAAAGTCACAGTTCTAGTCAAG­ATGCCACCTAACTCAAT
CaNB-5440	G, C	A, T	GTTCGACGAGGCTCTACTTTGAGAAGTTCAGCTA(G/A)CAATC­TTTCTACAA(C/T)ATCCAGTAAGCTGGGAGGTAGTCCTCCT­CATTGTTAATCCTGGCAGACTGA
CaNB-5480	T, T, G	C, C, A	TCGAAATCAATACTCCTCCTTCCCTAGGGGGTCAGTTGACAGGTAA­TTAAATTCCCAACCTCCAA(T/C)ACATTTTTCAGT­CAAAGGGTAAAGGGTGGGACTTTTTTTAC(T/C)GCGT­AAGGTAAATTAGTCTCCCCGCCTTAC(G/A)CTTTATCATTA­GCTAATGTCATTAACCTTTTAAGAACAACGCGTGAG
CaNB-5500	T	G	TCATTTATGCGTGCAGTATCGTACTCTCATGCAAGACTTATATC­AGTGAAC(T/G)TATGCATTGAAGCATAACTTGTACCACTTAT­AAACTTATGTCCTGGAGCAGAATGTGTGTCATTGAGGGGTATATTT
CaNB-5720	A	G	GGAAGTCCATTTTATCTATCCTCAGAA(A/G)TGAGTACACTATTGAA­ATCCCCCAAAATCAT
CaRP-5130	A	G	GACACATTTTGCAGATTCATCAACTAA(A/G)TTGCTGTTTCTTTTT­ACCTTTTTGGGTG
CaNB-5330	C, G	T, A	AAGAAAGCCGTCACCTTCATAGATGATGGGTTGTCGATGGG­C(C/T)CCCTCACTACATAAGTCCACATTGGTAC(G/A)TTAAT­GGGGATTTGAGCGTAATCCTTGCAAATTAGC
CaRK-5470	G	A	TTTCAATATCCAAAGAACACAACA(G/A)TTAATATTCTTTTCTTTTCTTT­CACTATCACATTGGGTTCA
CaNB-5530	C	T	GCTCCGTGTTCATCTATGTTAAACAAGATTTCTTGCAA(C/T)ATGTCATGA­TGCTGATGGATCCTTCTGTT
CaNB-5170	A	C	TATCTCCTACATCCCACTGACAACAGTTAGCTTTATATTGTCAACTTTA­TCTATC(A/C)AGACTCTGTTTTTCAGTCACTTTATT­GTCCATTAATGCACCACCCATGACAAG

^‡P. capsici-resistant germplasm C. annuum ‘CM334’; ^§P. capsici-susceptible germplasm C. annuum ‘Daepoongcho’; (CM334 allele/Daepoongcho allele).