S.No RGA Clone name CBC Insert size (bp) NCBI BLAST best hit Score E value Accession No. Details of hit 1 CBC9 504 918 0.0 AJ298884.1 Disease resistance like protein Coffea arabica 2 CBC10 523 936 0.0 AJ298884.1 Disease resistance like protein Coffea arabica 3 CBC11 522 287 2e-82 CAC82597.1 Disease resistance like protein Coffea arabica 4 CBC12 521 289 5e-83 CAC82597.1 Disease resistance like protein Coffea arabica 5 CBC13 521 286 2e-82 CAC82597.1 Disease resistance like protein Coffea arabica 6 CBC14 517 284 2e-85 CAC82597.1 Disease resistance like protein Coffea arabica 7 CBC15 522 289 4e-83 CAC82597.1 Disease resistance like protein Coffea arabica 8 CBC16 522 287 2e-82 CAC82597.1 Disease resistance like protein Coffea arabica 9 CBC17 522 287 2e-82 CAC82597.1 Disease resistance like protein Coffea arabica 10 CBC18 511 289 3e-83 CAC82597.1 Disease resistance like protein Coffea arabica 11 CBC19 522 289 5e-83 CAC82597.1 Disease resistance like protein Coffea arabica 12 CBC133 330 41 3.6 AB191232.1 Cucumis meto MRGA-3 gene for NBS-LRR type resistance protein 13 CBC134 330 41 3.6 AB191232.1 Cucumis meto MRGA-3 gene for NBS-LRR type resistance protein 14 CBC135 362 42.8 1.1 AY739270.1 Musa acuminate NBS-LRR resistance protein-like mRNA, partial cds 15 CBC136 330 41.0 3.6 AB191232.1 Cucumis melo mRNA-3 gene for NBS-LRR type resistance protein 16 CBC137 410 53.6 6e-04 CP000113.1 Myxococcus xanthus DK 1622, complete genome 17 CBC138 243 - - - No hit 18 CBC158 513 789 0.0 AY606826.1 Coffea canephora disease resistance like protein 19 CBC 159 306 - - - No hit 20 CBC160 523 929 0.0 AJ298884.1 Disease resistance like protein Coffea arabica 21 CBC161 95 - - - No hit 22 CBC162 5 - - - No hit 23 CBC163 427 87.7 3e-16 SGN-U353589 C.canephora 24 CBC164 427 180 7e-42 AY102435.1 C.arabica microsatellite 25 CBC165 526 926 0.0 AJ298884.1 Disease resistance like protein Coffea arabica 26 CBC166 248 455 5e-125 AJ298885.1 Disease resistance like protein Coffea arabica 27 CBC167 590 77.8 3e-13 SGN-U353389 C.canephora 28 CBC168 263 427 1e-116 AY606825.1 Disease resistance like protein Coffea arabica 29 CBC169 425 710 0.0 AY606825.1 Disease resistance like protein Coffea arabica 30 CBC170 384 71.9 1e-11 SGN-U353192 C.canephora 31 CBC171 389 105 1e-21 SGN-U353589 C.canephora 32 CBC172 93 102 2e-19 AJ298884.1 Disease resistance like protein Coffea arabica

Total RGAs isolated from cDNA using Ploop-Cof and GLPL-Cof and sequenced = 32 (CBC 9 to 19. CBC 133 to 138, CBC 158 to 172) Number of clones sequence matches with disease resistance-like protein = 18 (CBC 9 to 19, CBC 158, 160, 165, 166, 168, 169 and 172) Matched with RGA but not from coffee = 4 (CBC 133,134,135,136) Matched with coffee but not RGA = 5 (CBC 163, 164, 167, 170,171) Matched with other species =1 (CBC 137) Not matched or no sequence = 4 (CBC 138, 159, 161,162)

Table 5: Details of NCBI BLASTN sequence results of RGAs isolated from cDNA using non-degenerate primer.