Potato Genome Project 1 Structural Genomics Generation of

Potato Genome Project 1. Structural Genomics Generation of a comprehensive genomic resource of Solanaceae resistance (R) gene sequences of wild potato, tomato and pepper genomes (the SOLAR database) 2. Functional Genomics Generation of a comprehensive functional genomic resource composed of expression profiles of significant points in growth, development and response to abiotic and biotic stresses, and a set of functionally defined genes identified through virus-induced gene silencing to be involved in host response to pathogens 3. Outreach A training program for high school and college students to teach applications of bioinformatics and data mining for marker development for potato breeding for crop improvement

Synteny between Solanaceae Genomes 1 2 3 4 5 6 7 8 9 10 11 12 The Solanaceae share highly conserved genomes Potato Þ Chromosome number and organization Þ Genome sequence 1 2 3 4 5 6 7 8 9 10 11 12 Pepper Þ Sequence and function of gene location and resistance hotspot location 1 2 3 4 5 6 7 8 9 10 11 12 Tomato Resistance hotspots

Chromosome 5 Resistance Region Tomato Potato GP 21 GP 179 R 1, phyt 3, Pi 1, Nb, Rx 2, Gpa, Grp GP 21 Bs 4

S. demissum is an allo-hexaploid Chromosome #5 5 A R 1, phyt 3, Pi 1, Nb, Rx 2, Gpa, Grp 5 B 5 C

S. demissum Chromosome 5 Resistance Region 8~12 BACs per genome ~0. 5 Mb per genome GP 179 R 1 SPUD 237 GP 179 132 D 05 S GP 21 Haplotype Sd_Bs 4 R 1, phyt 3, Pi 1, Nb, Rx 2, Gpa, Grp GP 179 GP 21 132 D 05 Chromosome #5 R 1 Sd_Prf A Sd_Prf B Sd_Bs 4 C Sd_Prf

S. demissum Chromosome 11 Resistance Region Potato Pepper RMcl, Ry, Na, Sen 1, R 3 a, R 3 b, R 5, R 6, R 7, R 8, R 9, R 10, phyt 7 Tomato phyt 3 I I 2 L, cmv 1, phyt 3

S. demissum is hexaploid Chromosome #11 11 A RMcl, Ry, Na, Sen 1, N R 3 a, R 3 b, R 5, R 6, R 7, R 8, R 9, R 10, phyt 7 11 B 11 C

S. demissum Chromosome 11 Resistance Region Haplotype A B 56 F 6 R 193 I 9 R Chromosome #11 39 E 18 F RMcl, Ry, Na, Sen 1,

S. demissum Chromosome 11 Resistance Region Haplotype A B C 373 T 381 T TG 105 381 T 11~16 BACs 1. 5 Mb 373 T 381 T Chromosome #11 51 S R 3 a, R 3 b, R 5, R 6, R 7, R 8, R 9, R 10, phyt 7

S. demissum Chromosome 11 Resistance Region R 3 a, R 3 b, R 5, R 6, R 7, R 8, R 9, R 10, phyt 7 Haplotype A B C 51 S 51 S 373 T GP 185 373 T 12~16 BACs ~1. 5 Mb 373 T 381 T Chromosome #11

Distance tree for all I 2/R 3 homologues from the MLB locus 6 5 1 0 10 10 0 4 100 100 3 0. 1 substitution/site 2 GP 185 region GP 250 region