Table 2 Tomato markers tested for cryptic introgression

Introgression from crop improvement

220_1

Solyc09g014280, hydroxycinnamoyl transferase

ch09, 5.77

TA496

TA496 intermediate between LA1537 and S. pennelli

Major disease resistance genes on ch09 include:

Ve2, 0.05 MB, (11.002 cM^b), from Peru Wild

2486_1

Solyc09g014350, glycerol-3-phosphate acyltransferase 6

ch09, 5.90

TA496

low bootstrap values overall except {TA496, LA1537}

Ve1, 0.06 MB, (11.002 cM), from Peru Wild

2534_1b

Solyc09g018790, succinic semialdehyde reductase isofom1

ch09, 17.00

TA496

TA496 clustered with two S. peruvianum accessions

Cm9.1, (4.0 – 24.0 cM), from S. peruvianum

Frl, (27.0 – 37.0 cM), from S. peruvianum

437_2

Solyc09g061440, uncharacterized protein

ch09, 54.71

TA496

TA496 intermediate between {S. peruvianum, S. arcanum, Peru Wild, S. pimpinellifolium, Tomate} and {S. pennellii, S. habrochaites}

Tm2^a, 13.62 MB, (32.002 cM), from S. peruvianum

Sw-5, 67.30 MB, (78.001 cM), from S. peruvianum

Ph-3, 66.71 – 66.78 MB, (63.0 – 78.0 cM), from S. pimpinellifolium

Introgression from natural hybridization with S. pimpinellifolium

2325_3^c

Solyc01g073640, alcohol dehydrogenase-3

ch01, 70.26

TA496

red-fruited clade was supported

PI 258478 was collected from Peru in 1959, highly variable, fasciated fruit.

PI 258478

C2_At1g44575

Solyc06g060340, chloroplast photosystem II-associated protein

ch06, 34.71

PI 258478

red-fruited clade was supported

Introgressions on ch06 include:

Cyc-B, 42.29 MB, (106 cM), from S. habrochaites

2819_5^c

Solyc06g082670, ribosomal protein L10

ch06, 44.70

PI 258478

red-fruited clade was split into {Peru Wild-1, Tomate, TA496} and {Peru Wild-2, S. pimpinellifolium, PI 258478}

U146140

Solyc06g083360, DNA-directed RNA polymerase II subunit

ch06, 45.08

PI 109834

red-fruited clade was split into {PI 109834, S. pimpinellifolium} and {TA496, Peru Wild, Tomate}

PI 109834 Merville des Marchés was collected from France in 1935.

C2_At1g73180

Solyc08g014060, eukaryotic translation initiation factor 3 subunit 9-like protein

ch08, 3.57

PI 129026

{PI 196297, PI 390510} were divergent from other members of red-fruited clade

PI 196297 was collected in Nicaragua in 1951, fasciated fruit, reported as introgressed by Rick [23]; carries same allele as PI 129026 (from Ecuador, 1938, fasciated fruit), PI 129128 (from Panama, 1938, fasciated fruit), PI 258474 (from Ecuador, 1959, fasciated fruit). PI 390510 was collected in Ecuador in 1974, described as a wild cherry tomato.

PI 129128

PI 196297

PI 258474

PI 390510