TABLE 1

Putative QTL associated with hybrid incompatibility traits in NILs between L. esculentum and L. hirsutum

TraitQTLDirection
 of effectMean
 phenotypeAdditive
 effectΔ%No. of NILs
 observed
Pollen no. (PN)pn1.1 71.6−25.6−41.81
pn3.1+168.222.737.01
pn6.1 78.4−22.2−36.11
pn7.1 78.4−24.3−39.61
Proportion of fertile
   pollen (PF)pf1.1  0.56−0.14−33.31
pf2.1  0.49−0.18−41.71
pf4.1  0.58−0.13−31.01
pf6.1  0.45−0.20−46.41
pf7.1  0.59−0.13−29.82
pf7.2  0.51−0.17−39.33
pf9.1  0.58−0.13−31.01
pf10.1  0.49−0.18−41.74
Self-seed set (SSS)sss1.1  9.19−23.2−83.42
sss1.2  6.07−24.7−89.13
sss2.1  6.42−20.6−74.21
sss2.2+ 96.6018.065.01
sss4.1 20.10−17.7−63.81
sss4.2 11.40−22.1−79.54
sss5.1  9.00−23.3−83.81
sss7.1 14.00−20.8−74.82
sss8.1 10.40−22.6−81.31
LE-cross seed set (SSC)ssc2.1+103.0056.8121.861
  • Direction of effect describes an increase (+) or decrease (−) in the mean phenotype at each locus, compared to the LE parent. Mean phenotype is calculated from all NILs (i.e., number of NILs observed) showing the QTL phenotype at each genomic location. Additive effect is calculated as (LH/LH − LE/LE)/2. Δ% describes the percentage phenotypic change from the LE parent.