Fig. 3: Identification of the causal gene GhNCS related to VW resistance on chromosome Dt11.

a, Manhattan plot. Dashed line represents the significance threshold (−log₁₀(P) = 5.44). We performed statistical analysis with a two-tailed Wald test. b, Quantile-quantile plot. c, Boxplot for DI on the basis of structural variation (D11: 69329075). In the box plots, the center line denotes the median, box limits are the upper and lower quartiles and whiskers mark the range of the data; n indicates the number of accessions with the same genotype. The difference significance was analyzed by two-tailed t-test. d, Expression level of GhNCS in resistant variety ND601 inoculated with Vd LX2-1. e, qRT–PCR analysis of GhNCS in eight resistant and eight susceptible varieties under Vd stress. Ghhistone3b was used as an internal control. The data were analyzed from the total of 16 varieties and expressed as the mean from two experiments. The difference significance was analyzed by two-tailed t-test. f, Silencing of GhNCS in tolerant variety NDM8 and susceptible variety CCRI8 led to obviously increased resistance compared with the mock. Scale bar, 5 cm. g, For each independent virus-induced gene silencing experiment, 35 cotton seedlings with higher silent efficiency were used for VW disease resistance detection. h, GhNCS overexpressed in Arabidopsis made transgenic plants highly susceptible compared with the wild type. Scale bar, 5 cm.