K344_VW-inoculated
Leaf samples from the samples inoculated with V. dahliae, selected on the basis of their performance against the pathogen in the field and GWAS experiments, were collected after stable and noticeable disease symptoms were observed approximately 12 days after inoculation, in order to analyze gene expression via genome-wide RNA-seq. Every treatment comprised of three biological replicates. RNAprep Pure Plant Plus Kit was used to extract total plant RNA (TIANGEN Biotech Co., Beijing, China). RNA integrity and degradation detection was determined with RNAse free agarose gel electrophoresis and the purity and concentration was measured with Agilent Bioanalyzer 2100 (Agilent Technologies, CA, USA). cDNA sequencing libraires were constructed using a total of 1 g of RNA per sample. Sequencing, raw data cleaning, pre-processing and mapping reads to the reference genome was carried out with Illumina HiSeq 2500 platform (Illumina Inc, San Diego, CA, USA), and conducted by  Biomarker Technologies (Beijing, China).