RLM-RACE analysis
The 5’ RACE procedures were performed using a GeneRacerTM Kit (Invitrogen, https://www.lifetechnologies.com). Five micrograms of total RNA from an equal mixture of G. hirsutum V991-inoculated samples and G. barbadense V991-inoculated samples were ligated to an RNA adapter and reverse-transcribed into cDNA using the GeneRacer Oligo-dT primer. The 5’ adaptor primers and 3’ gene-specific primers (Table S2) were used to amplify cDNA ends according to the manufacturer’s instructions.