“…The evolution of stress-related genes is a crucial part of the adaptation process. Notably, we observed that selection sweeps (harboring stress-related genes) overlapped with each other in the different comparisons, suggesting that a subset of genomic regions were selected during domestication and may have undergone successive selections, such as genes encoding hypersensitivity-related protein (HSR) (Lacomme and Roby, 1999), cellulose synthase (CeS) (Burn et al, 2002), plant disease resistance proteins (Martin et al, 2003), ABC transporters (ABCTs) (Martinoia et al, 2002), cytochrome P450 (CYP450) (Field and Osbourn, 2008), callose synthase (CaS) (Shi et al, 2016), CBL-interacting protein kinase (CIPK) (Singh et al, 2020), and a-farnesene synthase (AFS) (Jin et al, 2020;Wang et al, 2019) (Table S28). In addition, for the transcription factors involved in the development processes, disease resistance, and hormone-related functions (e.g., indole-3butyric acid, abscisic acid, and ethylene), the nucleotide diversities of the F and NE groups were significantly higher (Figure S18a; Table S28).…”