Fig. 3
From: Cotton pan-genome retrieves the lost sequences and genes during domestication and selection
Pan-genomes of G. hirsutum and G. barbadense species. a Gene number and presence frequency in G. hirsutum pan genes. The pie chart corresponds to the core (present in all accessions), softcore, shell, and cloud genes. The singleton genes in low-depth (< 5) accessions were excluded for further PAV analysis. The variable genes are divided into reference and non-reference genes in Additional file 2: Figure S17. b 1020 G. hirsutum accessions heatmap showed presence and absence of variable PAVs. c Gene number and presence frequency in G. barbadense pan genes. d 177 G. barbadense accessions heatmap showed presence and absence of variable PAVs. e, f Saturation curve modeling the increase of pan-genome size and decrease of core-genome size in 1020 G. hirsutum (e) and 177 G. barbadense (f). The error bar was calculated based on 1000 random combinations with five replicates of cotton genomes. The top and bottom edges in purple and red represent the maximum and minimum gene number. The solid lines represent the number of pan genes and core genes