Additional file 1 of An integrated QTL and RNA-seq analysis revealed new petal morphology loci in Brassica napus L.
Creators: name: Li, Huaixin
name: Xia, Yutian
name: Chen, Wang
name: Chen, Yanru
name: Cheng, Xin
name: Chao, Hongbo
name: Fan, Shipeng
name: Jia, Haibo
name: Li, Maoteng
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Plant Biology

description: Additional file 1: Fig. S1. The frequency histograms of MPA (A), MPP (B), PAR (C), MPL (D), MPW (E), and PCD (F) in 17WH microenvironment. The frequency histograms of MPA (G), MPP (H), PAR (I), MPL (J), MPW (K), and PCD (L) in 17YL microenvironment. Fig. S2. The frequency histograms of MPA (A), MPP (B), PAR (C), MPL (D), MPW (E), and PCD (F) in 18WH microenvironment. The frequency histograms of MPA (G), MPP (H), PAR (I), MPL (J), MPW (K), and PCD (L) in 18YL microenvironment. Fig. S3. The frequency histograms of MPA (A), MPP (B), PAR (C), MPL (D), MPW (E), and PCD (F) in 19WH microenvironment. The frequency histograms of MPA (G), MPP (H), PAR (I), MPL (J), MPW (K), and PCD (L) in 19YL microenvironment. Fig. S4. All identified QTLs detected in this study controlled MPA, MPP, PAR, MPL, MPW, and PCD in the KN DH population. Fig. S5. The PCD variations of lines with different genetic backgrounds in the ChrA03 (A), ChrA06 (B), ChrA09 (C), ChrC01 (D), and ChrC06 (E) QTL hotspots in all six microenvironments, including 17WH, 17YL, 18WH, 18YL, 19WH, and 19YL. The DH lines that inherited chromosome segments in the specific QTL hotspot from Ken-C8 and N53-2 were annotated “Ken-C8” and “N53-2” in the superscript, respectively. The variant significance was evaluated by the two-tailed one-way ANOVA, and the p-values were annotated above the histograms. Fig. S6. The GO (A) and KEGG (B) enrichment analysis of the 5292 genes within QTL hotspots. Fig. S7. The GO (A) and KEGG (B) enrichment analysis of all genes within the QTL CIs. Fig. S8. A The STM images of the epidermis cell of different petals and parts in the flower stage (annotated in the upper right corner). B The area (left y-axis) and estimated epidermis cell number (right y-axis) of different petals and parts in the flower stage. The significance of area and cell number variations of the entire petal between diverse forms of petals were verified by two-tailed one-way ANOVA, respectively, and the p-values were annotated above the histograms. C The epidermis cell width of MC and ME parts of diverse forms of petals. Fig. S9. The epidermis cell area of the DC and DE (A), MC and ME (B), PC and PE (C) part of diverse forms of petals in the bud and flower stages. As well as the epidermis cell length of the DC and DE (D), MC and ME (E), PC and PE (F) of diverse forms of petals in the bud and flower stages. Fig. S10. A The schematic diagram of the distal (upper red frames), middle (middle red frames), and proximal (lower red frames) parts of petals in the bud stage (right) and the flower stage (left). B The image of the intact booms (bud stage) and flowers (flower stage) of BP (left), SP (middle), and LP (right), and the red bar represents 10 mm. Fig. S11. The dendrogram of all RNA-seq samples based on their gene expression profile. Fig. S12. A The heat map of the expression level of the seven randomly selected genes in RNA-seq result, which was drawn using log10(FPKM). B The heat map of the expression level of the seven randomly selected genes measured by qRT-PCR, which was drawn using log2(-△△t). Fig. S13. The Venn diagram of up-regulated DEGs of BPB−D vs LPB−D, BPB−D vs SPB−D, BPB−M vs LPB−M, BPB−M vs SPB−M, BPB−P vs LPB−P, and BPB−P vs SPB−P (A). The Venn diagram of down-regulated DEGs of BPB−D vs LPB−D, BPB−D vs SPB−D, BPB−M vs LPB−M, BPB−M vs SPB−M, BPB−P vs LPB−P, and BPB−P vs SPB−P(B). The Venn diagram of up-regulated DEGs of BPF−D vs LPF−D, BPF−D vs SPF−D, BPF−M vs LPF−M, BPF−M vs SPF−M, BPF−P vs LPF−P, and BPF−P vs SPF−P (C). The Venn diagram of down-regulated DEGs of BPF−D vs LPF−D, BPF−D vs SPF−D, BPF−M vs LPF−M, BPF−M vs SPF−M, BPF−P vs LPF−P, and BPF−P vs SPF−P (D). Fig. S14. A The Venn diagram of “BP vs LP-up”, “BP vs LP-down”, “BP vs SP-up”, and “BP vs SP-down”. Among them, “BP vs LP-up” represents the common up-regulated DEGs of “BPB−D vs LPB−D”, “BPB−M vs LPB−M”, “BPB−P vs LPB−P”, “BPF−D vs LPF−D”