Fig. 6
From: A genome variation map provides insights into the genetics of walnut adaptation and agronomic traits
Candidate causative genes and variants for C18:1 and C18:2. a Manhattan plots of GWAS for C18:1 and C18:2. The genome-wide significant value threshold (1.16E−6) is indicated by a horizontal dash–dot line. One gene (JreChr13G11197) homologous to FAD2 of A. thaliana resides in the GWAS peak region. b A zoomed-in plot for the GWAS peak of C18:2. One significantly associated nonsynonymous SNP (P value 5.17E−7) of FAD2 is highlighted. c Expression level of three FAD2 homologs. The JreChr13G11197 with significantly associated nonsynonymous SNP has the highest expression level in the embryo compared to other tissues. d Expression levels of JreChr13G11197 (JrFAD2) at different days after pollination (DAP). Three replicates for each time point. e Conservation level of the candidate causal SNP associated with C18:1 and C18:2 content. Top: locations of SNPs in the CDS region of JreChr13G11197; bottom: P values and conservation scores for different SNPs. The conversation score is measured based on the SIFT score (with lower values indicating higher conservation). f Differences in C18:1 and C18:2 contents with different alleles of the nonsynonymous SNP (13_27108275). *P < 0.05, **P < 0.01, Student’s t test