Fig. 5: Functional variation of AhFAD2C. | Nature Communications

Fig. 5: Functional variation of AhFAD2C.

From: Population-specific pangenome unveils a third FAD2 gene and solves the peanut mid-oleic fatty acid mystery

Fig. 5: Functional variation of AhFAD2C.

a Oleic acid phenotypes for the years 2021 and 2022 compared to high-throughput marker genotyping for AhFAD2A and AhFAD2B loci. The double mutant AhFAD2A and AhFAD2B calls for high-oleic (>75%) lines are not consistent in the peanut MAGIC Core lines. Additionally, mutant AhFAD2A and wildtype AhFAD2B do not result in consistent oleic content between the founders TR (low-oleic) and WS16 (mid-oleic). The AhFAD2C C:ATTA haplotype was indicated as Mutant whereas C:A, T:ATTA, T:A were marked as wildtype 1–3, respectively. b Pangenomic visualization of AhFAD2C highlighting promoter region variation and haplotypes across the founder lines using Sequence Tube Map (Copyright (c) 2018 Wolfgang Beyer, licensed under the MIT License; https://github.com/vgteam/sequenceTubeMap; no changes were made). c AhFAD2C MAGIC Core haplotypes compared to average oleic acid concentration. Individual phenotypes are represented as orange points. The AhFAD2C haplotype that all high-oleic founders possess is represented by a green bar. Error bars represent the standard error of the mean. Statistical significance was calculated using a two-sided Student’s t-test.’***’ represents a P value of 1.3 × 10−03 and ‘****’ represents a P value of 4.6 × 10−05. ‘ns’ represents no statistical significance, n = 310. Gray dashed lines represent 55% and 75% thresholds for mid and high-oleic phenotypes, respectively. d Long read RNA data of developing seed tissue. Transcript counts were normalized based on total transcripts per line. The three wildtype AhFAD2C variants (C20, NC, and TR) are represented as a blue boxplot and three mutant haplotypes for AhFAD2C (13M, TNV, and WS16) are represented as a green boxplot. Statistical significance was calculated using a two-sided Student’s t-test. ‘**’ represents a P value of 3.2 × 10−02, n = 6. For each box plot in (d, e), the center line represents the median, the box bounds represent the interquartile range (IQR; 25th to 75th percentile), and the whiskers extend to the most extreme data point within that range. Source data are provided as a Source Data file.

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