Genome-wide association and transcriptome studies of SlARP. (IMAGE)
Caption
Genome-wide association and transcriptome studies of SlARP. (A) Manhattan plot displaying the genome-wide association signals for CAR (upper), Chl(a + b) (middle), and Chlb (lower) in the tomato genome. The y-axis indicates–log10- transformed observed P-values. The horizontal dashed lines indicate a genome-wide suggestive threshold (3.91 × 10−6). The arrow indicates the most significant signal (L20) on chromosome 2. (B) The genome-wide association signal for L20 is shown in the 42.63–42.73 Mb region (x-axis) of chromosome 2. The lead SNP is indicated in square shapes, and the color of each plot corresponds to the R2 value (a measure of LD) according to the legend. (C) Representation of the pairwise R2 values (a measure of LD) among all polymorphic sites in the 99.53-kb genomic region. (D) Gene structure of SlARP (Solyc02g077880); the yellow box, blue lines, and black lines represent the CDS, promoter and 3′-UTR, and introns, respectively, with the start codon (ATG) and stop codon (TGA) also indicated in the figure. The position of the lead SNP relative to the candidate is indicated. (E) Natural variation in the SlARP sequence in 427 diverse tomato accessions. (F–H) Effects of SlRAP sequence variation on (F) CAR content, (G) Chl(a + b) content and (H) Chlb content in the tomato population. (I) Expression of SlRAP in above-ground tissues and below-ground tissues under CK, LN, LP, and LK conditions.
Credit
Horticulture Research
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