Table 1.
Summary of C. arabica de novo transcriptome assembly.
Table 2.
Similarity analysis of coffee and plant database sequences.
Table 3.
A summary of up- and down-regulated DGEs among coffee libraries*.
Fig 1.
Venn diagrams showing unigenes up- (a) and down-regulated (b) among perisperm development stages (60, 90, 120 and 150 DAF) compared with perisperm at 30 DAF.
A total of 3,130 unigenes classified as down-regulated (a) and 3,412 unigenes classified as up-regulated (b) were used in this analysis.
Table 4.
Transcriptionally active transposable elements in C. arabica transcriptome.
Table 5.
Raffinose family oligosaccharide candidate genes.
Fig 2.
GO term categorization analysis performed by Blast2GO tools for RFO biosynthetic genes.
GO categories annotated for RFOs candidate genes are indicated in blue; the global dataset, used as a reference, is indicated in red. GO categorization analyses were performed using the Blast2GO software with the default parameters.
Fig 3.
DGE comparison of raffinose biosynthesis-related genes in leaves and perisperm between C. arabica and C. canephora.
RPKM values are represented in Log10 scale. Leaves noted in green, and perisperm in red. Ca = C. arabica. Cc = C. canephora. C. canephora RPKM values were obtained from the Coffee Genome Hub database [50].
Fig 4.
qRT-PCR analysis of selected RFO-related genes.
Leaves are represented in green and perisperm in yellow (90 DAF), red (120 DAF) and blue (120 DAF). Relative expression values are represented in Log10 scale. Calibrator tissue is always the minimal gene expression value. Lower-case letters, from a to d, represent statistically significant differences for each RFO gene among coffee tissues (leaves and perisperm from 90 to 150 DAF).