What changes in tomato gene expression or RNA sequences is observed when sequencing at 3X depth (80 reads depth for each nucleotide) and aligned to the diploid potato reference transcriptome?
Data suggests that the Meristem RNA sequences and Leaf RNA sequences are mostly highly variable for lowly expressed RNA sequences (or reads).
Since Potatoes (Solanum tuberosum) are in the same family as tomatoes ((Solanum lycopersicum) but a distant relative, how would the RNA sequences align to this distant relative?
Comparing to the class data on tomato sequences aligned to tomato reference transcriptome (sites.google.com/ncsu.edu/bit-495595-cpt/home) and the tomato sequences aligned to potato reference the data shows a similar pattern with Meristem RNA similar to each other and Leaf RNA similar to each other and low abundant reads that are differentially expressed.