Additional file 1: Table S1. EvidentialGene tr2aacds pipeline output
summary.
Additional file 2: Table S2. Assembly statistics for EvidentialGene
tr2aacds pipeline merged assembly compared to average statistics for
each assembler.
Additional file 3: Table S3. Predicted species distribution for non-pine
origin sequences removed from the Pinus patula v1.0 transcriptome.
Additional file 4: Figure S1. Molecular function gene ontology
distribution for the Pinus patula v1.0 transcriptome.
Additional file 5: Table S4. Tribe-MCL gene families and annotations
for all 15 species used.
Additional file 6: Table S5. Conditional reciprocal best BLAST
alignment results between full-length Sanger sequenced Pinus taeda
cDNA and representative Pinus patula transcripts for each cDNA.
Additional file 7: Figure S2. Summary statistics for alignment of Pinus
taeda complete CDS sequences to assembled Pinus patula transcripts.
Pita = P. taeda. The x-axis represents the query P. taeda cDNA sequence.
The solid y-axis (left) illustrates: cDNA query sequence length (pink circle),
P. patula subject sequence length (blue square), conditional reciprocal
best BLAST alignment length (gold triangle). The dashed y-axis (right)
depicts the: percentage identity between sequences (black line),
percentage coverage of the P. taeda cDNA by the corresponding P.
patula transcript (green cross) and vice versa (purple plus).
Additional file 8: Table S6. EBSeq differential expression analysis
results comparing expression between inoculated and mock-inoculated
data.
Additional file 9: Table S7. Summarized list of differentially expressed
genes between inoculated and mock-inoculated data with annotations.