3.1 Transcriptome summary
A total of 28,696 unique genes had been identified from six cDNA
libraries (M0a, M0b, M0c, M4a, M4b, and M4c) representing P.
vachelli muscles (Table S2 ). The quality control analysis of
the transcriptome is shown in Table S3, including sequencing
quality control overview, trinity assembly results overview,
gene/transcript length overview, and gene function checklist. We found
that 3511 genes were significantly upregulated, whereas 1033 genes were
significantly downregulated in response to hypoxia (P <
0.05 and Fold change > 2).
By performing the KEGG pathway
analyses for 4544 differentially expressed genes (DEG), a total of 22
pathways were identified that showed significant changes after hypoxia
(P < 0.05) (Fig.
2A ).
Among these pathways (Fig. 2A ), the “VEGF signaling pathway”
involved in mediating vasopermeability, angiogenesis, and vascular tone
was first enriched. However, DEG of “African trypanosomiasis”
reflected the biological process of anemia (hemoglobin synthesis,
down-regulated). Afterwards catabolism and anabolism were the two most
represented subclasses. In addition, some important subclasses have also
been significantly enriched, including human immune and inflammation.
Finally, we found that “DCM” and “HCM” represented the impaired
muscle function, which were also significantly enriched (P< 0.05). Interestingly, the numbers of upregulated genes were
generally greater than that of downregulation for biological process of
vessel, catabolism, immune, inflammation, muscle dysfunction, and vice
versa for anemia and anabolism.