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Table 3 Functional enrichment of differentially expressed transcripts among three samples

From: Comparative transcriptome analysis to investigate the high starch accumulation of duckweed (Landoltia punctata) under nutrient starvation

Sub-ontology GO terms Reference 0 vs 2 pval p.adj
Biology process primary metabolic process 11,575 445 0.00011 0.00399
  interspecies interaction between organisms 77 10 0.00022 0.00784
cellular component intracellular part 12,026 524 5.66E-05 0.00125
  membrane-bounded organelle 9,551 432 0.00017 0.00363
  intracellular organelle 10,868 473 0.00051 0.01122
molecular function transferase activity 5,774 298 1.91E-09 2.87E-08
Sub-ontology GO terms Reference 0 vs 24 pval p.adj
Biology process primary metabolic process 11,575 994 1.71E-09 6.15E-08
  cellular metabolic process 8,913 753 0.00046 0.01653
cellular component membrane-bounded organelle 9,551 883 8.48E-07 1.87E-05
  intracellular part 12,026 1,037 3.97E-05 0.00087
  intracellular organelle 10,868 947 0.00016 0.00360
  vesicle 1,648 181 0.00171 0.03755
molecular function transferase activity 5,774 579 1.19E-12 1.79E-11
  hydrolase activity 5,415 490 0.00018 0.0027
  nucleotide binding 5,540 490 0.00092 0.01375
Sub-ontology GO terms Reference 2 vs 24 pval p.adj
Biology process primary metabolic process 11,575 866 4.61E-09 1.66E-07
  cellular metabolic process 8,913 649 0.00136 0.04901
cellular component intracellular part 12,026 889 7.02E-05 0.00154
  intracellular organelle 10,868 805 0.00068 0.01499
molecular function transferase activity 5,774 506 6.51E-12 9.76E-11
  hydrolase activity 5,415 458 6.68E-08 1.00E-06
  1. GO annotation information of differentially expressed transcripts was clustered into three sub-ontologies, including molecular function, biological process, and cellular component [59]. Then hypergeometric test were performed with threshold value of padj ≤0.05 in each sub-ontology to indentify significant enriched GO terms. Reference means the transcripts annotated to the sub-ontology in the whole transcriptome.