Table 1. Top 10 up/down-regulated KEGG pathways in the three progeny lines.
| Up-regulated pathways | Down-regulated pathways | Up-regulated pathways | Down-regulated pathways | Up-regulated pathways | Down-regulated pathways | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| A-vs-L1710 | B-vs-L1710 | A-vs-L1710 | B-vs-L1710 | A-vs-L1817 | B-vs-L1817 | A-vs-L1817 | B-vs-L1817 | A-vs-L1730 | B-vs-L1730 | A-vs-L1730 | B-vs-L1730 | |
| 1 | Biosynthesis of secondary metabolites (509.0) | Metabolic pathways (1,394.3) | Photosynthesis—antenna proteins (-2,221.5) | Photosynthesis—antenna proteins (-809.3) | Biosynthesis of secondary metabolites (1,052.9) | Plant hormone signal transduction (591.3) | Glyoxylate and dicarboxylate metabolism (-769.3) | Histidine metabolism (-1,290.5) | Ribosome (2,216.3) | Ribosome (2,824.4) | Metabolic pathways (-2,502.9) | Biosynthesis of secondary metabolites (-3,920.3) |
| 2 | Phenylpropanoid biosynthesis (464.6) | Biosynthesis of secondary metabolites (1,126.3) | Metabolic pathways (-1,233.0) | Protein processing in endoplasmic reticulum (-706.9) | Plant hormone signal transduction (517.1) | Carotenoid biosynthesis (521.2) | Photosynthesis (-459.4) | Biosynthesis of secondary metabolites (-925.9) | Base excision repair (214.9) | Base excision repair (271.9) | Biosynthesis of secondary metabolites (-1,455.7) | Metabolic pathways (-3,510.3) |
| 3 | Phenylalanine metabolism (416.6) | Glyoxylate and dicarboxylate metabolism (706.9) | Porphyrin and chlorophyll metabolism (-729.7) | Spliceosome (-497.2) | Plant-pathogen interaction (475.2) | Plant-pathogen interaction (398.0) | Carbon fixation in photosynthetic organisms (-136.2) | Protein processing in endoplasmic reticulum (-684.1) | Purine metabolism (174.8) | Oxidative phosphorylation (194.9) | Glyoxylate and dicarboxylate metabolism (-842.8) | Plant hormone signal transduction (-1,657.4) |
| 4 | Plant-pathogen interaction (356.8) | Phenylalanine metabolism (637.1) | Photosynthesis (-486.0) | Ubiquitin mediated proteolysis (-445.9) | Carotenoid biosynthesis (377.5) | Phenylalanine metabolism (300.2) | Propanoate metabolism (-112.4) | Metabolic pathways (-654.4) | Ribosome biogenesis in eukaryotes (163.2) | RNA transport (177.7) | Phenylpropanoid biosynthesis (-570.7) | Histidine metabolism (-1,373.8) |
| 5 | Plant hormone signal transduction (352.6) | Plant hormone signal transduction (503.6) | Carbon fixation in photosynthetic organisms (-330.7) | Tryptophan metabolism (-338.9) | ABC transporters (155.5) | Fatty acid eBation (213.0) | Pentose and glucuronate interconversions (-77.4) | Pyrimidine metabolism (-583.4) | Ubiquitin mediated proteolysis (131.8) | Mismatch repair (159.4) | Plant hormone signal transduction (-498.7) | Phenylpropanoid biosynthesis (-1,301.8) |
| 6 | Cysteine and methionine metabolism (346.2) | Cysteine and methionine metabolism (490.5) | Glyoxylate and dicarboxylate metabolism (-212.9) | Circadian rhythm–plant (-288.9) | Phenylalanine metabolism (150.3) | Diterpenoid biosynthesis (201.6) | Cyanoamino acid metabolism (-51.7) | Purine metabolism (-529.7) | Mismatch repair (124.4) | DNA replication (154.1) | Phenylalanine metabolism (-483.4) | Phenylalanine metabolism (-788.8) |
| 7 | Ribosome (140.0) | Phenylpropanoid biosynthesis (443.8) | Circadian rhythm–plant (-207.9) | Peroxisome (-274.2) | Fatty acid eBation (148.9) | ABC transporters (184.6) | Histidine metabolism (-36.4) | Cyanoamino acid metabolism (-525.8) | DNA replication (122.6) | Ribosome biogenesis in eukaryotes (150.9) | Photosynthesis—antenna proteins (-432.9) | Protein processing in endoplasmic reticulum (-691.1) |
| 8 | Phosphatidylinositol signaling system (109.0) | Plant-pathogen interaction (425.0) | Propanoate metabolism (-106.9) | Cyanoamino acid metabolism (-270.1) | Ribosome (141.8) | Cysteine and methionine metabolism (183.6) | Arginine and proline metabolism (-32.6) | Spliceosome (-453.5) | Nucleotide excision repair (113.4) | Homologous recombination (132.9) | Photosynthesis (-431.3) | Pyrimidine metabolism (-601.0) |
| 9 | alpha-Linolenic acid metabolism (103.3) | Phenylalanine, tyrosine and tryptophan biosynthesis (263.4) | Endocytosis (-34.6) | Endocytosis (-262.3) | Phenylpropanoid biosynthesis (141.5) | Glyoxylate and dicarboxylate metabolism (158.1) | Porphyrin and chlorophyll metabolism (-29.7) | Ubiquitin mediated proteolysis (-400.4) | RNA transport (111.7) | Nucleotide excision repair (125.7) | Endocytosis (-316.3) | Flavonoid biosynthesis (-539.2) |
| 10 | Stilbenoid, diarylheptanoid and gingerol biosynthesis (94.8) |
Diterpenoid biosynthesis (193.8) |
Zeatin biosynthesis (-34.0) | Glucosinolate biosynthesis (-222.8) | Metabolic pathways (141.4) | Ribosome (151.5) | Anthocyanin biosynthesis (-28.8) | Tryptophan metabolism (-314.1) | SNARE interactions in vesicular transport (91.1) | SNARE interactions in vesicular transport (125.0) | Protein processing in endoplasmic reticulum (-299.9) | Circadian rhythm–plant (-509.0) |
The numbers in parentheses represent the RPKM value (up or down) of all genes identified in one pathway of progeny and their parents. Pathways marked with bold font indicate significantly enriched pathways (P ≤0.05). A and B stand for O. sativa and O. longistaminata, respectively.