Table 3.
Gene ontology for the liver fluke transcripts in different classifications using blast2GO
| Gene ontology category | Description | Transcript classification | |||||
|---|---|---|---|---|---|---|---|
| CSR subgroup | PDR subgroup | PSR subgroup | VR group | VIR set | WT | ||
| Biological process (GO:0008150) | Biological adhesion (GO:0022610) | - | 5 (1) | - | 5 (0.65) | - | 109 (0.55) |
| Biological regulation (GO:0065007) | 23 (18.25) | 37 (7.39) | - | 67 (8.71) | 27 (16.36) | 1272 (6.43) | |
| Cell killing (GO:0001906) | - | 4 (0.8) | 20 (6.43) | 4 (0.52) | 4 (2.42) | 4 (0.02) | |
| Cellular component organization or biogenesis (GO:0071840) | - | 20 (3.99) | 14 (4.5) | 28 (3.64) | - | 608 (3.07) | |
| Cellular process (GO:0009987) | 24 (19.05) | 141 (28.14) | 101 (32.48) | 215 (27.96) | 24 (14.55) | 6191 (31.27) | |
| Developmental process (GO:0032502) | 2 (1.59) | 3 (0.6) | 1 (0.32) | 5 (0.65) | 2 (1.21) | 73 (0.37) | |
| Immune system process (GO:0002376) | 2 (1.59) | 13 (2.59) | - | 15 (1.95) | 15 (9.09) | 30 (0.15) | |
| Localization (GO:0051179) | - | 22 (4.39) | 18 (5.79) | 32 (4.16) | - | 1289 (6.51) | |
| Locomotion (GO:0040011) | - | - | - | - | - | 31 (0.16) | |
| Metabolic process (GO:0008152) | 8 (6.35) | 131 (26.15) | 81 (26.05) | 176 (22.89) | 9 (5.45) | 5282 (26.68) | |
| Multicellular organismal process (GO:0032501) | - | 1 (0.2) | 3 (0.96) | 3 (0.39) | - | 43 (0.22) | |
| Multi-organism process (GO:0051704) | - | 5 (1) | - | 4 (0.52) | - | 7 (0.04) | |
| Reproduction (GO:0000003) | - | 3 (0.6) | 1 (0.32) | 2 (0.26) | - | 4 (0.02) | |
| Response to stimulus (GO:0050896) | 23 (18.25) | 31 (6.19) | 13 (4.18) | 57 (7.41) | 36 (21.82) | 1011 (5.11) | |
| Signaling (GO:0023052) | 21 (16.67) | 14 (2.79) | 11 (3.54) | 38 (4.94) | 21 (12.73) | 751 (3.79) | |
| Single-organism process (GO:0044699) | 23 (18.25) | 71 (14.17) | 48 (15.43) | 118 (15.34) | 27 (16.36) | 3091 (15.61) | |
| Molecular function (GO:0003674) | Antioxidant activity (GO:0016209) | - | 3 (0.68) | 3 (1.17) | 3 (0.5) | - | 30 (0.2) |
| Binding (GO:0005488) | 27 (48.21) | 264 (59.86) | 129 (50.39) | 341 (56.93) | 35 (53.85) | 7815 (51.94) | |
| Catalytic activity (GO:0003824) | 12 (21.43) | 127 (28.8) | 89 (34.77) | 176 (29.38) | 13 (20) | 5296 (35.2) | |
| Electron carrier activity (GO:0009055) | - | - | 1 (0.39) | 1 (0.17) | - | 39 (0.26) | |
| Enzyme regulator activity (GO:0030234) | 12 (2.72) | 3 (1.17) | 13 (2.17) | - | 300 (1.99) | ||
| Metallochaperone activity (GO:0016530) | - | - | - | - | - | 4 (0.03) | |
| Molecular transducer activity (GO:0060089) | 13 (23.21) | 2 (0.45) | 3 (1.17) | 15 (2.5) | 13 (20) | 143 (0.95) | |
| Nucleic acid binding transcription factor activity (GO:0001071) | 7 (1.59) | 4 (1.56) | 7 (1.17) | - | 120 (0.8) | ||
| Protein binding transcription factor activity (GO:0000988) | - | - | 1 (0.39) | 1 (0.17) | - | 44 (0.29) | |
| Receptor activity (GO:0004872) | 4 (7.14) | 1 (0.23) | 1 (0.39) | 5 (0.83) | 4 (6.15) | 92 (0.61) | |
| Structural molecule activity (GO:0005198) | - | 21 (4.76) | 12 (4.69) | 25 (4.17) | - | 521 (3.46) | |
| Transporter activity (GO:0005215) | - | 4 (0.91) | 10 (3.91) | 12 (2) | - | 643 (4.27) | |
| Cellular component (GO:0005575) | Cell (GO:0005623) | - | 92 (35.52) | 58 (36.02) | 119 (34.2) | 6 (14.63) | 3056 (34.02) |
| Cell junction (GO:0030054) | - | - | - | - | - | 30 (0.33) | |
| Extracellular matrix (GO:0031012) | 1 (0.39) | 1 (0.62) | 1 (0.29) | - | 28 (0.31) | ||
| Extracellular region (GO:0005576) | 1 (6.25) | 5 (1.93) | 2 (1.24) | 6 (1.72) | 1 (2.44) | 48 (0.53) | |
| Macromolecular complex (GO:0032991) | - | 50 (19.31) | 32 (19.88) | 64 (18.39) | 6 (14.63) | 1866 (20.77) | |
| Membrane (GO:0016020) | 15 (93.75) | 45 (17.37) | 21 (13.04) | 70 (20.11) | 28 (68.29) | 1693 (18.85) | |
| Membrane-enclosed lumen (GO:0031974) | - | 1 (0.39) | 3 (1.86) | 3 (0.86) | - | 142 (1.58) | |
| Organelle (GO:0043226) | - | 60 (23.17) | 44 (27.33) | 80 (22.99) | - | 2099 (23.37) | |
| Synapse (GO:0045202) | - | 1 (0.39) | - | 1 (0.29) | - | 14 (0.16) | |
| Virion (GO:0019012) | - | 4 (1.54) | - | 4 (1.15) | - | 6 (0.07) | |
Gene ontology categories (parental 2) for the whole transcriptome (WT) and VR group with its subgroups (CSR, PDR, PSR) and VIR set are shown. The relative transcript abundances of response to stimulus (GO:0050896; 21.82%) and immune system process (GO:0002376; 9.09%) were predominant in VIR set while the proportional transcript abundances for the cellular process (GO:0009987) and metabolic process (GO:0008152) were remarkably higher within WT, VR group, PDR and PSR subgroups (around 19-32%). The relative transcript abundances of molecular transducer (GO:0060089) and receptor activities (GO:0004872) appeared to be much higher within VIR set (20%, 6.15%, respectively) and CSR subgroup (23.21%, 7.14%, respectively), compared to the other subgroups, VR group and WT. The proportional transcript abundance for the membrane (GO:0016020) was predominant within VIR set (68.29%) and CSR subgroup (93.75%), but the cellular part (GO:0005623) (around 34.02-36.02%) was with the highest transcript ratio within VR group and its PDR and PSR subgroups and WT. Numerical values and brackets indicate the total number of transcript sequences and the relative transcript abundance (%) within each transcript classification, respectively.