Table 6. Relative RPKMs of innate immune genes.
| Description | Gene ID | 2inf RPKM | 2c RPKM | 4inf RPKM | 4c RPKM | inf Means | c Means | 2inf vs 2c RPKM | 4inf vs 4c RPKM |
|---|---|---|---|---|---|---|---|---|---|
| Toll pathway | |||||||||
| MYD88 | BGIBMGA002869 | 9.68 | 8.97 | 7.46 | 8.64 | 8.57 | 8.80 | 1.08 | 0.86 |
| RelA | BGIBMGA010496 | 1.49 | 1.35 | 0.89 | 1.04 | 1.19 | 1.20 | 1.10 | 0.85 |
| RelB | BGIBMGA010497 | 1.83 | 1.38 | 1.24 | 1.21 | 1.54 | 1.30 | 1.32 | 1.03 |
| Toll3-1 | BGIBMGA014370 | 2.53 | 2.75 | 2.84 | 2.65 | 2.68 | 2.70 | 0.92 | 1.07 |
| Toll3-2 | BGIBMGA014373 | 23.77 | 25.15 | 25.60 | 36.49 | 24.68 | 30.82 | 0.95 | 0.70 |
| Toll3-2 | BGIBMGA014372 | 0.17 | 0.24 | 0.05 | 0.19 | 0.11 | 0.22 | 0.70 | 0.24 |
| Toll3-3 | BGIBMGA010304 | 0.04 | 0.05 | 0.02 | 0.04 | 0.03 | 0.05 | 0.75 | 0.44 |
| Toll6 | BGIBMGA011084 | 0.68 | 1.27 | 0.06 | 0.11 | 0.37 | 0.69 | 0.54 | 0.53 |
| Toll7-1/7-2 | BGIBMGA011037 | 1.56 | 1.12 | 0.37 | 0.20 | 0.97 | 0.66 | 1.40 | 1.90 |
| Toll7-2 | BGIBMGA011034 | 3.53 | 3.75 | 2.09 | 2.46 | 2.81 | 3.10 | 0.94 | 0.85 |
| Toll7-3 | BGIBMGA011038 | 0.64 | 0.32 | 0.00 | 0.02 | 0.32 | 0.17 | 1.98 | 0.00 |
| Toll8 | BGIBMGA011085 | 1.25 | 0.77 | 1.31 | 1.18 | 1.28 | 0.97 | 1.63 | 1.12 |
| Toll9-1 | BGIBMGA011216 | 17.21 | 16.50 | 20.90 | 30.49 | 19.05 | 23.49 | 1.04 | 0.69 |
| Toll9-2 | BGIBMGA008840 | 0.53 | 0.55 | 0.44 | 1.25 | 0.48 | 0.90 | 0.96 | 0.35 |
| Toll10-2 | BGIBMGA011025 | 1.85 | 2.28 | 0.50 | 0.28 | 1.17 | 1.28 | 0.81 | 1.75 |
| Toll10-3 | BGIBMGA011082 | 6.02 | 6.30 | 2.76 | 1.38 | 4.39 | 3.84 | 0.96 | 2.00 |
| Toll12 | BGIBMGA006244 | 0.81 | 0.96 | 0.29 | 0.10 | 0.55 | 0.53 | 0.84 | 2.96 |
| Tube | BGIBMGA002494 | 11.09 | 10.93 | 8.48 | 9.71 | 9.78 | 10.32 | 1.01 | 0.87 |
| Imd pathway | |||||||||
| Ikkβ | BGIBMGA008389 | 21.76 | 22.15 | 15.64 | 18.38 | 18.70 | 20.26 | 0.98 | 0.85 |
| Imd | BGIBMGA003655 | 2.42 | 2.30 | 1.75 | 2.20 | 2.08 | 2.25 | 1.05 | 0.79 |
| Relish1 | BGIBMGA002465 | 6.44 | 5.83 | 4.27 | 4.10 | 5.36 | 4.97 | 1.10 | 1.04 |
| Relish1 | BGIBMGA002464 | 1.16 | 1.31 | 3.01 | 3.74 | 2.08 | 2.53 | 0.88 | 0.80 |
| Tak1 | BGIBMGA008980 | 7.20 | 6.79 | 4.51 | 5.21 | 5.86 | 6.00 | 1.06 | 0.87 |
| PPO pathway | |||||||||
| Prophenoloxidase activating enzyme | BGIBMGA013746 | 0.25 | 0.12 | 0.17 | 0.39 | 0.21 | 0.26 | 2.11 | 0.44 |
| Serine protease inhibitor | BGIBMGA009047 | 11.71 | 11.48 | 32.27 | 27.01 | 21.99 | 19.25 | 1.02 | 1.19 |
| Serine protease inhibitor 6 | BGIBMGA007729 | 1.57 | 1.52 | 1.03 | 0.48 | 1.30 | 1.00 | 1.03 | 2.16 |
| Pattern recognition receptor | |||||||||
| C-type lectin 10 | BGIBMGA006768 | 1.40 | 2.27 | 0.25 | 0.12 | 0.83 | 1.19 | 0.62 | 2.14 |
| C-type lectin 21 | BGIBMGA002288 | 0.23 | 0.29 | 0.23 | 0.11 | 0.23 | 0.20 | 0.79 | 2.14 |
| Beta-1,3-glucan recognition protein 2 | BGIBMGA011609 | 3.28 | 1.72 | 1.26 | 0.46 | 2.27 | 1.09 | 1.91 | 2.74 |
| Peptidoglycan recognition protein (PGRP-L2) | BGIBMGA000584 | 2.92 | 2.67 | 1.81 | 2.58 | 2.36 | 2.63 | 1.09 | 0.70 |
| Peptidoglycan recognition protein S6 | BGIBMGA012866 | 0.52 | 0.29 | 0.38 | 0.29 | 0.45 | 0.29 | 1.83 | 1.32 |
| Antimicrobial peptide | |||||||||
| Attacin1 | BGIBMGA002739 | 0.72 | 0.19 | 0.27 | 0.00 | 0.50 | 0.10 | 3.77 | na |
| Attacin1 | BGIBMGA002747 | 0.86 | 2.29 | 0.14 | 0.31 | 0.50 | 1.30 | 0.38 | 0.44 |
| CecropinA, CecropinB | BGIBMGA000024 | 0.22 | 0.22 | 0.11 | 0.00 | 0.16 | 0.11 | 1.00 | na |
| BGIBMGA000036 | 1.18 | 0.78 | 0.00 | 0.00 | 0.59 | 0.39 | 1.51 | na | |
| BGIBMGA000037 | 6.12 | 3.54 | 0.00 | 0.00 | 3.06 | 1.77 | 1.73 | na | |
| BGIBMGA000021 | 23.38 | 8.49 | 0.00 | 0.00 | 11.69 | 4.24 | 2.75 | na | |
| BGIBMGA000038 | 2.15 | 0.78 | 0.00 | 0.00 | 1.07 | 0.39 | 2.76 | na | |
| BGIBMGA000023 | 0.00 | 0.52 | 0.00 | 0.00 | 0.00 | 0.26 | 0.00 | na | |
| CecropinA, CecropinE | BGIBMGA006280 | 3.16 | 1.90 | 2.45 | 0.22 | 2.80 | 1.06 | 1.67 | 11.18 |
| Defensin | BGIBMGA014360 | 0.00 | 0.16 | 0.08 | 0.11 | 0.04 | 0.14 | 0.00 | 0.66 |
| Gloverin | BGIBMGA013866 | 0.00 | 0.32 | 0.00 | 0.00 | 0.00 | 0.16 | 0.00 | na |
| BGIBMGA013864 | 5.89 | 5.69 | 5.98 | 7.29 | 5.94 | 6.49 | 1.04 | 0.82 | |
| BGIBMGA013863 | 0.17 | 0.37 | 0.21 | 0.19 | 0.19 | 0.28 | 0.46 | 1.10 | |
| Gloverin 2 | BGIBMGA005658 | 1.52 | 1.53 | 12.97 | 8.28 | 7.25 | 4.91 | 0.99 | 1.57 |
| Gloverin 3 | BGIBMGA013803 | 0.06 | 0.08 | 0.17 | 0.13 | 0.11 | 0.10 | 0.75 | 1.32 |
| Gloverin 4 | BGIBMGA013865 | 0.16 | 0.14 | 0.05 | 0.11 | 0.10 | 0.13 | 1.13 | 0.44 |
| Hemolin | BGIBMGA008736 | 0.11 | 0.44 | 0.22 | 0.31 | 0.16 | 0.37 | 0.26 | 0.69 |
| Lebocin 1/2/3/4 | BGIBMGA006775 | 0.22 | 1.15 | 1.24 | 0.79 | 0.73 | 0.97 | 0.19 | 1.58 |
| Lysozyme | BGIBMGA007458 | 0.63 | 0.66 | 0.17 | 0.43 | 0.40 | 0.55 | 0.95 | 0.39 |
| Moricin | BGIBMGA011495 | 0.67 | 0.44 | 0.11 | 0.33 | 0.39 | 0.39 | 1.51 | 0.33 |
| JAK/STAT pathway | |||||||||
| STAT | BGIBMGA001739 | 4.04 | 3.35 | 4.10 | 4.36 | 4.07 | 3.86 | 1.21 | 0.94 |
Ratios of RPKM values from pathogenically versus persistently infected midgut tissue of 2nd and 4th instar larvae obtained by deep sequencing analysis (2c, 2inf, 4c and 4inf samples) are presented for selected genes involved in innate immunity pathways. Listed are genes belonging to Toll, Imd, PPO and JAK/STAT pathways, as well as genes encoding pattern recognition receptors and antimicrobial peptides. Genes presenting higher than 1.5-fold up- or down-regulation are marked with bold letters. Abbreviation: na: not applicable.