TABLE 2.
Allelic expression ratios in leaves and stems of four Populus hybrids
| Leaf
|
Stem
|
|||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Gene | HY 1 | SE (%) | HY 2 | SE (%) | HY 3 | SE (%) | HY 4 | SE (%) | HY 1 | SE (%) | HY 2 | SE (%) | HY 3 | SE (%) | HY 4 | SE (%) |
| Differential allelic expression of 60:40 or greater in the majority of the four hybrids in both leaves and stems | ||||||||||||||||
| 4CL3 | 40 | 2 | 40 | 0 | 39 | 2 | 30 | 2 | ||||||||
| Cel9Ba | 72 | 1 | 77 | 2 | 69 | 0 | 84 | 1 | 61 | 1 | 64 | 6 | 55 | 1 | 65 | 1 |
| DXPSa | 25 | 1 | 18 | 0 | 10 | 3 | 20 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| NBS-LRR | 43 | 5 | 33 | 4 | 30 | 0 | 36 | 0 | 51 | 7 | 35 | 2 | 31 | 1 | 22 | 2 |
| PREG1-like | 16 | 1 | 17 | 0 | 30 | 6 | 26 | 1 | 28 | 2 | 26 | 1 | 30 | 4 | 27 | 1 |
| RPS19 | 79 | 0 | 70 | 1 | 74 | 1 | 66 | 0 | 75 | 1 | 67 | 1 | 73 | 2 | 80 | 1 |
| SPB | 66 | 6 | 66 | 2 | 65 | 4 | 63 | 5 | 64 | 0 | 63 | 6 | 62 | 3 | 69 | 0 |
| TI5a | 84 | 0 | 73 | 1 | 76 | 0 | 66 | 2 | 83 | 0 | 82 | 3 | 89 | 3 | 80 | 2 |
| Differential allelic expression of 60:40 or greater only in leaves of the majority of the four hybrids | ||||||||||||||||
| MATEa | 60 | 0 | 63 | 0 | 55 | 2 | 60 | 1 | 47 | 4 | 43 | 4 | 40 | 1 | 40 | 1 |
| SKORa | 37 | 2 | 32 | 0 | 30 | 5 | 28 | 1 | 51 | 6 | 40 | 1 | 48 | 4 | 43 | 6 |
| Differential allelic expression of 60:40 or greater only in stems of the majority of the four hybrids | ||||||||||||||||
| ADKa | 41 | 0 | 35 | 1 | 44 | 1 | 48 | 1 | 34 | 1 | 33 | 2 | 40 | 2 | 40 | 1 |
| CaMBPa | 51 | 3 | 46 | 2 | 41 | 4 | 51 | 4 | 43 | 1 | 40 | 3 | 39 | 0 | 29 | 3 |
| F5H | 74 | 6 | 66 | 2 | 61 | 3 | ||||||||||
| HAT22 | 75 | 1 | 80 | 4 | 70 | 1 | 79 | 6 | ||||||||
| ISPa | 41 | 4 | 43 | 0 | 41 | 2 | 39 | 3 | 27 | 3 | 33 | 1 | 23 | 3 | 26 | 3 |
| PPO3a | 37 | 0 | 44 | 2 | 49 | 1 | 59 | 3 | 23 | 3 | 26 | 3 | 36 | 4 | 27 | 1 |
| PPRa | 58 | 0 | 55 | 4 | 37 | 2 | 51 | 5 | 72 | 3 | 63 | 2 | 54 | 2 | 72 | 2 |
| Less than 60:40 allelic expression bias in the majority of the four hybrids | ||||||||||||||||
| C3HC4 | 52 | 1 | 46 | 3 | 50 | 0 | 55 | 2 | 42 | 0 | 44 | 1 | 56 | 2 | 55 | 1 |
| CHI | 46 | 2 | 55 | 3 | 53 | 2 | 59 | 3 | ||||||||
| KNAT1 | 56 | 2 | 54 | 1 | 58 | 0 | ||||||||||
| LFY | 56 | 0 | 51 | 5 | 47 | 4 | ||||||||||
| NAK | 54 | 6 | 33 | 5 | 46 | 3 | 43 | 0 | 45 | 3 | 44 | 1 | 47 | 1 | 42 | 3 |
| P4H | 59 | 0 | 62 | 0 | 46 | 0 | 50 | 1 | 54 | 0 | 56 | 7 | 46 | 2 | 51 | 2 |
| RAR1 | 51 | 3 | 40 | 3 | 45 | 1 | 43 | 3 | 43 | 2 | 42 | 1 | 46 | 3 | 36 | 1 |
| Unknown1 | 54 | 1 | 55 | 6 | 70 | 2 | 56 | 0 | 56 | 1 | 51 | 2 | 65 | 0 | 53 | 1 |
| Varied expression among the four hybrids | ||||||||||||||||
| ADH | 67 | 0 | 49 | 0 | 56 | 3 | 49 | 1 | 62 | 3 | 52 | 0 | 40 | 2 | 50 | 2 |
| GT47C | 63 | 2 | 62 | 0 | 57 | 2 | 58 | 1 | 61 | 2 | 58 | 2 | 57 | 1 | 57 | 3 |
| MP | 32 | 1 | 47 | 2 | 25 | 2 | 43 | 3 | ||||||||
| NPR1 | 40 | 5 | 37 | 5 | 43 | 4 | 45 | 0 | ||||||||
| SUS | 59 | 0 | 49 | 7 | 62 | 4 | 61 | 3 | 50 | 4 | 53 | 1 | 60 | 4 | 59 | 4 |
The percentage of transcripts derived from the P. trichocarpa allele in each hybrid is shown. HY 1, 2, 3, and 4 refer to hybrids 11-BULH-4-1, 9-KTWD-4, 7-IRVC.3-1, and 7-IRVD-5-1, respectively. “L” and “S” represent leaf and stem. SE represents standard error of two biological replicates.
a
Genes showing significantly different allelic expression ratios between leaves and stems as determined by two-tailed homoscedastic variance t-tests (P = 0.05).