Table 2.
Quantification by exon expression array of the transcript levels of laccase (Lcc), N-acetylglucosaminidase (Nag), and acid phosphatase (Pap) genes under different conditions
| (a) Poplar genes. The NimbleGen array analysis was carried out using P. trichocarpa root tips with or without mycorrhizal infection by L. bicolor. Transcript levels in non-mycorrhizal root tips were used as the control values. NT, not transcribed; –, gene not on the array or no reliable probe left. | ||||
| Protein ID | Signal-P | Target-P | Ratio | |
| Lcc1 | 820390 | 24 | S | 1.0 |
| Lcc2 | 557962 | 24 | S | – |
| Lcc3 | 797646 | 22 | S | NT |
| Lcc4 | 576931 | 23 | S | – |
| Lcc5 | 762473 | 25 | S | – |
| Lcc6 | 767563 | 28 | S | 4.3* |
| Lcc7 | 219290 | 29 | S | 1.4 |
| Lcc8 | 759686 | – | 1.2 | |
| Lcc9 | 653089 | 24 | S | – |
| Lcc10 | 819177 | 26 | S | NT |
| Lcc11 | 797888 | 31 | S | NT |
| Lcc12 | 579478 | 32 | S | – |
| Lcc13 | 235935 | 32 | S | – |
| Lcc14 | 831900 | 34 | S | NT |
| Lcc15 | 235930 | 32 | S | – |
| Lcc16 | 768177 | 26 | S | 0.4* |
| Lcc17 | 548008 | 32 | S | – |
| Lcc18 | 783559 | 32 | S | NT |
| Lcc19 | 822366 | 32 | S | 0.4 |
| Lcc20 | 560853 | 23 | S | NT |
| Lcc21 | 592533 | 23 | S | – |
| Lcc22 | 832603 | 31 | S | 0.3 |
| Lcc23 | 738903 | M | – | |
| Lcc24 | 574533 | 30 | S | – |
| Lcc25 | 777748 | 23 | S | 0.8 |
| Lcc26 | 738893 | M | – | |
| Lcc27 | 571858 | 33 | S | – |
| Lcc28 | 574985 | 28 | S | – |
| Lcc29 | 205176 | M | 1.6 | |
| Lcc30 | 569758 | 28 | S | – |
| Lcc31 | 420672 | 17 | S | 0.4* |
| Lcc32 | 774519 | – | 0.2 | |
| Nag1 | 772972 | 27 | S | 1.4 |
| Nag2 | 202916 | 25 | S | 1.5 |
| Pap1 | 821155 | – | 1.4 | |
| Pap2 | 831269 | 28 | S | 0.6 |
| Pap3 | 818768 | 27 | S | 0.5 |
| Pap4 | 816041 | – | 1.4 | |
| Pap5 | 272725 | 22 | S | 2.1* |
| Pap6 | 259486 | 23 | S | 1.9 |
| Pap7 | 825753 | 32 | S | 1.8* |
| (b) L. bicolor genes. The NimbleGen array analysis was carried out using P. trichocarpa (Pt) and P. deltoides (Pd) with mycorrhizal infection by L. bicolor. Transcript levels in the mycelium grown in pure culture were used as the control values. NE, not expressed in mycorrhizas (signal below the background); –, gene not on the array or no reliable probe left. | |||||
| Protein ID | Signal-P | Target-P | Ratio Pt | Ratio Pd | |
| Lcc1 | 399743 | 17 | S | 0.1 | 0.2 |
| Lcc2 | 399744 | 17 | S | – | – |
| Lcc3 | 399745 | 17 | S | 4.4 | 2.0 |
| Lcc4 | 399746 | 18 | S | 0.8 | 0.6 |
| Lcc5 | 399747 | 19 | M | NE | NE |
| Lcc6 | 399748 | 20 | S | 0.4 | 0.3* |
| Lcc7 | 399750 | 19 | S | – | – |
| Lcc8 | 399749 | 22 | S | 2.0* | 1.4 |
| Lcc9 | 399751 | 16 | S | 0.3* | 0.3* |
| Pap1 | 310810 | 21 | S | 0.6 | 0.9 |
| Nag1 | 309753 | 0.6 | 0.6* | ||
| Nag2 | 182604 | 18 | S | 0.4* | 0.4* |
The length (bp) of the signal peptide (Signal-P) was predicted with Signal P 3.0 (http://www.cbs.dtu.dk/services/SignalP/). The prediction of the subcellular location of the proteins (Target-P) was performed with TargetP 1.1 available on the webpage (http://www.cbs.dtu.dk/services/TargetP/); M, mitochondrial; S, secreted; –, unknown.
Three biological replicates were used for each treatment with NimbleGen oligoarrays (v.2.0; NG2). A Cyber-T test was performed on the mean for each transcript (*P <0.05).