Table 1. Expression levels of Cd up-regulated contigs in HE shoots.
| Contig Name | Cont | Cd | FC | q-value | Brief Description |
| Phenylpropanoids Biosynthesis, Cell Wall Deposition and Modification | |||||
| Sa_Contig04589 | 0.4 | 23.0 | 65.3 | 2.4E-08 | Isoflavone 2′-hydroxylase |
| Sa_Contig14694 | 1.1 | 40.5 | 38.3 | 3.8E-08 | Laccase1–1 |
| Sa_Contig01582 | 1.0 | 35.3 | 34.6 | 2.6E-09 | Laccase 1–2 |
| Sa_Contig00501 | 5.1 | 98.7 | 19.3 | 7.5E-10 | Tyrosine aminotransferase |
| Sa_Contig15625 | 0.7 | 13.1 | 18.6 | 9.5E-06 | Phenylalanine ammonia-lyase |
| Sa_Contig21041 | 7.3 | 92.4 | 12.7 | 3.0E-08 | Tyrosine aminotransferase |
| Sa_Contig15461 | 3.1 | 32.1 | 10.3 | 2.0E-05 | Endo-1,3-beta-glucanase |
| Sa_Contig10935 | 10.4 | 93.7 | 9.0 | 1.2E-04 | Tyrosine aminotransferase |
| Sa_Contig13861 | 3.9 | 25.8 | 6.7 | 1.2E-05 | Cinnamate 4-hydroxylase |
| Sa_Contig15722 | 4.4 | 25.4 | 5.8 | 8.4E-05 | 4-coumarate–CoA ligase 1 |
| Sa_Contig26445 | 4.8 | 24.6 | 5.2 | 3.2E-03 | Flavonol 4-reductase |
| Sa_Contig12913 | 11.1 | 43.7 | 3.9 | 2.7E-03 | Cinnamyl alcohol dehydrogenase |
| Sa_Contig08243 | 27.2 | 69.0 | 2.5 | 1.1E-03 | ABC transporter B family member 19 |
| Sa_Contig00509 | 15.5 | 36.4 | 2.3 | 7.0E-06 | ABC transporter B family member 19 |
| Sa_Contig10427 | 45.4 | 99.3 | 2.2 | 1.6E-04 | Cinnamate 4-hydroxylase |
| Sa_Contig10508 | 354.9 | 773.2 | 2.2 | 3.7E-24 | Xyloglucan endotransglucosylase |
| Sa_Contig12362 | 104.6 | 224.2 | 2.1 | 2.8E-05 | Cellulose synthase-like protein D2 |
| Sa_Contig09979 | 296.8 | 604.9 | 2.0 | 5.4E-09 | Xyloglucan endotransglucosylase |
| Sa_Contig12072 | 1346.3 | 2648.3 | 2.0 | 3.7E-45 | Xyloglucan endotransglucosylase |
| Sa_Contig10818 | 188.7 | 370.3 | 2.0 | 4.1E-07 | Cellulose synthase A subunit 1 |
| Metal Transport, Metal Ligand Synthesis and Metal-ligand Transport | |||||
| Sa_Contig14529 | 24.0 | 135.4 | 5.6 | 1.8E-05 | Metal transporter Nramp4 |
| Sa_Contig03765 | 20.1 | 90.8 | 4.5 | 2.8E-03 | Metal transporter Nramp2 |
| Sa_Contig30461 | 30.9 | 135.0 | 4.4 | 2.1E-04 | Metal transporter Nramp3 |
| Sa_Contig10390 | 35.2 | 114.9 | 3.3 | 5.5E-06 | Metal transporter Nramp3 |
| Sa_Contig06552 | 2.4 | 14.1 | 5.9 | 2.1E-04 | Metal-nicotianamine transporter YSL3 |
| Sa_Contig08963 | 19.6 | 76.0 | 3.9 | 2.2E-13 | Oligopeptide transporter 3 |
| Sa_Contig11841 | 25.9 | 77.3 | 3.0 | 3.5E-03 | Oligopeptide transporter 3 |
| Sa_Contig43609 | 44.9 | 111.4 | 2.5 | 5.2E-05 | S-adenosylmethionine synthetase 2 |
| Sa_Contig07003 | 24.3 | 59.8 | 2.5 | 9.4E-04 | Methylenetetrahydrofolate reductase 2 |
| Sa_Contig09892 | 40.3 | 85.1 | 2.1 | 2.2E-03 | Probable peptide transporter |
| Reactive Oxygen Species Detoxification | |||||
| Sa_Contig48718 | 0.3 | 131.7 | 512.6 | 7.1E-05 | 1-Cys peroxiredoxin PER1 |
| Sa_Contig12607 | 1.0 | 161.8 | 167.8 | 1.4E-12 | 1-Cys peroxiredoxin PER1 |
| Sa_Contig52040 | 0.3 | 27.5 | 83.7 | 6.5E-05 | Peroxidase 53 |
| Sa_Contig14027 | 12.0 | 106.5 | 8.8 | 1.4E-11 | Cationic peroxidase 2 |
| Sa_Contig17598 | 7.7 | 67.9 | 8.8 | 3.8E-05 | Peroxidase N1 |
| Sa_Contig42088 | 283.9 | 694.2 | 2.4 | 1.9E-09 | Peroxidase 42 |
| Transcriptional Gene Regulation | |||||
| Sa_Contig23581 | 0.6 | 55.1 | 91.1 | 3.0E-04 | Transcription factor ORG2 |
| Sa_Contig35894 | 0.6 | 44.3 | 80.4 | 3.4E-08 | Transcription factor ORG2 |
| Sa_Contig12361 | 5.5 | 46.9 | 8.6 | 1.7E-04 | Transcription factor RAP2.3 |
| Sa_Contig04816 | 18.7 | 49.2 | 2.6 | 4.5E-03 | Transcription factor RF2b |
| Sa_Contig12226 | 48.9 | 101.4 | 2.1 | 1.9E-03 | Transcription factor HSFC-1 |
| Sa_Contig10599 | 98.4 | 193.1 | 2.0 | 5.2E-10 | Transcription factor ERF9 |
Notes: Expression abundance of each contig is the mean of three biological replicates and shown in RPKM (Reads Per Kilobase of exon model per Million total reads in sample). Fold Change (FC) = [Cd ]/[Cont]. The rest of 70 contigs in the 5th category is included in Table S2.