Table 2.
Differentially expressed genes and transcripts shared in four transcriptome-comparisons
| Transcript_ID | Log2Fold change (Mu-Legacy/Legacy bud) | Log2Fold change (Mu-Legacy/Legacy leaf) | Log2Fold change (Mu-Legacy/VcDDF1-Legacy bud) | Log2Fold change (Mu-Legacy/VcDDF1-Legacy leaf) | Annotated by Trinotate | Top hit to Arabidopsis proteins | E Value in the blastp to Arabidopsis | Annotation in Arabidopsis |
|---|---|---|---|---|---|---|---|---|
| c74717_g1_i1 | −7.81 | −6.45 | − 7.88 | −5.91 | AT2A1_BOVIN | AT1G10130.1 | 0E + 00 | endoplasmic reticulum-type calcium-transporting ATPase 3 |
| c46791_g1_i1 | −7.20 | − 7.80 | − 7.51 | −7.70 | G3P_FELCA | AT1G16300.1 | 3E-173 | glyceraldehyde-3-phosphate dehydrogenase of plastid 2 |
| c85583_g3_i1 | 7.47 | 9.70 | 7.01 | 9.52 | . | AT1G22110.3 | 3E-17 | structural constituent of ribosome |
| c96767_g2_i1 | 4.13 | 3.73 | 4.12 | 3.92 | . | AT1G72700.3 | 1E-07 | ATPase E1-E2 type family protein |
| c96767_g2_i10 | 4.32 | 4.22 | 4.33 | 3.61 | . | AT1G72700.3 | 9E-08 | ATPase E1-E2 type family protein |
| c96767_g2_i12 (c92529_g4_i2) | 4.22 | 4.32 | 4.85 | 4.00 | . (ARR2_ARTH) | AT1G72700.3 | 9E-08 | ATPase E1-E2 type family protein |
| c96767_g2_i2 | 2.96 | 2.65 | 3.58 | 2.92 | . | AT1G72700.3 | 1E-07 | AT1G72700.3 | ATPase E1-E2 type family protein |
| c96767_g2_i6 | 2.52 | 2.29 | 3.58 | 2.30 | . | AT1G72700.3 | 1E-07 | ATPase E1-E2 type family protein |
| c96767_g2_i9 | 2.38 | 2.89 | 3.12 | 2.75 | . | AT1G72700.3 | 1E-07 | ATPase E1-E2 type family protein |
| c96767_g2_i7 | 3.27 | 3.12 | 3.97 | 3.39 | . | AT1G72700.3 | 1E-07 | ATPase E1-E2 type family protein |
| c85583_g2_i2 | 6.48 | 8.45 | 5.20 | 7.14 | . | AT1G77932.1 | 2E-12 | FANTASTIC four protein%2C putative (DUF3049) |
| c87534_g1_i2 | −7.59 | −8.52 | − 8.25 | −7.45 | TITIN_HUMAN | AT2G17033.4 | 6E-01 | pentatricopeptide (PPR) repeat-containing protein |
| c96767_g2_i4 | 3.88 | 5.36 | 3.27 | 3.35 | . | AT2G25100.1 | 4E-03 | Polynucleotidyl transferase%2C ribonuclease H-like superfamily protein |
| c62793_g1_i1 | −6.68 | −8.63 | −7.12 | −7.78 | ENOB_BOVIN | AT2G36530.1 | 0E + 00 | Enolase |
| c88421_g5_i1 | 9.75 | 9.02 | 8.46 | 10.06 | . | AT2G46240.1 | 7E + 00 | BCL-2-associated athanogene 6 |
| c49456_g1_i1 | −7.90 | −9.12 | −8.28 | −7.79 | . | AT3G12110.1 | 1E-87 | actin-11 |
| c49456_g2_i2 | −6.89 | −5.98 | −7.33 | − 6.17 | ACTS_RAT | AT3G12110.1 | 8E-164 | actin-11 |
| c99927_g1_i1 | −8.10 | −7.29 | −8.39 | − 7.11 | . | AT3G19960.3 | 8E-162 | myosin 1 |
| c99927_g1_i2 | −6.99 | −8.12 | −7.55 | −7.78 | . | AT3G19960.3 | 8E-162 | myosin 1 |
| c69050_g1_i1 | −6.83 | −5.82 | −7.86 | −7.50 | . | AT3G20993.1 | 1E + 00 | low-molecular-weight cysteine-rich 56 |
| c76484_g1_i2 | 3.60 | 4.27 | 4.41 | 4.39 | . | AT3G42860.1 | 4E-04 | zinc knuckle (CCHC-type) family protein |
| c74413_g1_i1 | −7.16 | −6.35 | −7.40 | −5.88 | PYGM_RABIT | AT3G46970.1 | 0E + 00 | alpha-glucan phosphorylase 2 |
| c92529_g4_i1 | 4.10 | 2.70 | 1.42 | 2.50 | BGLR_ECOLI | AT3G54440.1 | 1E-25 | glycoside hydrolase family 2 protein |
| c92529_g4_i4 | 10.37 | 9.18 | 1.30 | 11.64 | . | AT3G54440.2 | 1E-08 | glycoside hydrolase family 2 protein |
| c35591_g1_i2 | −9.20 | −7.84 | −9.79 | −7.67 | TNNC2_RABIT | AT3G56800.1 | 3E-35 | calmodulin 3 |
| c64973_g1_i2 | −7.65 | −6.53 | −8.20 | −6.36 | MYL1_RABIT | AT3G56800.1 | 3E-32 | calmodulin 3 |
| c64740_g1_i1 | −7.36 | −8.72 | − 7.86 | −7.67 | LDHA_PIG | AT4G17260.1 | 1E-108 | Lactate/malate dehydrogenase family protein |
| c44157_g1_i1 | −7.82 | −6.34 | −8.28 | −7.20 | MYG_HORSE | AT4G21940.2 | 4E + 00 | calcium-dependent protein kinase 15 |
| c58218_g1_i2 | −8.03 | −7.01 | − 8.31 | −6.90 | . | AT4G26530.3 | 5E-142 | Aldolase superfamily protein |
| c58218_g1_i1 | −8.75 | −6.60 | −9.02 | − 6.66 | ALDOA_HUMAN | AT4G26530.3 | 3E-141 | Aldolase superfamily protein |
| c142707_g1_i1 | 6.22 | 6.88 | 3.50 | 5.59 | . | AT4G31570.5 | 4E-01 | nucleoporin |
| c55223_g1_i3 | −7.57 | −6.25 | −7.98 | −6.25 | . | AT4G35800.2 | 7E + 00 | RNA polymerase II large subunit |
| c117113_g1_i1 | −7.38 | −9.43 | − 7.92 | −8.37 | MLRS_RABIT | AT5G21274.1 | 4E-15 | calmodulin 6 |
| c79880_g1_i1 | −6.71 | −6.30 | −7.00 | −6.08 | TPM1_RAT | AT5G27950.1 | 3E + 00 | P-loop containing nucleoside triphosphate hydrolases superfamily protein |
| c72151_g1_i1 | −6.29 | −10.53 | −6.54 | −9.36 | KCRM_PIG | AT5G36670.1 | 2E + 00 | RING/FYVE/PHD zinc finger superfamily protein |
| c64973_g1_i1 | −5.22 | −8.68 | −5.95 | −6.94 | MYL1_BOVIN | AT5G37780.1 | 9E-30 | calmodulin 1 |
| c88158_g4_i2 | −4.15 | −3.57 | −2.65 | −2.48 | . | AT5G43270.3 | 7E-01 | squamosa promoter binding protein-like 2 |
| c139587_g1_i1 | 5.25 | 7.29 | 5.20 | 6.07 | . | AT5G62270.2 | 9E-10 | ribosomal protein L20 |
| c58774_g1_i1 | −8.73 | −5.95 | −9.52 | −7.49 | . | ATCG01100.1 | 2E-30 | NADH dehydrogenase family protein |
| c41067_g1_i1 | −7.73 | −6.75 | −8.81 | − 8.24 | . | ATMG00160.1 | 1E-43 | cytochrome oxidase 2 |
| c70295_g1_i1 | −8.44 | −6.80 | −9.61 | −8.20 | . | ATMG00220.1 | 1E-101 | apocytochrome b |
| c82557_g1_i1 | −6.45 | − 6.25 | −7.48 | −7.82 | NU6M_HORSE | ATMG00513.1 | 3E-71 | NADH dehydrogenase 5A |
| c77169_g1_i1 | −10.17 | −7.95 | −11.05 | −9.09 | . | ATMG00580.1 | 2E-28 | NADH dehydrogenase subunit 4 |
| c72780_g1_i1 | −6.90 | −5.76 | −8.13 | −7.44 | . | ATMG00730.1 | 4E-69 | cytochrome c oxidase subunit 3 |
| c65695_g1_i1 | −7.66 | −6.33 | −8.65 | − 7.78 | . | ATMG01360.1 | 0E + 00 | cytochrome oxidase |
| c55223_g1_i1 | −7.64 | −6.50 | −8.04 | −6.01 | . | No hits found | . | . |
| c70752_g2_i1 | 6.13 | 7.75 | 5.40 | 6.44 | . | No hits found | . | . |
| c86721_g2_i2 | −2.01 | −2.54 | −2.21 | −2.34 | . | No hits found | . | . |
| c70752_g1_i1 | 4.41 | 5.58 | 4.57 | 8.68 | . | No hits found | . | . |