Table 6.
Selected DE genes tested with RT-PCR.
| Comparison | MgPUTs ID | Log2 fold | RT-PCR 2−ΔΔCT | Regulation | p-Value | Annotation (Blastx) |
|---|---|---|---|---|---|---|
| CK1 vs. CK2 | isotig37843 | 1.27 | 20.38 ± 5.08 | Up | 0.03 | Agamous-like MADS-box protein AGL14 OS = Arabidopsis thaliana |
| isotig24896 | −1.02 | 0.92 ± 0.04 | Down | 0.05 | Protein CCA1 OS = Arabidopsis thaliana | |
| CK1 vs. CK3 | isotig13090 | 2.09 | 4.8 ± 0.16 | Up | 0.02 | Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS = Arabidopsis thaliana |
| isotig43143 | −2.05 | 0.71 ± 0.20 | Down | 0.03 | Serine/arginine-rich splicing factor 33 OS = Arabidopsis thaliana | |
| CK1 vs. CK4 | isotig16184 | 2.8 | 4.58 ± 0.90 | Up | 0.01 | Floricaula/Leafy-like protein FL1 |
| isotig07448 | −1.81 | 0.83 ± 0.09 | Down | 0.04 | MADS-box protein GGM13 OS = Gnetumgnemon | |
| CK1 vs. TR1 | isotig03483 | 2.56 | 3.47 ± 0.96 | Up | 0.03 | Enzymatic polyprotein OS = Cauliflower mosaic virus (strain Strasbourg) |
| isotig34815 | −0.55 | 0.92 ± 0.06 | Down | 0.00 | Zinc finger CCCH domain-containing protein 56 OS = Oryza sativa subsp. japonica | |
| CK2 vs. CK3 | isotig59775 | 1.45 | 4.24 ± 2.24 | up | 0.04 | Transcriptional regulator STERILE APETALA OS = Arabidopsis thaliana |
| isotig37873 | −1.08 | 0.74 ± 0.16 | Down | 0.01 | Zinc finger protein CONSTANS-LIKE 9 OS = Arabidopsis thaliana | |
| CK2 vs. CK4 | isotig38408 | 7.16 | 73.3 ± 16.9 | Up | 0.03 | CASP-like protein 5 OS = Piceasitchensis |
| isotig28528 | −0.88 | 0.32 ± 0.08 | Down | 0.02 | Floral homeotic protein APETALA 2 OS = Arabidopsis thaliana | |
| CK2 vs. TR2 | isotig76810 | 2.35 | 6.18 ± 1.26 | Up | 0.02 | Putative receptor-like protein kinase At3g47110 OS = Arabidopsis thaliana |
| isotig29034 | −1.82 | 0.38 ± 0.11 | Down | 0.02 | Galactinol synthase 1 OS = Ajugareptans | |
| CK3 vs. CK4 | isotig04971 | 2.07 | 33.82 ± 17.61 | Up | 0.02 | Floral homeotic protein APETALA 2 OS = Arabidopsis thaliana |
| isotig13666 | −1.82 | 0.7 ± 0.27 | down | 0.02 | Zinc finger protein CONSTANS-LIKE 10 OS = Arabidopsis thaliana | |
| CK3 vs. TR3 | isotig43347 | 1.99 | 0.25 ± 0.08 | Up | 0.01 | IAA-amino acid hydrolase ILR1-like 6 OS = Oryza sativa subsp. |
| isotig12601 | −1.19 | 0.004 ± 0.002 | Down | 0.00 | Zinc finger CCCH domain-containing protein 18 OS = Arabidopsis thaliana | |
| CK4 vs. TR4 | isotig52347 | 2.23 | 5.33 ± 2.68 | Up | 0.01 | ABC transporter B family member 4 OS = Arabidopsis thaliana |
| isotig04515 | −4.7 | 0.02 ± 0.003 | Down | 0.02 | Transposon Ty3-I Gag-Pol polyprotein OS = Saccharomyces cerevisiae | |
| TR1 vs. TR2 | isotig63887 | 4.26 | 18.03 ± 18.30 | Up | 0.00 | Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS = Nicotianatabacum |
| isotig07445 | −1.59 | 0.25 ± 0.03 | Down | 0.02 | MADS-box protein AGL24 OS = Arabidopsis thaliana | |
| TR1 vs. TR3 | isotig27899 | 3.29 | 3.91 ± 0.60 | Up | 0.03 | GDSL esterase/Lipase At2g42990 OS = Arabidopsis thaliana GN = At2g42990 |
| isotig14517 | 1.56 | 3.45 ± 1.28 | Up | 0.00 | Floricaula/Leafy-like protein OS = Pinusradiata | |
| TR1 vs. TR4 | isotig59904 | 3.25 | 6.28 ± 1.98 | Up | 0.00 | Zinc finger CCCH domain-containing protein 18 OS = Arabidopsis thaliana GN = At2g05160 |
| isotig11828 | −2.18 | 0.62 ± 0.19 | Down | 0.04 | Agamous-like MADS-box protein AGL15 OS = Arabidopsis thaliana | |
| TR2 vs. TR3 | isotig78463 | 2.64 | 0.02 ± 0.01 | Up | 0.04 | Protein TsetseEP OS = Glossinamorsitansmorsitans |
| isotig03422 | −2.99 | 0.33 ± 0.06 | Down | 0.01 | Retrotransposable element Tf2 155 kDa protein type 1 OS = Schizosaccharomyces pombe | |
| TR2 vs. TR4 | isotig59775 | 2.35 | 4.11 ± 0.89 | Up | 0.03 | Transcriptional regulator STERILE APETALA OS = Arabidopsis thaliana |
| isotig25237 | −1.2 | 0.22 ± 0.01 | Down | 0.01 | Zinc finger protein CONSTANS-LIKE 14 OS = Arabidopsis thaliana | |
| TR3 vs. TR4 | isotig43751 | 4.67 | 6.552 ± 0.758 | Up | 0.03 | Transcription factor RAX3 OS = Arabidopsis thaliana |
| isotig42187 | −2.11 | 3.10 ± 0.10 | Down | 0.03 | Zinc finger protein CONSTANS-LIKE 6 OS = Arabidopsis thaliana |