Table 2.
Examples of stress-responsive microRNA (miRNA)-TF (transcription factor) pairs with antagonistic regulatory patterns in DBA Aurora. miRNA log2(FC) shows the log2(fold-change) value of the miRNA expression under stress vs. control. Target log2(FC) shows the log2(fold-change) value of the mRNA expression under stress vs. control. Pairing type indicates whether the miRNA-mRNA is newly discovered or conserved.
| miRNA | Target Accession | Target Annotation | miRNA log2 (FC) | Target log2 (FC) | Stress Type | Pairing Type | TFs |
|---|---|---|---|---|---|---|---|
| osa-miR398a | TRITD_1Bv1G135100-4 | DREB 1 transcription factor 3A | −1.23 | 2.95 | WS | Newly discovered | DREB |
| −2.67 | 1.75 | HS | Newly discovered | ||||
| −1.34 | 1.75 | WH | Newly discovered | ||||
| mdm-miR397a_1ss21AT | TRITD_2Bv1G034790 | NAC 1 transcription factor (plastid) | −inf 2 | 3.74 | HS | Newly discovered | NAC |
| osa-miR398a_L+1R-1 | TRITD_3Av1G235010-2 | NAC transcription factor 6A | −2.05 | 4.13 | HS | Newly discovered | |
| −0.92 | 2.58 | WH | Newly discovered | ||||
| osa-miR444b.1 | TRITD_2Av1G026820 | NAC transcription factor (plastid) | −1.77 | 3.40 | HS | Newly discovered | |
| −1.50 | 1.94 | WH | Newly discovered | ||||
| TRITD_5Av1G170450-2 | NAC domain-containing protein 41 | −1.50 | 2.90 | WH | Newly discovered | ||
| TRITD_5Bv1G161590 | NAC domain-containing protein 41 | −1.50 | 3.59 | WH | Newly discovered | ||
| tae-MIR1128-p5_1ss13AG | TRITD_4Bv1G108860 | NAC domain-containing protein 92-like | −inf | 4.16 | HS | Newly discovered | |
| tae-MIR5384-p5 | TRITD_5Bv1G161590 | NAC domain-containing protein 41 | −1.98 | 3.59 | WH | Newly discovered | |
| ata-miR166d-5p | TRITD_7Av1G051530-5 | auxin response factor 16 | −2.37 | 1.60 | WH | Newly discovered | ARF 1 |
| osa-miR167a-5p_R+1 | TRITD_6Av1G046710 | auxin response factor 6-like | −1.00 | 1.59 | HS | Conserved | |
| tae-miR408_L-1 | TRITD_7Bv1G194180-3 | auxin response factor 17 | −3.62 | 2.21 | WH | Newly discovered | |
| ata-miR528-3p_1ss4GC | TRITD_7Bv1G194180-3 | auxin response factor 17 | −inf | 1.81 | HS | Newly discovered | |
| −2.60 | 2.21 | WH | Newly discovered | ||||
| TRITD_7Av1G245930-4 | auxin response factor 17 | −2.60 | 1.79 | WH | Newly discovered | ||
| bdi-miR394 | TRITD_1Bv1G030900-5 | WRKY14 1 transcription factor | −0.76 | 1.76 | WH | Newly discovered | WRKY |
| osa-miR396e-5p_1ss19CT | TRITD_5Bv1G146000-2 | probable WRKY transcription factor 2 | −2.32 | 2.04 | WH | Newly discovered | |
| tae-miR398 | TRITD_7Av1G028020 | putative WRKY transcription factor 72 | −inf | 1.74 | HS | Newly discovered | |
| osa-miR444b.1_1ss21CT | TRITD_3Av1G213210 | putative WRKY transcription factor 33 | −1.32 | 2.58 | HS | Newly discovered | |
| tae-MIR5048-p3_2ss18TG21GA | TRITD_3Av1G074690-4 | WRKY transcription factor, partial | −0.66 | 1.63 | HS | Newly discovered | |
| ata-MIR9674b-p5 | TRITD_3Av1G213210 | putative WRKY transcription factor 33 | −3.53 | 2.58 | HS | Newly discovered | |
| TRITD_3Bv1G195790 | WRKY27 transcription factor | −3.53 | 1.88 | HS | Newly discovered | ||
| osa-miR530-5p_L+1_1ss21AT | TRITD_5Av1G046770 | MYB 1 transcription factor 79 | −inf | 4.00 | HS | Newly discovered | MYB |
| ata-miR5168-5p | TRITD_5Av1G118710 | transcription factor MYB44-like | −inf | 4.57 | HS | Newly discovered | |
| −inf | 2.67 | WH | Newly discovered | ||||
| tae-MIR9772-p5 | TRITD_5Av1G207760-4 | MYB-related protein | −0.66 | 2.95 | HS | Newly discovered | |
| tae-miR408_L-1 | TRITD_6Av1G199570-2 | bZIP 1 transcription factor | −3.55 | 3.69 | HS | Newly discovered | bZIP |
| tae-MIR5384-p5 | TRITD_3Bv1G212830 | bZIP domain containing protein | −1.93 | 2.98 | HS | Newly discovered | |
| −1.98 | 1.97 | WH | Newly discovered | ||||
| bdi-MIR530b-p3_1ss14GC | TRITD_3Av1G067970 | bHLH13-like 1 | −inf | 2.14 | HS | Newly discovered | bHLH |
| tae-MIR9662b-p5_1ss9CG | TRITD_2Av1G047140 | bHLH47 | −1.66 | 2.42 | HS | Newly discovered |
1 DREB, dehydration-responsive element-binding protein. NAC, NAC (NAM, ATAF1/2, and CUC2) domain containing transcription factors. ARF, auxin response factors. WRKY, transcription factors with the WRKY domain containing the highly conserved amino acid sequence WRKYGQK. MYB, MYB (myeloblastosis) family of transcription factors. bZIP, basic-leucine zipper (bZIP) transcription factor family. bHLH, basic/helix–loop–helix (bHLH) transcription factors. 2 −inf, represents infinite value of a negative fold-change (as the miRNA expression level under stress was zero).