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Table 1 DE miRNAs revealed by DESeq2 and RT-qPCR analysis in SAV3-i4 infected individuals at week 4 poc

From: Identification of differentially expressed Atlantic salmon miRNAs responding to salmonid alphavirus (SAV) infection

Mature miRNA SAV expression1 log2 fold change2 DESeq2 P-adj.3 log2 f.c. RT-qPCR4 RT-qPCR P-adj.5 Family6
ssa-miR-462a-5p increase 13x 3.71 1.93x10-5 2.58 3.0x10-3 462
ssa-miR-462a-3p increase 19x 4.30 2.41x10-5 3.12 3.0x10-3 462
ssa-miR-462b-5p increase 3x 1.75 0.07 462
ssa-miR-731-5p increase 12x 3.58 1.79x10-3 2.63 3.0x10-3 731
ssa-miR-731-3p increase 8x 3.04 1.64x10-3 2.28 3.0x10-3 731
ssa-miR-146b-5p increase 14x 3.82 1.17x10-4 2.38 3.0x10-3 146
ssa-miR-146a-3p increase 6x 2.64 0.03 2.99 3.0x10-3 146
ssa-miR-146a-3-3p increase 8x 3.00 0.03 146
ssa-miR-21a-1-3p increase 10x 3.27 4.3x10-3 3.31 3.0x10-3 21
ssa-miR-21a-2-3p increase 8x 3.16 0.02 2.21 3.0x10-3 21
ssa-miR-21b-3p increase 5x 2.36 0.06 2.33 3.0x10-3 21
ssa-miR-181c-5p increase 4x 2.14 0.09 1.42 0.011 181
ssa-miR-223-5p increase 5x 2.36 0.06 2.46 3.0x10-3 223
ssa-miR-1338-3p increase 3x 1.65 0.06 1.61 3.0x10-3 1338 (1388)
ssa-miR-155-5p increase 3x 1.72 0.06 0.58 0.1 155
ssa-miR-92a-3-5p3 increase 10x 3.4 0.06 92
ssa-miR-7132-3p increase 3x 1.79 0.06 1.88 3.0x10-3 7132
ssa-miR-7132-5p increase 4x 2.11 0.07 1.06 0.02 7132
ssa-miR-734-3p decrease 4x -2.09 0.07 -0.19 0.96 734
ssa-miR-2188-3p decrease 2x -1.08 0.10 -0.95 3.0x10-3 2188
  1. 1Direction and approximate relative change (times fold change) of mature miRNAs in SAV infected tisssues from DESeq2 measurements
  2. 2Log2 fold change from DESeq2 analysis of deep sequencing samples
  3. 3Adjusted p-values from DESeq2 analysis. 0.1 was used as threshold for significance
  4. 4Log2 fold change (∆∆Ct-method) from RT-qPCR analysis
  5. 5 P-values from RT-qPCR after adjustment according to Benjamini-Hochberg procedure. 0.05 was used as threshold for significance
  6. 6Those with identical numbers belong to same miRNA gene family or are corresponding 5p and 3p from same miRNA gene