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Table 2 Results from prediction of target genes among a set of SAV responsive immune network genes

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

Gene Gene function/relevance to SAV infection1 Predicted by four search tools2 Predicted by three search tools3 Reference4
Neutrophil cytosolic factor 1 inflammatory response, superoxide anion and cell death, increased expression in SAV miR-92a-3-5p, miR-181c-5p miR-146a-3-3p, miR-146a-3p, miR-155-5p Johansen et al., [38]
VHSV inducible like protein (VIG-B319) virus responsive, increased expression in VHSV and SAV miR-155-5p, miR-223-5p miR-146b-5p, miR-1338-3p Johansen et al., [38]
Jeltraxin similar to CRP, innate immunity pathway, increased expression in SAV miR-146b-5p miR-181c-5p Johansen et al., [38]
Interferon-inducible protein Gig2-7-like virus responsive, increased expression in SAV miR-462a-3p Johansen et al., [38]
Nuclear factor of kappa light polypept gene enhancer in B-cells 2 (NFkB2) miR-223 target in other vertebrate, innate immune system, inflammatory response miR-462a-3p miR-146b-5p Aziz et al., [43]
Myeloperoxidase promote inflammation, innate immunity pathway, increased expression in SAV miR-462a-3p, miR-146b-5p miR-223-5p, miR-734-3p, miR-2188-3p Johansen et al., [38]
Macrosialin precursor CD68 virus responsive, increased expression in SAV miR-462a-3p, miR-731-5p miR-181c-5p Johansen et al., [38]
ATP-dependent RNA helicase DHX58 (RIG-I-like 3) virus responsive, innate immunity pathway, increased expression in SAV miR-731-5p Johansen et al., [38]
Interferon regulatory factor 7 (IRF7) transcription factor activating innate immunity pathway, increased expression in SAV miR-731-5p Xu et al., [39]
Interferon regulatory factor 3 (IRF3) transcription factor activating innate immunity pathway, increased expression in SAV miR-21a-2-3p, miR-21b-3p miR-181c-5p, miR-734-3p Xu et al., [39]
C–C motif chemokine 19 inflammatory response, innate immunity pathway, increased expression in SAV miR-731-3p, miR-223-5p, miR-1338-3p Johansen et al., [38]
Interferon-inducible protein Gig2-2-like virus responsive, increased expression in SAV miR-181c-5p Johansen et al., [38]
Inhibitor of nuclear factor kappa-B kinase subunit alpha-like (IKKa) miR-223 target in other vertebrate, innate immune system and inflammatory response miR-181c-5p (multiple sites) miR-223-5p, miR-7132-5p, miR-1338-3p, miR-734-3p Aziz et al., [43]
Cholesterol 25-hydroxylase-like protein A virus responsive, innate immunity pathway, increased expression in SAV miR-181c-5p Johansen et al., [38]
Complement factor D (CFAD) inflammatory response, innate immunity pathway, upregulated in SAV miR-223-5p Johansen et al., [38]
Interleukin-10 receptor beta chain precursor Cytokine-mediated signaling pathway, immune response, upregulated in SAV miR-21a-2-3p, miR-146a-3-3p, miR-146a-3p, miR-223-5p Johansen et al., [38]
SOCS1 antiviral innate immune response miR-223-5p Taganov et al., [45]
Fish virus induced TRIM-3 Virus responsive, antiviral innate immunity, upregulated in SAV miR-181c-5p Johansen et al., [38]
Forkhead box protein O1-A-like (FOXO1) miR-223 target in other vertebrate, immune system signaling pathways, promote cell death miR-2188-3p Aziz et al., [43]
Complement C1qB subcomponent inflammatory response, innate immunity pathway, increased expression in SAV miR-21a-1-3p, miR-223-5p, miR-2188-3p (multiple sites) Johansen et al., [38]
Barrier-to-autointegration factor known to be exploited by retrovirus, increased expression in SAV miR-21a-2-3p, miR-21b-3p Johansen et al., [38]
Viperine (RSAD2) virus responsive, innate immunity antiviral, increased expression in SAV miR-223-5p, miR-734-3p Johansen et al., [38]
Interferon gamma 1 virus responsive, cytokine miR-734-3p Sun et al., [40]
Interferon gamma 2 virus responsive, cytokine miR-734-3p Sun et al., [40]
  1. 1Key words about gene function are based on gene function description in the http://www.uniprot.org/uniprot/ database. 2DE-miRs predicted to target the gene by all the four target search tools used (RNA-hybrid, TargetSpy, PITA, Miranda)
  2. 3DE-miRs predicted to target the gene by three of the four target search tools used. 4Relevance to SAV is based on findings in the references given in this column