Table 1.
qPCR primers.
| Gene Name (Symbol) a | Nucleotide Sequence (5′-3′) b | Amplification Efficiency (%) | Amplicon Size (bp) | GenBank Accession Number |
|---|---|---|---|---|
| Serine protease HTRA1 a (htra1a) c | F:GCTGATGTGGTGGAGGAGAT | 113.3 | 127 | NM001141717 |
| R:TCAAGCCGTCCTCTGACAC | - | - | - | |
| Serine protease HTRA1 b (htra1b) c | F:ATGATGACTCTCACACCAATGC | 95.4 | 104 | EG831192 |
| R:GTTTTTGGGATGACCTCGATT | - | - | - | |
| Aminoacyl tRNA synthase complex-interacting multifunctional protein 1 (p43) | F:GGAAGACGAATGCAGAGGAC | 97.2 | 82.0 | BT044000 |
| R:GGAGCGGTCATTCACACTTT | - | - | - | |
| Eukaryotic translation initiation factor 2A (eif2a) | F:TAAACCCAGATGCCCTTGAG | 94.9 | 143 | NM001140088 |
| R:GGCTTTCAGCTCGTCGATAG | - | - | - | |
| Eukaryotic translation initiation factor 4B 1 (eif4b1) | F:CGCAGGGACCGGGATGAT | 85.3 | 123 | BT072661 |
| R:TCGGTCCTC5CTGTCCGC | - | - | - | |
| Eukaryotic translation initiation factor 4B 2 (eif4b2) | F:CACATCCAGGAAGTACCTCT | 87.4 | 94.0 | DY739566 |
| R:TCGTCCTCCTTACCGCTGA | - | - | - | |
| Cytochrome c oxidase subunit 2 (mtco2) d | F:CACCGATTACGAAGACTTAGGC | 107.9 | 136 | DW554935 |
| R:TGAAACTAGGACCCGGATTG | - | - | - | |
| Leukocyte cell-derived chemotaxin 2 precursor a (lect2a) c | F:CAGATGGGGACAAGGACACT | 94.6 | 150 | BT059281 |
| R:GCCTTCTTCGGGTCTGTGTA | - | - | - | |
| Leukocyte cell-derived chemotaxin 2 precursor b (lect2b) c | F:ACAACTGGGGACAAGGACAG | 84.8 | 125 | DV106130 |
| R:CACTTTGCCGTTGAGTTTCA | - | - | - | |
| 60S ribosomal protein L18 (rpl18) | F:AGTTCCACGACTCGAAGATC | 93.8 | 143 | DW535031 |
| R:TTTTATTGTGCCGCACAAGGT | - | - | - | |
| Myocyte-specific enhancer factor 2D (mef2d) | F:GCAGCAACATCAACAACAGC | 89.5 | 160 | XM014177143 |
| R:CTCATCTCTACCCAAGAGGA | - | - | - | |
| Helicase with zinc finger domain 2 a (helz2a, alias pric285a) e | F:GCAAGGTTGGGTATGAGGAA | 91.3 | 149 | BT072427 |
| R:TTCGGAGTTGCTCCAGTCTT | - | - | - | |
| Helicase with zinc finger domain 2 b (helz2b, alias pric285b) e | F:AGACGTAGTGGTTCGGATCG | 82.0 | 145 | EG928625 |
| R:GACCGTGATTTCGTCCAGTT | - | - | - | |
| Integrin beta-5-like (itgb5) f | F:CCTGCCAGCGGCTATGCAA | 94.1 | 147 |
DW540995/ XM014165323 |
| R:AGGACTGACATGCCGTTGG | - | - | ||
| Elongation factor 1 alpha-2 (eef1α-2) g | F:GCACAGTAACACCGAAACGA | 86.4 | 132 | BG933853 |
| R:ATGCCTCCGCACTTGTAGAT | - | - | - | |
| 60S ribosomal protein 32 (rpl32) g | F:AGGCGGTTTAAGGGTCAGAT | 96.1 | 119 | BT043656 |
| R:TCGAGCTCCTTGATGTTGTG | - | - | - |
a Bolded gene symbols refer to microarray-identified transcripts. b F is forward and R is reverse primer. c Primers that were previously published in Caballero-Solares et al. [40]. d The Salmo salar sequence of mtco2 used in the qPCR assay showed 87% identity with the 60 mer microarray probe (C060R108) affiliated with rainbow trout (Oncorhynchus mykiss). e Primers that were previously published in Caballero-Solares et al. [15] (annotated as VHSV-induced protein in that study). Alias pric285 stands for peroxisomal proliferator-activated receptor A interacting complex 285. f The Atlantic salmon sequences of itgb5 used in the qPCR assay showed 86% identity with the 60mer microarray probe (C002R106) affiliated with rainbow trout. Primers were designed based on common regions between DW540995 and XM014165323. g Primers that were previously published in Katan et al. [26].