Table 1 Summary of the degenerate primer sequences used to amplify putative gene fragments from Chinook salmon gDNA and cDNA, with approximate fragment sizes and the resulting qRT-PCR primer sequences, fragment size and Taqman probe sequence for six immune-related genes
Gene | Degenerate primer sequences | PCR size (gDNA/cDNA) | GeneBank accession numbers | qRT-PCR primer sequences | qRT-PCR size | qRT-PCR probe sequence |
|---|---|---|---|---|---|---|
IL-8 | STTGTSRTKGTGCTCCTGG ATGACYYTCTTSACCCAMG | 800/200 bp | CGCACTGCAGAGACACTGA ACAAATCTCCTGACCGCTCTTG | 58 bp | FAM-TCAGAGTGGCAATGATC-MGB | |
IL-8Receptor | GAYGTCTACCTGTTTCACCTG CACGAAGGCRTASAGSAC | 700/700 bp | GCGCGGCTTCCAGAAG ACAGGAGGAAGGCGAACAC | 64 bp | FAM-ACGGCAATGATGACCC-MGB | |
IL-1 | GAGCTGCATGCCATGATGC AGGTTGGATCCCTTGATGCC | 400/150 bp | CCAGGGAGGCAGCAGCTA CGGGCGTGACGTACGAA | 59 bp | FAM-ACAAAGTGCATTTGAAC-MGB | |
TNF | TGGTGTCAGCATGGAAGAC GTAAACGAAGAAGAGCCCAG | 800/300 bp | CCCACCATACATTGAAGCAGATT GGATTGTATTCACCCTCTAAATGGA | 70 bp | FAM-CCGGCAATGCAAAA-MGB | |
MHC-II | NA | NA | NA | AAGGTCCTCAGCTGGGTCAA GCTCAACTGTCTTGTCCAGTATGG | 99 bp | FAM-TCTGTAAGCCTAACGCTG-MGB |
IgM heavy chain | ATGAGGACTGGAGCAATGGG CTCGTTCTCTCCACCGGCT | 700/250 bp | CGCTGTAGATCACTTGGAAAACC TCTCCTCCAGTCTCCCTCTTGT | 69 bp | FAM-ACCTTGGTAAAGAAAGC-MGB |
