Table 2.
Four Microarray panels and the capture probes used in identification of each target pathogen. Unless referred, probes were designed for the current study.
| Organism | Genomic Region | Probe name | Sequence |
|---|---|---|---|
| BRDC Bacteria Panel | |||
| H. somni | 16S rDNA | Hsom-16S-P629 | GAACAGCATTTCAGACTGGGTGAC |
| Hsom-16S-P648 | GAGATTAATTGATTGACGATAATCACAGAAG | ||
| P. multocida | Pm0762 | Pmul-ulaR-P448 | AGAGCCACAGGTCAGAATCACACT |
| Pmul-ulaR-P531 | TATTGATGGCGAGCGGTTGAGA | ||
| M. bovis | 16S rDNA | Mbov-16S-P208 | GTTTGCTTCGCTAAAAGATCGGAGTG |
| Mbov-16S-P284 | GATGAAGGCCCTATGGGTTGTAAACTG | ||
| M. haemolytica | lktA | Mhae-Lkt-P194 | TCTCAATCCTCTTGATTCCTCTATCTCA |
| tbpB | Mhae-tbpB-P138 | ACAAGATGATAATAGTAACGCAAGACG | |
| nmaA | Mhae-nmaA-P801 | GCCTTGCGACTATCTCTCCTTTGTT | |
| Mhae-nmaA-P937 | GAAGCTGTAGAAGCCGGAACAGTA | ||
|
BRDC Virus Panel BoHV-1 |
Adjacent gB | BHV-glyco b Pb | CCACAAAGCACATTTGACCC |
| BHV-2 probe | GCGCGAATCTTATTTAAGTGCACACCGTGTTATTT | ||
| gB-BHV-2mod | GCGAATCTTATTTAAGTGCACACC | ||
| BRSV | G | BRSV-G-P1 | GAAAACCACCAAGACCACAACAAC |
| BRSV-G-P2 | ACCCAAAATAGAAAAAACAAAAGCCAATC | ||
| BRSV-G-Pmod | CAAGCAGAGCCCCCACAATCA | ||
| BPI-3 | M | BPI3-M-Pmod | TGCACAGCAATTGGATCAATAAC |
| BPI3-M-P2a | CCCAAATCCATGGCATTGTTATCATTGCC | ||
| BPI3-M-P2b | CCCAAATCTATGGCTTTGCTATCATTGCC | ||
| BPI3-M-P3a | ACAATATCAATAAATCTACAAGTACATATCAAAAC | ||
| BPI3-M-P3b | ACGATTTCAATAAACTTGCAAGTACACATTAAAAC | ||
| BPI3-M-P3c | ACCATATCAATAAACTTACAGGTACACATAAAAAC | ||
| BVDV -1 | 5’UTR | BVDV-5'UTR P1 | CTGCAGAGGCCCACTGTATTGCTAC1 |
| BVDV 1 | CAGGTAAAAGCAGTTTTAACCGACTGTTACGAATACAGCCTGATA1 | ||
| BVDV -2 | 5’UTR | BVDV-5'UTR P2 | CAGTTGAGGAGTCTCGAGATGCCATG1 |
| BVDV 2 | GACACTCCATTAGTCGAGGAGTCTCGAGATGCC1 | ||
| Hobi virus | 5’UTR | BVDV-5'UTR P3 | CGACGCATCAAGGAATGCCTCG2 |
| Pestivirus common | 5’UTR | BVDV com | GGGTAGCAACAGTGGTGAGTTCGTTGGATGGCT2 |
| Pesti-167R, Common B | CCTGAGTACAGGGCAGTCGTCAGTGGTTC1 | ||
| Pesti-215, Common A | CTCGAGATGCCATGTGGACGAGGGCATGCCCAAG1 | ||
| BCoV | N | BCoV-N-P1 | GTTGTACCCTACTATTCTTGGTTCTCTGG1 |
| BCoV-N-P2 | GTTCAAACCAGGGGTAGAAGAGCTC1 | ||
|
BED Bacteria/protozoa Panel C. perfringens |
plC | Cper-plC-P397 | GCTAGATATGAATGGCAAAGAGGAA |
| Cper-plC-P436 | ACATTCTATCTTGGAGAGGCTATGC | ||
| E. zuernii | ITS1 | Ezu-ITS1-P117 | TGTTTCTACCCACTACATCCAAC |
| E. bovis | ITS1 | Ebov-ITS1-P199 | GGTCTCATAAAACATCACCTCCAA |
| C. parvum | COWP | Cpar-COWP-P636 | CAGGACAACAATGTATGGCACCA |
| Cpar-COWP-P735 | CTGCCCACCAGGATATACAGA | ||
| S.e. Dublin | A1118 | SeD-A1118-P633 | AAATTACGCAGGGGTGGAAATAG |
| S.e. Typhimurium | STM4493 | SeT-STM4493-P257 | CGTAAGCATTGTTCAACTTCAGCAT |
| SeT-STM4493-P695 | CTGAGGAAATTCTGGAAAGCCGT | ||
| E. coli | eaeA | Ecol-eae-P318 | TGGTCAGCAGATCATTTTGCCACTC |
| Ecol-eae-P66 | GCTTAGTGCTGGTTTAGGATTGTTT | ||
| K99 | Ecol-K99-P252 | TGCTCGTATTGACTGGTCTGGTTC | |
| Ecol-K99-P398 | TCACTACGGCTGAATACACTCAC | ||
| stx-1 | Ecol-stx1-P782 | GCGTTCTTATGTAATGACTGCTG | |
| Ecol-stx1-P681 | GTGGCAAGAGCGATGTTACGGTTTG | ||
| Lt | Ecol-Lt-P680 | CCGGCAGAGGATGGTTACAGATT | |
| Ecol-Lt-P545 | GAGGTTTCTGCGTTAGGTGGAATA | ||
|
BED Virus Panel BRoV A |
VP6 | BRoV-VP6-PA1 | AGTTTTCCAAGAGTGATTAATTCAGC |
| BRoV-VP6-PA2 | GGATCAGAAATTCAGGTCGCTGGATT | ||
| BRoV C | VP6 | BRoV-VP6-PC1 | AATGGAATGCAACCTCAATCACCAAC |
| BRoV-VP6-PC2 | ACAGTTTGGAAATGCTATGGGATTGAG | ||
| BRoV B | VP6 | BRoV-VP6-PB1 | TTGTGAGACAACCAGCTAGTCT |
| BRoV-VP6-PB2a | ATTGAACGTCGGGTTGTGGAACC | ||
| BRoV-VP6-PB2b | GAAGGCTCGAGACCAGTTAGAGTG | ||
| BToV | N | BToV-N-P1-uni | CAGCAGTCACTATCTTTGCCATTTG |
| BToV-N-P2-bre | AATAGGCGGCGGAATAATAATGG | ||
| BVDV -1 | 5’UTR | BVDV-5'UTR P1 | CTGCAGAGGCCCACTGTATTGCTAC1 |
| BVDV 1 | CAGGTAAAAGCAGTTTTAACCGACTGTTACGAATACAGCCTGATA1 | ||
| BVDV -2 | 5’UTR | BVDV-5'UTR P2 | CAGTTGAGGAGTCTCGAGATGCCATG1 |
| BVDV 2 | GACACTCCATTAGTCGAGGAGTCTCGAGATGCC1 | ||
| Hobi virus | 5’UTR | BVDV-5'UTR P3 | CGACGCATCAAGGAATGCCTCG2 |
| Pestivirus common | 5’UTR | BVDV com | GGGTAGCAACAGTGGTGAGTTCGTTGGATGGCT2 |
| Pesti-167R, Common B | CCTGAGTACAGGGCAGTCGTCAGTGGTTC1 | ||
| Pesti-215, Common A | CTCGAGATGCCATGTGGACGAGGGCATGCCCAAG1 | ||
| BCoV | N | BCoV-N-P1 | GTTGTACCCTACTATTCTTGGTTCTCTGG1 |
| BCoV-N-P2 | GTTCAAACCAGGGGTAGAAGAGCTC1 | ||
2
Oliver Lung, unpublished. BVDV 1, 2, Hobi virus, pestivirus common and BCoV probes are present in both Respiratory and Enteric Virus panels.