Table 2.
Primers used to amplify the complete genome of lineage 5 NDV.
| Fragment | Location | Forward primer sequence (5′ → 3′) | Reverse primer sequence (5′ → 3′) | Size |
|---|---|---|---|---|
| 1 | 1–2792 | ACCAAACAGAGAATCTGTGAGGTAC | TCGGGCTACTGCTCGGAGAT | 2792 |
| 2 | 2541–5926 | GTCCAGCTACCTGCCGACTT | GCCTGTCACGATGACTTGAGA | 3386 |
| 3* | 5673–9156 | CTGAAGGCGCACTCACTACG | AGATGTGCCGCCGTAGAAGAT | 3484 |
| 4258–8657 | CCTGCGGAGTGTGAAAGTCA | GGAGCACTCCGGTTATCTTGG | 4400 | |
| 4 | 8644–12,183 | AACCGGAGTGCTCCATCCC | AGATTCCCAGCTGTGGGCAG | 3540 |
| 5 | 11,745–15,192 | CCCGGAACAGAAGCTGGTCA | ACCAAACAGAGATTTGGTGAACGAC | 3448 |
*
An additional primer was designed for fragment 3 which was located in the hypervariable region of the genome. Primer locations are based on NDV strain chicken/Banjarmasin/010/10 (HQ697254.1).