Whole-genome sequencing and assembly
The whole-genome sequence of each influenza virus isolate was obtained
by using the Genome Sequencer Junior (Roche 454) or ABI 3730 genetic
analyzer (Applied Biosystems) as previously described (Vijaykrishna,
2011, Liang, 2014). Original reads that shared >90%
sequence identity in a 40-nucleotide overlapping region were assembled
into contigs using Lasergene, version 9.0 (DNAStar).