Genetic drift and purifying selection shape within-host influenza A virus populations during natural swine infections
Fig 2
Haplotype networks of IAV segments support co-circulation of two distinct lineages at the county fair.
Consensus sequences from all successfully sequenced samples were inferred and used to construct haplotype networks. Each circle represents a unique haplotype (excluding differences caused by ambiguous bases), with circle size of a haplotype being proportional to the number of consensus sequences that belong to it. Numbers in parentheses refer to the number of differentiating single nucleotide polymorphisms (dSNPs) that distinguish the dominant haplotypes from each lineage in each internal gene segment. Because of the high genetic divergence between the HA of lineage I and the HA of lineage II, and between the NA of lineage I and the NA of lineage II, dotted lines rather than solid lines are shown between the lineages.