Viral fitness landscapes in diverse host species reveal multiple evolutionary lines for the NS1 gene of influenza A viruses - Supplemental Data (Part 2)
IAV NS1 protein is a multifunctional virulence factor that inhibits the type-I interferon host response through a myriad of mechanisms. How NS1 has evolved to enable this remarkable property across species and its specific impact in the overall replication, pathogenicity and host preference, remains unknown. We analyzed the NS1 evolutionary landscape and host tropism through the use of a barcoded library of recombinant IAV. We designed a barcoded viral library of recombinant influenza A viruses expressing a selection of NS1 from different strains, hosts, countries and years. Each virus was individually rescued and deep-sequenced using the Illumina MiSeq platform to verify viral genome integrity and sequence. Results showed diverse and apparently random evolutionary pathways taken by IAV NS1 according to its multiple phylogenetic lineages. In summary, the high evolutionary plasticity of this viral protein underscores the ability of IAV to adapt to multiple hosts and aids in our understanding of its global prevalence. This dataset contains the following: 1. Illumina deep-sequencing raw data of each virus included in the final library (barcodes 124-128). 2. Illumina deep-sequencing raw data of the barcode analysis in infection experiments. 3-6. Custom scripts for different data analysis in the manuscript. 7. Segment sequences of WT Influenza A viruses (A/Puerto Rico/08/1934 and A/Vietnam/1203/04) used in this work. 8. Full sequences of empty vectors (pCAGGS, pPolI and pDZ) used in this work.