Contributors:Andrzej Jakubczak, Marek Kowalczyk, Beata Horecka
Supplementary material 1 – Types of environmental samples used during analysis
Supplementary material 2 – Phylogenetic analysis of obtained variants and sequences previously isolated in Poland by Ryt-Hansen et al. (2017a). Phylogenetic tree prepared by MEGA 6 using the maximum likelihood method with 1,000 bootstrap replicates.
Supplementary material 3. Phylogenetic analysis of obtained variants and sequences deposed by Ryt-Hansen et al. (2017a). Phylogenetic tree prepared by MEGA 6 using the maximum likelihood method with 1,000 bootstrap replicates.
Supplementary material 4 – Comparison between polymorphic sites in sequences coding NS1 and VP2 protein
For proteomic analysis, the TMT method was used. Uninfected DF-1 cells (n = 3) and infected with ALV-J DF-1 cells (n = 3) were used to extract proteins for analysis. The tandem mass spectra were compared with those available in the Uniprot Gallus database, concatenated with a reverse decoy database.
Contributors:Eric Cassmann, Bianca Zaffarano, Joseph Haynes, Ganwu Li, qi chen
This is a 4823 nucleotide segment which corresponds to the cleanest read following bioinformatics analysis. This segment contains the complete hexon gene as well as complete pVI, pVII, pX genes and partial sequences of the penton and protease genes of an avian siadenovirus. The sequence was derived from a pooled liver and kidney homogenate from a cockatiel with chronic liver disease.
S1 file contains the details of the primers of the qRT-PCR. S2 file shows the signifcantly different expressed genes at the three ages between the two groups. S3 file contains the enrichment analysis including GO functional analysis and KEGG pathway analysis data of the research.