Abstract
Using a metagenomics approach, we were able to determine for the first time the full-genome sequence of a psittacine adenovirus 1 isolate that was recovered from the liver of a dead Senegal parrot (Poicephalus senegalus) in Italy. The results of the phylogenetic investigations revealed the existence of high genetic diversity among adenoviruses circulating in psittacine birds.
Highlights
Using a metagenomics approach, we were able to determine for the first time the full-genome sequence of a psittacine adenovirus 1 isolate that was recovered from the liver of a dead Senegal parrot (Poicephalus senegalus) in Italy
Sequencing yielded 14,215,807 paired-end reads 301 bp long, which were quality filtered and taxonomically classified by (i) aligning against the integrated NT database using BLAST 2.7.1ϩ [4], with default parameters, and against the integrated NR database using DIAMOND version 0.9.17 [5], with default parameters; (ii) filtering out alignment hits with E values larger than 1 ϫ 10Ϫ3; and (iii) feeding remaining alignment hits to MEGAN ue version 6.10.8 [6]
Reads taxonomically classified as belonging to the Adenoviridae family were selected and de novo assembled using IDBA-UD version 1.1.1 [7], using default parameters and the multi-k-mer approach
Summary
We were able to determine for the first time the full-genome sequence of a psittacine adenovirus 1 isolate that was recovered from the liver of a dead Senegal parrot (Poicephalus senegalus) in Italy. Reads taxonomically classified as belonging to the Adenoviridae family were selected and de novo assembled using IDBA-UD version 1.1.1 [7], using default parameters and the multi-k-mer approach (minimum value, 24; maximum value, 124; increment, 10). A single contig with a length comparable to the size of the Adenoviridae genome was obtained.
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