Author: Valeria Lulla; Andrew E. Firth
Title: A hidden gene in astroviruses encodes a cell-permeabilizing protein involved in virus release Document date: 2019_6_6
ID: avq3zwmc_37
Snippet: The 221-sequence ORF1b tree was used to manually select clades (Fig. 1B) for full-genome SYNPLOT2 analyses (Fig. S3) . For the ORF2-only SYNPLOT2 analyses (Fig. S5) , we used a more objective method to select clades. Through an iterative procedure of clustering the 415 ORF2 sequences based on amino acid identity to a set of reference sequences, and selecting sequences distal from all reference sequences as new reference sequences, we arrived at a.....
Document: The 221-sequence ORF1b tree was used to manually select clades (Fig. 1B) for full-genome SYNPLOT2 analyses (Fig. S3) . For the ORF2-only SYNPLOT2 analyses (Fig. S5) , we used a more objective method to select clades. Through an iterative procedure of clustering the 415 ORF2 sequences based on amino acid identity to a set of reference sequences, and selecting sequences distal from all reference sequences as new reference sequences, we arrived at a set identity to a reference, and only 20 have <55% identity; 82 and 4 sequences have >50% and >55% identity, respectively, to >1 references. Each non-reference sequence was then clustered with the reference sequence to which it has highest CP amino acid identity. This resulted in 16 singleton clusters and 26 multi-sequence clusters.
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