Selected article for: "amino acid and similarity plot"
Author: Yongjun Tan; Theresa Schneider; Matthew Leong; L Aravind; Dapeng Zhang
Title: Novel Immunoglobulin Domain Proteins Provide Insights into Evolution and Pathogenesis Mechanisms of SARS-Related Coronaviruses
  • Document date: 2020_3_7
    • ID: h5ire02h_22
    Snippet: Phylogenetic analysis of ORF7a, ORF8 and Alpha-CoV Ig domains shows that each group represents a 176 distinct clade ( Figure 2C ). The tree topology of ORF7a mirrors that of the polymerase tree ( Figure 3A) ; 177 however, the topology of the ORF8-Ig clade is not consistent with it. This might be due to a 178 recombination event between the SARS-related CoVs (as suggested by the similarity plot analysis) 179 and/or unusual divergence under selecti.....
    Document: Phylogenetic analysis of ORF7a, ORF8 and Alpha-CoV Ig domains shows that each group represents a 176 distinct clade ( Figure 2C ). The tree topology of ORF7a mirrors that of the polymerase tree ( Figure 3A) ; 177 however, the topology of the ORF8-Ig clade is not consistent with it. This might be due to a 178 recombination event between the SARS-related CoVs (as suggested by the similarity plot analysis) 179 and/or unusual divergence under selection. To better understand the functional difference between 180 ORF8 and ORF7a, we examined the column-wise Shannon entropy in the 20 amino acid alphabet and 181 found that the ORF8 has significantly higher mean entropy than ORF7a (ORF8: 1.09 vs ORF7a: 0.22, p< 182 10 -16 for the H0 of congruent means by t-test) ( Figure 2D

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