Figure legends:
Figure 1 Size and amino acid sequence differences of 90cap proteins obtained in this study. Bars indicating thecap proteins are filled according to the phylogenetic group they
occupy. The upper bar represents the consensus of the known PiCVcap proteins; Amino acids are numbered from 1 to 277. Gaps
indicate the location of deleted (compared to the consensus sequence)
amino acids. The number on the right is the length of capproteins.
Figure 2 Comparison of the amino acid sequence conservation at
a particular position between the 90 identified PiCV strains and the
PiCV reference strains available in GenBank. (a) The 90 identified PiCV
strains from the racing pigeons in China. (b) The 54 Chinese PiCV
reference strains available in GenBank. (c) The 72 PiCV reference
strains available in GenBank from other countries. Note.
The GenBank accession no. of the 90 identified PiCV strains, the 54
Chinese PiCV reference strains and 72 PiCV reference strains from other
countries was shown in Table 2, S1 and S2.
Figure 3 Divergence analysis of cap proteins of the 90
identified PiCV strains. (a) The 90 identified PiCV strains from the
racing pigeons in China. (b) The 54 Chinese PiCV reference strains
available in GenBank. (c) The 72 PiCV reference strains available in
GenBank from other countries. The unique amino acid mutations found in
this study are indicated in red. Note. All PiCV
reference strains were the same to the Figure 2.
Figure 4 Phylogenetic analysis of PiCV strains based on 90cap gene sequences identified in this study and 126 capgene sequences available in GeneBank. A maximum likelihood phylogenetic
tree was automatically constructed with 1000 bootstrap replicates and
the remaining default parameters in the MEGA 5.0 software, and the
Interactive Tree Of Life (iTOL) software was used for the display and
annotation of the phylogenetic tree. Labels at branch tips refer to the
strain name and GenBank accession number. Red taxa highlight the 90 PiCV
genome sequences isolated from the racing pigeons geographically located
in China.
Figure 5 Recombination breakpoint distribution plots for 67
PiCV full genome sequences identified in this study and 113 PiCV full
genome sequences available in GenBank. The red and blue areas of the
plots indicate recombination breakpoint
hot-spots
and cold-spots, respectively. The dark and light grey areas represent
the 95% and 99% confidence intervals of the expected degrees of
breakpoint clustering under random recombination, respectively.