Table 1.
Species distribution of specimens and RT-PCR surveillance results in the present study.
Figure 1.
Genome organization of the bat SaV TLC58/HK.
The genome organization of the bat SaV TLC58/HK in comparison with the genome organization of human SaV GI strain Mancheseter, human SaV GII strain Mc10, porcine enteric calicivirus, and norovirus GII strain MD145.
Table 2.
Comparison of genomic features among selected SaV.
Table 3.
Comparison of genome identities and amino acid identities between the predicted polyproteins of bat SaV and the selected SaV.
Figure 2.
Unrooted maximum-likelihood tree based on full-length amino acid sequences of ORF1 precusor polyprotein.
SH-like aLRT branch support values of greater than 0.70 are shown besides major branches. Scale bar indicates the number of inferred substitutions per site.
Figure 3.
Unrooted maximum-likelihood trees of VP1 and VP2.
The trees were constructed based on the full-length amino acid sequences of (a) VP1 major capsid protein, and (b) VP2 minor structural protein. SH-like aLRT branch support values of greater than 0.70 are shown besides major branches. Scale bar indicates the number of inferred substitutions per site.
Figure 4.
The scratterplot of codon usage summary statistics Nc and Nc′ against the proportion of G or C nucleotides at the 3rd position of synonymous codons (GC3s), showing greater codon usage bias in the bat SaV genome relative to other SaV genomes. Unlike the porcine enteric caliciviruses, the observed difference in codon usage bias persists with adjustment of background nucleotide composition (Nc′).
Table 4.
CpG dinucleotide bias in selected SaV genomes, as assessed by the odds ratio of CpG (ρCG) and other measures.