Unrooted maximum-likelihood tree based on full-length amino acid sequences of ORF1 precusor polyprotein.

<p>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.</p

Species distribution of specimens and RT-PCR surveillance results in the present study.

<p>Species distribution of specimens and RT-PCR surveillance results in the present study.</p

Scatterplot of codon usage.

<p>The scratterplot of codon usage summary statistics N_c and N_c′ against the proportion of G or C nucleotides at the 3^rd position of synonymous codons (GC_3s), 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 (N_c′).</p

Comparison of genomic features among selected SaV.

*<p>Only the formally recognized SaV genogroups are included.</p>†<p>Complete genome sequence is not available for canine SaV and California sea lion 1 SaV.</p><p>Sequence accession numbers are as follows: Bat SaV/TLC58/HK (JN899075), SaV/Manchester (X86560), SaV/Mc10 (NC_010624), porcine enteric calicivirus (PEC) (AF182760), SaV/Hu/Chiba/000671/1999/JP (AJ786349), SaV/Hu/Ehime475/2004/JP (DQ366344), canine SaV (JN387134), California sea lion 1 SaV (JN420370).</p

CpG dinucleotide bias in selected SaV genomes, as assessed by the odds ratio of CpG (ρ_CG) and other measures.

<p>Significantly less CpG suppression was found in the bat SaV genome, while a similar degree of negative GC skew was observed in all SaV genomes.</p

Unrooted maximum-likelihood trees of VP1 and VP2.

<p>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.</p

Clinical, demographic and laboratory characteristics of hospitalized patients with pandemic influenza A/H1N1/2009 virus infection.

<p>Patients with viral RNA detected in stool/ rectal samples but not blood (n = 6) were excluded from the comparison.</p><p>*(n = 117);</p>†<p>(n = 113);</p>‡<p>(n = 11);</p>§<p>(n = 115).</p

Proportion of samples with positive detection of D222G/N quasispecies in patients with positive viral RNA detection outside the respiratory system.

<p>Proportion of samples with positive detection of D222G/N quasispecies in patients with positive viral RNA detection outside the respiratory system.</p

Additional file 1: of Live attenuated Salmonella typhimurium vaccines delivering SaEsxA and SaEsxB via type III secretion system confer protection against Staphylococcus aureus infection

Table S1. Evaluation of humoral and mucosal immune responses against rSaEsxA and rSaEsxB by ELISA. Readout at OD450 was shown. (XLSX 49 kb

Additional file 2: of Live attenuated Salmonella typhimurium vaccines delivering SaEsxA and SaEsxB via type III secretion system confer protection against Staphylococcus aureus infection

Table S2. Evaluation of cellular immune response against rSaEsxA and rSaEsxB by ELISPOT. The spot-forming cells were counted using an immunospot reader system. The spot numbers were shown. (XLSX 41 kb