Figure 1. Phylogenetic analysis of the 14 clones derived from the Guilin recombinant compared with reference strains.

<p>GenBank accession numbers and clone numbers are showed on each tree, and the genotype is indicated after every accession number. Bootstrap values are showed at each nodes, and only bootstrap values of >70% are indicated. Phylogenetic trees comparing the 14 clones with 34 reference strains representing genotypes A–H, were constructed based on the S gene (A), pre-S region (B) and whole genomes (C). And the phylogenetic tree was constructed by comparing the Guilin recombinant with the Vietnam, Thailand and Long An recombinants as well as HBV C subgenotype based on the whole genomes (D).</p

Nucleotide distances between the Guilin HBV recombinant and other reference genotype strains^*.

<p>The reference genotype strains used in the table are the same as in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0084005#pone-0084005-g001" target="_blank">Figure 1C</a>.</p

Bootscan analysis demonstrating the complex recombination among genotypes A, C and G in the Guilin recombinant.

<p>The isolate from the female patient (A) and the isolate from the male patient (B) were subjected to bootscan analysis over the complete genome using the SIMPLOT program with a 500 bp window size, 10 bp step size and 100 bootstrap replicates, using gap-stripped alignments and neighbor-joining analysis, and were compared with three representative HBV genotypes: A (GenBank accession no. AB126580), C (GenBank accession no. AB050018) and G (GenBank accession no. AB064310). Woolly monkey was a known out-group (GenBank accession no. AF046996). Analysis was stared from nt 2700.</p

The breakpoint positions and the arrangements of the genotype fragments of the Guilin, Vietnam, Long An and Thailand recombinants.

<p>The breakpoint positions and the arrangements of the genotype fragments of the Guilin, Vietnam, Long An and Thailand recombinants.</p