Additional file 1: of Identification of non-essential loci within the Meleagrid herpesvirus 1 genome

Supplemental Table S1. Details of transposon gene interruptions into the MeHV-1 infectious clone pMeHV1-C18. Supplemental Table S2: Oligonucleotides used in this study. Supplemental Figure S1: Primary chicken embryo fibroblasts (CEFs) were used as a negative control. (PDF 121 kb

PCR primers which yielded partial MbRV proviral sequence.

<p>*Reference <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0106954#pone.0106954-Tarlinton1" target="_blank">[6]</a>.</p><p>The numbers in primer pairs 2,3 and 4 refer to the approximate position in the homologous region of either the KoRV or GALV genome.</p><p>PCR primers which yielded partial MbRV proviral sequence.</p

Phylogenetic tree for concatenated <i>env</i> sequences.

<p>Bayesian inference tree for the concatenated <i>env</i> sequences of MbRV and related sequences available on Genbank. Numbers at nodes represent Bayesian posterior probabilities; scale bar represents 0.2 substitutions per site. The tree was midpoint rooted. Abbreviations described in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0106954#pone-0106954-t003" target="_blank">Table 3</a>.</p

Species tested using PCR for the presence of koala retrovirus related sequence.

<p>Those with an * yielded an amplicon of the appropriate size.</p><p>Species tested using PCR for the presence of koala retrovirus related sequence.</p

Genebank sequences used in alignments to construct phylogenetic trees.

<p>Genebank sequences used in alignments to construct phylogenetic trees.</p

Relative positions of MbRV fragments with respect to GALV genome.

<p>Schematic showing the relative positions of the four MbRV fragments (dark bars) and the positions in which they align against the GALV genome. MbRV sequenced fragments are labeled 1–4 starting from the 5′ end the genome.</p

Movid duck locations

Movid duck location

Descriptive statistics on travel distance and duration of time spent per district per month for moving duck flocks in Central Java, Indonesia.

<p>Descriptive statistics on travel distance and duration of time spent per district per month for moving duck flocks in Central Java, Indonesia.</p

Geo-referenced networks of actors involved in the moving duck flock production systems in four districts of Central Java, Indonesia.

<p>Links between actors are based on their interactions with moving duck flock farmers. The map was generated in R 3.0.2. (R Foundation for Statistical Computing) using the igraph package.</p

Frequency of normalized degree and number of normalized ties for three categories of actors involved in the moving duck flock production system in Central Java, Indonesia.

<p>Frequency of normalized degree and number of normalized ties for three categories of actors involved in the moving duck flock production system in Central Java, Indonesia.</p