Synteny analysis of <i>SOCS</i> family members.

<p>Syntenic analysis of <i>SOCS</i> family members as described for <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032777#pone-0032777-g004" target="_blank">Figure 4</a>.</p

Synteny analysis of <i>JAK</i> family members.

<p>Synteny analysis of the relevant zebrafish and human JAK gene loci (white), indicating adjacent genes in their respective orientations. Genes showing conserved synteny between zebrafish and human are in black, genes which have homologues displaying synteny with other family members in humans or zebrafish edged in red and non-syntenic genes in grey.</p

Phylogenetic analysis of <i>STAT</i> family members.

<p>Phylogenetic analysis of STAT family members as described for <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032777#pone-0032777-g001" target="_blank">Figure 1</a>, with the inclusion of genes from African clawed frog (xl) and Western clawed frog (xt).</p

A model for the evolution of the of <i>JAK</i>, <i>SHP</i>, and <i>PIAS</i> families.

<p>(A) Evolutionary timeline summarizing key events in chordate/vertebrate evolution. Key evolutionary events are shown, including the divergence of protostomes (solid grey line) from deuterostomes, the subsequent divergence of urochordates (broken grey line) from other chordates, and finally ray-finned fish (including teleosts) (dotted black line) from lobe-finned fish (including terapods) (black line), with relevant present-day groupings (insect, urochordate, teleost, and tetrapod) indicated. Whole genome duplications (1R, 2R, 3R) are indicated with short red lines. (B–D) Model for the evolution of JAK-STAT pathway components: <i>JAK</i> (B), <i>SHP</i> (C), and <i>PIAS</i> (D) families. Red ovals indicate the likely core members at the time of protostomes/deuterostomes and urochordate/chordate divergence, while the grey shaded rectangle represents ray-finned/lobe-finned fish ‘core’ signaling components present at the time of divergence. Lineage-specific/local duplications are indicated by red dots and gene conversion indicated by a red square.</p

Phylogenetic analysis of <i>SHP</i> family members.

<p>Phylogenetic analysis of <i>SHP</i> family members as described for <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032777#pone-0032777-g003" target="_blank">Figure 3</a>.</p

A model for the evolution of the <i>STAT</i> family.

<p>A model for the evolution of the <i>STAT</i> component of the JAK-STAT pathway as described in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032777#pone-0032777-g011" target="_blank">Figure 11</a>.</p

Phylogenetic analysis of <i>JAK</i> family members.

<p>Phylogenetic analysis of JAK protein sequences using the Neighborhood-Joining algorithm, with bootstrap values above 80% (of 1000 replicates) indicated in bold. Species used for phylogenetic analysis are indicated: fruit fly (dm), sea squirt (ci), zebrafish (dr), green pufferfish (tf), Japanese pufferfish (tr), chicken (gg), mouse (mm), and human (hs).</p

Synteny analysis of <i>SHP</i> family members.

<p>Syntenic analysis of <i>SHP</i> family members as described for <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032777#pone-0032777-g004" target="_blank">Figure 4</a>.</p

A model for the evolution of the <i>SOCS</i> family.

<p>A model for the evolution of the <i>SOCS</i> component of the JAK-STAT pathway as described in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032777#pone-0032777-g011" target="_blank">Figure 11</a>.</p

Synteny analysis of <i>PIAS</i> family members.

<p>Syntenic analysis of <i>PIAS</i> family members as described for <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032777#pone-0032777-g004" target="_blank">Figure 4</a>.</p