Comparison of the number of unigene annotations obtained from the different databases.

<p>The number of unigene annotations hits from the Nt, Nr, Swiss-Prot and Gene databases (E-value ≤1E-5), respectively.</p

SOXs gene phylogeny and amino acid alignment.

<p>(<b>A</b>) Bootstrap values next to the nodes represent the percentage of 1000 replicate trees supporting the corresponding clade. (<b>B</b>) The predicted SOX proteins from <i>H. chinensis</i> were aligned together with <i>Xenopus (Silurana) tropicalis</i>, <i>Xenopus laevis, Bufo marinus, Rana chensinensis</i> and <i>Andrias davidianus</i> SOX proteins using DNAman multiple alignment program.</p

Expression of hepcidin gene in various tissues (heart (H), fin (F), brain (B), stomach (St), kidney (K), intestines (I), Swim bladder (SB), muscle (M), spleen (Sp), and liver (L) of uninfected miiuy croaker.

<p>Values with the same superscript are not significantly different (<i>P</i>>0.05).</p

Evidence of positive Darwinian selection from site-specific model analyses for the HAMP gene of fish.

<p><b>Note:</b><i>P</i> number of parameters in the <i>ω</i> distribution, <i>K</i> estimated transition/transversion rate ration, <i>ω</i> selection parameter, and <i>p</i>_n proportion of sites that fall into the <i>ω_n</i> site class. <i>p</i>, <i>q</i> shape parameters of the β function (for models M7 and M8). Only positively selected sites with posterior probability >0.95 are shown.</p

Characteristics of homology search of assembled unigenes against Nr protein database.

<p>(<b>A</b>) FPKM distribution for each assembled unigene. (<b>B</b>) Score distribution of BLAST hits for each unigene with a cutoff E-value of 1E-5. (<b>C</b>) E-value distribution of BLAST hits for each unigene with a cutoff E-value of 1E-5. (<b>D</b>) Identity distribution of the top BLAST hits for each unigene. (<b>E</b>) Similarity distribution of the top BLAST hits for each unigene. (<b>F</b>) Length of unigenes with hits compared with those without hits.</p

Characteristics of 13 polymorphic cSSRs loci in <i>H. chinensis</i>.

<p><i>N</i>, number of alleles; <i>Ne</i>, effective number of alleles; <i>H_e/H_o</i>, expected and observed heterozyosity; HWE, Hardy-Weinberg equilibrium; “*” show significant deviation from Hardy-Weinberg equilibrium (p<0.0026).</p

Phylogenetic tree of hepcidin gene from miiuy croaker and other teleost were constructed using Bayesian inference method.

<p>Phylogenetic tree of hepcidin gene from miiuy croaker and other teleost were constructed using Bayesian inference method.</p