NJ phylogenetic tree of β₂M protein sequences representing whole organisms.

<p>The phylogenetic tree shown is the collapsed tree of 55 sets of sequence data. This tree shows that β₂M sequences are clustered together according to their taxons. β₂M sequences from Eutheria are clustered together and consist of sequences from Primates, Equine, Rodents, Ruminants, SscQ07717, OcuP01885 and FcaQ5MGS7. Marsupials, Monotremes and Avians are the intermediate taxons between Eutheria and Fish. Amphibian Xla protein Q9IA97 is clustered together with Actinopterygii fishes while the outgroup in this tree is a cartilaginous fish Reg Q8AXA0. The divergence of fish and mammalian β₂M received a high bootstrap value (89) to support the reliability of this phylogenetic tree.</p

NJ phylogenetic tree of IGc1 domains present in β₂M protein sequences from fish.

<p>The phylogenetic tree shows that fish β₂M proteins are clustered according to the fish's ecological habitat, which may be fresh water, euryhaline or marine. The chicken sequence was used as the outgroup. Information on the sequences is given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013159#pone-0013159-t001" target="_blank">Table 1</a>.</p

β₂M sequences used in this analysis.

<p>The 55 protein sequences used in this study were retrieved from the Swiss-Prot and Refseq databases. Protein ID shows the accession number of the sequence in the database while Protein Name is the protein name designated in this study. Equine, Rodents, Ruminants, Primates and Others are largely grouped as Eutheria.</p

Multiple sequence alignment of IGc1 domains.

<p>The alignment consists of IGc1 domain sequences from organisms of various taxa such as Eutheria, Marsupials, Monotremes, Avians, Chondrichthyes fish and Actinopterygii fishes. Lca is the <i>L. calcarifer</i> protein sequence and the conserved residues are marked by (*). S1, S2, S3, S4, S5, S6 and S7 indicate the regions of seven β strands in the IGc1 domain. Numbers at the top indicate amino acid positions. Information on the sequences is given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013159#pone-0013159-t001" target="_blank">Table 1</a>.</p

Comparison of the gene organisation of H1, H2, M1, M2 and M3 from <i>S. salar</i> with ferritin sequences from other vertebrates.

<p>Exons and introns are represented respectively by the blue boxes and black lines. Numbers below and above the boxes respectively indicate exon sizes and intron sizes. The length of exons and introns is drawn to scale except for intron sizes exceeding 1500<b>//</b>.</p

Tissue distribution of the ferritin H- and M-chain isoforms (H, M1, M2, M3) in <i>S. salar</i>.

<p>The relative expression of H-chain was measured as the total expression of the H1 and H2 isoforms. The relative expression of each isoform was normalised to the averaged expression of <i>ef1α</i> and <i>βact</i>. Bars represent standard errors mean (± SEM, n = 4).</p

Nucleotide sequences of the Atlantic salmon ferritin cDNAs A) Nucleotide sequences of the Atlantic salmon ferritin cDNA clones H1, H2, M1, M2 and M3.

<p>Identical nucleotide residues are indicated by periods, while substituted residues are shown. The start and termination codons are underlined. B) Amino acid sequences based on the predicted ORFs of H1, H2, M1, M2 and M3. Identical amino acid residues are indicated by periods and substituted residues are shown. The conserved ferroxidase centres and nucleation sites are respectively indicated by <b>*</b> and boxes.</p

Fold changes in the expression of the ferritin H- and M-chain isoforms (H, M1, M2, M3) in <i>S. salar</i> muscle cell culture stimulated with IL-1β after A. 6 hour, B. 24 hours and C. 48 hours.

<p>Bars represent standard errors mean (± SEM, n = 4) and asterisks indicate significant differences (p<0.05, <i>t</i>-test).</p

Maximum Likelihood tree generated from amino acid sequences of vertebrate ferritins.

<p>The various ferritin sequences are clustered according to chain types, with heavy(H)-chains forming an orthologous group to the middle (M)/light(L)-chains. Ferritin sequences from <i>S. salar</i> (H1, H2, M1, M2, M3) characterised in this study are highlighted in green, while previously reported sequences <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0103729#pone.0103729-Andersen1" target="_blank">[13]</a> are indicated with (*). Values at nodes indicate the Maximum-Likelihood bootstrap percentages (1000 replications). The scale bar represents the estimated number of substitutions per site.</p

List of PCR primers used in this study.

<p>List of PCR primers used in this study.</p