Table 1.
Statistical summary of sea trout skin transcriptome data.
Fig 1.
Characteristics of the homology search of sea trout transcripts.
(A) Venn diagram illustrating the distribution of matches against four public databases (NCBI nr, Swiss-Prot, Teleost Ensembl and KOG databases). In total, 36,902 (48.57%) transcripts were annotated. (B) E-value and (C) species distribution of the best hits based on the NCBI nr database.
Fig 2.
Gene Ontology comparative classification of the sea trout skin transcriptome (black) and multi-tissue transcriptome from the River Hayle and River Teign in southwest England (orange).
Table 2.
The eukaryotic orthologous groups (KOG) classification of the sea trout contigs.
Table 3.
KEGG analysis of the sea trout skin transcriptome.
Table 4.
Classification of the mucins identified in skin transcriptome, according to the BLASTX and BLASTN searches.
Fig 3.
Schematic representation of the molecular structure of the eight sea trout skin mucins.
Based on ST_51843, ST_271, ST_5641, ST_39, ST_35504, ST_27547, ST_7108, and ST_28361.
Fig 4.
Unrooted phylogenetic tree showing the evolutionary relationship of the secreted gel-forming mucins (Muc2, Muc5AC, Muc5B, and I-Muc) in teleosts.
The tree was constructed using multiple alignment of the VWD and C8 domains of the translated (ST_9981, ST_36280, ST_39) and selected teleost families: Salmonidae, Esocidae, and Cichlidae. The maximum likelihood phylogeny in MEGA 7 [61] was selected. The tree was bootstrapped 1,000 times. Accession numbers: Atlantic salmon I-Muc* (XP_014041914), northern pike I-Muc* (XP_012994242.1), northern pike I-Muc** (XP_012993966.1), Atlantic salmon I-Muc** (XP_013982567.1), Astatotilapia burtoni I-Muc* (XP_005941718.1), A. burtoni I-Muc** (XP_005946303.1); A. burtoni I-Muc*** (XP_005952623.1), Atlantic salmon I-Muc*** (XP_014038548.1), Atlantic salmon Muc5B (XP_014031349.1), Atlantic salmon Muc5AC (XP_014036802.1), northern pike Muc5AC (XP_010867519.2), A. burtoni Muc5AC (XP_005946314.1), A. burtoni Muc2 (XP_005952624.2), northern pike Muc2 (XP_012994223.1), Atlantic salmon Muc2 (XP_014040158.1).
Fig 5.
Map of the mucin type O-glycan biosynthesis pathway.
Genes identified from the sea trout skin transcriptome are shown in yellow.
Table 5.
List of the immune pathways identified in the sea trout skin transcriptome.
Table 6.
Summary of SSRs identified from the sea trout skin transcriptome.