Fig 1.
Assessment of Eurasian perch transcriptome assembly and annotation.
(A). Histogram of transcripts length distribution. (B). Evaluation of the transcriptome assembly based on vertebrate data set through BUSCO software. (C). Histogram of ORF length distribution. (D). Statistics on ORF completeness.
Table 1.
Summary statistics of Eurasian perch transcriptome.
Fig 2.
Heat map and GO enrichment of differentially expressed genes between domesticated and wild Eurasian perch.
(A). digital photograph of domesticated and wild Eurasian perch. (B). Heat map of differentially expressed genes, “D” indicates domesticated perch and “W” indicates wild perch. (C). GO enrichment analysis of down-regulated genes in domesticated perch, with whole transcriptome genes as reference set and down-regulated genes as a test set. (D). GO enrichment analysis of up-regulated genes in domesticated perch, with whole transcriptome genes as reference set and up-regulated genes as a test set.
Fig 3.
Expression profiles of 16 differentially expressed genes from RNA-Seq (red) and qRT-PCR (blue) between domesticated and wild perch.
“D” indicates domesticated perch and “W” indicates wild perch.
Fig 4.
Antigen processing and presentation pathway of Eurasian perch transcriptome.
Genes in blue boxes indicated these genes were identified and annotated in Eurasian perch transcriptome. Genes in red boxes indicated up-regulated genes in domesticated perch.
Table 2.
Putative SNP markers differentiating domesticated and wild perch with the associated GO process.
The appropriate GO process is distinguished as follows: growth (GO:0040007), immune system process (GO:0002376), and response to stimulus (GO:0050896) from the reference transcriptome*.
Fig 5.
Protein digestion and absorption pathway of Eurasian perch transcriptome.
Genes in blue boxes indicated these genes were identified and annotated in Eurasian perch transcriptome. Genes in green boxes indicated down-regulated genes in domesticated perch.