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Transcriptome analysis provides insight into the role of the melanin pathway in two differently pigmented strains of the turtle Pelodiscus sinensis
- Source :
- Development Genes and Evolution. 229:183-195
- Publication Year :
- 2019
- Publisher :
- Springer Science and Business Media LLC, 2019.
-
Abstract
- Pelodiscus sinensis is the most common turtle species raised in East and Southeast Asia. The Japanese strain and the Qingxi black strain are important aquatic breeds of P. sinensis in China with unique characteristics in terms of production performance and appearance, including skin color. In this study, melanin content measure and histological analysis on skin samples of these two strains were carried out to compare their color characteristics. The results showed that Qingxi black turtles clearly have a greater ability to deposit melanin than the Japanese strain especially in the abdomen. Then, de novo transcriptome assembly and differential expression profiling analyses on the ventral skin from the two strains were performed to identify the genes responsible for the differences in skin color using the Illumina RNA-Seq system with three biological replicates. A total of 19,331 annotated unigenes were found by aligning to the reference genome of P. sinensis using TopHat v2.0.12. Differential expression analysis revealed that 670 genes were expressed differently, including 185 upregulated genes and 485 downregulated genes in Qingxi black strain using the DESeq R package (|log2FoldChange| ≥ 1, padj
- Subjects :
- 0106 biological sciences
0301 basic medicine
Genetics
Tyrosinase
De novo transcriptome assembly
Biology
010603 evolutionary biology
01 natural sciences
Transcriptome
03 medical and health sciences
030104 developmental biology
Gene expression
Gene family
KEGG
Gene
Dopachrome tautomerase
Developmental Biology
Subjects
Details
- ISSN :
- 1432041X and 0949944X
- Volume :
- 229
- Database :
- OpenAIRE
- Journal :
- Development Genes and Evolution
- Accession number :
- edsair.doi.dedup.....1bea3c6dbc7216716623fe58b0f2bcbf