Comparative Transcriptome Analyses Reveal the Role of Conserved Function in Electric Organ Convergence Across Electric Fishes

Frontiers in Genetics
Ake LiuXun Gu

Abstract

The independent origins of multiple electric organs (EOs) of fish are fascinating examples of convergent evolution. However, comparative transcriptomics of different electric fish lineages are scarce. In this study, we found that the gene expression of EOs and skeletal muscles from three lineages (Mormyroidea, Siluriformes, and Gymnotiformes) tended to cluster together based on the species of origin, irrespective of the organ from which they are derived. A pairwise comparison of differentially expressed genes (DEGs) revealed that no less than half of shared DEGs exhibited parallel expression differentiation, indicating conserved directionality of differential expression either in or between lineages, but only a few shared DEGs were identified across all focal species. Nevertheless, the functional enrichment analysis of DEGs indicated that there were more parallel gene expression changes at the level of pathways and biological functions. Therefore, we may conclude that there is no parallel evolution of the entire transcriptomes of EOs among different lineages. Further, our results support the hypothesis that it is not different genes but conserved biological functions that play a crucial role in the convergence of complex phenot...Continue Reading

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Citations

Feb 28, 2021·Genome Biology and Evolution·Ying Wang, Liandong Yang

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Methods Mentioned

BETA
RNA-Seq
PCA

Software Mentioned

KO
Bowtie2
Ensembl
toolkit
FastQC
Seq by Expectation - Maximization ( RSEM )
NJ
edgeR ( Empirical analysis of Digital Gene Expression in R )
fastx
- Annotation System ( KOBAS )

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