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Evolution of the eye transcriptome under constant darkness in Sinocyclocheilus cavefish

ABSTRACT: Evolution of the eye transcriptome under constant darkness in Sinocyclocheilus cavefish

PROVIDER: PRJNA174074 | ENA |

REPOSITORIES: ENA

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Evolution of the eye transcriptome under constant darkness in Sinocyclocheilus cavefish

Project description:we report a transcriptome-wide comparative investigation between surface and cave species in Sinocyclocheilus. De novo transcriptome assemblies were performed on surface and cave species; then the Sinocyclocheilus contigs were annotated with Gene Ontology. RNA-Seq assays revealed reduced transcription of a series of visual phototransduction and retinal disease related genes in cave-dwelling species compared with surface species. Degeneration of the retina in Sinocyclocheilus cavefish might occur in a lens-independent way by the down-regulation of several transcriptional factors, which have direct roles in retina development and maintenance, such as crx, rorb and Wnt pathway members. Examination of 2 different eye samples in 2 Sinocyclocheilus species.

2013-03-31 | E-GEOD-40446 | biostudies-arrayexpress

Evolution of the eye transcriptome under constant darkness in Sinocyclocheilus cavefish

2013-03-31 | GSE40446 | GEO

Evolution of the eye transcriptome under constant darkness in Sinocyclocheilus cavefish.

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The eye proteome of hadal snailfish from Mariana Trench

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Project description:Coding and non-coding mutations in DNA contribute significantly to phenotypic variability during evolution. However, less is known about the role of epigenetics in this process. Although previous studies have identified eye development genes associated with the loss of eyes phenotype in the Pachón blind cave morph of the Mexican tetra Astyanax mexicanus1-6, no inactivating mutations have been found in any of these genes2,3,7-10. Here we show that excess DNA methylation-based epigenetic silencing promotes eye degeneration in blind cave Astyanax mexicanus. By performing parallel analyses in Astyanax mexicanus cave and surface morphs and in the zebrafish Danio rerio, we have discovered that DNA methylation mediates eye-specific gene repression and globally regulates early eye development. The most significantly hypermethylated and down-regulated genes in the cave morph are also linked to human eye disorders, suggesting the function of these genes is conserved across the vertebrates. Our results show that changes in DNA methylation-based gene repression can serve as an important molecular mechanism generating phenotypic diversity during development and evolution.

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Eye Degeneration and Loss of otx5b Expression in the Cavefish Sinocyclocheilus tileihornes.

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Evidence of Late Pleistocene origin of Astyanax mexicanus cavefish

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