ArticleMolecular biology and evolution2013
Evolution of the eye transcriptome under constant darkness in Sinocyclocheilus cavefish.
Article in Molecular biology and evolution, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 44 papers.
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44 citing papers in PubMed, 90 citations in OpenAlex.
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- Parallel sensory compensation following independent subterranean colonization by groundwater salamanders (Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Reduced adult stem cell fate specification led to eye reduction in cave planarians.Nature communications · 2025Article
- Wall-following - Phylogenetic context of an enhanced behaviour in stygomorphicEcology and evolution · 2024Article
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- Trait Loss in Evolution: What Cavefish Have Taught Us about Mechanisms Underlying Eye Regression.Integrative and comparative biology · 2023Review
- Ecological Speciation Promoted by Divergent Regulation of Functional Genes Within African Cichlid Fishes.Molecular biology and evolution · 2022Article
- Novel genome sequence of Chinese cavefish (Triplophysa rosa) reveals pervasive relaxation of natural selection in cavefish genomes.Molecular ecology · 2022Article
- Quantitative Lipidomics and Spatial MS-Imaging Uncovered Neurological and Systemic Lipid Metabolic Pathways Underlying Troglomorphic Adaptations in Cave-Dwelling Fish.Molecular biology and evolution · 2022Article
- Widespread retention of ohnologs in key developmental gene families following whole-genome duplication in arachnopulmonates.G3 (Bethesda, Md.) · 2021Article
- Comparative development and ocular histology between epigean and subterranean salamanders (PeerJ · 2021Article
- Comparative transcriptomics reveals the molecular genetic basis of pigmentation loss inEcology and evolution · 2020Article
- Dark-rearing uncovers novel gene expression patterns in an obligate cave-dwelling fish.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2020Article
- Genomic Analysis of the Only Blind Cichlid Reveals Extensive Inactivation in Eye and Pigment Formation Genes.Genome biology and evolution · 2020Article
- A Metagenomic Study of Intestinal Microbial Diversity in Relation to Feeding Habits of Surface and Cave-Dwelling Sinocyclocheilus Species.Microbial ecology · 2020Article
- Article
Corrections and comments
- Erratum issued
Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
Abstract
In adaptating to perpetual darkness, cave species gradually lose eyes and body pigmentation and evolve alternatives for exploring their environments. Although troglodyte features evolved independently many times in cavefish, we do not yet know whether independent evolution of these characters involves common genetic mechanisms. Surface-dwelling and many cave-dwelling species make the freshwater teleost genus Sinocyclocheilus an excellent model for studying the evolution of adaptations to life in constant darkness. We compared the mature retinal histology of surface and cave species in Sinocyclocheilus and found that adult cavefish showed a reduction in the number and length of photoreceptor cells. To identify genes and genetic pathways that evolved in constant darkness, we used RNA-seq to compare eyes of surface and cave species. De novo transcriptome assemblies were developed for both species, and contigs were annotated with gene ontology. Results from cave-dwelling Sinocyclocheilus revealed reduced transcription of phototransduction and other genes important for retinal function. In contrast to the blind Mexican tetra cavefish Astyanax mexicanus, our results on morphologies and gene expression suggest that evolved retinal reduction in cave-dwelling Sinocyclocheilus occurs in a lens-independent fashion by the reduced proliferation and downregulation of transcriptional factors shown to have direct roles in retinal development and maintenance, including cone-rod homeobox (crx) and Wnt pathway members. These results show that the independent evolution of retinal degeneration in cavefish can occur by different developmental genetic mechanisms.
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