ArticleJournal of experimental zoology. Part B, Molecular and developmental evolution2017
A Comparative Transcriptomic Analysis of Development in Two Astyanax Cavefish Populations.
Article in Journal of experimental zoology. Part B, Molecular and developmental evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 43 citations in OpenAlex.
- Triplophysa nayongensis sp. nov. (Cypriniformes, Nemacheilidae), a new blind cave-dwelling loach from upper drainage of the Wujiang River, Guizhou, China.Journal of fish biology · 2026Article
- Loss of Conserved Noncoding Elements Likely Shaped the Evolution of Regressed Phenotypes in Cavefish.Genome biology and evolution · 2025Article
- Elevated Blood Hemoglobin in Different Cavefish Populations Evolves Through Diverse Hemoglobin Gene Expression Patterns.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2025Article
- Differentially expressed miRNAs offer new perspective into cave adaptation of Astyanax mexicanus.Annals of the New York Academy of Sciences · 2025Article
- Article
- From darkness to discovery: evolutionary, adaptive, and translational genetic insights from cavefish.Trends in genetics : TIG · 2024Review
- Metabolic shift toward ketosis in asocial cavefish increases social-like affinity.BMC biology · 2023Article
- Trait Loss in Evolution: What Cavefish Have Taught Us about Mechanisms Underlying Eye Regression.Integrative and comparative biology · 2023Review
- Discovery of putative long non-coding RNAs expressed in the eyes of Astyanax mexicanus (Actinopterygii: Characidae).Scientific reports · 2023Article
- Genomics of Secondarily Temperate Adaptation in the Only Non-Antarctic Icefish.Molecular biology and evolution · 2023Article
- Novel genome sequence of Chinese cavefish (Triplophysa rosa) reveals pervasive relaxation of natural selection in cavefish genomes.Molecular ecology · 2022Article
- A chromosome-level genome of Astyanax mexicanus surface fish for comparing population-specific genetic differences contributing to trait evolution.Nature communications · 2021Article
- Unique transcriptional signatures of sleep loss across independently evolved cavefish populations.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2020Article
- Genetic architecture underlying changes in carotenoid accumulation during the evolution of the blind Mexican cavefish, Astyanax mexicanus.Journal of experimental zoology. Part B, Molecular and developmental 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
- Eye Degeneration and Loss of otx5b Expression in the Cavefish Sinocyclocheilus tileihornes.Journal of molecular evolution · 2019Article
- In-Frame Indel Mutations in the Genome of the Blind Mexican Cavefish, Astyanax mexicanus.Genome biology and evolution · 2019Article
- Expression of extraocularPeerJ · 2019Article
- Raising the Mexican Tetra Astyanax mexicanus for Analysis of Post-larval Phenotypes and Whole-mount Immunohistochemistry.Journal of visualized experiments : JoVE · 2018Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Organisms that are isolated into extreme environments often evolve extreme phenotypes. However, global patterns of dynamic gene expression changes that accompany dramatic environmental changes remain largely unknown. The blind Mexican cavefish, Astyanax mexicanus, has evolved a number of severe cave-associated phenotypes including loss of vision and pigmentation, craniofacial bone fusions, increased fat storage, reduced sleep, and amplified nonvisual sensory systems. Interestingly, surface-dwelling forms have repeatedly entered different caves throughout Mexico, providing a natural set of "replicate" instances of cave isolation. These surrogate "ancestral" surface-dwelling forms persist in nearby rivers, enabling direct comparisons to the "derived" cave-dwelling form. We evaluated changes associated with subterranean isolation by measuring differential gene expression in two geographically distinct cave-dwelling populations (Pachón and Tinaja). To understand the impact of these expression changes on development, we performed RNA-sequencing across four critical stages during which troglomorphic traits first appear in cavefish embryos. Gene ontology (GO) studies revealed similar functional profiles evolved in both independent cave lineages. However, enrichment studies indicated that similar GO profiles were occasionally mediated by different genes. Certain "master" regulators, such as Otx2 and Mitf, appear to be important loci for cave adaptation, as remarkably similar patterns of expression were identified in both independent cave lineages. This work reveals that adaptation to an extreme environment, in two distinct cavefish lineages, evolves through a combination of unique and shared gene expression patterns. Shared expression profiles reflect common environmental pressures, while unique expression likely reflects the fact that similar adaptive traits evolve through diverse genetic mechanisms.
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