ArticleNature communications2021
A chromosome-level genome of Astyanax mexicanus surface fish for comparing population-specific genetic differences contributing to trait evolution.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
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64 citing papers in PubMed, 124 citations in OpenAlex.
- Exploring Astyanax mexicanus as a model for unraveling genotype-environment interactions and metabolic adaptations.Lab animal · 2026Review
- Cave adaptation drives coordinated transcriptional remodeling across diverse cell types in the brain of a teleost fish.bioRxiv : the preprint server for biology · 2026Article
- Disruption of carotenoid metabolism in cavefish via loss of beta-carotene oxygenase 2a.Current biology : CB · 2026Article
- Automated Profiling of Social Behaviors to Assess the Genetic Basis of Evolution of Aggressive Behaviors in Astyanax mexicanus.Journal of experimental zoology. Part A, Ecological and integrative physiology · 2026Article
- Evolution of a central dopamine circuit underlies adaptation of a light-evoked sensorimotor response in the blind cavefish.Science advances · 2026Article
- A comparative brain atlas in the Mexican cavefish identifies widespread changes in cellular composition and gene expression.bioRxiv : the preprint server for biology · 2026Article
- Water Parameters and Hydrodynamics in Rivers and Caves HostingEcology and evolution · 2026Article
- CRISPR screening reveals genetic regulators associated with the evolution of eye degeneration.bioRxiv : the preprint server for biology · 2025Article
- Loss of Conserved Noncoding Elements Likely Shaped the Evolution of Regressed Phenotypes in Cavefish.Genome biology and evolution · 2025Article
- The evolution of cavefish odor perception shifts fish response from avoidance to approach when exposed to alarm and death odors.bioRxiv : the preprint server for biology · 2025Article
- The rx3 Gene Contributes to the Evolution of Eye Loss in the Cavefish Astyanax mexicanus.Evolution & development · 2025Article
- Intron turnover of slc26a1 and slc26a2 and convergence of intron insertion sites.Scientific reports · 2025Article
- The complete mitochondrial genomes of the two species of Astyanax (Characiformes: Acestrorhamphidae) that occur in cenotes of the Yucatán Peninsula karst aquifer: comparative analyses and their taxonomic implications.Molecular biology reports · 2025Article
- Article
- Mutations in the albinism gene oca2 alter vision-dependent prey capture behavior in the Mexican tetra.The Journal of experimental biology · 2025Article
- Quantitative trait loci concentrate in specific regions of the Mexican cavefish genome and reveal key candidate genes for cave-associated evolution.The Journal of heredity · 2025Article
- RNA-seq analysis of blood from cave- and surface-dwellingFrontiers in physiology · 2025Article
- Postprandial Sleep in Short-Sleeping Mexican Cavefish.Journal of experimental zoology. Part A, Ecological and integrative physiology · 2024Article
- Astyanax mexicanus surface and cavefish chromosome-scale assemblies for trait variation discovery.G3 (Bethesda, Md.) · 2024Article
- Evolution of a central dopamine circuit underlies adaptation of light-evoked sensorimotor response in the blind cavefish,bioRxiv : the preprint server for biology · 2024Article
4 more citing papers are in PubMed but not listed here.
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Authors and funding
28 authors at 13 institutions in 3 countries.
Funding
Abstract
Identifying the genetic factors that underlie complex traits is central to understanding the mechanistic underpinnings of evolution. Cave-dwelling Astyanax mexicanus populations are well adapted to subterranean life and many populations appear to have evolved troglomorphic traits independently, while the surface-dwelling populations can be used as a proxy for the ancestral form. Here we present a high-resolution, chromosome-level surface fish genome, enabling the first genome-wide comparison between surface fish and cavefish populations. Using this resource, we performed quantitative trait locus (QTL) mapping analyses and found new candidate genes for eye loss such as dusp26. We used CRISPR gene editing in A. mexicanus to confirm the essential role of a gene within an eye size QTL, rx3, in eye formation. We also generated the first genome-wide evaluation of deletion variability across cavefish populations to gain insight into this potential source of cave adaptation. The surface fish genome reference now provides a more complete resource for comparative, functional and genetic studies of drastic trait differences within a species.
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