ArticleMolecular biology and evolution2013
Origins of shared genetic variation in African cichlids.
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. Cited by 48 papers.
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48 citing papers in PubMed, 107 citations in OpenAlex.
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- Ancestral splice variation is a key substrate for rapid diversification in African cichlids.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Phylogenomic and Population Genomic Analyses of Ultraconserved Elements Reveal Deep Coalescence and Introgression Shaped Diversification Patterns in Lamprologine Cichlids of the Congo River.Systematic biology · 2025Article
- Genome Analyses Reveal Diverse Riverine Genetic Contributions to the Lake Malawi Cichlid Radiation.Molecular ecology · 2025Article
- Possible Involvement of Ghost Introgressions in the Striking Diversity of Vomeronasal Type 1 Receptor Genes in East African Cichlids.Ecology and evolution · 2025Article
- Large inversions in Lake Malawi cichlids are associated with habitat preference, lineage, and sex determination.bioRxiv : the preprint server for biology · 2025Article
- Exon-based Phylogenomics and the Relationships of African Cichlid Fishes: Tackling the Challenges of Reconstructing Phylogenies with Repeated Rapid Radiations.Systematic biology · 2023Article
- Differences among reciprocal hybrids ofHydrobiologia · 2023Article
- Genomic Signatures for Species-Specific Adaptation in Lake Victoria Cichlids Derived from Large-Scale Standing Genetic Variation.Molecular biology and evolution · 2021Article
- Genome-enabled discovery of evolutionary divergence in brains and behavior.Scientific reports · 2021Article
- Predicting future from past: The genomic basis of recurrent and rapid stickleback evolution.Science advances · 2021Article
- Ontogenetic divergence generates novel phenotypes in hybrid cichlids.Journal of anatomy · 2021Article
- Ecotype differences in aggression, neural activity and behaviorally relevant gene expression in cichlid fish.Genes, brain, and behavior · 2020Article
- What animals can teach us about evolution, the human genome, and human disease.Upsala journal of medical sciences · 2020Review
- Article
- A population genetic assessment of taxonomic species: The case of Lake Malawi cichlid fishes.Molecular ecology resources · 2019Article
- Patterns of genomic differentiation between two Lake Victoria cichlid species, Haplochromis pyrrhocephalus and H. sp. 'macula'.BMC evolutionary biology · 2019Article
- Standing geographic variation in eclosion time and the genomics of host race formation inEcology and evolution · 2019Article
- Multiple trans QTL and one cis-regulatory deletion are associated with the differential expression of cone opsins in African cichlids.BMC genomics · 2018Article
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Authors and funding
15 authors at 8 institutions in 3 countries.
Funding
Abstract
Cichlid fishes have evolved tremendous morphological and behavioral diversity in the waters of East Africa. Within each of the Great Lakes Tanganyika, Malawi, and Victoria, the phenomena of hybridization and retention of ancestral polymorphism explain allele sharing across species. Here, we explore the sharing of single nucleotide polymorphisms (SNPs) between the major East African cichlid assemblages. A set of approximately 200 genic and nongenic SNPs was ascertained in five Lake Malawi species and genotyped in a diverse collection of ~160 species from across Africa. We observed segregating polymorphism outside of the Malawi lineage for more than 50% of these loci; this holds similarly for genic versus nongenic SNPs, as well as for SNPs at putative CpG versus non-CpG sites. Bayesian and principal component analyses of genetic structure in the data demonstrate that the Lake Malawi endemic flock is not monophyletic and that river species have likely contributed significantly to Malawi genomes. Coalescent simulations support the hypothesis that river cichlids have transported polymorphism between lake assemblages. We observed strong genetic differentiation between Malawi lineages for approximately 8% of loci, with contributions from both genic and nongenic SNPs. Notably, more than half of these outlier loci between Malawi groups are polymorphic outside of the lake. Cichlid fishes have evolved diversity in Lake Malawi as new mutations combined with standing genetic variation shared across East Africa.
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