ArticleMolecular ecology resources2022
Phylogenomic analyses of the genus Drosophila reveals genomic signals of climate adaptation.
Article in Molecular ecology resources, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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21 citing papers in PubMed, 36 citations in OpenAlex.
- Naturally Occurring Variability in the Regulatory Region of theInternational journal of molecular sciences · 2026Article
- Evidence for dual pathways of Tc1/mariner domestication in Drosophila.BMC biology · 2026Article
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- Conservation and divergence of sex-biased gene expression across 50 million years of Drosophila evolution.Molecular biology and evolution · 2026Article
- Thermal Plasticity is Regulated by a Key MicroRNA During Range Expansion of an Invasive Fruit Fly.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Comparative gene annotation and orthology assignments across 301 species of Drosophilidae.bioRxiv : the preprint server for biology · 2026Article
- Comparative gene annotation and orthology assignments across 301 species of Drosophilidae.PLoS biology · 2026Article
- Comparative functional and evolutionary analysis of essential germline stem cell genes across the genus Drosophila and two outgroup species.G3 (Bethesda, Md.) · 2025Article
- Recombination Suppression Drives Expansion of the Drosophila Dot Chromosome.Molecular biology and evolution · 2025Article
- Olfactory variation among closely related cactophilic Drosophila species.Journal of comparative physiology. A, Neuroethology, sensory, neural, and behavioral physiology · 2025Article
- Experimental horizontal transfer of phage-derived genes to Drosophila confers innate immunity to parasitoids.Current biology : CB · 2025Article
- Article
- Saltational Episodes of Reticulate Evolution in the Drosophila saltans Species Group.Molecular biology and evolution · 2024Article
- Phylogenomic instructed target analysis reveals ELAV complex binding to multiple optimally spaced U-rich motifs.Nucleic acids research · 2024Article
- Identification and genetic analysis of a pervasive 'needle-eye' sperm phenotype inProceedings. Biological sciences · 2024Article
- Exitron splicing of odor receptor genes inProceedings of the National Academy of Sciences of the United States of America · 2024Article
- A male-killing Wolbachia endosymbiont is concealed by another endosymbiont and a nuclear suppressor.PLoS biology · 2023Article
- Assembly-Free Detection and Quantification of Transposable Elements with dnaPipeTE.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Desiccation resistance differences ineLife · 2022Article
- Functional Divergence of the bag-of-marbles Gene in the Drosophila melanogaster Species Group.Molecular biology and evolution · 2022Article
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25 authors at 7 institutions in 5 countries.
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Abstract
Many Drosophila species differ widely in their distributions and climate niches, making them excellent subjects for evolutionary genomic studies. Here, we have developed a database of high-quality assemblies for 46 Drosophila species and one closely related Zaprionus. Fifteen of the genomes were newly sequenced, and 20 were improved with additional sequencing. New or improved annotations were generated for all 47 species, assisted by new transcriptomes for 19. Phylogenomic analyses of these data resolved several previously ambiguous relationships, especially in the melanogaster species group. However, it also revealed significant phylogenetic incongruence among genes, mainly in the form of incomplete lineage sorting in the subgenus Sophophora but also including asymmetric introgression in the subgenus Drosophila. Using the phylogeny as a framework and taking into account these incongruences, we then screened the data for genome-wide signals of adaptation to different climatic niches. First, phylostratigraphy revealed relatively high rates of recent novel gene gain in three temperate pseudoobscura and five desert-adapted cactophilic mulleri subgroup species. Second, we found differing ratios of nonsynonymous to synonymous substitutions in several hundred orthologues between climate generalists and specialists, with trends for significantly higher ratios for those in tropical and lower ratios for those in temperate-continental specialists respectively than those in the climate generalists. Finally, resequencing natural populations of 13 species revealed tropics-restricted species generally had smaller population sizes, lower genome diversity and more deleterious mutations than the more widespread species. We conclude that adaptation to different climates in the genus Drosophila has been associated with large-scale and multifaceted genomic changes.
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