ArticleGenetics2001
The evolutionary analysis of "orphans" from the Drosophila genome identifies rapidly diverging and incorrectly annotated genes.
Article in Genetics, 2001. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed.
- Orthologs of an essential orphan gene vary in their capacities for function and subcellular localization in Drosophila melanogaster.Molecular biology and evolution · 2026Article
- Adaptation without Dominance in Pseudomonas syringae Pathovars.Microbial ecology · 2025Article
- Lineage-specific genes are clustered with HET-domain genes and respond to environmental and genetic manipulations regulating reproduction in Neurospora.PLoS genetics · 2023Article
- The Lost and Found: Unraveling the Functions of Orphan Genes.Journal of developmental biology · 2023Review
- Functional characterization of prokaryotic dark matter: the road so far and what lies ahead.Current research in microbial sciences · 2022Review
- Proteomics of Galápagos Marine Iguanas Links Function of Femoral Gland Proteins to the Immune System.Molecular & cellular proteomics : MCP · 2020Article
- Article
- Refuting the hypothesis that the acquisition of germ plasm accelerates animal evolution.Nature communications · 2016Article
- Comparison of a Modern and Fossil Pithovirus Reveals Its Genetic Conservation and Evolution.Genome biology and evolution · 2016Article
- Remote homology and the functions of metagenomic dark matter.Frontiers in genetics · 2015Article
- Evolution of the class IV HD-zip gene family in streptophytes.Molecular biology and evolution · 2013Article
- Why so many unknown genes? Partitioning orphans from a representative transcriptome of the lone star tick Amblyomma americanum.BMC genomics · 2013Article
- Genome-wide identification, characterization, and expression analysis of lineage-specific genes within zebrafish.BMC genomics · 2013Article
- Article
- Hierarchical modularity and the evolution of genetic interactomes across species.Molecular cell · 2012Article
- Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers.Nature biotechnology · 2011Article
- Evolutionary origins of Brassicaceae specific genes in Arabidopsis thaliana.BMC evolutionary biology · 2011Article
- Comparative analyses reveal distinct sets of lineage-specific genes within Arabidopsis thaliana.BMC evolutionary biology · 2010Article
- Revisiting the Saccharomyces cerevisiae predicted ORFeome.Genome research · 2008Article
- Consistent and contrasting properties of lineage-specific genes in the apicomplexan parasites Plasmodium and Theileria.BMC evolutionary biology · 2008Article
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2 authors.
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Abstract
In genome projects of eukaryotic model organisms, a large number of novel genes of unknown function and evolutionary history ("orphans") are being identified. Since many orphans have no known homologs in distant species, it is unclear whether they are restricted to certain taxa or evolve rapidly, either because of a lack of constraints or positive Darwinian selection. Here we use three criteria for the selection of putatively rapidly evolving genes from a single sequence of Drosophila melanogaster. Thirteen candidate genes were chosen from the Adh region on the second chromosome and 1 from the tip of the X chromosome. We succeeded in obtaining sequence from 6 of these in the closely related species D. simulans and D. yakuba. Only 1 of the 6 genes showed a large number of amino acid replacements and in-frame insertions/deletions. A population survey of this gene suggests that its rapid evolution is due to the fixation of many neutral or nearly neutral mutations. Two other genes showed "normal" levels of divergence between species. Four genes had insertions/deletions that destroy the putative reading frame within exons, suggesting that these exons have been incorrectly annotated. The evolutionary analysis of orphan genes in closely related species is useful for the identification of both rapidly evolving and incorrectly annotated genes.
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