ArticleGenome biology and evolution2015
Combinatorial DNA Rearrangement Facilitates the Origin of New Genes in Ciliates.
Article in Genome biology and evolution, 2015. 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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Who cites it
21 citing papers in PubMed.
- A PIWI protein-dependent DNA N6-adenine methylation pathway inbioRxiv : the preprint server for biology · 2026Article
- Widespread 3D genome reorganization precedes programmed DNA rearrangement inbioRxiv : the preprint server for biology · 2025Article
- Genes and proteins expressed at different life cycle stages in the model protist Euplotes vannus revealed by both transcriptomic and proteomic approaches.Science China. Life sciences · 2025Article
- From germline genome to highly fragmented somatic genome: genome-wide DNA rearrangement during the sexual process in ciliated protists.Marine life science & technology · 2024Article
- Genome-Wide Identification of G Protein-Coupled Receptors in Ciliated Eukaryotes.International journal of molecular sciences · 2023Article
- Comparative genomics reveals insight into the evolutionary origin of massively scrambled genomes.eLife · 2022Article
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- Article
- SIGAR: Inferring Features of Genome Architecture and DNA Rearrangements by Split-Read Mapping.Genome biology and evolution · 2020Article
- Only a Single Taxonomically Restricted Gene Family in the Drosophila melanogaster Subgroup Can Be Identified with High Confidence.Genome biology and evolution · 2020Article
- Comparative Transcriptome Analyses during the Vegetative Cell Cycle in the Mono-Cellular OrganismMicroorganisms · 2020Article
- Capture of complete ciliate chromosomes in single sequencing reads reveals widespread chromosome isoforms.BMC genomics · 2019Article
- Evolutionary origins and impacts of genome architecture in ciliates.Annals of the New York Academy of Sciences · 2019Review
- Checks and balances? DNA replication and the cell cycle in Plasmodium.Parasites & vectors · 2018Review
- Article
- Small RNA-mediated regulation of DNA dosage in the ciliateRNA (New York, N.Y.) · 2018Article
- Review
- Article
- Evolution of the Exon-Intron Structure in Ciliate Genomes.PloS one · 2016Article
- Phylogenomic analysis reveals genome-wide purifying selection on TBE transposons in the ciliate Oxytricha.Mobile DNA · 2016Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Programmed genome rearrangements in the unicellular eukaryote Oxytricha trifallax produce a transcriptionally active somatic nucleus from a copy of its germline nucleus during development. This process eliminates noncoding sequences that interrupt coding regions in the germline genome, and joins over 225,000 remaining DNA segments, some of which require inversion or complex permutation to build functional genes. This dynamic genomic organization permits some single DNA segments in the germline to contribute to multiple, distinct somatic genes via alternative processing. Like alternative mRNA splicing, the combinatorial assembly of DNA segments contributes to genetic variation and facilitates the evolution of new genes. In this study, we use comparative genomic analysis to demonstrate that the emergence of alternative DNA splicing is associated with the origin of new genes. Short duplications give rise to alternative gene segments that are spliced to the shared gene segments. Alternative gene segments evolve faster than shared, constitutive segments. Genes with shared segments frequently have different expression profiles, permitting functional divergence. This study reports alternative DNA splicing as a mechanism of new gene origination, illustrating how the process of programmed genome rearrangement gives rise to evolutionary innovation.
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