ArticleMobile DNA2016
Phylogenomic analysis reveals genome-wide purifying selection on TBE transposons in the ciliate Oxytricha.
Article in Mobile DNA, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 24 citations in OpenAlex.
- A PIWI protein-dependent DNA N6-adenine methylation pathway inbioRxiv : the preprint server for biology · 2026Article
- Soma-derived 30-nt small RNAs are coupled with chromosome breakage and precisely target nontransposon DNA against elimination inScience advances · 2025Article
- Relaxed DNA substrate specificity of transposases involved in programmed genome rearrangement.Nucleic acids research · 2025Article
- Widespread 3D genome reorganization precedes programmed DNA rearrangement inbioRxiv : the preprint server for biology · 2025Article
- Application of RNA interference and protein localization to investigate housekeeping and developmentally regulated genes in the emerging model protozoan Paramecium caudatum.Communications biology · 2024Article
- From germline genome to highly fragmented somatic genome: genome-wide DNA rearrangement during the sexual process in ciliated protists.Marine life science & technology · 2024Article
- Comparative genomics reveals insight into the evolutionary origin of massively scrambled genomes.eLife · 2022Article
- Epigenetic influences of mobile genetic elements on ciliate genome architecture and evolution.The Journal of eukaryotic microbiology · 2022Review
- Programmed genome rearrangements in ciliates.Cellular and molecular life sciences : CMLS · 2020Review
- Roles of Noncoding RNAs in Ciliate Genome Architecture.Journal of molecular biology · 2020Review
- Complex Evolutionary History of Mboumar, a Mariner Element Widely Represented in Ant Genomes.Scientific reports · 2020Article
- Phylogenetic analysis of theMobile DNA · 2020Article
- Jump around: transposons in and out of the laboratory.F1000Research · 2020Review
- Programmed genome rearrangements in Oxytricha produce transcriptionally active extrachromosomal circular DNA.Nucleic acids research · 2019Article
- Host-transposon interactions: conflict, cooperation, and cooption.Genes & development · 2019Review
- Transposable Element Domestication As an Adaptation to Evolutionary Conflicts.Trends in genetics : TIG · 2017Review
- Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use.Nucleic acids research · 2016Review
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2 authors at 1 institution in 1 country.
Funding
Abstract
backgroundTransposable elements are a major player contributing to genetic variation and shaping genome evolution. Multiple independent transposon domestication events have occurred in ciliates, recruiting transposases to key roles in cellular processes. In the ciliate Oxytricha trifallax, the telomere-bearing elements (TBE), a Tc1/mariner transposon, occupy a significant portion of the germline genome and are involved in programmed genome rearrangements that produce a transcriptionally active somatic nucleus from a copy of the germline nucleus during development.
resultsHere we provide a thorough characterization of the distribution and sequences of TBE transposons in the Oxytricha germline genome. We annotate more than 10,000 complete and 24,000 partial TBE sequences. TBEs cluster into four major families and display a preference for either insertion into DNA segments that are retained in the somatic genome or their maintenance at such sites. The three TBE-encoded genes in all four families display dN/dS ratios much lower than 1, suggesting genome-wide purifying selection. We also identify TBE homologs in other ciliate species for phylogenomic analysis.
conclusionsThis paper provides genome-wide characterization of a major class of ciliate transposons. Phylogenomic analysis reveals selective constraints on transposon-encoded genes, shedding light on the evolution and domesticated functions of these transposons.
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