ArticleGenome biology and evolution2020
Vertebrate Lineages Exhibit Diverse Patterns of Transposable Element Regulation and Expression across Tissues.
Article in Genome biology and evolution, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 52 citations in OpenAlex.
- Transposon Ecology and the Octopus Genome.BioEssays : news and reviews in molecular, cellular and developmental biology · 2026Review
- Transposable elements drive species-specific and tissue-specific transcriptomes in human development.Genome biology · 2025Article
- Characterization of the transposable element landscape shaping the Ectocarpus genome.Genome biology · 2025Article
- DNA gains and losses in gigantic genomes do not track differences in transposable element-host silencing interactions.Communications biology · 2025Article
- Transposable element dynamics in Xenopus laevis embryogenesis: a tale of two coexisting subgenomes.Mobile DNA · 2025Article
- Article
- Rapid evolution of piRNA clusters in theGenome research · 2024Article
- The Complex Landscape of Structural Divergence Between the Drosophila pseudoobscura and D. persimilis Genomes.Genome biology and evolution · 2024Article
- Long-read transcriptome landscapes of primary and metastatic liver cancers at transcript resolution.Biomarker research · 2024Article
- TE-TSS: an integrated data resource of human and mouse transposable element (TE)-derived transcription start site (TSS).Nucleic acids research · 2024Article
- Transposable elements in mammalian chromatin organization.Nature reviews. Genetics · 2023Review
- Transposable Elements: Epigenetic Silencing Mechanisms or Modulating Tools for Vertebrate Adaptations? Two Sides of the Same Coin.International journal of molecular sciences · 2023Review
- Transposable element and host silencing activity in gigantic genomes.Frontiers in cell and developmental biology · 2023Article
- Transcriptional dynamics of transposable elements in the type I IFN response in Myotis lucifugus cells.Mobile DNA · 2022Article
- Epigenomic analysis reveals prevalent contribution of transposable elements toGenome research · 2022Article
- The PIWI/piRNA response is relaxed in a rodent that lacks mobilizing transposable elements.RNA (New York, N.Y.) · 2022Article
- The diversity and evolution of retroviruses: Perspectives from viral "fossils".Virologica Sinica · 2022Review
- Transposable elements expression in Rhinella marina (cane toad) specimens submitted to immune and stress challenge.Genetica · 2021Article
- Transposable elements shape the evolution of mammalian development.Nature reviews. Genetics · 2021Review
- A mouse-specific retrotransposon drives a conserved Cdk2ap1 isoform essential for development.Cell · 2021Article
Corrections and comments
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Authors and funding
6 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transposable elements (TEs) comprise a major fraction of vertebrate genomes, yet little is known about their expression and regulation across tissues, and how this varies across major vertebrate lineages. We present the first comparative analysis integrating TE expression and TE regulatory pathway activity in somatic and gametic tissues for a diverse set of 12 vertebrates. We conduct simultaneous gene and TE expression analyses to characterize patterns of TE expression and TE regulation across vertebrates and examine relationships between these features. We find remarkable variation in the expression of genes involved in TE negative regulation across tissues and species, yet consistently high expression in germline tissues, particularly in testes. Most vertebrates show comparably high levels of TE regulatory pathway activity across gonadal tissues except for mammals, where reduced activity of TE regulatory pathways in ovarian tissues may be the result of lower relative germ cell densities. We also find that all vertebrate lineages examined exhibit remarkably high levels of TE-derived transcripts in somatic and gametic tissues, with recently active TE families showing higher expression in gametic tissues. Although most TE-derived transcripts originate from inactive ancient TE families (and are likely incapable of transposition), such high levels of TE-derived RNA in the cytoplasm may have secondary, unappreciated biological relevance.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.