ArticleProceedings of the National Academy of Sciences of the United States of America2010
DNA transposon Hermes inserts into DNA in nucleosome-free regions in vivo.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
76 citing papers in PubMed, 110 citations in OpenAlex.
- Progresses of transposon research inSynthetic and systems biotechnology · 2026Review
- Position Effect Variegation of Penicillium rubens Genome and Application in Heterologous Production of the Plant-Derived Anthraquinone Physcion.Microbial biotechnology · 2026Article
- Diversity and evolution of chromatin regulatory states across eukaryotes.Nature genetics · 2026Article
- Facile generation ofMicrobiology spectrum · 2026Article
- Genome-Wide Landscape of Position Effect Variegation inJournal of fungi (Basel, Switzerland) · 2026Article
- Factors determining chromosomal localization of transposable elements in plants.Plant biology (Stuttgart, Germany) · 2025Review
- Consecutive low-frequency shifts in A/T content denote nucleosome positions across microeukaryotes.iScience · 2025Article
- Transposon-sequencing (Tn-seq) of the Candida glabrata reference strain CBS138 reveals epigenetic plasticity, structural variation, and intrinsic mechanisms of resistance to micafungin.G3 (Bethesda, Md.) · 2024Article
- Minimal requirements for the epigenetic inheritance of engineered silent chromatin domains.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Copy number variation alters local and global mutational tolerance.Genome research · 2023Article
- Unraveling the palindromic and nonpalindromic motifs of retroviral integration site sequences by statistical mixture models.Genome research · 2023Article
- Zinc-finger BED domains drive the formation of the active Hermes transpososome by asymmetric DNA binding.Nature communications · 2023Article
- Epigenetic and chromosomal features drive transposon insertion in Drosophila melanogaster.Nucleic acids research · 2023Article
- Genome-wide analysis of heat stress-stimulated transposon mobility in the human fungal pathogenProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Transposable elements drive intron gain in diverse eukaryotes.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- A multiplexed, three-dimensional pooling and next-generation sequencing strategy for creating barcoded mutant arrays: construction of a Schizosaccharomyces pombe transposon insertion library.Nucleic acids research · 2022Article
- Loss-of-function mutation survey revealed that genes with background-dependent fitness are rare and functionally related in yeast.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- A phylogenetic and proteomic reconstruction of eukaryotic chromatin evolution.Nature ecology & evolution · 2022Article
- Chromatin accessibility profiling by ATAC-seq.Nature protocols · 2022Review
- Engineered Sleeping Beauty transposase redirects transposon integration away from genes.Nucleic acids research · 2022Article
16 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 3 institutions in 2 countries.
Funding
Abstract
Transposons are mobile genetic elements that are an important source of genetic variation and are useful tools for genome engineering, mutagenesis screens, and vectors for transgenesis including gene therapy. We have used second-generation sequencing to analyze ≈2 × 10(5) unique de novo transposon insertion sites of the transposon Hermes in the Saccharomyces cerevisiae genome from both in vitro transposition reactions by using purified yeast genomic DNA, to better characterize intrinsic sequence specificity, and sites recovered from in vivo transposition events, to characterize the effect of intracellular factors such as chromatin on target site selection. We find that Hermes transposon targeting in vivo is profoundly affected by chromatin structure: The subset of genome-wide target sites used in vivo is strongly associated (P < 2e-16 by Fisher's exact test) with nucleosome-free chromatin. Our characterization of the insertion site preferences of Hermes not only assists in the future use of this transposon as a molecular biology tool but also establishes methods to more fully determine targeting mechanisms of other transposons. We have also discovered a long-range sequence motif that defines S. cerevisiae nucleosome-free regions.
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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.