ArticleNucleic acids research2018
The unique epigenetic features of Pack-MULEs and their impact on chromosomal base composition and expression spectrum.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 13 papers.
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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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13 citing papers in PubMed, 22 citations in OpenAlex.
- A chromosome-level genome assembly of Platycladus orientalis and comparative genomics reveal pivotal roles of transposable elements in gene duplication and pseudogenization across gymnosperm giga-genomes.Plant communications · 2026Article
- Rapid GC content evolution in rice through GC-biased gene conversion and selection for translation efficiency.Nature communications · 2026Article
- The genetic heist: how transposable elements capture and repurpose genes in plants.Genome biology · 2026Review
- The role of mobile DNA elements in the dynamics of plant genome plasticity.Journal of experimental botany · 2025Review
- Epigenetic modification brings new opportunities for gene capture by transposable elements in allopolyploidHorticulture research · 2025Article
- Dynamics of accessible chromatin regions and subgenome dominance in octoploid strawberry.Nature communications · 2024Article
- Transposable elements: multifunctional players in the plant genome.Frontiers in plant science · 2023Review
- The widespread nature of Pack-TYPE transposons reveals their importance for plant genome evolution.PLoS genetics · 2022Article
- Genome-wide analysis and functional annotation of chromatin-enriched noncoding RNAs in rice during somatic cell regeneration.Genome biology · 2022Article
- DNA transposons mediate duplications via transposition-independent and -dependent mechanisms in metazoans.Nature communications · 2021Article
- Transposable elements employ distinct integration strategies with respect to transcriptional landscapes in eukaryotic genomes.Nucleic acids research · 2020Article
- Genome-wide identification and characterization of the GDP-L-galactose phosphorylase gene family in bread wheat.BMC plant biology · 2019Article
- GingerRoot: A Novel DNA Transposon Encoding Integrase-Related Transposase in Plants and Animals.Genome biology and evolution · 2019Article
Corrections and comments
- Erratum issued
Authors and funding
9 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Acquisition and rearrangement of host genes by transposable elements (TEs) is an important mechanism to increase gene diversity as exemplified by the ∼3000 Pack-Mutator-like TEs in the rice genome which have acquired gene sequences (Pack-MULEs), yet remain enigmatic. To identify signatures of functioning Pack-MULEs and Pack-MULE evolution, we generated transcriptome, translatome, and epigenome datasets and compared Pack-MULEs to genes and other TE families. Approximately 40% of Pack-MULEs were transcribed with 9% having translation evidence, clearly distinguishing them from other TEs. Pack-MULEs exhibited a unique expression profile associated with specificity in reproductive tissues that may be associated with seed traits. Expressed Pack-MULEs resemble regular protein-coding genes as exhibited by a low level of DNA methylation, association with active histone marks and DNase I hypersensitive sites, and an absence of repressive histone marks, suggesting that a substantial fraction of Pack-MULEs are potentially functional in vivo. Interestingly, the expression capacity of Pack-MULEs is independent of the local genomic environment, and the insertion and expression of Pack-MULEs may have altered the local chromosomal expression pattern as well as counteracted the impact of recombination on chromosomal base composition, which has profound consequences on the evolution of chromosome structure.
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