ArticleGenome research2014
Transposable element dynamics and PIWI regulation impacts lncRNA and gene expression diversity in Drosophila ovarian cell cultures.
Article in Genome research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed, 58 citations in OpenAlex.
- Cooperation, competition and enforcement in transposon evolution.Nature communications · 2026Article
- Article
- Traffic Jam activates the Flamenco piRNA cluster locus and the Piwi pathway to ensure transposon silencing and Drosophila fertility.Cell reports · 2025Article
- piR-823 tale as emerging cancer-hallmark molecular marker in different cancer types: a step-toward ncRNA-precision.Naunyn-Schmiedeberg's archives of pharmacology · 2025Review
- Transposable Element (TE) insertion predictions from RNAseq inputs and TE impact on RNA splicing and gene expression in Drosophila brain transcriptomes.Mobile DNA · 2024Article
- Article
- CRISPR-Cas9 Genome Editing and Rapid Selection of Cell Pools.Current protocols · 2022Article
- Ongoing transposition in cell culture reveals the phylogeny of diverse Drosophila S2 sublines.Genetics · 2022Article
- Pathogenic variants in the human m6A reader YTHDC2 are associated with primary ovarian insufficiency.JCI insight · 2022Article
- Transposable element landscapes in aging Drosophila.PLoS genetics · 2022Article
- Transposable element profiles reveal cell line identity and loss of heterozygosity in Drosophila cell culture.Genetics · 2021Article
- Maternal Piwi regulates primordial germ cell development to ensure the fertility of female progeny in Drosophila.Genetics · 2021Article
- Genome-wide mapping of Piwi association with specific loci in Drosophila ovaries.G3 (Bethesda, Md.) · 2021Article
- Roles of piRNAs in transposon and pseudogene regulation of germline mRNAs and lncRNAs.Genome biology · 2021Review
- Adaptive evolution among cytoplasmic piRNA proteins leads to decreased genomic auto-immunity.PLoS genetics · 2020Article
- Article
- Long-read direct RNA sequencing by 5'-Cap capturing reveals the impact of Piwi on the widespread exonization of transposable elements in locusts.RNA biology · 2019Article
- Interplay between small RNA pathways shapes chromatin landscapes in C. elegans.Nucleic acids research · 2019Article
- Sex and the TEs: transposable elements in sexual development and function in animals.Mobile DNA · 2019Review
- A unique cluster ofMobile DNA · 2019Article
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Piwi proteins and Piwi-interacting RNAs (piRNAs) repress transposable elements (TEs) from mobilizing in gonadal cells. To determine the spectrum of piRNA-regulated targets that may extend beyond TEs, we conducted a genome-wide survey for transcripts associated with PIWI and for transcripts affected by PIWI knockdown in Drosophila ovarian somatic sheet (OSS) cells, a follicle cell line expressing the Piwi pathway. Despite the immense sequence diversity among OSS cell piRNAs, our analysis indicates that TE transcripts are the major transcripts associated with and directly regulated by PIWI. However, several coding genes were indirectly regulated by PIWI via an adjacent de novo TE insertion that generated a nascent TE transcript. Interestingly, we noticed that PIWI-regulated genes in OSS cells greatly differed from genes affected in a related follicle cell culture, ovarian somatic cells (OSCs). Therefore, we characterized the distinct genomic TE insertions across four OSS and OSC lines and discovered dynamic TE landscapes in gonadal cultures that were defined by a subset of active TEs. Particular de novo TEs appeared to stimulate the expression of novel candidate long noncoding RNAs (lncRNAs) in a cell lineage-specific manner, and some of these TE-associated lncRNAs were associated with PIWI and overlapped PIWI-regulated genes. Our analyses of OSCs and OSS cells demonstrate that despite having a Piwi pathway to suppress endogenous mobile elements, gonadal cell TE landscapes can still dramatically change and create transcriptome diversity.
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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.