ArticlePLoS genetics2012
Role of transposon-derived small RNAs in the interplay between genomes and parasitic DNA in rice.
Article in PLoS genetics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
36 citing papers in PubMed, 91 citations in OpenAlex.
- Deciphering the dynamics of active autonomous terminal inverted repeat transposons in the plant kingdom.aBIOTECH · 2026Article
- Upstream regulator of genomic imprinting in rice endosperm is a small RNA-associated chromatin remodeler.Nature communications · 2024Article
- Arms race between anti-silencing and RdDM in noncoding regions of transposable elements.EMBO reports · 2023Article
- DDM1-Mediated TE Silencing in Plants.Plants (Basel, Switzerland) · 2023Review
- Transcriptional Stress Memory and Transgenerational Inheritance of Drought Tolerance in Plants.International journal of molecular sciences · 2022Review
- Genome-wide association study of traits in sacred lotus uncovers MITE-associated variants underlying stamen petaloid and petal number variations.Frontiers in plant science · 2022Article
- Retrotransposons: How the continuous evolutionary front shapes plant genomes for response to heat stress.Frontiers in plant science · 2022Review
- Non-Coding RNAs in Response to Drought Stress.International journal of molecular sciences · 2021Review
- Review
- The Dynamism of Transposon Methylation for Plant Development and Stress Adaptation.International journal of molecular sciences · 2021Review
- Regulatory non-coding RNAs: a new frontier in regulation of plant biology.Functional & integrative genomics · 2021Review
- Transposable elements, contributors in the evolution of organisms (from an arms race to a source of raw materials).Heliyon · 2021Review
- Telomeric TART elements target the piRNA machinery in Drosophila.PLoS biology · 2020Article
- Cytosine methylations in the promoter regions of genes involved in the cellular oxidation equilibrium pathways affect rice heat tolerance.BMC genomics · 2020Article
- Integrated annotations and analyses of small RNA-producing loci from 47 diverse plants.Genome research · 2020Article
- Genome-Wide Transcript and Small RNA Profiling Reveals Transcriptomic Responses to Heat Stress.Plant physiology · 2019Article
- Host-transposon interactions: conflict, cooperation, and cooption.Genes & development · 2019Review
- Review
- Non-coding RNAs and plant male sterility: current knowledge and future prospects.Plant cell reports · 2018Review
- Transposon-Derived Non-coding RNAs and Their Function in Plants.Frontiers in plant science · 2018Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RNA silencing is a defense system against "genomic parasites" such as transposable elements (TE), which are potentially harmful to host genomes. In plants, transcripts from TEs induce production of double-stranded RNAs (dsRNAs) and are processed into small RNAs (small interfering RNAs, siRNAs) that suppress TEs by RNA-directed DNA methylation. Thus, the majority of TEs are epigenetically silenced. On the other hand, most of the eukaryotic genome is composed of TEs and their remnants, suggesting that TEs have evolved countermeasures against host-mediated silencing. Under some circumstances, TEs can become active and increase in copy number. Knowledge is accumulating on the mechanisms of TE silencing by the host; however, the mechanisms by which TEs counteract silencing are poorly understood. Here, we show that a class of TEs in rice produces a microRNA (miRNA) to suppress host silencing. Members of the microRNA820 (miR820) gene family are located within CACTA DNA transposons in rice and target a de novo DNA methyltransferase gene, OsDRM2, one of the components of epigenetic silencing. We confirmed that miR820 negatively regulates the expression of OsDRM2. In addition, we found that expression levels of various TEs are increased quite sensitively in response to decreased OsDRM2 expression and DNA methylation at TE loci. Furthermore, we found that the nucleotide sequence of miR820 and its recognition site within the target gene in some Oryza species have co-evolved to maintain their base-pairing ability. The co-evolution of these sequences provides evidence for the functionality of this regulation. Our results demonstrate how parasitic elements in the genome escape the host's defense machinery. Furthermore, our analysis of the regulation of OsDRM2 by miR820 sheds light on the action of transposon-derived small RNAs, not only as a defense mechanism for host genomes but also as a regulator of interactions between hosts and their parasitic elements.
Indexed as
Identifiers
What OpenQuestion holds
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.