ArticlePLoS genetics2009
Evidence for antisense transcription associated with microRNA target mRNAs in Arabidopsis.
Article in PLoS genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers, 1 of them a synthesis that pooled it.
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Who cites it
23 citing papers in PubMed, 1 synthesis or guideline pooled it, 34 citations in OpenAlex.
- The role of microRNAs in responses to drought and heat stress in peanut (Arachis hypogaea).The plant genome · 2023Pooled it
- Plant Long Noncoding RNAs: New Players in the Field of Post-Transcriptional Regulations.Non-coding RNA · 2021Review
- Natural antisense transcripts of MIR398 genes suppress microR398 processing and attenuate plant thermotolerance.Nature communications · 2020Article
- The Role of UV-B light on Small RNA Activity During Grapevine Berry Development.G3 (Bethesda, Md.) · 2019Article
- Natural antisense transcripts are significantly involved in regulation of drought stress in maize.Nucleic acids research · 2017Article
- A plasmonic colorimetric strategy for visual miRNA detection based on hybridization chain reaction.Scientific reports · 2016Article
- The biological significance and clinical applications of exosomes in ovarian cancer.Gynecologic oncology · 2016Review
- Heterosis and differential gene expression in hybrids and parents in Bombyx mori by digital gene expression profiling.Scientific reports · 2015Article
- Trans-acting small interfering RNA4: key to nutraceutical synthesis in grape development?Trends in plant science · 2013Review
- PLncDB: plant long non-coding RNA database.Bioinformatics (Oxford, England) · 2013Article
- MIR846 and MIR842 comprise a cistronic MIRNA pair that is regulated by abscisic acid by alternative splicing in roots of Arabidopsis.Plant molecular biology · 2013Article
- Role of RNA interference (RNAi) in the Moss Physcomitrella patens.International journal of molecular sciences · 2013Review
- Transcriptome analysis of artificial hybrid pufferfish Jiyan-1 and its parental species: implications for pufferfish heterosis.PloS one · 2013Article
- MicroRNAs in the moss Physcomitrella patens.Plant molecular biology · 2012Review
- An autoregulatory feedback loop involving PAP1 and TAS4 in response to sugars in Arabidopsis.Plant molecular biology · 2012Article
- On the complexity of miRNA-mediated regulation in plants: novel insights into the genomic organization of plant miRNAs.Biology direct · 2012Article
- Bioinformatic identification of cassava miRNAs differentially expressed in response to infection by Xanthomonas axonopodis pv. manihotis.BMC plant biology · 2012Article
- Article
- Evolution of microRNA genes in Oryza sativa and Arabidopsis thaliana: an update of the inverted duplication model.PloS one · 2011Article
- WAVY LEAF1, an ortholog of Arabidopsis HEN1, regulates shoot development by maintaining MicroRNA and trans-acting small interfering RNA accumulation in rice.Plant physiology · 2010Article
Corrections and comments
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
Abstract
Antisense transcription is a pervasive phenomenon, but its source and functional significance is largely unknown. We took an expression-based approach to explore microRNA (miRNA)-related antisense transcription by computational analyses of published whole-genome tiling microarray transcriptome and deep sequencing small RNA (smRNA) data. Statistical support for greater abundance of antisense transcription signatures and smRNAs was observed for miRNA targets than for paralogous genes with no miRNA cleavage site. Antisense smRNAs were also found associated with MIRNA genes. This suggests that miRNA-associated "transitivity" (production of small interfering RNAs through antisense transcription) is more common than previously reported. High-resolution (3 nt) custom tiling microarray transcriptome analysis was performed with probes 400 bp 5' upstream and 3' downstream of the miRNA cleavage sites (direction relative to the mRNA) for 22 select miRNA target genes. We hybridized RNAs labeled from the smRNA pathway mutants, including hen1-1, dcl1-7, hyl1-2, rdr6-15, and sgs3-14. Results showed that antisense transcripts associated with miRNA targets were mainly elevated in hen1-1 and sgs3-14 to a lesser extent, and somewhat reduced in dcl11-7, hyl11-2, or rdr6-15 mutants. This was corroborated by semi-quantitative reverse transcription PCR; however, a direct correlation of antisense transcript abundance in MIR164 gene knockouts was not observed. Our overall analysis reveals a more widespread role for miRNA-associated transitivity with implications for functions of antisense transcription in gene regulation. HEN1 and SGS3 may be links for miRNA target entry into different RNA processing pathways.
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