ArticleThe Plant journal : for cell and molecular biology2017
Transposable elements (TEs) contribute to stress-related long intergenic noncoding RNAs in plants.
Article in The Plant journal : for cell and molecular biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 77 papers.
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77 citing papers in PubMed, 169 citations in OpenAlex.
- The Landscape of Long Non-Coding RNAs Provides Insights Into the Domestication and Improvement of Pear Fruit.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
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- Integrative multi-omics analysis widens annotation and functional insights into long non-coding RNAs of Arabidopsis thaliana.Biology direct · 2026Article
- Translational landscape during seed germination revealed by ribosome profiling.The Plant journal : for cell and molecular biology · 2026Article
- Nanopore sequencing and multiomics reveal predictable non-coding RNA activation in DNA methylation deficient Arabidopsis thaliana.Communications biology · 2025Article
- Transcriptome-wide identification and systematic analysis of the Retrotransposon genes and their roles in ginsenoside biosynthesis in Panax ginseng.BMC plant biology · 2025Article
- Transcriptomic analysis reveals long non-coding RNA involved in the key metabolic pathway in response to Botrytis cinerea in kiwifruit.BMC plant biology · 2025Article
- A dominant role of transcriptional regulation during the evolution of CNature communications · 2025Article
- Drought-induced transposon expression reveals complex drought response mechanisms inFrontiers in plant science · 2025Article
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- Vegetal memory through the lens of transcriptomic changes - recent progress and future practical prospects for exploiting plant transcriptional memory.Plant signaling & behavior · 2024Review
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- Genome-wide analysis of long non-coding RNAs involved in the fruit development process ofPhysiology and molecular biology of plants : an international journal of functional plant biology · 2024Article
- Predicted roles of long non-coding RNAs in abiotic stress tolerance responses of plants.Molecular horticulture · 2024Review
- Identification of miRNA858 long-loop precursors in seed plants.The Plant cell · 2024Article
- LncRNA DANA1 promotes drought tolerance and histone deacetylation of drought responsive genes in Arabidopsis.EMBO reports · 2024Article
- Article
- Biogenesis, Mode of Action and the Interactions of Plant Non-Coding RNAs.International journal of molecular sciences · 2023Review
- Transcriptional profiling of long noncoding RNAs associated with flower color formation in Ipomoea nil.Planta · 2023Article
- Seminars in cell and development biology on histone variants remodelers of H2A variants associated with heterochromatin.Seminars in cell & developmental biology · 2023Review
17 more citing papers are in PubMed but not listed here.
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10 authors at 5 institutions in 3 countries.
Funding
Abstract
Noncoding RNAs have been extensively described in plant and animal transcriptomes by using high-throughput sequencing technology. Of these noncoding RNAs, a growing number of long intergenic noncoding RNAs (lincRNAs) have been described in multicellular organisms, however the origins and functions of many lincRNAs remain to be explored. In many eukaryotic genomes, transposable elements (TEs) are widely distributed and often account for large fractions of plant and animal genomes yet the contribution of TEs to lincRNAs is largely unknown. By using strand-specific RNA-sequencing, we profiled the expression patterns of lincRNAs in Arabidopsis, rice and maize, and identified 47 611 and 398 TE-associated lincRNAs (TE-lincRNAs), respectively. TE-lincRNAs were more often derived from retrotransposons than DNA transposons and as retrotransposon copy number in both rice and maize genomes so did TE-lincRNAs. We validated the expression of these TE-lincRNAs by strand-specific RT-PCR and also demonstrated tissue-specific transcription and stress-induced TE-lincRNAs either after salt, abscisic acid (ABA) or cold treatments. For Arabidopsis TE-lincRNA11195, mutants had reduced sensitivity to ABA as demonstrated by longer roots and higher shoot biomass when compared to wild-type. Finally, by altering the chromatin state in the Arabidopsis chromatin remodelling mutant ddm1, unique lincRNAs including TE-lincRNAs were generated from the preceding untranscribed regions and interestingly inherited in a wild-type background in subsequent generations. Our findings not only demonstrate that TE-associated lincRNAs play important roles in plant abiotic stress responses but lincRNAs and TE-lincRNAs might act as an adaptive reservoir in eukaryotes.
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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.