ArticleGenome biology2017
Conservation and divergence of small RNA pathways and microRNAs in land plants.
Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed, 109 citations in OpenAlex.
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- Sulfate Deficiency-Responsive MicroRNAs in Tomato Uncover an Expanded and Functionally Integrated Regulatory Network.International journal of molecular sciences · 2025Article
- Evolution of Plant Conserved microRNAs After Whole-Genome Duplications.Genome biology and evolution · 2025Article
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- Identification and characterization of DICER-LIKE genes and their roles in Marchantia polymorpha development and salt stress response.The Plant journal : for cell and molecular biology · 2025Article
- Class-agnostic annotation of small RNAs balances sensitivity and specificity in diverse organisms.Computational and structural biotechnology journal · 2025Article
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- Blocking miR528 function promotes tillering and regrowth in switchgrass.Plant biotechnology journal · 2024Article
- From barcodes to genomes: a new era of molecular exploration in bryophyte research.Frontiers in plant science · 2024Review
- Beyond Loading: Functions of Plant ARGONAUTE Proteins.International journal of molecular sciences · 2023Review
- Petal size is controlled by the MYB73/TPL/HDA19-miR159-CKX6 module regulating cytokinin catabolism in Rosa hybrida.Nature communications · 2023Article
- Conserved and non-conserved RNA-target modules in plants: lessons for a better understanding of Marchantia development.Plant molecular biology · 2023Review
- miR-17-5p slows progression of hepatocellular carcinoma by downregulating TGFβR2.Clinical & translational oncology : official publication of the Federation of Spanish Oncology Societies and of the National Cancer Institute of Mexico · 2023Article
- Phylogenetic analyses of seven protein families refine the evolution of small RNA pathways in green plants.Plant physiology · 2023Article
- Expanding the Repertoire of the Plant-Infecting Ophioviruses through Metatranscriptomics Data.Viruses · 2023Article
- Differential Expression of miRNAs Involved in Response toPlants (Basel, Switzerland) · 2023Article
- Small RNAs in Cnidaria: A review.Evolutionary applications · 2023Article
- Recent Insights into Plant miRNA Biogenesis: Multiple Layers of miRNA Level Regulation.Plants (Basel, Switzerland) · 2023Review
- Tomato MicroRNAs and Their Functions.International journal of molecular sciences · 2022Review
Corrections and comments
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Authors and funding
9 authors at 5 institutions in 4 countries.
Funding
Abstract
backgroundAs key regulators of gene expression in eukaryotes, small RNAs have been characterized in many seed plants, and pathways for their biogenesis, degradation, and action have been defined in model angiosperms. However, both small RNAs themselves and small RNA pathways are not well characterized in other land plants such as lycophytes and ferns, preventing a comprehensive evolutionary perspective on small RNAs in land plants.
resultsUsing 25 representatives from major lineages of lycophytes and ferns, most of which lack sequenced genomes, we characterized small RNAs and small RNA pathways in these plants. We identified homologs of DICER-LIKE (DCL), ARGONAUTE (AGO), and other genes involved in small RNA pathways, predicted over 2600 conserved microRNA (miRNA) candidates, and performed phylogenetic analyses on small RNA pathways as well as miRNAs. Pathways underlying miRNA biogenesis, degradation, and activity were established in the common ancestor of land plants, but the 24-nucleotide siRNA pathway that guides DNA methylation is incomplete in sister species of seed plants, especially lycophytes. We show that the functional diversification of key gene families such as DCL and AGO as observed in angiosperms occurred early in land plants followed by parallel expansion of the AGO family in ferns and angiosperms. We uncovered a conserved AGO subfamily absent in angiosperms.
conclusionsOur phylogenetic analyses of miRNAs in bryophytes, lycophytes, ferns, and angiosperms refine the time-of-origin for conserved miRNA families as well as small RNA machinery in land plants.
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