ArticlePlant physiology2013
A significant fraction of 21-nucleotide small RNA originates from phased degradation of resistance genes in several perennial species.
Article in Plant physiology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed, 63 citations in OpenAlex.
- The biogenesis, regulation and functions of transitive siRNA in plants.Acta biochimica et biophysica Sinica · 2024Review
- Role of miRNAs in sucrose stress response, reactive oxygen species, and anthocyanin biosynthesis inFrontiers in plant science · 2023Article
- MicroRNA-mediated host defense mechanisms against pathogens and herbivores in rice: balancing gains from genetic resistance with trade-offs to productivity potential.BMC plant biology · 2022Review
- Small Non-Coding RNAs at the Crossroads of Regulatory Pathways Controlling Somatic Embryogenesis in Seed Plants.Plants (Basel, Switzerland) · 2021Review
- Whole genome resequencing of four Italian sweet pepper landraces provides insights on sequence variation in genes of agronomic value.Scientific reports · 2020Article
- Plant NLRs: The Whistleblowers of Plant Immunity.Plant communications · 2020Review
- The MicroRNA828/MYB12 Module Mediates Bicolor Pattern Development in Asiatic Hybrid Lily (Frontiers in plant science · 2020Article
- Tissue-specific transposon-associated small RNAs in the gymnosperm tree, Norway spruce.BMC genomics · 2019Article
- Small RNA profiling in Pinus pinaster reveals the transcriptome of developing seeds and highlights differences between zygotic and somatic embryos.Scientific reports · 2019Article
- Molecular basis of transitivity in plant RNA silencing.Molecular biology reports · 2019Review
- Analysis of microRNAs, phased small interfering RNAs and their potential targets in Rosarugosa Thunb.BMC genomics · 2019Article
- Novel and Conserved miRNAs Among Brazilian Pine and Other Gymnosperms.Frontiers in genetics · 2019Article
- Genome-wide identification and comprehensive analysis of microRNAs and phased small interfering RNAs in watermelon.BMC genomics · 2018Article
- Biogenesis and regulatory hierarchy of phased small interfering RNAs in plants.Plant biotechnology journal · 2018Review
- Article
- Genome reconstruction in Cynara cardunculus taxa gains access to chromosome-scale DNA variation.Scientific reports · 2017Article
- Genome-wide identification and characterization of phased small interfering RNA genes in response to Botrytis cinerea infection in Solanum lycopersicum.Scientific reports · 2017Article
- Global Analysis of Small RNA Dynamics during Seed Development ofFrontiers in plant science · 2017Article
- Landscape of Fluid Sets of Hairpin-Derived 21-/24-nt-Long Small RNAs at Seed Set Uncovers Special Epigenetic Features in Picea glauca.Genome biology and evolution · 2017Article
- Extensive Families of miRNAs and PHAS Loci in Norway Spruce Demonstrate the Origins of Complex phasiRNA Networks in Seed Plants.Molecular biology and evolution · 2015Article
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Small RNAs (sRNAs), including microRNA (miRNA) and short-interfering RNA (siRNA), are important in the regulation of diverse biological processes. Comparative studies of sRNAs from plants have mainly focused on miRNA, even though they constitute a mere fraction of the total sRNA diversity. In this study, we report results from an in-depth analysis of the sRNA population from the conifer spruce (Picea abies) and compared the results with those of a range of plant species. The vast majority of sRNA sequences in spruce can be assigned to 21-nucleotide-long siRNA sequences, of which a large fraction originate from the degradation of transcribed sequences related to nucleotide-binding site-leucine-rich repeat-type resistance genes. Over 90% of all genes predicted to contain either a Toll/interleukin-1 receptor or nucleotide-binding site domain showed evidence of siRNA degradation. The data further suggest that this phased degradation of resistance-related genes is initiated from miRNA-guided cleavage, often by an abundant 22-nucleotide miRNA. Comparative analysis over a range of plant species revealed a huge variation in the abundance of this phenomenon. The process seemed to be virtually absent in several species, including Arabidopsis (Arabidopsis thaliana), rice (Oryza sativa), and nonvascular plants, while particularly high frequencies were observed in spruce, grape (Vitis vinifera), and poplar (Populus trichocarpa). This divergent pattern might reflect a mechanism to limit runaway transcription of these genes in species with rapidly expanding nucleotide-binding site-leucine-rich repeat gene families. Alternatively, it might reflect variation in a counter-counter defense mechanism between plant species.
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