A pathway for the biogenesis of trans-acting siRNAs in Arabidopsis.

By M. Yoshikawa, A. Peragine, M. Park, R. Poethig. Genes & Development, 2005

758 citations recorded by the source corpus.

The Arabidopsis genes, TAS2 and TAS1a, produce structurally similar noncoding transcripts that are transformed into short (21-nucleotide [nt]) and long (24-nt) siRNAs by RNA silencing pathways. Some of these short siRNAs direct the cleavage of protein-coding transcripts, and thus function as trans-acting siRNAs (ta-siRNAs). Using genetic analysis, we defined the pathway by which ta-siRNAs and other short siRNAs are generated from these loci. This process is initiated by the miR173-directed cleavage of a primary poly(A) transcript. The 3' fragment is then transformed into short siRNAs by the sequential activity of SGS3, RDR6, and DCL4: SGS3 stabilizes the fragment, RDR6 produces a complementary strand, and DCL4 cleaves the resulting double-stranded molecule into short siRNAs, starting at the end with the miR173 cleavage site and proceeding in 21-nt increments from this point. The 5' cleavage fragment is also processed by this pathway, but less efficiently. The DCL3-dependent pathway that generates long siRNAs does not require miRNA-directed cleavage and plays a minor role in the silencing of these loci. Our results define the core components of a post-transcriptional gene silencing pathway in Arabidopsis and reveal some of the features that direct transcripts to this pathway.

Subfields: Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/73490c362ac9d422aebea68c4788a324a1e6bc93

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Citations in the corpus

Small RNAs as big players in plant abiotic stress responses and nutrient deprivation. (2007, background): “During cold acclimation, Inducer ofCBFexpression1(ICE1)proteinisactivated,inducingthe expression of C-repeat (CRT)-binding factors (CBFs) and other transcription factors [ 53 ,54].”
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High-Throughput Sequencing of Arabidopsis microRNAs: Evidence for Frequent Birth and Death of MIRNA Genes (2007, background): “Dual targeting of the CHX18 (At5g41610) transcript may lead to secondary, 21 nt siRNAs that arise through the RDR6/DCL4-dependent pathway ([29,34–39]; data not shown).”
Small RNAs and Their Roles in Plant Development (2009, background): “…protein that is required for transgene silencing and ta-siRNA production and that is proposed to bind to the substrates of RDR6 in vivo, does not affect the activity of RDR6 in vitro (Fukunaga & Doudna 2009, Mourrain et al. 2000, Peragine et al. 2004, Vazquez et al. 2004b, Yoshikawa et al. 2005).”
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Identification and validation of conserved microRNAs along with their differential expression in roots of Vigna unguiculata grown under salt stress (2010, background): “Lots of investigations indicated that majority of characterized miRNAs are involved in plant development (Chen 2004), signaling (Yoshikawa et al. 2005) and organ morphogenesis (Kidner and Martienssen 2005).”
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