Gene silencing by microRNAs: contributions of translational repression and mRNA decay

MicroRNAs: Target Recognition and Regulatory Functions

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Untitled work

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Origins and Mechanisms of miRNAs and siRNAs

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Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs

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Mammalian microRNAs predominantly act to decrease target mRNA levels

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Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

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The impact of microRNAs on protein output

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Widespread changes in protein synthesis induced by microRNAs

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The mechanism of eukaryotic translation initiation and principles of its regulation

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Prediction of Plant MicroRNA Targets

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Origin, Biogenesis, and Activity of Plant MicroRNAs

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Regulation of Flowering Time and Floral Organ Identity by a MicroRNA and Its APETALA2 -Like Target Genes

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A MicroRNA as a Translational Repressor of APETALA2 in Arabidopsis Flower Development

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MicroRNA-Directed Cleavage of HOXB8 mRNA

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Zebrafish MiR-430 Promotes Deadenylation and Clearance of Maternal mRNAs

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Cleavage of Scarecrow-like mRNA Targets Directed by a Class of Arabidopsis miRNA

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Inhibition of Translational Initiation by Let-7 MicroRNA in Human Cells

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The Widespread Impact of Mammalian MicroRNAs on mRNA Repression and Evolution

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Widespread translational inhibition by plant miRNAs and siRNAs

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Specific effects of microRNAs on the plant transcriptome

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Regulation by let-7 and lin-4 miRNAs Results in Target mRNA Degradation

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The lin-4 Regulatory RNA Controls Developmental Timing in Caenorhabditis elegans by Blocking LIN-14 Protein Synthesis after the Initiation of Translation

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MicroRNAs direct rapid deadenylation of mRNA

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mRNA degradation by miRNAs and GW182 requires both CCR4:NOT deadenylase and DCP1:DCP2 decapping complexesPreprint

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Animal MicroRNAs Confer Robustness to Gene Expression and Have a Significant Impact on 3′UTR Evolution

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Getting to the Root of miRNA-Mediated Gene Silencing

Eulálio, A., Huntzinger, E., & Izaurralde, E. (2008) · Cell · doi:10.1016/j.cell.2007.12.024 · Cited by 1,071

A biochemical framework for RNA silencing in plantsPreprint

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Global identification of microRNA–target RNA pairs by parallel analysis of RNA ends

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Short RNAs Repress Translation after Initiation in Mammalian Cells

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Endogenous siRNA and miRNA Targets Identified by Sequencing of the Arabidopsis Degradome

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A three-dimensional view of the molecular machinery of RNA interference

Jínek, M., & Doudna, J. A. (2008) · Nature · doi:10.1038/nature07755 · Cited by 780

A role for the P-body component GW182 in microRNA function

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MicroRNAs control translation initiation by inhibiting eukaryotic initiation factor 4E/cap and poly(A) tail function

Humphreys, D. T., Westman, B. J., Martin, D. I. K., & Preiß, T. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506482102 · Cited by 704

The miRNA156/157 recognition element in the 3′ UTR of the Arabidopsis SBP box gene SPL3 prevents early flowering by translational inhibition in seedlings

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MicroRNA Inhibition of Translation Initiation in Vitro by Targeting the Cap-Binding Complex eIF4F

Mathonnet, G., Fabian, M. R., Svitkin, Y. V., Parsyan, A. E., Huck, L., Murata, T., Biffo, S., Merrick, W. C., Darżynkiewicz, E., Pillai, R. S., et al. (2007) · Science · doi:10.1126/science.1146067 · Cited by 593

Identification of Novel Argonaute-Associated Proteins

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Translation Repression in Human Cells by MicroRNA-Induced Gene Silencing Requires RCK/p54

Chu, C., & Rana, T. M. (2006) · PLoS Biology · doi:10.1371/journal.pbio.0040210 · Cited by 551

Human let-7a miRNA blocks protein production on actively translating polyribosomes

Nottrott, S., Simard, M. J., & Richter, J. D. (2006) · Nature Structural & Molecular Biology · doi:10.1038/nsmb1173 · Cited by 497

Disruption of GW bodies impairs mammalian RNA interference

Jakymiw, A., Lian, S., Eystathioy, T., Li, S., Satoh, M., Hamel, J. C., Fritzler, M. J., & Chan, E. K. L. (2005) · Nature Cell Biology · doi:10.1038/ncb1334 · Cited by 496

A crucial role for GW182 and the DCP1:DCP2 decapping complex in miRNA-mediated gene silencing

Rehwinkel, J., Behm‐Ansmant, I., Gatfield, D., & Izaurralde, E. (2005) · RNA · doi:10.1261/rna.2191905 · Cited by 493

Deadenylation is a widespread effect of miRNA regulation

Eulálio, A., Huntzinger, E., Nishihara, T., Rehwinkel, J., Fauser, M., & Izaurralde, E. (2008) · RNA · doi:10.1261/rna.1399509 · Cited by 429

Mammalian miRNA RISC Recruits CAF1 and PABP to Affect PABP-Dependent Deadenylation

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Two Genetic Circuits Repress the Caenorhabditis elegans Heterochronic Gene lin-28 after Translation Initiation

Seggerson, K., Tang, L., & Moss, E. G. (2002) · Developmental Biology · doi:10.1006/dbio.2001.0563 · Cited by 421

Concordant Regulation of Translation and mRNA Abundance for Hundreds of Targets of a Human microRNA

Hendrickson, D. G., Hogan, D. J., McCullough, H. L., Myers, J. W., Herschlag, D., Ferrell, J. E., & Brown, P. O. (2009) · PLoS Biology · doi:10.1371/journal.pbio.1000238 · Cited by 418

GW182 interaction with Argonaute is essential for miRNA-mediated translational repression and mRNA decay

Eulálio, A., Huntzinger, E., & Izaurralde, E. (2008) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.1405 · Cited by 414

Let Me Count the Ways: Mechanisms of Gene Regulation by miRNAs and siRNAs

Wu, L., & Belasco, J. G. (2008) · Molecular Cell · doi:10.1016/j.molcel.2007.12.010 · Cited by 409

A Collection of Target Mimics for Comprehensive Analysis of MicroRNA Function in Arabidopsis thaliana

Todesco, M., Rubio‐Somoza, I., Paz‐Ares, J., & Weigel, D. (2010) · PLoS Genetics · doi:10.1371/journal.pgen.1001031 · Cited by 403

AtXRN4 Degrades mRNA in Arabidopsis and Its Substrates Include Selected miRNA Targets

Souret, F. F., Kastenmayer, J. P., & Green, P. J. (2004) · Molecular Cell · doi:10.1016/j.molcel.2004.06.006 · Cited by 385

Evidence that microRNAs are associated with translating messenger RNAs in human cells

Maroney, P. A., Yu, Y., Fisher, J., & Nilsen, T. W. (2006) · Nature Structural & Molecular Biology · doi:10.1038/nsmb1174 · Cited by 376

Let-7 microRNA-mediated mRNA deadenylation and translational repression in a mammalian cell-free systemPreprint

Wakiyama, M., Takimoto, K., Ohara, O., & Yokoyama, S. (2007) · Genes & Development · doi:10.1101/gad.1566707 · Cited by 343

Drosophila miR2 induces pseudo-polysomes and inhibits translation initiation

Thermann, R., & Hentze, M. W. (2007) · Nature · doi:10.1038/nature05878 · Cited by 334

Differential Regulation of Germline mRNAs in Soma and Germ Cells by Zebrafish miR-430

Mishima, Y., Giraldez, A. J., Takeda, Y., Fujiwara, T., Sakamoto, H., Schier, A. F., & Inoue, K. (2006) · Current Biology · doi:10.1016/j.cub.2006.08.086 · Cited by 321

Biochemical Evidence for Translational Repression by Arabidopsis MicroRNAs

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Target-specific requirements for enhancers of decapping in miRNA-mediated gene silencingPreprint

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The Developmental Timing Regulator AIN-1 Interacts with miRISCs and May Target the Argonaute Protein ALG-1 to Cytoplasmic P Bodies in C. elegans

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Micro-RNA Regulation of the Mammalian lin-28 Gene during Neuronal Differentiation of Embryonal Carcinoma Cells

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A conserved motif in Argonaute-interacting proteins mediates functional interactions through the Argonaute PIWI domain

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Sucrose induction of Arabidopsis miR398 represses two Cu/Zn superoxide dismutases

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Systematic Identification of C. elegans miRISC Proteins, miRNAs, and mRNA Targets by Their Interactions with GW182 Proteins AIN-1 and AIN-2

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Effects of Dicer and Argonaute down-regulation on mRNA levels in human HEK293 cells

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Drosophila Argonaute1 and Argonaute2 Employ Distinct Mechanisms for Translational Repression

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The GW182 protein family in animal cells: New insights into domains required for miRNA-mediated gene silencing

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Recapitulation of Short RNA-Directed Translational Gene Silencing In Vitro

Wang, B., Love, T. M., Call, M. E., Doench, J. G., & Novina, C. D. (2006) · Molecular Cell · doi:10.1016/j.molcel.2006.03.034 · Cited by 191

The Silencing Domain of GW182 Interacts with PABPC1 To Promote Translational Repression and Degradation of MicroRNA Targets and Is Required for Target Release

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CCR4-NOT Deadenylates mRNA Associated with RNA-Induced Silencing Complexes in Human Cells

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The C-terminal domains of human TNRC6A, TNRC6B, and TNRC6C silence bound transcripts independently of Argonaute proteins

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The C-terminal half of human Ago2 binds to multiple GW-rich regions of GW182 and requires GW182 to mediate silencing

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Importance of the C-terminal domain of the human GW182 protein TNRC6C for translational repression

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Genome-Wide Analysis of mRNAs Regulated by Drosha and Argonaute Proteins in Drosophila melanogaster

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GW182 family proteins are crucial for microRNA-mediated gene silencing

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Repression of C. elegans microRNA targets at the initiation level of translation requires GW182 proteins

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Mammalian GW182 contains multiple Argonaute-binding sites and functions in microRNA-mediated translational repression

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A C-terminal silencing domain in GW182 is essential for miRNA function

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Regulation of Poly(A)-binding Protein through PABP-interacting ProteinsPreprint

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microRNA-Mediated Messenger RNA Deadenylation Contributes to Translational Repression in Mammalian Cells

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Two PABPC1‐binding sites in GW182 proteins promote miRNA‐mediated gene silencing

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Structural insights into the human GW182-PABC interaction in microRNA-mediated deadenylation

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Structural Basis of Binding of P-body-associated Proteins GW182 and Ataxin-2 by the Mlle Domain of Poly(A)-binding Protein

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Pervasive and Cooperative Deadenylation of 3′UTRs by Embryonic MicroRNA Families

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Role of GW182 proteins and PABPC1 in the miRNA pathway: a sense of déjà vu

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Drosophila miR2 Primarily Targets the m7GpppN Cap Structure for Translational Repression

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Multiple independent domains of dGW182 function in miRNA-mediated repression in Drosophila

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Identification of GW182 and its novel isoform TNGW1 as translational repressors in Ago2-mediated silencing

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Poly(A)-binding protein modulates mRNA susceptibility to cap-dependent miRNA-mediated repression

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Regulation of microRNA biogenesis

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Overview of MicroRNA Biogenesis, Mechanisms of Actions, and Circulation

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Towards a molecular understanding of microRNA-mediated gene silencing

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Mechanism of miRNA-mediated repression of mRNA translation

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Towards a molecular understanding of microRNA-mediated gene silencing

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Micro Managing Translational Repression

Riddihough, G. (2008) · Science Signaling · doi:10.1126/scisignal.122ec210

MicroRNAs and their regulatory roles in animals and plants

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