Specialization and evolution of endogenous small RNA pathways

MicroRNAs

2004 • 33,206 citations

Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans

1998 • 14,674 citations

The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14

1993 • 12,238 citations

The nuclear RNase III Drosha initiates microRNA processing

2003 • 4,966 citations

Role for a bidentate ribonuclease in the initiation step of RNA interference

2001 • 4,804 citations

An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells

2000 • 2,945 citations

Argonaute2 Is the Catalytic Engine of Mammalian RNAi

2004 • 2,620 citations

Processing of primary microRNAs by the Microprocessor complex

2004 • 2,617 citations

RNAi

2000 • 2,596 citations

MicroRNA biogenesis: coordinated cropping and dicing

2005 • 2,443 citations

Discrete Small RNA-Generating Loci as Master Regulators of Transposon Activity in Drosophila

2007 • 2,410 citations

RNA silencing in plants

2004 • 2,393 citations

microRNA-Directed Phasing during Trans-Acting siRNA Biogenesis in Plants

2005 • 2,175 citations

The Drosha-DGCR8 complex in primary microRNA processing

2004 • 2,096 citations

TRBP recruits the Dicer complex to Ago2 for microRNA processing and gene silencing

2005 • 2,046 citations

The Diverse Functions of MicroRNAs in Animal Development and Disease

2006 • 2,027 citations

Control of translation and mRNA degradation by miRNAs and siRNAs: Table 1.

2006 • 1,957 citations

Transposable elements and the epigenetic regulation of the genome

2007 • 1,897 citations

Human Argonaute2 Mediates RNA Cleavage Targeted by miRNAs and siRNAs

2004 • 1,887 citations

Genes and Mechanisms Related to RNA Interference Regulate Expression of the Small Temporal RNAs that Control C. elegans Developmental Timing

2001 • 1,847 citations

MicroRNAs in plants

2002 • 1,791 citations

Dicer functions in RNA interference and in synthesis of small RNA involved in developmental timing in C. elegans

2001 • 1,761 citations

A germline-specific class of small RNAs binds mammalian Piwi proteins

2006 • 1,629 citations

Genetic and Functional Diversification of Small RNA Pathways in Plants

2004 • 1,553 citations

Intronic microRNA precursors that bypass Drosha processing

2007 • 1,542 citations

Molecular Basis for the Recognition of Primary microRNAs by the Drosha-DGCR8 Complex

2006 • 1,510 citations

The Widespread Impact of Mammalian MicroRNAs on mRNA Repression and Evolution

2005 • 1,482 citations

A novel class of small RNAs bind to MILI protein in mouse testes

2006 • 1,439 citations

Specific Effects of MicroRNAs on the Plant Transcriptome

2005 • 1,404 citations

RNA polymerase III transcribes human microRNAs

2006 • 1,359 citations

On the Role of RNA Amplification in dsRNA-Triggered Gene Silencing

2001 • 1,282 citations

Transcription regulation and animal diversity

2003 • 1,279 citations

A Distinct Small RNA Pathway Silences Selfish Genetic Elements in the Germline

2006 • 1,277 citations

A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana

2006 • 1,274 citations

Distinct Roles for Drosophila Dicer-1 and Dicer-2 in the siRNA/miRNA Silencing Pathways

2004 • 1,254 citations

CARPEL FACTORY, a Dicer Homolog, and HEN1, a Novel Protein, Act in microRNA Metabolism in Arabidopsis thaliana

2002 • 1,243 citations

RNAi-Mediated Targeting of Heterochromatin by the RITS Complex

2004 • 1,219 citations

Heterochromatin revisited

2006 • 1,195 citations

High-Throughput Sequencing of Arabidopsis microRNAs: Evidence for Frequent Birth and Death of MIRNA Genes

2007 • 1,165 citations

A Slicer-Mediated Mechanism for Repeat-Associated siRNA 5' End Formation in Drosophila

2007 • 1,136 citations

MIWI2 Is Essential for Spermatogenesis and Repression of Transposons in the Mouse Male Germline

2007 • 1,094 citations

A Role for Piwi and piRNAs in Germ Cell Maintenance and Transposon Silencing in Zebrafish

2007 • 1,089 citations

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

2005 • 1,079 citations

Endogenous siRNAs Derived from a Pair of Natural cis-Antisense Transcripts Regulate Salt Tolerance in Arabidopsis

2005 • 1,076 citations

An RNA-Dependent RNA Polymerase Gene in Arabidopsis Is Required for Posttranscriptional Gene Silencing Mediated by a Transgene but Not by a Virus

2000 • 1,061 citations

ARGONAUTE4 Control of Locus-Specific siRNA Accumulation and DNA and Histone Methylation

2003 • 1,041 citations

Two classes of short interfering RNA in RNA silencing

2002 • 1,022 citations

The Mirtron Pathway Generates microRNA-Class Regulatory RNAs in Drosophila

2007 • 1,000 citations

From Birth to Death: The Complex Lives of Eukaryotic mRNAs

2005 • 991 citations

Arabidopsis ARGONAUTE1 is an RNA Slicer that selectively recruits microRNAs and short interfering RNAs

2005 • 989 citations

Revealing the world of RNA interference

2004 • 972 citations

Developmentally Regulated piRNA Clusters Implicate MILI in Transposon Control

2007 • 970 citations

A novel class of evolutionarily conserved genes defined by piwi are essential for stem cell self-renewal

1998 • 955 citations

The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development

2004 • 944 citations

Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions

2004 • 919 citations

HIF-1, O2, and the 3 PHDs

2001 • 917 citations

SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis

2004 • 905 citations

Hierarchical Action and Inhibition of Plant Dicer-Like Proteins in Antiviral Defense

2006 • 884 citations

Genomics of microRNA

2006 • 872 citations

Gardening the genome: DNA methylation in Arabidopsis thaliana

2005 • 861 citations

Distinct roles for Argonaute proteins in small RNA-directed RNA cleavage pathways

2004 • 831 citations

MicroRNA function in animal development

2005 • 812 citations

microPrimer: the biogenesis and function of microRNA

2005 • 806 citations

Endogenous trans-Acting siRNAs Regulate the Accumulation of Arabidopsis mRNAs

2004 • 791 citations

Purified Argonaute2 and an siRNA form recombinant human RISC

2005 • 736 citations

MicroRNAs and Other Tiny Endogenous RNAs in C. elegans

2003 • 702 citations

RNA Polymerase IV Directs Silencing of Endogenous DNA

2005 • 702 citations

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

2005 • 701 citations

R2D2, a Bridge Between the Initiation and Effector Steps of the Drosophila RNAi Pathway

2003 • 690 citations

TRBP, a regulator of cellular PKR and HIV‐1 virus expression, interacts with Dicer and functions in RNA silencing

2005 • 650 citations

Analysis of the C. elegans Argonaute Family Reveals that Distinct Argonautes Act Sequentially during RNAi

2006 • 645 citations

Cucumber mosaic virus-encoded 2b suppressor inhibits Arabidopsis Argonaute1 cleavage activity to counter plant defense

2006 • 642 citations

Plant Nuclear RNA Polymerase IV Mediates siRNA and DNA Methylation-Dependent Heterochromatin Formation

2005 • 635 citations

A Two-Hit Trigger for siRNA Biogenesis in Plants

2006 • 622 citations

Specific association of Piwi with rasiRNAs derived from retrotransposon and heterochromatic regions in the Drosophila genome

2006 • 618 citations

Molecular Evolution of a MicroRNA Cluster

2004 • 610 citations

Evolution of microRNA genes by inverted duplication of target gene sequences in Arabidopsis thaliana

2004 • 603 citations

Fertile Hypomorphic ARGONAUTE (ago1) Mutants Impaired in Post-Transcriptional Gene Silencing and Virus Resistance

2002 • 599 citations

Dissecting Arabidopsis thaliana DICER function in small RNA processing, gene silencing and DNA methylation patterning

2006 • 597 citations

Partially Redundant Functions of Arabidopsis DICER-like Enzymes and a Role for DCL4 in Producing trans-Acting siRNAs

2005 • 595 citations

Analysis of a piwi-Related Gene Implicates Small RNAs in Genome Rearrangement in Tetrahymena

2002 • 594 citations

A conserved siRNA-degrading RNase negatively regulates RNA interference in C. elegans

2004 • 592 citations

Regulation of AUXIN RESPONSE FACTOR3 by TAS3 ta-siRNA Affects Developmental Timing and Patterning in Arabidopsis

2006 • 590 citations

Distinct Populations of Primary and Secondary Effectors During RNAi in C. elegans

2006 • 590 citations

Transitivity-dependent and -independent cell-to-cell movement of RNA silencing

2003 • 587 citations

A Protein Sensor for siRNA Asymmetry

2004 • 584 citations

Loss of the Putative RNA-Directed RNA Polymerase RRF-3 Makes C. elegans Hypersensitive to RNAi

2002 • 577 citations

The role of RNA interference in heterochromatic silencing

2004 • 563 citations

Recognition and cleavage of primary microRNA precursors by the nuclear processing enzyme Drosha

2004 • 554 citations

RNA Silencing Genes Control de Novo DNA Methylation

2004 • 553 citations

Two RNAi Complexes, RITS and RDRC, Physically Interact and Localize to Noncoding Centromeric RNAs

2004 • 540 citations

Normal microRNA Maturation and Germ-Line Stem Cell Maintenance Requires Loquacious, a Double-Stranded RNA-Binding Domain Protein

2005 • 537 citations

DICER-LIKE 4 functions in trans-acting small interfering RNA biogenesis and vegetative phase change in Arabidopsis thaliana

2005 • 532 citations

Mutations that lead to reiterations in the cell lineages of C. elegans

1981 • 530 citations

Genome-Wide Profiling and Analysis of Arabidopsis siRNAs

2007 • 526 citations

The Nuclear dsRNA Binding Protein HYL1 Is Required for MicroRNA Accumulation and Plant Development, but Not Posttranscriptional Transgene Silencing

2004 • 514 citations

The Arabidopsis double-stranded RNA-binding protein HYL1 plays a role in microRNA-mediated gene regulation

2004 • 504 citations

DICER-LIKE1: blind men and elephants in Arabidopsis development

2002 • 503 citations

miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii

2007 • 497 citations

A pathogen-inducible endogenous siRNA in plant immunity

2006 • 496 citations

On the origin and functions of RNA-mediated silencing: from protists to man

2006 • 494 citations

Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome

2005 • 484 citations

An antagonistic function for Arabidopsis DCL2 in development and a new function for DCL4 in generating viral siRNAs

2006 • 479 citations

The interaction between DCL1 and HYL1 is important for efficient and precise processing of pri-miRNA in plant microRNA biogenesis

2006 • 471 citations

Slicer and the Argonautes

2006 • 451 citations

Spreading of RNA Targeting and DNA Methylation in RNA Silencing Requires Transcription of the Target Gene and a Putative RNA-Dependent RNA Polymerase

2002 • 451 citations

Virus Counterdefense: Diverse Strategies for Evading the RNA-Silencing Immunity

2006 • 447 citations

DRB4-Dependent TAS3 trans-Acting siRNAs Control Leaf Morphology through AGO7

2006 • 443 citations

Distinct catalytic and non-catalytic roles of ARGONAUTE4 in RNA-directed DNA methylation

2006 • 436 citations

The Arabidopsis Chromatin-Modifying Nuclear siRNA Pathway Involves a Nucleolar RNA Processing Center

2006 • 428 citations

Biochemical Specialization within Arabidopsis RNA Silencing Pathways

2005 • 425 citations

Processing of Pre-microRNAs by the Dicer-1–Loquacious Complex in Drosophila Cells

2005 • 421 citations

Drosophila microRNAs Are Sorted into Functionally Distinct Argonaute Complexes after Production by Dicer-1

2007 • 411 citations

DICER-LIKE 4 is required for RNA interference and produces the 21-nucleotide small interfering RNA component of the plant cell-to-cell silencing signal

2005 • 408 citations

A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii

2007 • 397 citations

RITS acts in cis to promote RNA interference–mediated transcriptional and post-transcriptional silencing

2004 • 395 citations

RETRACTED: Secondary siRNAs Result from Unprimed RNA Synthesis and Form a Distinct Class

2006 • 394 citations

Genome-Wide Analysis of the RNA-DEPENDENT RNA POLYMERASE6/DICER-LIKE4 Pathway inArabidopsisReveals Dependency on miRNA- and tasiRNA-Directed Targeting

2007 • 389 citations

Sequence and Expression Differences Underlie Functional Specialization of Arabidopsis MicroRNAs miR159 and miR319

2007 • 388 citations

L1 retrotransposition is suppressed by endogenously encoded small interfering RNAs in human cultured cells

2006 • 386 citations

An ARGONAUTE4-Containing Nuclear Processing Center Colocalized with Cajal Bodies in Arabidopsis thaliana

2006 • 379 citations

Functional Proteomics Reveals the Biochemical Niche of C. elegans DCR-1 in Multiple Small-RNA-Mediated Pathways

2006 • 378 citations

Reinforcement of silencing at transposons and highly repeated sequences requires the concerted action of two distinct RNA polymerases IV in Arabidopsis

2005 • 373 citations

Sorting of Drosophila Small Silencing RNAs

2007 • 370 citations

An RNA-dependent RNA polymerase is required for paramutation in maize

2006 • 366 citations

Evidence for Nuclear Processing of Plant Micro RNA and Short Interfering RNA Precursors

2003 • 365 citations

Trans-acting siRNA-mediated repression of ETTIN and ARF4 regulates heteroblasty inArabidopsis

2006 • 355 citations

Origin and Evolution of Human microRNAs From Transposable Elements

2007 • 350 citations

The expansion of the metazoan microRNA repertoire

2006 • 348 citations

MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant

2006 • 342 citations

Redundancy and specialization among plant microRNAs: role of theMIR164family in developmental robustness

2007 • 341 citations

The evolution and diversification of Dicers in plants

2006 • 328 citations

The Coat Protein of Turnip Crinkle Virus Suppresses Posttranscriptional Gene Silencing at an Early Initiation Step

2002 • 322 citations

Antisense-Mediated Depletion Reveals Essential and Specific Functions of MicroRNAs in Drosophila Development

2005 • 317 citations

Role of Arabidopsis ARGONAUTE4 in RNA-Directed DNA Methylation Triggered by Inverted Repeats

2004 • 316 citations

Evolution of Arabidopsis microRNA families through duplication events

2006 • 303 citations

Mammalian microRNAs derived from genomic repeats

2005 • 296 citations

A database analysis method identifies an endogenous trans-acting short-interfering RNA that targets the Arabidopsis ARF2, ARF3 , and ARF4 genes

2005 • 289 citations

RNA-dependent RNA polymerase is an essential component of a self-enforcing loop coupling heterochromatin assembly to siRNA production

2004 • 288 citations

A Family of Human MicroRNA Genes from Miniature Inverted-Repeat Transposable Elements

2007 • 285 citations

Specific interactions between Dicer-like proteins and HYL1/DRB- family dsRNA-binding proteins in Arabidopsis thaliana

2005 • 278 citations

Arabidopsis primary microRNA processing proteins HYL1 and DCL1 define a nuclear body distinct from the Cajal body

2007 • 249 citations

RNAi-dependent H3K27 methylation is required for heterochromatin formation and DNA elimination in Tetrahymena

2007 • 246 citations

Intra- and intercellular RNA interference in Arabidopsis thaliana requires components of the microRNA and heterochromatic silencing pathways

2007 • 238 citations

RETRACTED: RNA silencing of host transcripts by cauliflower mosaic virus requires coordinated action of the four Arabidopsis Dicer-like proteins

2006 • 228 citations

Arabidopsis endogenous small RNAs: highways and byways

2006 • 228 citations

Argonaute protein PIWI controls mobilization of retrotransposons in the Drosophila male germline

2005 • 217 citations

Turnip crinkle virus coat protein mediates suppression of RNA silencing in nicotiana benthamiana

2003 • 210 citations

Bioinformatic prediction and experimental validation of a microRNA-directed tandem trans-acting siRNA cascade in Arabidopsis

2007 • 208 citations

A Dicer-like protein in Tetrahymena has distinct functions in genome rearrangement, chromosome segregation, and meiotic prophase

2004 • 206 citations

Interacting endogenous and exogenous RNAi pathways in Caenorhabditis elegans

2006 • 203 citations

Maintenance of heterochromatin by RNA interference of tandem repeats

2003 • 203 citations

Non‐cell autonomous RNA silencing

2005 • 200 citations

Repeat-associated siRNAs cause chromatin silencing of retrotransposons in the Drosophila melanogaster germline

2007 • 194 citations

Redundancy of the Two Dicer Genes in Transgene-Induced Posttranscriptional Gene Silencing in Neurospora crassa

2004 • 186 citations

Heritable transposon silencing initiated by a naturally occurring transposon inverted duplication

2005 • 177 citations

Transcriptional silencing of a transgene by RNAi in the soma ofC. elegans

2005 • 174 citations

Transitivity in Arabidopsis can be primed, requires the redundant action of the antiviral Dicer-like 4 and Dicer-like 2, and is compromised by viral-encoded suppressor proteins

2007 • 171 citations

Molecular Bases of Viral RNA Targeting by Viral Small Interfering RNA-Programmed RISC

2007 • 170 citations

Alu elements within human mRNAs are probable microRNA targets

2006 • 155 citations

Evolution of microRNAs located within Hox gene clusters

2005 • 154 citations

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

2006 • 137 citations

The dsRNA-binding protein DRB4 interacts with the Dicer-like protein DCL4 in vivo and functions in the trans-acting siRNA pathway

2007 • 130 citations

Coordinate suppression of mutations caused by Robertson's mutator transposons in maize.

1994 • 117 citations

RNA-Guided DNA Deletion in Tetrahymena: An RNAi-Based Mechanism for Programmed Genome Rearrangements

2005 • 114 citations

A mutation that prevents paramutation in maize also reverses Mutator transposon methylation and silencing

2002 • 100 citations

Initiation, Establishment, and Maintenance of Heritable MuDR Transposon Silencing in Maize Are Mediated by Distinct Factors

2006 • 100 citations

Two classes of endogenous small RNAs inTetrahymena thermophila

2005 • 97 citations

Paramutation of the r1 Locus of Maize Is Associated With Increased Cytosine Methylation

1998 • 97 citations

Distinct Expression Patterns of Natural Antisense Transcripts in Arabidopsis

2007 • 96 citations

One of the Two Dicer-like Proteins in the Filamentous Fungi Magnaporthe oryzae Genome Is Responsible for Hairpin RNA-triggered RNA Silencing and Related Small Interfering RNA Accumulation

2004 • 91 citations

Mu killer Causes the Heritable Inactivation of the Mutator Family of Transposable Elements in Zea mays

2003 • 87 citations

Primate MicroRNAs miR-220 and miR-492 Lie within Processed Pseudogenes

2006 • 69 citations

Genomic regulation of transposable elements in Drosophila

1995 • 40 citations

Significant sequence similarities in promoters and precursors of Arabidopsis thaliana non-conserved microRNAs

2006 • 25 citations

Epigenetic regulation of centromere formation and kinetochore functionThis paper is one of a selection of papers published in this Special Issue, entitled 27th International West Coast Chromatin and Chromosome Conference, and has undergone the Journal's usual peer review process.

2006 • 12 citations

Deleted Work

1955 • 0 citations