Untangling the web: The diverse functions of the PIWI/piRNA pathway

A Major Epigenetic Programming Mechanism Guided by piRNAs

(2013) Xiao A. Huang et al.   DEVELOPMENTAL CELL

Function of Piwi, a nuclear Piwi/Argonaute protein, is independent of its slicer activity

(2013) Nicole Darricarrère et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nuclear Organization and Genome Function

(2012) Kevin Van Bortle et al.   Annual Review of Cell and Developmental Biology

Transposable Elements: An Abundant and Natural Source of Regulatory Sequences for Host Genes

(2012) Rita Rebollo et al.   Annual Review of Genetics

C. elegans piRNAs Mediate the Genome-wide Surveillance of Germline Transcripts

(2012) Heng-Chi Lee et al.   CELL

CapSeq and CIP-TAP Identify Pol II Start Sites and Reveal Capped Small RNAs as C. elegans piRNA Precursors

(2012) Weifeng Gu et al.   CELL

Piwi-Interacting RNAs Protect DNA against Loss during Oxytricha Genome Rearrangement

(2012) Wenwen Fang et al.   CELL

Transcriptional Silencing of Transposons by Piwi and Maelstrom and Its Impact on Chromatin State and Gene Expression

(2012) Grzegorz Sienski et al.   CELL

A Role for Neuronal piRNAs in the Epigenetic Control of Memory-Related Synaptic Plasticity

(2012) Priyamvada Rajasethupathy et al.   CELL

piRNAs Can Trigger a Multigenerational Epigenetic Memory in the Germline of C. elegans

(2012) Alyson Ashe et al.   CELL

UAP56 Couples piRNA Clusters to the Perinuclear Transposon Silencing Machinery

(2012) Fan Zhang et al.   CELL

piRNAs Initiate an Epigenetic Memory of Nonself RNA in the C. elegans Germline

(2012) Masaki Shirayama et al.   CELL

A Role for Small RNAs in DNA Double-Strand Break Repair

(2012) Wei Wei et al.   CELL

Polo-mediated phosphorylation of Maelstrom regulates oocyte determination during oogenesis in Drosophila

(2012) J. W. Pek et al.   DEVELOPMENT

Promoters Recognized by Forkhead Proteins Exist for Individual 21U-RNAs

(2012) Germano Cecere et al.   MOLECULAR CELL

The Cochaperone Shutdown Defines a Group of Biogenesis Factors Essential for All piRNA Populations in Drosophila

(2012) Daniel Olivieri et al.   MOLECULAR CELL

A Role for Fkbp6 and the Chaperone Machinery in piRNA Amplification and Transposon Silencing

(2012) Jordi Xiol et al.   MOLECULAR CELL

Structure and function of Zucchini endoribonuclease in piRNA biogenesis

(2012) Hiroshi Nishimasu et al.   NATURE

The structural biochemistry of Zucchini implicates it as a nuclease in piRNA biogenesis

(2012) Jonathan J. Ipsaro et al.   NATURE

Mili and Miwi target RNA repertoire reveals piRNA biogenesis and function of Miwi in spermiogenesis

(2012) Anastassios Vourekas et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Piwil2 Suppresses P53 by Inducing Phosphorylation of Signal Transducer and Activator of Transcription 3 in Tumor Cells

(2012) Yilu Lu et al.   PLoS One

Ectopic assembly of heterochromatin in Drosophila melanogaster triggered by transposable elements

(2012) M. F. Sentmanat et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

shutdown is a component of the Drosophila piRNA biogenesis machinery

(2012) J. B. Preall et al.   RNA

Function, Targets, and Evolution of Caenorhabditis elegans piRNAs

(2012) M. P. Bagijn et al.   SCIENCE

Ribosome Profiling Shows That miR-430 Reduces Translation Before Causing mRNA Decay in Zebrafish

(2012) A. A. Bazzini et al.   SCIENCE

PIWI Expression and Function in Cancer

(2012) Ryusuke Suzuki et al.   Frontiers in Genetics

Uniting Germline and Stem Cells: The Function of Piwi Proteins and the piRNA Pathway in Diverse Organisms

(2011) Celina Juliano et al.   Annual Review of Genetics

DNA Elimination in Ciliates: Transposon Domestication and Genome Surveillance

(2011) Douglas L. Chalker et al.   Annual Review of Genetics

The Molecular Control of Meiotic Chromosomal Behavior: Events in Early Meiotic Prophase in Drosophila Oocytes

(2011) Cathleen M. Lake et al.   Annual Review of Physiology

Heterochromatin and the DNA damage response: the need to relaxThis paper is one of a selection of papers in a Special Issue entitled 31st Annual International Asilomar Chromatin and Chromosomes Conference, and has undergone the Journal’s usual peer review process.

(2011) Kendra L. Cann et al.   Biochemistry and Cell Biology

Adaptation to P Element Transposon Invasion in Drosophila melanogaster

(2011) Jaspreet S. Khurana et al.   CELL

LINE-1 retrotransposition in human neuroblastoma cells is affected by oxidative stress

(2011) Gianfranco Giorgi et al.   CELL AND TISSUE RESEARCH

Inhibition of activated pericentromeric SINE/Alu repeat transcription in senescent human adult stem cells reinstates self-renewal

(2011) Jianrong Wang et al.   CELL CYCLE

piRNA Production Requires Heterochromatin Formation in Drosophila

(2011) Prashanth Rangan et al.   CURRENT BIOLOGY

From microRNAs to targets: pathway discovery in cell fate transitions

(2011) Deepa Subramanyam et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Vreteno, a gonad-specific protein, is essential for germline development and primary piRNA biogenesis in Drosophila

(2011) A. L. Zamparini et al.   DEVELOPMENT

The DEAD-box RNA helicase Vasa functions in embryonic mitotic progression in the sea urchin

(2011) M. Yajima et al.   DEVELOPMENT

Pinpointing the expression of piRNAs and function of the PIWI protein subfamily during spermatogenesis in the mouse

(2011) Ergin Beyret et al.   DEVELOPMENTAL BIOLOGY

MITOPLD Is a Mitochondrial Protein Essential for Nuage Formation and piRNA Biogenesis in the Mouse Germline

(2011) Toshiaki Watanabe et al.   DEVELOPMENTAL CELL

Breadth by depth: Expanding our understanding of the repair of transposon-induced DNA double strand breaks via deep-sequencing

(2011) Neil D. Huefner et al.   DNA REPAIR

The tudor domain protein Kumo is required to assemble the nuage and to generate germline piRNAs inDrosophila

(2011) Amit Anand et al.   EMBO JOURNAL

The Cutoff protein regulates piRNA cluster expression and piRNA production in theDrosophilagermline

(2011) Attilio Pane et al.   EMBO JOURNAL

A systematic analysis ofDrosophilaTUDOR domain-containing proteins identifies Vreteno and the Tdrd12 family as essential primary piRNA pathway factors

(2011) Dominik Handler et al.   EMBO JOURNAL

Cyclophilin 40 facilitates HSP90-mediated RISC assembly in plants

(2011) Taichiro Iki et al.   EMBO JOURNAL

Meiotic checkpoints and the interchromosomal effect on crossing over in Drosophila females

(2011) Eric F. Joyce et al.   FLY

First evidence of miniature transposable elements in sponges (Porifera)

(2011) Dirk Erpenbeck et al.   HYDROBIOLOGIA

TDRD5 is required for retrotransposon silencing, chromatoid body assembly, and spermiogenesis in mice

(2011) Yukihiro Yabuta et al.   JOURNAL OF CELL BIOLOGY

3′ End Formation of PIWI-Interacting RNAs In Vitro

(2011) Shinpei Kawaoka et al.   MOLECULAR CELL

Heterotypic piRNA Ping-Pong Requires Qin, a Protein with Both E3 Ligase and Tudor Domains

(2011) Zhao Zhang et al.   MOLECULAR CELL

Stem cell protein Piwil2 modulates chromatin modifications upon cisplatin treatment

(2011) Qi-En Wang et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

The endonuclease activity of Mili fuels piRNA amplification that silences LINE1 elements

(2011) Serena De Fazio et al.   NATURE

Miwi catalysis is required for piRNA amplification-independent LINE1 transposon silencing

(2011) Michael Reuter et al.   NATURE

Non-coding RNAs in human disease

(2011) Manel Esteller   NATURE REVIEWS GENETICS

PIWI-interacting small RNAs: the vanguard of genome defence

(2011) Mikiko C. Siomi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Widespread expression of piRNA-like molecules in somatic tissues

(2011) Zheng Yan et al.   NUCLEIC ACIDS RESEARCH

Germline Stem Cell Gene PIWIL2 Mediates DNA Repair through Relaxation of Chromatin

(2011) De-Tao Yin et al.   PLoS One

Drosophila Piwi functions downstream of piRNA production mediating a chromatin-based transposon silencing mechanism in female germ line

(2011) S. H. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Retrotransposons that maintain chromosome ends

(2011) M.-L. Pardue et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Separation of stem cell maintenance and transposon silencing functions of Piwi protein

(2011) M. S. Klenov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DEAD-box RNA helicase Belle/DDX3 and the RNA interference pathway promote mitotic chromosome segregation

(2011) J. W. Pek et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Zygotic amplification of secondary piRNAs during silkworm embryogenesis

(2011) S. Kawaoka et al.   RNA

Identification of piRNAs in the central nervous system

(2011) E. J. Lee et al.   RNA

Role for piRNAs and Noncoding RNA in de Novo DNA Methylation of the Imprinted Mouse Rasgrf1 Locus

(2011) T. Watanabe et al.   SCIENCE

Molecular Regulation of the Mitosis/Meiosis Decision in Multicellular Organisms

(2011) J. Kimble   Cold Spring Harbor Perspectives in Biology

Small Noncoding RNAs in the Germline

(2011) J. P. Saxe et al.   Cold Spring Harbor Perspectives in Biology

Somatic and germline expression of piwi during development and regeneration in the marine polychaete annelid Capitella teleta

(2011) Vincent C Giani et al.   EvoDevo

Expression of the Argonaute protein PiwiL2 and piRNAs in adult mouse mesenchymal stem cells

(2010) Qiuling Wu et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Pathways of Proliferation and Antiapoptosis Driven in Breast Cancer Stem Cells by Stem Cell Protein Piwil2

(2010) Jae Ho Lee et al.   CANCER RESEARCH

The Tetrahymena Argonaute-Binding Protein Giw1p Directs a Mature Argonaute-siRNA Complex to the Nucleus

(2010) Tomoko Noto et al.   CELL

Covalent modifications of histones during mitosis and meiosis

(2010) Dazhong Xu et al.   CELL CYCLE

Versatile TPR domains accommodate different modes of target protein recognition and function

(2010) Rudi Kenneth Allan et al.   CELL STRESS & CHAPERONES

Repression of Retroelements in Drosophila Germline via piRNA Pathway by the Tudor Domain Protein Tejas

(2010) Veena S. Patil et al.   CURRENT BIOLOGY

Somatic stem cells express Piwi and Vasa genes in an adult ctenophore: Ancient association of “germline genes” with stemness

(2010) Alexandre Alié et al.   DEVELOPMENTAL BIOLOGY

Small RNA-Mediated Quiescence of Transposable Elements in Animals

(2010) Kuniaki Saito et al.   DEVELOPMENTAL CELL

An in vivo RNAi assay identifies major genetic and cellular requirements for primary piRNA biogenesis in Drosophila

(2010) Daniel Olivieri et al.   EMBO JOURNAL

Piwi expression in archeocytes and choanocytes in demosponges: insights into the stem cell system in demosponges

(2010) Noriko Funayama et al.   EVOLUTION & DEVELOPMENT

How does the Royal Family of Tudor rule the PIWI-interacting RNA pathway?

(2010) M. C. Siomi et al.   GENES & DEVELOPMENT

Probing the initiation and effector phases of the somatic piRNA pathway in Drosophila

(2010) A. D. Haase et al.   GENES & DEVELOPMENT

Roles for the Yb body components Armitage and Yb in primary piRNA biogenesis in Drosophila

(2010) K. Saito et al.   GENES & DEVELOPMENT

MVH in piRNA processing and gene silencing of retrotransposons

(2010) S. Kuramochi-Miyagawa et al.   GENES & DEVELOPMENT

Small RNAs in the animal gonad: Guarding genomes and guiding development

(2010) Nelson C. Lau   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

The Yb Body, a Major Site for Piwi-associated RNA Biogenesis and a Gateway for Piwi Expression and Transport to the Nucleus in Somatic Cells

(2010) Hongying Qi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Hsc70/Hsp90 Chaperone Machinery Mediates ATP-Dependent RISC Loading of Small RNA Duplexes

(2010) Shintaro Iwasaki et al.   MOLECULAR CELL

In Vitro Assembly of Plant RNA-Induced Silencing Complexes Facilitated by Molecular Chaperone HSP90

(2010) Taichiro Iki et al.   MOLECULAR CELL

Maternal mRNA deadenylation and decay by the piRNA pathway in the early Drosophila embryo

(2010) Christel Rouget et al.   NATURE

Structural basis for 5′-nucleotide base-specific recognition of guide RNA by human AGO2

(2010) Filipp Frank et al.   NATURE

Drosophila Piwi functions in Hsp90-mediated suppression of phenotypic variation

(2010) Vamsi K Gangaraju et al.   NATURE GENETICS

A direct role for Hsp90 in pre-RISC formation in Drosophila

(2010) Tomohiro Miyoshi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Identification of Piwil2-Like (PL2L) Proteins that Promote Tumorigenesis

(2010) Yin Ye et al.   PLoS One

Mouse MOV10L1 associates with Piwi proteins and is an essential component of the Piwi-interacting RNA (piRNA) pathway

(2010) K. Zheng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MOV10L1 is necessary for protection of spermatocytes against retrotransposons by Piwi-interacting RNAs

(2010) R. J. A. Frost et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of elements in the Smcp 5′ and 3′ UTR that repress translation and promote the formation of heavy inactive mRNPs in spermatids by analysis of mutations in transgenic mice

(2010) Jana Bagarova et al.   REPRODUCTION

Biogenesis pathways of piRNAs loaded onto AGO3 in the Drosophila testis

(2010) A. Nagao et al.   RNA

The Genome of the Western Clawed Frog Xenopus tropicalis

(2010) U. Hellsten et al.   SCIENCE

piRNA-mediated silencing in Drosophila germlines

(2010) Mikiko C. Siomi et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Building RNA–protein granules: insight from the germline

(2010) Alexey L. Arkov et al.   TRENDS IN CELL BIOLOGY

The piRNA pathway: a fly's perspective on the guardian of the genome

(2010) Kirsten-André Senti et al.   TRENDS IN GENETICS

The role of reactive oxygen species in the induction ofTy1retrotransposition inSaccharomyces cerevisiae

(2010) Teodora Stoycheva et al.   YEAST

HP1 Recruitment in the Absence of Argonaute Proteins in Drosophila

(2010) Nellie Moshkovich et al.   PLoS Genetics

Distinct Functions for the Drosophila piRNA Pathway in Genome Maintenance and Telomere Protection

(2010) Jaspreet S. Khurana et al.   PLoS Genetics

The role of transposable elements in the evolution of non-mammalian vertebrates and invertebrates

(2010) Noa Sela et al.   GENOME BIOLOGY

Specialized piRNA Pathways Act in Germline and Somatic Tissues of the Drosophila Ovary

(2009) Colin D. Malone et al.   CELL

Collapse of Germline piRNAs in the Absence of Argonaute3 Reveals Somatic piRNAs in Flies

(2009) Chengjian Li et al.   CELL

The Drosophila HP1 Homolog Rhino Is Required for Transposon Silencing and piRNA Production by Dual-Strand Clusters

(2009) Carla Klattenhoff et al.   CELL

Mili Interacts with Tudor Domain-Containing Protein 1 in Regulating Spermatogenesis

(2009) Jianquan Wang et al.   CURRENT BIOLOGY

A Broadly Conserved Pathway Generates 3′UTR-Directed Primary piRNAs

(2009) Nicolas Robine et al.   CURRENT BIOLOGY

Early lineage specification of long-lived germline precursors in the colonial ascidian Botryllus schlosseri

(2009) F. D. Brown et al.   DEVELOPMENT

An essential role for the RNA-binding protein Smaug during the Drosophila maternal-to-zygotic transition

(2009) B. Benoit et al.   DEVELOPMENT

The TDRD9-MIWI2 Complex Is Essential for piRNA-Mediated Retrotransposon Silencing in the Mouse Male Germline

(2009) Masanobu Shoji et al.   DEVELOPMENTAL CELL

Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi

(2009) Nelson C Lau et al.   EMBO JOURNAL

Functional involvement of Tudor and dPRMT5 in the piRNA processing pathway in Drosophila germlines

(2009) Kazumichi M Nishida et al.   EMBO JOURNAL

Zili Inhibits Transforming Growth Factor-β Signaling by Interacting with Smad4

(2009) Huaqin Sun et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Yb protein defines a novel organelle and regulates male germline stem cell self-renewal inDrosophila melanogaster

(2009) Akos Szakmary et al.   JOURNAL OF CELL BIOLOGY

Influence of cyclin type and dose on mitotic entry and progression in the earlyDrosophilaembryo

(2009) Mark L. McCleland et al.   JOURNAL OF CELL BIOLOGY

piRNAs mediate posttranscriptional retroelement silencing and localization to pi-bodies in theDrosophilagermline

(2009) Ai Khim Lim et al.   JOURNAL OF CELL BIOLOGY

G2 histone methylation is required for the proper segregation of chromosomes

(2009) R. Heit et al.   JOURNAL OF CELL SCIENCE

A regulatory circuit for piwi by the large Maf gene traffic jam in Drosophila

(2009) Kuniaki Saito et al.   NATURE

RNA polymerase V transcription guides ARGONAUTE4 to chromatin

(2009) Andrzej T Wierzbicki et al.   NATURE GENETICS

The regulated retrotransposon transcriptome of mammalian cells

(2009) Geoffrey J Faulkner et al.   NATURE GENETICS

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

MicroRNAs: key regulators of stem cells

(2009) Vamsi K. Gangaraju et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

High-resolution profiling and discovery of planarian small RNAs

(2009) Marc R. Friedländer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Retrotransposon overdose and genome integrity

(2009) L. Z. Scheifele et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Two Piwi proteins, Xiwi and Xili, are expressed in the Xenopus female germline

(2009) A. Wilczynska et al.   RNA

Cytoplasmic Compartmentalization of the Fetal piRNA Pathway in Mice

(2009) Alexei A. Aravin et al.   PLoS Genetics

Developmentally synchronized expression of two Bombyx mori Piwi subfamily genes, SIWI and BmAGO3 in germ-line cells

(2008) Shinpei Kawaoka et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Telomere capping in Drosophila: dealing with chromosome ends that most resemble DNA breaks

(2008) Yikang S. Rong   CHROMOSOMA

A C. elegans Piwi, PRG-1, Regulates 21U-RNAs during Spermatogenesis

(2008) Guilin Wang et al.   CURRENT BIOLOGY

Mouse Maelstrom, a Component of Nuage, Is Essential for Spermatogenesis and Transposon Repression in Meiosis

(2008) Sarah F.C. Soper et al.   DEVELOPMENTAL CELL

Zili is required for germ cell differentiation and meiosis in zebrafish

(2008) Saskia Houwing et al.   EMBO JOURNAL

DNA methylation of retrotransposon genes is regulated by Piwi family members MILI and MIWI2 in murine fetal testes

(2008) S. Kuramochi-Miyagawa et al.   GENES & DEVELOPMENT

Gene Conversion and End-Joining-Repair Double-Strand Breaks in the Caenorhabditis elegans Germline

(2008) V. J. Robert et al.   GENETICS

MILI, a PIWI-interacting RNA-binding Protein, Is Required for Germ Line Stem Cell Self-renewal and Appears to Positively Regulate Translation

(2008) Yingdee Unhavaithaya et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A piRNA Pathway Primed by Individual Transposons Is Linked to De Novo DNA Methylation in Mice

(2008) Alexei A. Aravin et al.   MOLECULAR CELL

Piwi and piRNAs Act Upstream of an Endogenous siRNA Pathway to Suppress Tc3 Transposon Mobility in the Caenorhabditis elegans Germline

(2008) Partha P. Das et al.   MOLECULAR CELL

PRG-1 and 21U-RNAs Interact to Form the piRNA Complex Required for Fertility in C. elegans

(2008) Pedro J. Batista et al.   MOLECULAR CELL

Linking Heterochromatin Protein 1 (HP1) to cancer progression

(2008) George K. Dialynas et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals

(2008) Andrew Grimson et al.   NATURE

Epigenetic events in mammalian germ-cell development: reprogramming and beyond

(2008) Hiroyuki Sasaki et al.   NATURE REVIEWS GENETICS

Small non-coding RNAs in animal development

(2008) Giovanni Stefani et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

rasiRNA pathway controls antisense expression of Drosophila telomeric retrotransposons in the nucleus

(2008) Sergey Shpiz et al.   NUCLEIC ACIDS RESEARCH

In Drosophila melanogaster the COM Locus Directs the Somatic Silencing of Two Retrotransposons through both Piwi-Dependent and -Independent Pathways

(2008) Sophie Desset et al.   PLoS One

piRNA-mediated nuclear accumulation of retrotransposon transcripts in the Drosophila female germline

(2008) S. Chambeyron et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Epigenetic Role for Maternally Inherited piRNAs in Transposon Silencing

(2008) J. Brennecke et al.   SCIENCE