Transposon-Derived Non-coding RNAs and Their Function in Plants

Paternal easiRNAs regulate parental genome dosage in Arabidopsis

(2018) German Martinez et al.   NATURE GENETICS

Transposon-derived small RNAs triggered by miR845 mediate genome dosage response in Arabidopsis

(2018) Filipe Borges et al.   NATURE GENETICS

Transposable elements (TEs) contribute to stress-related long intergenic noncoding RNAs in plants

(2017) Dong Wang et al.   PLANT JOURNAL

Long noncoding RNAs in the model species Brachypodium distachyon

(2017) Concetta De Quattro et al.   Scientific Reports

Regulation of rice root development by a retrotransposon acting as a microRNA sponge

(2017) Jungnam Cho et al.   eLife

LoRTE: Detecting transposon-induced genomic variants using low coverage PacBio long read sequences

(2017) Eric Disdero et al.   Mobile DNA

DNA Damage-Induced Transcription of Transposable Elements and Long Non-coding RNAs in Arabidopsis Is Rare and ATM-Dependent

(2016) Zhenxing Wang et al.   Molecular Plant

Generation of chromosomal deletions in dicotyledonous plants employing a user-friendly genome editing toolkit

(2016) Jana Ordon et al.   PLANT JOURNAL

An Effective Strategy for Reliably Isolating Heritable and Cas9 -Free Arabidopsis Mutants Generated by CRISPR/Cas9-Mediated Genome Editing

(2016) Xiuhua Gao et al.   PLANT PHYSIOLOGY

The Arabidopsis thaliana mobilome and its impact at the species level

(2016) Leandro Quadrana et al.   eLife

Population scale mapping of transposable element diversity reveals links to gene regulation and epigenomic variation

(2016) Tim Stuart et al.   eLife

A One Precursor One siRNA Model for Pol IV-Dependent siRNA Biogenesis

(2015) Jixian Zhai et al.   CELL

Controlled activation of retrotransposition for plant breeding

(2015) Jerzy Paszkowski   CURRENT OPINION IN BIOTECHNOLOGY

The expanding world of small RNAs in plants

(2015) Filipe Borges et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Expression and diversification analysis reveals transposable elements play important roles in the origin of Lycopersicon-specific lncRNAs in tomato

(2015) Xin Wang et al.   NEW PHYTOLOGIST

Long noncoding RNA transcriptome of plants

(2015) Jun Liu et al.   PLANT BIOTECHNOLOGY JOURNAL

Inhibiting plant microRNA activity: molecularSPONGEs, targetMIMICsand STTMs all display variable efficacies against target microRNAs

(2015) Marlene Reichel et al.   PLANT BIOTECHNOLOGY JOURNAL

Identification of Pol IV and RDR2-dependent precursors of 24 nt siRNAs guiding de novo DNA methylation in Arabidopsis

(2015) Todd Blevins et al.   eLife

The bright side of transposons in crop evolution

(2014) C. Vitte et al.   Briefings in Functional Genomics

Molecular Mechanism of Action of Plant DRM De Novo DNA Methyltransferases

(2014) Xuehua Zhong et al.   CELL

Meristem-specific expression of epigenetic regulators safeguards transposon silencing in Arabidopsis

(2014) T. Baubec et al.   EMBO REPORTS

Retrotransposons and pseudogenes regulate mRNAs and lncRNAs via the piRNA pathway in the germline

(2014) Toshiaki Watanabe et al.   GENOME RESEARCH

Detection of Pol IV/RDR2-dependent transcripts at the genomic scale inArabidopsisreveals features and regulation of siRNA biogenesis

(2014) Shaofang Li et al.   GENOME RESEARCH

The Stress Granule Component TIA-1 Binds Tick-Borne Encephalitis Virus RNA and Is Recruited to Perinuclear Sites of Viral Replication To Inhibit Viral Translation

(2014) A. Albornoz et al.   JOURNAL OF VIROLOGY

miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis

(2014) Kate M. Creasey et al.   NATURE

RNA-directed DNA methylation: an epigenetic pathway of increasing complexity

(2014) Marjori A. Matzke et al.   NATURE REVIEWS GENETICS

AntisenseCOOLAIRmediates the coordinated switching of chromatin states atFLCduring vernalization

(2014) Tibor Csorba et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The RIDL hypothesis: transposable elements as functional domains of long noncoding RNAs

(2014) R. Johnson et al.   RNA

Genome-wide identification of genes regulated intransby transposable element small interfering RNAs

(2013) Andrea D McCue et al.   RNA Biology

Transposable Elements Are Major Contributors to the Origin, Diversification, and Regulation of Vertebrate Long Noncoding RNAs

(2013) Aurélie Kapusta et al.   PLoS Genetics

Effective Small RNA Destruction by the Expression of a Short Tandem Target Mimic in Arabidopsis

(2012) J. Yan et al.   PLANT CELL

Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis

(2012) J. Liu et al.   PLANT CELL

Gene Expression and Stress Response Mediated by the Epigenetic Regulation of a Transposable Element Small RNA

(2012) Andrea D. McCue et al.   PLoS Genetics

Role of Transposon-Derived Small RNAs in the Interplay between Genomes and Parasitic DNA in Rice

(2012) Misuzu Nosaka et al.   PLoS Genetics

Transposable elements reveal a stem cell-specific class of long noncoding RNAs

(2012) David Kelley et al.   GENOME BIOLOGY

Domestication of Transposable Elements into MicroRNA Genes in Plants

(2011) Yang Li et al.   PLoS One

MicroRNA171c-Targeted SCL6-II, SCL6-III, and SCL6-IV Genes Regulate Shoot Branching in Arabidopsis

(2010) Long Wang et al.   Molecular Plant

Vernalization-Mediated Epigenetic Silencing by a Long Intronic Noncoding RNA

(2010) J. B. Heo et al.   SCIENCE

A triptych of the evolution of plant transposable elements

(2010) Maud I. Tenaillon et al.   TRENDS IN PLANT SCIENCE

Epigenetic Reprogramming and Small RNA Silencing of Transposable Elements in Pollen

(2009) R. Keith Slotkin et al.   CELL

Genome-Wide Demethylation of Arabidopsis Endosperm

(2009) T.-F. Hsieh et al.   SCIENCE