EAT1 transcription factor, a non-cell-autonomous regulator of pollen production, activates meiotic small RNA biogenesis in rice anther tapetum

Efficient Generation of diRNAs Requires Components in the Posttranscriptional Gene Silencing Pathway

(2017) Daisuke Miki et al.   Scientific Reports

MS23, a master basic helix-loop-helix factor, regulates the specification and development of the tapetum in maize

(2016) Guo-Ling Nan et al.   DEVELOPMENT

Accurate Chromosome Segregation at First Meiotic Division Requires AGO4, a Protein Involved in RNA-Dependent DNA Methylation in Arabidopsis thaliana

(2016) C. Oliver et al.   GENETICS

A wide reprogramming of histone H3 modifications during male meiosis I in rice is dependent on the Argonaute protein MEL1

(2016) Hua Liu et al.   JOURNAL OF CELL SCIENCE

Dynamic changes of small RNAs in rice spikelet development reveal specialized reproductive phasiRNA pathways

(2016) Qili Fei et al.   JOURNAL OF EXPERIMENTAL BOTANY

Novel Meiotic miRNAs and Indications for a Role of PhasiRNAs in Meiosis

(2016) Stefanie Dukowic-Schulze et al.   Frontiers in Plant Science

Spatiotemporally dynamic, cell-type–dependent premeiotic and meiotic phasiRNAs in maize anthers

(2015) Jixian Zhai et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

QuasR: quantification and annotation of short reads in R

(2014) Dimos Gaidatzis et al.   BIOINFORMATICS

Pachytene piRNAs instruct massive mRNA elimination during late spermiogenesis

(2014) Lan-Tao Gou et al.   CELL RESEARCH

miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis

(2014) Kate M. Creasey et al.   NATURE

The bHLH142 Transcription Factor Coordinates with TDR1 to Modulate the Expression of EAT1 and Regulate Pollen Development in Rice

(2014) S.-S. Ko et al.   PLANT CELL

The Rice Basic Helix-Loop-Helix Transcription Factor TDR INTERACTING PROTEIN2 Is a Central Switch in Early Anther Development

(2014) Z. Fu et al.   PLANT CELL

Rice germline-specific Argonaute MEL1 protein binds to phasiRNAs generated from more than 700 lincRNAs

(2014) Reina Komiya et al.   PLANT JOURNAL

Dicer-like 3 produces transposable element-associated 24-nt siRNAs that control agricultural traits in rice

(2014) L. Wei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Novel Rice bHLH Transcription Factor, DTD, Acts Coordinately with TDR in Controlling Tapetum Function and Pollen Development

(2013) Chonghui Ji et al.   Molecular Plant

Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks

(2013) Q. Fei et al.   PLANT CELL

Distribution of cellulosic wall in the anthers of Arabidopsis during microsporogenesis

(2013) Yuichi Matsuo et al.   PLANT CELL REPORTS

EAT1 promotes tapetal cell death by regulating aspartic proteases during male reproductive development in rice

(2013) Ningning Niu et al.   Nature Communications

Arabidopsis heterotrimeric G protein β subunit interacts with a plasma membrane 2C-type protein phosphatase, PP2C52

(2012) Daisuke Tsugama et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

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

(2012) Heng-Chi Lee 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

Differential analysis of gene regulation at transcript resolution with RNA-seq

(2012) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Intercellular and systemic movement of RNA silencing signals

(2011) Charles W Melnyk et al.   EMBO JOURNAL

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

PIWI-interacting small RNAs: the vanguard of genome defence

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

Positive Autoregulation of a KNOX Gene Is Essential for Shoot Apical Meristem Maintenance in Rice

(2011) K. Tsuda et al.   PLANT CELL

Production of Viable Gametes without Meiosis in Maize Deficient for an ARGONAUTE Protein

(2011) Manjit Singh et al.   PLANT CELL

Roles of DCL4 and DCL3b in rice phased small RNA biogenesis

(2011) Xianwei Song et al.   PLANT JOURNAL

A highly efficient rice green tissue protoplast system for transient gene expression and studying light/chloroplast-related processes

(2011) Yang Zhang et al.   Plant Methods

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Gateway Binary Vectors with the Bialaphos Resistance Gene,bar, as a Selection Marker for Plant Transformation

(2010) Shinya NAKAMURA et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

DNA Methylation Mediated by a MicroRNA Pathway

(2010) Liang Wu et al.   MOLECULAR CELL

Control of female gamete formation by a small RNA pathway in Arabidopsis

(2010) Vianey Olmedo-Monfil et al.   NATURE

Small RNA sorting: matchmaking for Argonautes

(2010) Benjamin Czech et al.   NATURE REVIEWS GENETICS

Unique functionality of 22-nt miRNAs in triggering RDR6-dependent siRNA biogenesis from target transcripts in Arabidopsis

(2010) Josh T Cuperus et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

agriGO: a GO analysis toolkit for the agricultural community

(2010) Zhou Du et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Classification and Evolutionary Analysis of the bHLH Family of Transcription Factors in Arabidopsis, Poplar, Rice, Moss, and Algae

(2010) L. Carretero-Paulet et al.   PLANT PHYSIOLOGY

22-nucleotide RNAs trigger secondary siRNA biogenesis in plants

(2010) H.-M. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data

(2009) M. Morgan et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

An Effector of RNA-Directed DNA Methylation in Arabidopsis Is an ARGONAUTE 4- and RNA-Binding Protein

(2009) Xin-Jian He et al.   CELL

Epigenetic Reprogramming and Small RNA Silencing of Transposable Elements in Pollen

(2009) R. Keith Slotkin et al.   CELL

RNA-mediated chromatin-based silencing in plants

(2009) Marjori Matzke et al.   CURRENT OPINION IN CELL BIOLOGY

Transduction of RNA-directed DNA methylation signals to repressive histone marks in Arabidopsis thaliana

(2009) Hisataka Numa et al.   EMBO JOURNAL

Clusters and superclusters of phased small RNAs in the developing inflorescence of rice

(2009) C. Johnson et al.   GENOME RESEARCH

Biogenesis of small RNAs in animals

(2009) V. Narry Kim et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Genome-wide identification, organization and phylogenetic analysis of Dicer-like, Argonaute and RNA-dependent RNA Polymerase gene families and their expression analysis during reproductive development and stress in rice

(2008) Meenu Kapoor et al.   BMC GENOMICS

OsTDL1A binds to the LRR domain of rice receptor kinase MSP1, and is required to limit sporocyte numbers

(2008) Xinai Zhao et al.   PLANT JOURNAL

Inputs and outputs for chromatin-targeted RNAi

(2008) Simon W-L. Chan   TRENDS IN PLANT SCIENCE