Bioinformatics Analysis of Small RNAs in Pima (Gossypium barbadense L.)

Regulation of flowering time by the miR156-mediated age pathway

(2014) Jia-Wei Wang   JOURNAL OF EXPERIMENTAL BOTANY

Genome sequence of the cultivated cotton Gossypium arboreum

(2014) Fuguang Li et al.   NATURE GENETICS

Regulation of pri-miRNA processing by the hnRNP-like protein AtGRP7 in Arabidopsis

(2014) Tino Köster et al.   NUCLEIC ACIDS RESEARCH

Small RNA and degradome profiling reveals a role for miRNAs and their targets in the developing fibers ofGossypium barbadense

(2014) Nian Liu et al.   PLANT JOURNAL

Extending the sRNAome of Apple by Next-Generation Sequencing

(2014) Marike Visser et al.   PLoS One

Polyploidy and small RNA regulation of cotton fiber development

(2014) Xueying Guan et al.   TRENDS IN PLANT SCIENCE

miR828 and miR858 regulate homoeologous MYB2 gene functions in Arabidopsis trichome and cotton fibre development

(2014) Xueying Guan et al.   Nature Communications

Classification and Comparison of Small RNAs from Plants

(2013) Michael J. Axtell   Annual Review of Plant Biology

Genome-wide analysis of small RNAs reveals eight fiber elongation-related and 257 novel microRNAs in elongating cotton fiber cells

(2013) Wei Xue et al.   BMC GENOMICS

Global analysis of cis-natural antisense transcripts and their heat-responsive nat-siRNAs in Brassica rapa

(2013) Xiang Yu et al.   BMC PLANT BIOLOGY

Small RNA and degradome sequencing reveal complex miRNA regulation during cotton somatic embryogenesis

(2013) Xiyan Yang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Alternative Splicing Regulates Biogenesis of miRNAs Located across Exon-Intron Junctions

(2013) Ze’ev Melamed et al.   MOLECULAR CELL

Mechanisms of Small RNA Generation from Cis-NATs in Response to Environmental and Developmental Cues

(2013) Xiaoming Zhang et al.   Molecular Plant

Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1

(2013) Julie A. Law et al.   NATURE

RNA silencing suppression by plant pathogens: defence, counter-defence and counter-counter-defence

(2013) Nathan Pumplin et al.   NATURE REVIEWS MICROBIOLOGY

Diversifying microRNA sequence and function

(2013) Stefan L. Ameres et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

BLAST: a more efficient report with usability improvements

(2013) Grzegorz M. Boratyn et al.   NUCLEIC ACIDS RESEARCH

Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks

(2013) Q. Fei et al.   PLANT CELL

Genome-Wide Analysis Reveals Diversity of Rice Intronic miRNAs in Sequence Structure, Biogenesis and Function

(2013) Yong-ao Tong et al.   PLoS One

Genome-Wide Analysis of Small RNA and Novel MicroRNA Discovery during Fiber and Seed Initial Development in Gossypium hirsutum. L

(2013) Hua Zhang et al.   PLoS One

DTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV

(2013) H. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Biogenesis of intronic miRNAs located in clusters by independent transcription and alternative splicing

(2013) P. Ramalingam et al.   RNA

siRNA-mediated DNA methylation and H3K9 dimethylation in plants

(2013) Chi Xu et al.   Protein & Cell

The UEA sRNA workbench: a suite of tools for analysing and visualizing next generation sequencing microRNA and small RNA datasets

(2012) M. B. Stocks et al.   BIOINFORMATICS

RNA polymerase V-dependent small RNAs in Arabidopsis originate from small, intergenic loci including most SINE repeats

(2012) Tzuu-fen Lee et al.   Epigenetics

Genomewide analysis of intronic microRNAs in rice and Arabidopsis

(2012) G. D. YANG et al.   JOURNAL OF GENETICS

Stress-Induced Alternative Splicing Provides a Mechanism for the Regulation of MicroRNA Processing in Arabidopsis thaliana

(2012) Kang Yan et al.   MOLECULAR CELL

Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres

(2012) Andrew H. Paterson et al.   NATURE

miR156 and miR390 Regulate tasiRNA Accumulation and Developmental Timing in Physcomitrella patens

(2012) S. H. Cho et al.   PLANT CELL

Kiwifruit floral gene APETALA2 is alternatively spliced and accumulates in aberrant indeterminate flowers in the absence of miR172

(2012) Erika Varkonyi-Gasic et al.   PLANT MOLECULAR BIOLOGY

The microRNA156-SQUAMOSA PROMOTER BINDING PROTEIN-LIKE3 Module Regulates Ambient Temperature-Responsive Flowering via FLOWERING LOCUS T in Arabidopsis

(2012) J. J. Kim et al.   PLANT PHYSIOLOGY

Genome-Wide Profiling of miRNAs and Other Small Non-Coding RNAs in the Verticillium dahliae–Inoculated Cotton Roots

(2012) Zujun Yin et al.   PLoS One

Regulation of miRNA abundance by RNA binding protein TOUGH in Arabidopsis

(2012) G. Ren et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide analysis of plant nat-siRNAs reveals insights into their distribution, biogenesis and function

(2012) Xiaoming Zhang et al.   GENOME BIOLOGY

Apple miRNAs and tasiRNAs with novel regulatory networks

(2012) Rui Xia et al.   GENOME BIOLOGY

ViennaRNA Package 2.0

(2011) Ronny Lorenz et al.   Algorithms for Molecular Biology

Role of miRNAs and siRNAs in biotic and abiotic stress responses of plants

(2011) Basel Khraiwesh et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs

(2011) J. Zhai et al.   GENES & DEVELOPMENT

A Comparative miRNAome Analysis Reveals Seven Fiber Initiation-Related and 36 Novel miRNAs in Developing Cotton Ovules

(2011) Zheng-Ming Wang et al.   Molecular Plant

PlantNATsDB: a comprehensive database of plant natural antisense transcripts

(2011) D. Chen et al.   NUCLEIC ACIDS RESEARCH

Evolution and Functional Diversification ofMIRNAGenes

(2011) Josh T. Cuperus et al.   PLANT CELL

Massive Analysis of Rice Small RNAs: Mechanistic Implications of Regulated MicroRNAs and Variants for Differential Target RNA Cleavage

(2011) D.-H. Jeong et al.   PLANT CELL

The Regulatory Activities of Plant MicroRNAs: A More Dynamic Perspective

(2011) Y. Meng et al.   PLANT PHYSIOLOGY

AGO6 Functions in RNA-Mediated Transcriptional Gene Silencing in Shoot and Root Meristems in Arabidopsis thaliana

(2011) Changho Eun et al.   PLoS One

MicroRNA networks and developmental plasticity in plants

(2011) Ignacio Rubio-Somoza et al.   TRENDS IN PLANT SCIENCE

Vive la différence: biogenesis and evolution of microRNAs in plants and animals

(2011) Michael J Axtell et al.   GENOME BIOLOGY

Proper regulation of a sperm-specific cis-nat-siRNA is essential for double fertilization in Arabidopsis

(2010) M. Ron et al.   GENES & DEVELOPMENT

DNA Methylation Mediated by a MicroRNA Pathway

(2010) Liang Wu et al.   MOLECULAR CELL

Distinct RNA-dependent RNA polymerases are required for RNAi triggered by double-stranded RNA versus truncated transgenes in Paramecium tetraurelia

(2010) Simone Marker et al.   NUCLEIC ACIDS RESEARCH

miR390,Arabidopsis TAS3tasiRNAs, and TheirAUXIN RESPONSE FACTORTargets Define an Autoregulatory Network Quantitatively Regulating Lateral Root Growth

(2010) Elena Marin et al.   PLANT CELL

Form, Function, and Regulation of ARGONAUTE Proteins

(2010) Allison Mallory et al.   PLANT CELL

Structure of Arabidopsis HYPONASTIC LEAVES1 and Its Molecular Implications for miRNA Processing

(2010) Seong Wook Yang et al.   STRUCTURE

Enrichment of a set of microRNAs during the cotton fiber development

(2009) Pieter Kwak et al.   BMC GENOMICS

Origin, Biogenesis, and Activity of Plant MicroRNAs

(2009) Olivier Voinnet   CELL

CENTROIDFOLD: a web server for RNA secondary structure prediction

(2009) K. Sato et al.   NUCLEIC ACIDS RESEARCH

Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L.)

(2009) Mingxiong Pang et al.   GENOME BIOLOGY

Sorting of Small RNAs into Arabidopsis Argonaute Complexes Is Directed by the 5′ Terminal Nucleotide

(2008) Shijun Mi et al.   CELL

Genome-wide identification and analysis of small RNAs originated from natural antisense transcripts in Oryza sativa

(2008) X. Zhou et al.   GENOME RESEARCH

pssRNAMiner: a plant short small RNA regulatory cascade analysis server

(2008) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

Criteria for Annotation of Plant MicroRNAs

(2008) B. C. Meyers et al.   PLANT CELL