Plant microRNAs: Recent Advances and Future Challenges

A non-canonical plant microRNA target site

(2014) Cécile Brousse et al.   NUCLEIC ACIDS RESEARCH

Analysis of Complementarity Requirements for Plant MicroRNA Targeting Using a Nicotiana benthamiana Quantitative Transient Assay

(2014) Q. Liu et al.   PLANT CELL

Flowering time control in ornamental gloxinia (Sinningia speciosa) by manipulation of miR159 expression

(2013) Xiaoyan Li et al.   ANNALS OF BOTANY

isomiRID: a framework to identify microRNA isoforms

(2013) Luiz Felipe Valter de Oliveira et al.   BIOINFORMATICS

MicroRNAs Inhibit the Translation of Target mRNAs on the Endoplasmic Reticulum in Arabidopsis

(2013) Shengben Li et al.   CELL

A role for the RNA-binding protein MOS2 in microRNA maturation in Arabidopsis

(2013) Xueying Wu et al.   CELL RESEARCH

The Rumsfeld paradox: some of the things we know that we don’t know about plant virus infection

(2013) Peter Palukaitis et al.   CURRENT OPINION IN PLANT BIOLOGY

A Protodermal miR394 Signal Defines a Region of Stem Cell Competence in the Arabidopsis Shoot Meristem

(2013) Steffen Knauer et al.   DEVELOPMENTAL CELL

isomiRex: Web-based identification of microRNAs, isomiR variations and differential expression using next-generation sequencing datasets

(2013) Gaurav Sablok et al.   FEBS LETTERS

Multiple RNA recognition patterns during microRNA biogenesis in plants

(2013) N. G. Bologna et al.   GENOME RESEARCH

Identification and analysis of the proximal promoters of microRNA genes in Arabidopsis

(2013) Xin Zhao et al.   GENOMICS

Genome-wide identification and characterization of cadmium-responsive microRNAs and their target genes in radish (Raphanus sativus L.) roots

(2013) Liang Xu et al.   JOURNAL OF EXPERIMENTAL BOTANY

Emerging roles of microRNAs in the mediation of drought stress response in plants

(2013) Yanfei Ding et al.   JOURNAL OF EXPERIMENTAL BOTANY

MicroRNAs and Their Cross-Talks in Plant Development

(2013) Danfeng Jin et al.   Journal of Genetics and Genomics

Improving the Effectiveness of Artificial MicroRNA (amiR)-Mediated Resistance against Turnip Mosaic Virus by Combining Two amiRs or by Targeting Highly Conserved Viral Genomic Regions

(2013) G. Lafforgue et al.   JOURNAL OF VIROLOGY

Cloning and Characterization of miRNAs and Their Targets, Including a Novel miRNA-Targeted NBS–LRR Protein Class Gene in Apple (Golden Delicious)

(2013) Chao Ma et al.   Molecular Plant

Unrelated viral suppressors of RNA silencing mediate the control of ARGONAUTE1 level

(2013) Éva Várallyay et al.   MOLECULAR PLANT PATHOLOGY

Salicylic Acid Determines Differential Senescence Produced by TwoTurnip mosaic virusStrains Involving Reactive Oxygen Species and Early Transcriptomic Changes

(2013) Carlos Augusto Manacorda et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

miR172 Regulates Soybean Nodulation

(2013) Zhe Yan et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Overexpression of microRNA OsmiR397 improves rice yield by increasing grain size and promoting panicle branching

(2013) Yu-Chan Zhang et al.   NATURE BIOTECHNOLOGY

Reply to Lack of detectable oral bioavailability of plant microRNAs after feeding in mice

(2013) Xi Chen et al.   NATURE BIOTECHNOLOGY

Lack of detectable oral bioavailability of plant microRNAs after feeding in mice

(2013) Brent Dickinson et al.   NATURE BIOTECHNOLOGY

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

(2013) Nathan Pumplin et al.   NATURE REVIEWS MICROBIOLOGY

Bidirectional processing of pri-miRNAs with branched terminal loops by Arabidopsis Dicer-like1

(2013) Hongliang Zhu et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Resistance ofArabidopsis thalianato the green peach aphid,Myzus persicae, involves camalexin and is regulated by microRNAs

(2013) Graeme J. Kettles et al.   NEW PHYTOLOGIST

Identification of a novel microRNA (miRNA) from rice that targets an alternatively spliced transcript of theNramp6(Natural resistance-associated macrophage protein 6) gene involved in pathogen resistance

(2013) Sonia Campo et al.   NEW PHYTOLOGIST

Dissecting the interactions of SERRATE with RNA and DICER-LIKE 1 in Arabidopsis microRNA precursor processing

(2013) Y. Iwata et al.   NUCLEIC ACIDS RESEARCH

Fate of Artificial MicroRNA-Mediated Resistance to Plant Viruses in Mixed Infections

(2013) Fernando Martínez et al.   PHYTOPATHOLOGY

MicroRNA Superfamilies Descended from miR390 and Their Roles in Secondary Small Interfering RNA Biogenesis in Eudicots

(2013) Rui Xia et al.   PLANT CELL

Plant MicroRNAs Display Differential 3' Truncation and Tailing Modifications That Are ARGONAUTE1 Dependent and Conserved Across Species

(2013) J. Zhai et al.   PLANT CELL

NOT2 Proteins Promote Polymerase II-Dependent Transcription and Interact with Multiple MicroRNA Biogenesis Factors in Arabidopsis

(2013) L. Wang et al.   PLANT CELL

A Role for APETALA1/FRUITFULL Transcription Factors in Tomato Leaf Development

(2013) Y. Burko et al.   PLANT CELL

Comprehensive Protein-Based Artificial MicroRNA Screens for Effective Gene Silencing in Plants

(2013) Jian-Feng Li et al.   PLANT CELL

A Genomic-Scale Artificial MicroRNA Library as a Tool to Investigate the Functionally Redundant Gene Space in Arabidopsis

(2013) F. Hauser et al.   PLANT CELL

SPL8and miR156-targetedSPLgenes redundantly regulate Arabidopsis gynoecium differential patterning

(2013) Shuping Xing et al.   PLANT JOURNAL

SQUAMOSA promoter binding protein-like7regulated microRNA408 is required for vegetative development in Arabidopsis

(2013) Huiyong Zhang et al.   PLANT JOURNAL

miR396 affects mycorrhization and root meristem activity in the legumeMedicago truncatula

(2013) Jérémie Bazin et al.   PLANT JOURNAL

RACK1 scaffold proteins influence miRNA abundance in Arabidopsis

(2013) Corinna Speth et al.   PLANT JOURNAL

A 22-nt artificial microRNA mediates widespread RNA silencing inArabidopsis

(2013) Marcus McHale et al.   PLANT JOURNAL

Heat stress induction ofmiR398triggers a regulatory loop that is critical for thermotolerance in Arabidopsis

(2013) Qingmei Guan et al.   PLANT JOURNAL

MicroRNA mediated regulation of metal toxicity in plants: present status and future perspectives

(2013) O. P. Gupta et al.   PLANT MOLECULAR BIOLOGY

MIR846 and MIR842 comprise a cistronic MIRNA pair that is regulated by abscisic acid by alternative splicing in roots of Arabidopsis

(2013) Fan Jia et al.   PLANT MOLECULAR BIOLOGY

Identification of Conserved and Novel Cold-Responsive MicroRNAs in Trifoliate Orange (Poncirus trifoliata (L.) Raf.) Using High-Throughput Sequencing

(2013) Xiao-Na Zhang et al.   PLANT MOLECULAR BIOLOGY REPORTER

Widespread Long Noncoding RNAs as Endogenous Target Mimics for MicroRNAs in Plants

(2013) H.-J. Wu et al.   PLANT PHYSIOLOGY

A Significant Fraction of 21-Nucleotide Small RNA Originates from Phased Degradation of Resistance Genes in Several Perennial Species

(2013) T. Kallman et al.   PLANT PHYSIOLOGY

Comprehensive Investigation of MicroRNAs Enhanced by Analysis of Sequence Variants, Expression Patterns, ARGONAUTE Loading, and Target Cleavage

(2013) D.-H. Jeong et al.   PLANT PHYSIOLOGY

Ectopic Expression of miR160 Results in Auxin Hypersensitivity, Cytokinin Hyposensitivity, and Inhibition of Symbiotic Nodule Development in Soybean

(2013) M. Turner et al.   PLANT PHYSIOLOGY

Complementation of Hyponastic Leaves1 by Double-Strand RNA-Binding Domains of Dicer-Like1 in Nuclear Dicing Bodies

(2013) Q. Liu et al.   PLANT PHYSIOLOGY

Manipulation of microRNA expression to improve nitrogen use efficiency

(2013) Jeffrey J. Fischer et al.   PLANT SCIENCE

miR172b Controls the Transition to Autotrophic Development Inhibited by ABA in Arabidopsis

(2013) Yanmin Zou et al.   PLoS One

Deciphering the rules of ceRNA networks

(2013) M. Cesana et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular Basis of Age-Dependent Vernalization in Cardamine flexuosa

(2013) C.-M. Zhou et al.   SCIENCE

Mechanisms of Age-Dependent Response to Winter Temperature in Perennial Flowering of Arabis alpina

(2013) S. Bergonzi et al.   SCIENCE

Emerging roles for RNA polymerase II CTD in Arabidopsis

(2013) Mohsen Hajheidari et al.   TRENDS IN PLANT SCIENCE

Coordination of Flower Maturation by a Regulatory Circuit of Three MicroRNAs

(2013) Ignacio Rubio-Somoza et al.   PLoS Genetics

Fast-Forward Genetics Identifies Plant CPL Phosphatases as Regulators of miRNA Processing Factor HYL1

(2012) Pablo A. Manavella et al.   CELL

Uridylation of miRNAs by HEN1 SUPPRESSOR1 in Arabidopsis

(2012) Guodong Ren et al.   CURRENT BIOLOGY

The Arabidopsis Nucleotidyl Transferase HESO1 Uridylates Unmethylated Small RNAs to Trigger Their Degradation

(2012) Yuanyuan Zhao et al.   CURRENT BIOLOGY

Small RNAs in development – insights from plants

(2012) Xuemei Chen   CURRENT OPINION IN GENETICS & DEVELOPMENT

MicroRNA Precursors Are Not Structurally Robust but Plastic

(2012) Guillermo Rodrigo et al.   Genome Biology and Evolution

HYL1 controls the miR156-mediated juvenile phase of vegetative growth

(2012) Shuxia Li et al.   JOURNAL OF EXPERIMENTAL BOTANY

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

(2012) Kang Yan et al.   MOLECULAR CELL

Role of recently evolved miRNA regulation of sunflowerHaWRKY6in response to temperature damage

(2012) Jorge I. Giacomelli et al.   NEW PHYTOLOGIST

STA1, an Arabidopsis pre-mRNA processing factor 6 homolog, is a new player involved in miRNA biogenesis

(2012) Samir Ben Chaabane et al.   NUCLEIC ACIDS RESEARCH

Overexpression of miR156 in switchgrass (Panicum virgatum L.) results in various morphological alterations and leads to improved biomass production

(2012) Chunxiang Fu et al.   PLANT BIOTECHNOLOGY JOURNAL

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

(2012) J. Yan et al.   PLANT CELL

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

(2012) S. H. Cho et al.   PLANT CELL

Functional Analysis of Three Arabidopsis ARGONAUTES Using Slicer-Defective Mutants

(2012) A. Carbonell et al.   PLANT CELL

A MicroRNA Superfamily Regulates Nucleotide Binding Site-Leucine-Rich Repeats and Other mRNAs

(2012) P. V. Shivaprasad et al.   PLANT CELL

Uncovering Small RNA-Mediated Responses to Cold Stress in a Wheat Thermosensitive Genic Male-Sterile Line by Deep Sequencing

(2012) Z. Tang et al.   PLANT PHYSIOLOGY

Tissue-Specific Silencing of Arabidopsis SU(VAR)3-9 HOMOLOG8 by miR171a

(2012) P. A. Manavella et al.   PLANT PHYSIOLOGY

The Helicase and RNaseIIIa Domains of Arabidopsis Dicer-Like1 Modulate Catalytic Parameters during MicroRNA Biogenesis

(2012) C. Liu et al.   PLANT PHYSIOLOGY

A genome-wide survey of microRNA truncation and 3′ nucleotide addition events in larch (Larix leptolepis)

(2012) Junhong Zhang et al.   PLANTA

Cloning and Characterization of Maize miRNAs Involved in Responses to Nitrogen Deficiency

(2012) Meng Zhao et al.   PLoS One

Identification of Nitrogen Starvation-Responsive MicroRNAs in Arabidopsis thaliana

(2012) Gang Liang 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

MicroRNA regulation of plant innate immune receptors

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

Plant secondary siRNA production determined by microRNA-duplex structure

(2012) P. A. Manavella et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

IsomiRs – the overlooked repertoire in the dynamic microRNAome

(2012) Corine T. Neilsen et al.   TRENDS IN GENETICS

Silencing and Innate Immunity in Plant Defense Against Viral and Non-Viral Pathogens

(2012) Anna Zvereva et al.   Viruses-Basel

Functional Specialization of the Plant miR396 Regulatory Network through Distinct MicroRNA–Target Interactions

(2012) Juan M. Debernardi et al.   PLoS Genetics

Give It AGO: The Search for miRNA-Argonaute Sorting Signals in Arabidopsis thaliana Indicates a Relevance of Sequence Positions Other than the 5′-Position Alone

(2012) Christoph J. Thieme et al.   Frontiers in Plant Science

Genome-wide identification of cold-responsive and new microRNAs in Populus tomentosa by high-throughput sequencing

(2011) Lei Chen et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

ceRNAs: miRNA Target Mimic Mimics

(2011) Ignacio Rubio-Somoza et al.   CELL

A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?

(2011) Leonardo Salmena et al.   CELL

Exogenous plant MIR168a specifically targets mammalian LDLRAP1: evidence of cross-kingdom regulation by microRNA

(2011) Lin Zhang et al.   CELL RESEARCH

Natural Variation in Biogenesis Efficiency of Individual Arabidopsis thaliana MicroRNAs

(2011) Marco Todesco et al.   CURRENT BIOLOGY

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

MIGS: miRNA-induced gene silencing

(2011) Felipe Fenselau de Felippes et al.   PLANT JOURNAL

MicroRNA networks and developmental plasticity in plants

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

MicroRNAs and their isomiRs function cooperatively to target common biological pathways

(2011) Nicole Cloonan et al.   GENOME BIOLOGY

Plant virus-mediated induction of miR168 is associated with repression of ARGONAUTE1 accumulation

(2010) Éva Várallyay et al.   EMBO JOURNAL

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

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

Uridylation of mature miRNAs and siRNAs by the MUT68 nucleotidyltransferase promotes their degradation in Chlamydomonas

(2010) Fadia Ibrahim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Collection of Target Mimics for Comprehensive Analysis of MicroRNA Function in Arabidopsis thaliana

(2010) Marco Todesco et al.   PLoS Genetics

miR156-Regulated SPL Transcription Factors Define an Endogenous Flowering Pathway in Arabidopsis thaliana

(2009) Jia-Wei Wang et al.   CELL

The Sequential Action of miR156 and miR172 Regulates Developmental Timing in Arabidopsis

(2009) Gang Wu et al.   CELL

Adenylation of plant miRNAs

(2009) S. Lu et al.   NUCLEIC ACIDS RESEARCH

Crop improvement using small RNAs: applications and predictive ecological risk assessments

(2009) Carol Auer et al.   TRENDS IN BIOTECHNOLOGY

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

(2008) Shijun Mi et al.   CELL

Widespread Translational Inhibition by Plant miRNAs and siRNAs

(2008) P. Brodersen et al.   SCIENCE

Degradation of microRNAs by a Family of Exoribonucleases in Arabidopsis

(2008) Vanitharani Ramachandran et al.   SCIENCE

Evolution of plant microRNAs and their targets

(2008) Michael J. Axtell et al.   TRENDS IN PLANT SCIENCE