miRVine: a microRNA expression atlas of grapevine based on small RNA sequencing

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

(2015) Hongtao Hu et al.   PLoS One

Grapevine microRNAs responsive to exogenous gibberellin

(2014) Jian Han et al.   BMC GENOMICS

Flower development and sex specification in wild grapevine

(2014) Miguel Jesus Ramos et al.   BMC GENOMICS

A comparison of performance of plant miRNA target prediction tools and the characterization of features for genome-wide target prediction

(2014) Prashant K Srivastava et al.   BMC GENOMICS

MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation

(2014) Chao Gao et al.   PLANT BIOTECHNOLOGY JOURNAL

An Atlas of Soybean Small RNAs Identifies Phased siRNAs from Hundreds of Coding Genes

(2014) Siwaret Arikit et al.   PLANT CELL

ThemiR156-SPL9-DFRpathway coordinates the relationship between development and abiotic stress tolerance in plants

(2014) Long-Gang Cui et al.   PLANT JOURNAL

A Comprehensive Genome-Wide Study on Tissue-Specific and Abiotic Stress-Specific miRNAs in Triticum aestivum

(2014) Ritu Pandey et al.   PLoS One

Genome-wide identification of soybean microRNAs and their targets reveals their organ-specificity and responses to phosphate starvation

(2013) Feng Xu et al.   BMC GENOMICS

Identification of conserved microRNAs and their targets in the model legume Lotus japonicus

(2013) Jihong Hu et al.   JOURNAL OF BIOTECHNOLOGY

Identification of microRNA targets in tomato fruit development using high-throughput sequencing and degradome analysis

(2013) Rumyana Karlova et al.   JOURNAL OF EXPERIMENTAL BOTANY

Characterization of target mRNAs for grapevine microRNAs with an integrated strategy of modified RLM-RACE, newly developed PPM-RACE and qPCRs

(2013) Chen Wang et al.   JOURNAL OF PLANT PHYSIOLOGY

Identification and profiling of novel and conserved microRNAs during the flower opening process in Prunus mume via deep sequencing

(2013) Tao Wang et al.   MOLECULAR GENETICS AND GENOMICS

RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond

(2013) Stephane E. Castel et al.   NATURE REVIEWS GENETICS

miRBase: annotating high confidence microRNAs using deep sequencing data

(2013) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

Transcriptome-wide analysis of dynamic variations in regulation modes of grapevine microRNAs on their target genes during grapevine development

(2013) Chen Wang et al.   PLANT MOLECULAR BIOLOGY

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

Vitis vinifera secondary metabolism as affected by sulfate depletion: Diagnosis through phenylpropanoid pathway genes and metabolites

(2013) Sílvia Tavares et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Parallel analysis of RNA ends enhances global investigation of microRNAs and target RNAs of Brachypodium distachyon

(2013) Dong-Hoon Jeong et al.   GENOME BIOLOGY

Identification of microRNAs from Amur grape (vitis amurensis Rupr.) by deep sequencing and analysis of microRNA variations with bioinformatics

(2012) Chen Wang et al.   BMC GENOMICS

Identification and profiling of novel microRNAs in the Brassica rapa genome based on small RNA deep sequencing

(2012) Bumjin Kim et al.   BMC PLANT BIOLOGY

miR395 is a general component of the sulfate assimilation regulatory network in Arabidopsis

(2012) Colette A. Matthewman et al.   FEBS LETTERS

Characterization of grapevine microR164 and its target genes

(2012) Xin Sun et al.   MOLECULAR BIOLOGY REPORTS

High-throughput sequence analysis of small RNAs in grapevine (Vitis viniferaL.) affected by grapevine leafroll disease

(2012) Olufemi J. Alabi et al.   MOLECULAR PLANT PATHOLOGY

The Grapevine Expression Atlas Reveals a Deep Transcriptome Shift Driving the Entire Plant into a Maturation Program

(2012) M. Fasoli et al.   PLANT CELL

Genome-Wide Identification of Reverse Complementary microRNA Genes in Plants

(2012) Chaogang Shao et al.   PLoS One

Functions of microRNAs in plant stress responses

(2012) Ramanjulu Sunkar et al.   TRENDS IN PLANT SCIENCE

Rootstock and soil induce transcriptome modulation of phenylpropanoid pathway in grape leaves

(2012) Caterina Marè et al.   Journal of Plant Interactions

Transcriptional analysis of late ripening stages of grapevine berry

(2011) Sabine Guillaumie et al.   BMC PLANT BIOLOGY

MicroRNA evolution by arm switching

(2011) Sam Griffiths-Jones et al.   EMBO REPORTS

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

Arabidopsis Argonaute 2 Regulates Innate Immunity via miRNA393∗-Mediated Silencing of a Golgi-Localized SNARE Gene, MEMB12

(2011) Xiaoming Zhang et al.   MOLECULAR CELL

psRNATarget: a plant small RNA target analysis server

(2011) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

Deep sequencing of grapevine flower and berry short RNA library for discovery of novel microRNAs and validation of precise sequences of grapevine microRNAs deposited in miRBase

(2011) Chen Wang et al.   PHYSIOLOGIA PLANTARUM

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

Negative Regulation of Anthocyanin Biosynthesis inArabidopsisby a miR156-Targeted SPL Transcription Factor

(2011) Jin-Ying Gou et al.   PLANT CELL

Interplay of SLIM1 and miR395 in the regulation of sulfate assimilation in Arabidopsis

(2011) Cintia G. Kawashima et al.   PLANT JOURNAL

Stars and Symbiosis: MicroRNA- and MicroRNA*-Mediated Transcript Cleavage Involved in Arbuscular Mycorrhizal Symbiosis

(2011) E. A. Devers et al.   PLANT PHYSIOLOGY

Correction: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera

(2010) Erica Mica et al.   BMC GENOMICS

Deep sequencing of small RNA libraries reveals dynamic regulation of conserved and novel microRNAs and microRNA-stars during silkworm development

(2010) Guru Jagadeeswaran et al.   BMC GENOMICS

Mammalian microRNAs: experimental evaluation of novel and previously annotated genes

(2010) H. R. Chiang et al.   GENES & DEVELOPMENT

The role of small non-coding RNAs in genome stability and chromatin organization

(2010) J. C. van Wolfswinkel et al.   JOURNAL OF CELL SCIENCE

Regulation of flowering time and floral patterning by miR172

(2010) Qian-Hao Zhu et al.   JOURNAL OF EXPERIMENTAL BOTANY

Orchestration of the Floral Transition and Floral Development in Arabidopsis by the Bifunctional Transcription Factor APETALA2

(2010) L. Yant et al.   PLANT CELL

Identification of Putative Stage-Specific Grapevine Berry Biomarkers and Omics Data Integration into Networks

(2010) A. Zamboni et al.   PLANT PHYSIOLOGY

Characterization of Transcriptional Complexity during Berry Development in Vitis vinifera Using RNA-Seq

(2010) S. Zenoni et al.   PLANT PHYSIOLOGY

Multiple distinct small RNAs originate from the same microRNA precursors

(2010) Weixiong Zhang et al.   GENOME BIOLOGY

Small RNAs and Their Roles in Plant Development

(2009) Xuemei Chen   Annual Review of Cell and Developmental Biology

Roles of Plant Small RNAs in Biotic Stress Responses

(2009) Virginia Ruiz-Ferrer et al.   Annual Review of Plant Biology

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

Origin, Biogenesis, and Activity of Plant MicroRNAs

(2009) Olivier Voinnet   CELL

Origins and Mechanisms of miRNAs and siRNAs

(2009) Richard W. Carthew et al.   CELL

Cloning and characterization of small non-coding RNAs from grape

(2009) Andrea Carra et al.   PLANT JOURNAL

miR398 and miR408 are up-regulated in response to water deficit in Medicago truncatula

(2009) Inês Trindade et al.   PLANTA

A Conserved Ethylene Biosynthesis Enzyme Leads to Andromonoecy in Two Cucumis Species

(2009) Adnane Boualem et al.   PLoS One

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

A toolkit for analysing large-scale plant small RNA datasets

(2008) S. Moxon et al.   BIOINFORMATICS

MicroRNAs in the Drosophila bithorax complex

(2008) W. Bender   GENES & DEVELOPMENT

Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci

(2008) D. M. Tyler et al.   GENES & DEVELOPMENT

A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands

(2008) A. Stark et al.   GENES & DEVELOPMENT

A molecular genetic perspective of reproductive development in grapevine

(2008) M. J. Carmona et al.   JOURNAL OF EXPERIMENTAL BOTANY

Type B Phosphatidylinositol-4-Phosphate 5-Kinases Mediate Arabidopsis and Nicotiana tabacum Pollen Tube Growth by Regulating Apical Pectin Secretion

(2008) T. Ischebeck et al.   PLANT CELL

Criteria for Annotation of Plant MicroRNAs

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

Stamen development in Arabidopsis is arrested by organ-specific overexpression of a cucumber ethylene synthesis gene CsACO2

(2008) Qiao-Hong Duan et al.   PLANTA

The Cornucopia of Small RNAs in Plant Genomes

(2008) Stacey A. Simon et al.   Rice