The role of microRNAs in responses to drought and heat stress in peanut (Arachis hypogaea)

Epigenetic Regulation of Heat Stress in Plant Male Reproduction

(2022) Shikha Malik et al.   Frontiers in Plant Science

Integrated Degradome and Srna Sequencing Revealed miRNA-mRNA Regulatory Networks between the Phloem and Developing Xylem of Poplar

(2022) Changjun Ding et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Rapid sequence and functional diversification of a miRNA superfamily targeting calcium signaling components in seed plants

(2022) Komal Attri et al.   NEW PHYTOLOGIST

The evolutionary history of small RNAs in Solanaceae

(2022) Patricia Baldrich et al.   PLANT PHYSIOLOGY

Small RNA and Degradome Deep Sequencing Reveals the Roles of microRNAs in Peanut (Arachis hypogaea L.) Cold Response

(2022) Xin Zhang et al.   Frontiers in Plant Science

The molecular mechanism of microRNA duplex selectivity of Arabidopsis ARGONAUTE10

(2022) Yao Xiao et al.   NUCLEIC ACIDS RESEARCH

Epigenetic stress memory: A new approach to study cold and heat stress responses in plants

(2022) Muthusamy Ramakrishnan et al.   Frontiers in Plant Science

Integrated Analysis of Small RNA, Transcriptome, and Degradome Sequencing Reveals the MiR156, MiR5488 and MiR399 Are Involved in the Regulation of Male Sterility in PTGMS Rice

(2021) Yujun Sun et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Transcriptome and Degradome Profiling Reveals a Role of miR530 in the Circadian Regulation of Gene Expression in Kalanchoë marnieriana

(2021) Zhikang Hu et al.   Cells

The miRNome function transitions from regulating developmental genes to transposable elements during pollen maturation

(2021) Cecilia Oliver et al.   PLANT CELL

Nuclear Argonaute Piwi Gene Mutation Affects rRNA by Inducing rRNA Fragment Accumulation, Antisense Expression, and Defective Processing in Drosophila Ovaries

(2020) Anastasia D. Stolyarenko   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Phaseolus vulgaris MIR1511 genotypic variations differentially regulate plant tolerance to aluminum toxicity

(2020) Jose Ángel Martín‐Rodríguez et al.   PLANT JOURNAL

MapMan4: a refined protein classification and annotation framework applicable to multi-omics data analysis

(2019) Rainer Schwacke et al.   Molecular Plant

­The Role of UV-B Light on Small RNA Activity During Grapevine Berry Development

(2019) Sukumaran Sunitha et al.   G3-Genes Genomes Genetics

Enhanced resistance to bacterial and oomycete pathogens by short tandem target mimic RNAs in tomato

(2019) Alex Canto-Pastor et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

OsmiR530 acts downstream of OsPIL15 to regulate grain yield in rice

(2019) Wei Sun et al.   NEW PHYTOLOGIST

Karyotype Stability and Genome-Specific Nucleolar Dominance in Peanut, Its Wild 4× Ancestor, and a Synthetic AABB Polyploid

(2018) José Guillermo Seijo et al.   CROP SCIENCE

Plant 24-nt reproductive phasiRNAs from intramolecular duplex mRNAs in diverse monocots

(2018) Atul Kakrana et al.   GENOME RESEARCH

Biogenesis and regulatory hierarchy of phased small interfering RNAs in plants

(2018) Pingchuan Deng et al.   PLANT BIOTECHNOLOGY JOURNAL

Revisiting Criteria for Plant MicroRNA Annotation in the Era of Big Data

(2018) Michael J. Axtell et al.   PLANT CELL

Legume genetic resources and transcriptome dynamics under abiotic stress conditions

(2018) Mostafa Abdelrahman et al.   PLANT CELL AND ENVIRONMENT

Early responses to dehydration in contrasting wild Arachis species

(2018) Christina Cleo Vinson et al.   PLoS One

Biogenesis of a 22-nt microRNA in Phaseoleae species by precursor-programmed uridylation

(2018) Qili Fei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome Sequencing and Analysis of the Peanut B-Genome Progenitor (Arachis ipaensis)

(2018) Qing Lu et al.   Frontiers in Plant Science

Small RNA and Degradome Deep Sequencing Reveals the Roles of microRNAs in Seed Expansion in Peanut (Arachis hypogaea L.)

(2018) Xingli Ma et al.   Frontiers in Plant Science

Genome of an allotetraploid wild peanut Arachis monticola: a de novo assembly

(2018) Dongmei Yin et al.   GigaScience

miRBase: from microRNA sequences to function

(2018) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

Genome-wide SNP Genotyping Resolves Signatures of Selection and Tetrasomic Recombination in Peanut

(2017) Josh Clevenger et al.   Molecular Plant

Coupling of microRNA-directed phased small interfering RNA generation from long noncoding genes with alternative splicing and alternative polyadenylation in small RNA-mediated gene silencing

(2017) Wuqiang Ma et al.   NEW PHYTOLOGIST

miR3954 is a trigger of phasiRNAs that affects flowering time in citrus

(2017) Yuanlong Liu et al.   PLANT JOURNAL

Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy

(2017) Zihui Zheng et al.   PLANT PHYSIOLOGY

Hierarchically Aligning 10 Legume Genomes Establishes a Family-Level Genomics Platform

(2017) Jinpeng Wang et al.   PLANT PHYSIOLOGY

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

(2017) Olga Dudchenko et al.   SCIENCE

Genome-Wide Identification, Characterization, and Expression Analysis of Small RNA Biogenesis Purveyors Reveal Their Role in Regulation of Biotic Stress Responses in Three Legume Crops

(2017) Vanika Garg et al.   Frontiers in Plant Science

Transgenerational response to stress in plants and its application for breeding

(2016) Andriy Bilichak et al.   JOURNAL OF EXPERIMENTAL BOTANY

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

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

Genome-scale mRNA and small RNA transcriptomic insights into initiation of citrus apomixis

(2016) Jian-Mei Long et al.   JOURNAL OF EXPERIMENTAL BOTANY

The role of microRNA in abiotic stress response in plants

(2016) N. V. Koroban et al.   MOLECULAR BIOLOGY

The Diversification of PlantNBS-LRRDefense Genes Directs the Evolution of MicroRNAs That Target Them

(2016) Yu Zhang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut

(2016) David John Bertioli et al.   NATURE GENETICS

Small RNA and degradome deep sequencing reveals drought-and tissue-specific micrornas and their important roles in drought-sensitive and drought-tolerant tomato genotypes

(2016) Bilgin Candar-Cakir et al.   PLANT BIOTECHNOLOGY JOURNAL

Draft genome of the peanut A-genome progenitor (Arachis duranensis) provides insights into geocarpy, oil biosynthesis, and allergens

(2016) Xiaoping Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Improved Placement of Multi-mapping Small RNAs

(2016) Nathan R. Johnson et al.   G3-Genes Genomes Genetics

A Developmental Transcriptome Map for Allotetraploid Arachis hypogaea

(2016) Josh Clevenger et al.   Frontiers in Plant Science

More than meets the eye? Factors that affect target selection by plant miRNAs and heterochromatic siRNAs

(2015) Feng Wang et al.   CURRENT OPINION IN PLANT BIOLOGY

Simple gene silencing using the trans-acting siRNA pathway

(2015) Thomas B. Jacobs et al.   PLANT BIOTECHNOLOGY JOURNAL

Role of microRNAs in plant drought tolerance

(2015) Jannatul Ferdous et al.   PLANT BIOTECHNOLOGY JOURNAL

Evolutionary Patterns and Coevolutionary Consequences ofMIRNAGenes and MicroRNA Targets Triggered by Multiple Mechanisms of Genomic Duplications in Soybean

(2015) Meixia Zhao et al.   PLANT CELL

miR408is involved in abiotic stress responses in Arabidopsis

(2015) Chao Ma et al.   PLANT JOURNAL

Secondary siRNAs fromMedicago NB-LRRsmodulated via miRNA-target interactions and their abundances

(2015) Qili Fei et al.   PLANT JOURNAL

Novel and Recently Evolved MicroRNA Clusters Regulate ExpansiveF-BOXGene Networks through Phased Small Interfering RNAs in Wild Diploid Strawberry

(2015) Rui Xia et al.   PLANT PHYSIOLOGY

MicroRNA396-TargetedSHORT VEGETATIVE PHASEIs Required to Repress Flowering and Is Related to the Development of Abnormal Flower Symptoms by the Phyllody Symptoms1 Effector

(2015) Chiao-Yin Yang et al.   PLANT PHYSIOLOGY

PhaseTank: genome-wide computational identification of phasiRNAs and their regulatory cascades

(2014) Qingli Guo et al.   BIOINFORMATICS

Seeing the forest for the trees: annotating small RNA producing genes in plants

(2014) Ceyda Coruh et al.   CURRENT OPINION IN PLANT BIOLOGY

Deep sequencing reveals important roles of microRNAs in response to drought and salinity stress in cotton

(2014) Fuliang Xie et al.   JOURNAL OF EXPERIMENTAL BOTANY

miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis

(2014) Kate M. Creasey et al.   NATURE

A non-canonical plant microRNA target site

(2014) Cécile Brousse et al.   NUCLEIC ACIDS RESEARCH

MicroRNA400-Guided Cleavage of Pentatricopeptide Repeat Protein mRNAs Renders Arabidopsis thaliana More Susceptible to Pathogenic Bacteria and Fungi

(2014) Young Ju Park et al.   PLANT AND CELL PHYSIOLOGY

miR396a-Mediated Basic Helix–Loop–Helix Transcription Factor bHLH74 Repression Acts as a Regulator for Root Growth in Arabidopsis Seedlings

(2014) Maolin Bao et al.   PLANT AND CELL PHYSIOLOGY

HEAT-INDUCED TAS1 TARGET1 Mediates Thermotolerance via HEAT STRESS TRANSCRIPTION FACTOR A1a-Directed Pathways in Arabidopsis

(2014) S. Li et al.   PLANT CELL

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

(2014) Siwaret Arikit et al.   PLANT CELL

Identification and Characterization of Wilt and Salt Stress-Responsive MicroRNAs in Chickpea through High-Throughput Sequencing

(2014) Deshika Kohli et al.   PLoS One

The functional scope of plant microRNA-mediated silencing

(2014) Junyan Li et al.   TRENDS IN PLANT SCIENCE

Evolutionary history of plant microRNAs

(2014) Richard S. Taylor et al.   TRENDS IN PLANT SCIENCE

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

(2013) Shengben Li et al.   CELL

Registration of Purified Accessions for the U.S. Peanut Mini-Core Germplasm Collection

(2013) Charles Y. Chen et al.   Journal of Plant Registrations

High-throughput deep sequencing shows that microRNAs play important roles in switchgrass responses to drought and salinity stress

(2013) Fuliang Xie et al.   PLANT BIOTECHNOLOGY JOURNAL

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

(2013) Rui Xia et al.   PLANT CELL

Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks

(2013) Q. Fei et al.   PLANT CELL

miR396 affects mycorrhization and root meristem activity in the legumeMedicago truncatula

(2013) Jérémie Bazin et al.   PLANT JOURNAL

Plastocyanin Controls the Stabilization of the Thylakoid Cu-transporting P-type ATPase PAA2/HMA8 in Response to Low Copper inArabidopsis

(2012) Wiebke Tapken et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

MicroRNAs and their targets: recognition, regulation and an emerging reciprocal relationship

(2012) Amy E. Pasquinelli   NATURE REVIEWS GENETICS

Identification of new microRNA-regulated genes by conserved targeting in plant species

(2012) Uciel Chorostecki et al.   NUCLEIC ACIDS RESEARCH

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

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

Two MicroRNAs Linked to Nodule Infection and Nitrogen-Fixing Ability in the Legume Lotus japonicus

(2012) A. De Luis et al.   PLANT PHYSIOLOGY

Genome-Wide Identification of miRNAs Responsive to Drought in Peach (Prunus persica) by High-Throughput Deep Sequencing

(2012) Vahap Eldem et al.   PLoS One

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

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

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

Arabidopsis Argonaute10 Specifically Sequesters miR166/165 to Regulate Shoot Apical Meristem Development

(2011) Hongliang Zhu et al.   CELL

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

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

psRNATarget: a plant small RNA target analysis server

(2011) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

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

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

Identification and Characterization of microRNAs from Peanut (Arachis hypogaea L.) by High-Throughput Sequencing

(2011) Xiaoyuan Chi et al.   PLoS One

Selection patterns on restorer-like genes reveal a conflict between nuclear and mitochondrial genomes throughout angiosperm evolution

(2011) S. Fujii et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Genome-wide identification and analysis of drought-responsive microRNAs in Oryza sativa

(2010) Liguo Zhou et al.   JOURNAL OF EXPERIMENTAL BOTANY

In Vitro Assembly of Plant RNA-Induced Silencing Complexes Facilitated by Molecular Chaperone HSP90

(2010) Taichiro Iki et al.   MOLECULAR CELL

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

(2010) Vianey Olmedo-Monfil et al.   NATURE

Misexpression of miR482, miR1512, and miR1515 Increases Soybean Nodulation

(2010) H. Li 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

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

(2009) C. Johnson et al.   GENOME RESEARCH

Differentially Expressed miRNAs Potentially Involved in the Regulation of Defense Mechanism to Drought Stress in Maize Seedlings

(2009) Liya Wei et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

Data sharing in genomics — re-shaping scientific practice

(2009) Jane Kaye et al.   NATURE REVIEWS GENETICS

Evidence for Antisense Transcription Associated with MicroRNA Target mRNAs in Arabidopsis

(2009) Qing-Jun Luo et al.   PLoS Genetics

CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets

(2008) C. Addo-Quaye et al.   BIOINFORMATICS

A Link between RNA Metabolism and Silencing Affecting Arabidopsis Development

(2008) Brian D. Gregory et al.   DEVELOPMENTAL CELL

Global identification of microRNA–target RNA pairs by parallel analysis of RNA ends

(2008) Marcelo A German et al.   NATURE BIOTECHNOLOGY

Microarray-based analysis of stress-regulated microRNAs in Arabidopsis thaliana

(2008) H.-H. Liu et al.   RNA

Widespread Translational Inhibition by Plant miRNAs and siRNAs

(2008) P. Brodersen et al.   SCIENCE