Lineage-Specific Evolved MicroRNAs Regulating NB-LRR Defense Genes in Triticeae

Evolution of Disease Defense Genes and Their Regulators in Plants

(2019) Rongzhi Zhang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Tracing the ancestry of modern bread wheats

(2019) Caroline Pont et al.   NATURE GENETICS

Co-evolutionary interactions between host resistance and pathogen avirulence genes in rice - Magnaporthe oryzae pathosystem

(2018) Pankaj Kumar Singh et al.   FUNGAL GENETICS AND BIOLOGY

The MicroRNA miR773 Is Involved in the Arabidopsis Immune Response to Fungal Pathogens

(2018) Raquel Salvador-Guirao et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

A role for small RNA in regulating innate immunity during plant growth

(2018) Yingtian Deng et al.   PLoS Pathogens

ghr-miR5272a-mediated regulation of GhMKK6 gene transcription contributes to the immune response in cotton

(2017) Chen Wang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Altered accumulation of osa-miR171b contributes to rice stripe virus infection by regulating disease symptoms

(2017) Aizi Tong et al.   JOURNAL OF EXPERIMENTAL BOTANY

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

Variation in theAvrSr35gene determinesSr35resistance against wheat stem rust race Ug99

(2017) Andres Salcedo et al.   SCIENCE

The Arabidopsis miR396 mediates pathogen-associated molecular pattern-triggered immune responses against fungal pathogens

(2017) Mauricio Soto-Suárez et al.   Scientific Reports

Md-miR156ab and Md-miR395 Target WRKY Transcription Factors to Influence Apple Resistance to Leaf Spot Disease

(2017) Qiulei Zhang et al.   Frontiers in Plant Science

Osa-miR169 Negatively Regulates Rice Immunity against the Blast Fungus Magnaporthe oryzae

(2017) Yan Li et al.   Frontiers in Plant Science

Abiotic stress miRNomes in the Triticeae

(2016) Burcu Alptekin et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Modulation ofR-gene expression across environments

(2016) Alice MacQueen et al.   JOURNAL OF EXPERIMENTAL BOTANY

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

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

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Suppression of Jasmonic Acid-Mediated Defense by Viral-Inducible MicroRNA319 Facilitates Virus Infection in Rice

(2016) Chao Zhang et al.   Molecular Plant

Arabidopsis CLAVATA1 and CLAVATA2 receptors contribute to Ralstonia solanacearumpathogenicity through a miR169-dependent pathway

(2016) Mathieu Hanemian et al.   NEW PHYTOLOGIST

Global investigation of the co-evolution ofMIRNAgenes and microRNA targets during soybean domestication

(2016) Tengfei Liu et al.   PLANT JOURNAL

A Signaling Cascade from miR444 to RDR1 in Rice Antiviral RNA Silencing Pathway

(2016) Huacai Wang et al.   PLANT PHYSIOLOGY

Overexpression of pathogen-induced grapevine TIR-NB-LRR gene VaRGA1 enhances disease resistance and drought and salt tolerance in Nicotiana benthamiana

(2016) Xinlong Li et al.   PROTOPLASMA

PmiRExAt: plant miRNA expression atlas database and web applications

(2016) Anoop Kishor Singh Gurjar et al.   Database-The Journal of Biological Databases and Curation

Improved Placement of Multi-mapping Small RNAs

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

Deep sequencing of wheat sRNA transcriptome reveals distinct temporal expression pattern of miRNAs in response to heat, light and UV

(2016) Raja Ragupathy et al.   Scientific Reports

Extensive Families of miRNAs andPHASLoci in Norway Spruce Demonstrate the Origins of Complex phasiRNA Networks in Seed Plants

(2015) Rui Xia et al.   MOLECULAR BIOLOGY AND EVOLUTION

Harnessing NGS and Big Data Optimally: Comparison of miRNA Prediction from Assembled versus Non-assembled Sequencing Data—The Case of the GrassAegilops tauschiiComplex Genome

(2015) Hikmet Budak et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

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

Stress responsive miRNAs and isomiRs in cereals

(2015) Hikmet Budak et al.   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

Characterization of the complete genome of Barley yellow striate mosaic virus reveals a nested gene encoding a small hydrophobic protein

(2015) Teng Yan et al.   VIROLOGY

The wheat Sr50 gene reveals rich diversity at a cereal disease resistance locus

(2015) Rohit Mago et al.   Nature Plants

PNRD: a plant non-coding RNA database

(2014) Xin Yi et al.   NUCLEIC ACIDS RESEARCH

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

(2014) Siwaret Arikit et al.   PLANT CELL

mRNA and Small RNA Transcriptomes Reveal Insights into Dynamic Homoeolog Regulation of Allopolyploid Heterosis in Nascent Hexaploid Wheat

(2014) A. Li et al.   PLANT CELL

Sequencing of Chloroplast Genomes from Wheat, Barley, Rye and Their Relatives Provides a Detailed Insight into the Evolution of the Triticeae Tribe

(2014) Christopher P. Middleton et al.   PLoS One

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

(2014) Ritu Pandey et al.   PLoS One

The miR9863 Family Regulates Distinct Mla Alleles in Barley to Attenuate NLR Receptor-Triggered Disease Resistance and Cell-Death Signaling

(2014) Jie Liu et al.   PLoS Genetics

MicroRNAs Suppress NB Domain Genes in Tomato That Confer Resistance to Fusarium oxysporum

(2014) Shouqiang Ouyang et al.   PLoS Pathogens

The Arabidopsis miR472-RDR6 Silencing Pathway Modulates PAMP- and Effector-Triggered Immunity through the Post-transcriptional Control of Disease Resistance Genes

(2014) Martine Boccara et al.   PLoS Pathogens

nhmmer: DNA homology search with profile HMMs

(2013) T. J. Wheeler et al.   BIOINFORMATICS

Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks

(2013) Q. Fei et al.   PLANT CELL

Identification of Wheat Gene Sr35 That Confers Resistance to Ug99 Stem Rust Race Group

(2013) C. Saintenac et al.   SCIENCE

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Plant pattern recognition receptor complexes at the plasma membrane

(2012) Jacqueline Monaghan et al.   CURRENT OPINION IN PLANT BIOLOGY

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

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

Identification and characterization of wheat long non-protein coding RNAs responsive to powdery mildew infection and heat stress by using microarray analysis and SBS sequencing

(2011) Mingming Xin et al.   BMC PLANT BIOLOGY

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

Roles of DCL4 and DCL3b in rice phased small RNA biogenesis

(2011) Xianwei Song et al.   PLANT JOURNAL

Independently Evolved Virulence Effectors Converge onto Hubs in a Plant Immune System Network

(2011) M. S. Mukhtar et al.   SCIENCE

NB-LRR proteins: pairs, pieces, perception, partners, and pathways

(2010) Timothy K Eitas et al.   CURRENT OPINION IN PLANT BIOLOGY

Genome sequencing and analysis of the model grass Brachypodium distachyon

(2010) John P. Vogel et al.   NATURE

Origin, Biogenesis, and Activity of Plant MicroRNAs

(2009) Olivier Voinnet   CELL

Novel microRNAs uncovered by deep sequencing of small RNA transcriptomes in bread wheat (Triticum aestivum L.) and Brachypodium distachyon (L.) Beauv

(2009) Bo Wei et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

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

(2009) C. Johnson et al.   GENOME RESEARCH

MEME SUITE: tools for motif discovery and searching

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

The B73 Maize Genome: Complexity, Diversity, and Dynamics

(2009) P. S. Schnable et al.   SCIENCE

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

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

Specificity of ARGONAUTE7-miR390 Interaction and Dual Functionality in TAS3 Trans-Acting siRNA Formation

(2008) Taiowa A. Montgomery et al.   CELL

Characterization of conserved and novel microRNAs and their targets, including a TuMV-induced TIR-NBS-LRR classRgene-derived novel miRNA in Brassica

(2008) Xiang-Feng He et al.   FEBS LETTERS