Discovery and profiling of small RNAs from Puccinia triticina by deep sequencing and identification of their potential targets in wheat

Shifting the limits in wheat research and breeding using a fully annotated reference genome

(2018) et al.   SCIENCE

Effectors of Filamentous Plant Pathogens: Commonalities amid Diversity

(2017) Marina Franceschetti et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Puccinia striiformis f. sp. tritici microRNA-like RNA 1 (Pst -milR1), an important pathogenicity factor of Pst , impairs wheat resistance to Pst by suppressing the wheat pathogenesis-related 2 gene

(2017) Bing Wang et al.   NEW PHYTOLOGIST

Host-induced silencing of essential genes in Puccinia triticina through transgenic expression of RNAi sequences reduces severity of leaf rust infection in wheat

(2017) Vinay Panwar et al.   PLANT BIOTECHNOLOGY JOURNAL

Host-induced gene silencing of an important pathogenicity factor PsCPK1 in Puccinia striiformis f. sp. tritici enhances resistance of wheat to stripe rust

(2017) Tuo Qi et al.   PLANT BIOTECHNOLOGY JOURNAL

The functions of plant small RNAs in development and in stress responses

(2017) Shengjun Li et al.   PLANT JOURNAL

Host-Induced Gene Silencing of the MAPKK GenePsFUZ7Confers Stable Resistance to Wheat Stripe Rust

(2017) Xiaoguo Zhu et al.   PLANT PHYSIOLOGY

Assembly and Annotation of Transcriptome Provided Evidence of miRNA Mobility between Wheat and Wheat Stem Sawfly

(2017) Halise B. Cagirici et al.   Frontiers in Plant Science

Comparative Genomics Integrated with Association Analysis Identifies Candidate Effector Genes Corresponding to Lr20 in Phenotype-Paired Puccinia triticina Isolates from Australia

(2017) Jing Qin Wu et al.   Frontiers in Plant Science

Dissection of genomic features and variations of three pathotypes of Puccinia striiformis through whole genome sequencing

(2017) Kanti Kiran et al.   Scientific Reports

The host-pathogen interaction between wheat and yellow rust induces temporally coordinated waves of gene expression

(2016) Albor Dobon et al.   BMC GENOMICS

Wheat miRNA ancestors: evident by transcriptome analysis of A, B, and D genome donors

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

Draft Genome of the Wheat Rust Pathogen (Puccinia triticina)Unravels Genome-Wide Structural Variations during Evolution

(2016) Kanti Kiran et al.   Genome Biology and Evolution

The stripe rust fungal effector PEC6 suppresses pattern-triggered immunity in a host species-independent manner and interacts with adenosine kinases

(2016) Changhai Liu et al.   NEW PHYTOLOGIST

Generation of a high resolution map of sRNAs from Fusarium graminearum and analysis of responses to viral infection

(2016) Shuangchao Wang et al.   Scientific Reports

Comparative Analysis Highlights Variable Genome Content of Wheat Rusts and Divergence of the Mating Loci

(2016) Christina A. Cuomo et al.   G3-Genes Genomes Genetics

Comparative Temporal Transcriptome Profiling of Wheat near Isogenic Line Carrying Lr57 under Compatible and Incompatible Interactions

(2016) Inderjit S. Yadav et al.   Frontiers in Plant Science

Small RNAs from the wheat stripe rust fungus (Puccinia striiformis f.sp. tritici)

(2015) Nicholas A. Mueth et al.   BMC GENOMICS

Root precursors of microRNAs in wild emmer and modern wheats show major differences in response to drought stress

(2015) Bala Ani Akpinar et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Plant miRNAs: biogenesis, organization and origins

(2015) Hikmet Budak et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Genome-wide analysis of small RNAs in the wheat pathogenic fungus Zymoseptoria tritici

(2015) Fen Yang   Fungal Biology

sRNA profiling in Aspergillus flavus reveals differentially expressed miRNA-like RNAs response to water activity and temperature

(2015) Youhuang Bai et al.   FUNGAL GENETICS AND BIOLOGY

Mechanism of siRNA production from repetitive DNA

(2015) Qiuying Yang et al.   GENES & DEVELOPMENT

Plant-mediated gene silencing restricts growth of the potato late blight pathogen Phytophthora infestans

(2015) Sultana N. Jahan et al.   JOURNAL OF EXPERIMENTAL BOTANY

Transcriptional networks in plant immunity

(2015) Kenichi Tsuda et al.   NEW PHYTOLOGIST

Dicer-Dependent Biogenesis of Small RNAs and Evidence for MicroRNA-Like RNAs in the Penicillin Producing Fungus Penicillium chrysogenum

(2015) Tim A. Dahlmann et al.   PLoS One

MicroRNA-mediated regulation of gene expression in the response of rice plants to fungal elicitors

(2015) Patricia Baldrich et al.   RNA Biology

Characterization of RNA silencing components in the plant pathogenic fungus Fusarium graminearum

(2015) Yun Chen et al.   Scientific Reports

Advances and Challenges in Computational Prediction of Effectors from Plant Pathogenic Fungi

(2015) Jana Sperschneider et al.   PLoS Pathogens

Repbase Update, a database of repetitive elements in eukaryotic genomes

(2015) Weidong Bao et al.   Mobile DNA

Protein Kinases in Plant-Pathogenic Fungi: Conserved Regulators of Infection

(2014) David Turrà et al.   Annual Review of Phytopathology

funRNA: a fungi-centered genomics platform for genes encoding key components of RNAi

(2014) Jaeyoung Choi et al.   BMC GENOMICS

New wheat microRNA using whole-genome sequence

(2014) Kuaybe Yucebilgili Kurtoglu et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Rfam 12.0: updates to the RNA families database

(2014) Eric P. Nawrocki et al.   NUCLEIC ACIDS RESEARCH

Overexpression of a riceheme activator proteingene (OsHAP2E) confers resistance to pathogens, salinity and drought, and increases photosynthesis and tiller number

(2014) Md. Mahfuz Alam et al.   PLANT BIOTECHNOLOGY JOURNAL

Exploring MicroRNA-Like Small RNAs in the Filamentous Fungus Fusarium oxysporum

(2014) Rui Chen et al.   PLoS One

Exosomes secreted by nematode parasites transfer small RNAs to mammalian cells and modulate innate immunity

(2014) Amy H. Buck et al.   Nature Communications

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

WebAUGUSTUS--a web service for training AUGUSTUS and predicting genes in eukaryotes

(2013) K. J. Hoff et al.   NUCLEIC ACIDS RESEARCH

miRBase: annotating high confidence microRNAs using deep sequencing data

(2013) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

Host-induced gene silencing of wheat leaf rust fungus Puccinia triticina pathogenicity genes mediated by the Barley stripe mosaic virus

(2013) Vinay Panwar et al.   PLANT MOLECULAR BIOLOGY

Unique and Conserved MicroRNAs in Wheat Chromosome 5D Revealed by Next-Generation Sequencing

(2013) Kuaybe Yucebilgili Kurtoglu et al.   PLoS One

Identification of microRNA-Like RNAs in the Filamentous Fungus Trichoderma reesei by Solexa Sequencing

(2013) Kang Kang et al.   PLoS One

Fungal Small RNAs Suppress Plant Immunity by Hijacking Host RNA Interference Pathways

(2013) Arne Weiberg et al.   SCIENCE

Identification of MicroRNA-Like RNAs in Mycelial and Yeast Phases of the Thermal Dimorphic Fungus Penicillium marneffei

(2013) Susanna K. P. Lau et al.   PLoS Neglected Tropical Diseases

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

Subgenomic analysis of microRNAs in polyploid wheat

(2012) Melda Kantar et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Genome-wide identification and profiling of microRNA-like RNAs from Metarhizium anisopliae during development

(2012) Quan Zhou et al.   Fungal Biology

Identification of microRNA-like RNAs in a plant pathogenic fungus Sclerotinia sclerotiorum by high-throughput sequencing

(2012) Jiahong Zhou et al.   MOLECULAR GENETICS AND GENOMICS

The Top 10 fungal pathogens in molecular plant pathology

(2012) RALPH DEAN et al.   MOLECULAR PLANT PATHOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The Promiscuous Life of Plant NUCLEAR FACTOR Y Transcription Factors

(2012) K. Petroni et al.   PLANT CELL

Identification and Functional Demonstration of miRNAs in the Fungus Cryptococcus neoformans

(2012) Nan Jiang et al.   PLoS One

Evidence for Small RNAs Homologous to Effector-Encoding Genes and Transposable Elements in the Oomycete Phytophthora infestans

(2012) Ramesh R. Vetukuri et al.   PLoS One

The cell wall-associated kinases, WAKs, as pectin receptors

(2012) Bruce D. Kohorn et al.   Frontiers in Plant Science

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

Diverse and tissue-enriched small RNAs in the plant pathogenic fungus, Magnaporthe oryzae

(2011) Cristiano C Nunes et al.   BMC GENOMICS

Global status of wheat leaf rust caused by Puccinia triticina

(2011) J. Huerta-Espino et al.   EUPHYTICA

Global status of stripe rust: a review of historical and current threats

(2011) Colin R. Wellings   EUPHYTICA

Evolution of microRNA diversity and regulation in animals

(2011) Eugene Berezikov   NATURE REVIEWS GENETICS

psRNATarget: a plant small RNA target analysis server

(2011) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

The F-box protein CPR1/CPR30 negatively regulates R protein SNC1 accumulation

(2011) Mingyue Gou et al.   PLANT JOURNAL

Conservation and divergence in plant microRNAs

(2011) Matthew W. Jones-Rhoades   PLANT MOLECULAR BIOLOGY

Next Generation Sequencing Provides Rapid Access to the Genome of Puccinia striiformis f. sp. tritici, the Causal Agent of Wheat Stripe Rust

(2011) Dario Cantu et al.   PLoS One

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Obligate biotrophy features unraveled by the genomic analysis of rust fungi

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

Direct Ubiquitination of Pattern Recognition Receptor FLS2 Attenuates Plant Innate Immunity

(2011) D. Lu et al.   SCIENCE

Small RNAs, DNA methylation and transposable elements in wheat

(2010) Dario Cantu et al.   BMC GENOMICS

Diverse Pathways Generate MicroRNA-like RNAs and Dicer-Independent Small Interfering RNAs in Fungi

(2010) Heng-Chi Lee et al.   MOLECULAR CELL

Roles for glutathione transferases in plant secondary metabolism

(2010) David P. Dixon et al.   PHYTOCHEMISTRY

HIGS: Host-Induced Gene Silencing in the Obligate Biotrophic Fungal PathogenBlumeria graminis

(2010) Daniela Nowara et al.   PLANT CELL

Host-derived suppression of nematode reproductive and fitness genes decreases fecundity of Heterodera glycines Ichinohe

(2010) Jiarui Li et al.   PLANTA

Fungal Effector Proteins

(2009) Ioannis Stergiopoulos et al.   Annual Review of Phytopathology

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

The Role of WRKY Transcription Factors in Plant Immunity

(2009) S. P. Pandey et al.   PLANT PHYSIOLOGY

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

Wheat leaf rust caused byPuccinia triticina

(2008) MELVIN D. BOLTON et al.   MOLECULAR PLANT PATHOLOGY

Regulating the Regulators: The Future Prospects for Transcription-Factor-Based Agricultural Biotechnology Products

(2008) K. Century et al.   PLANT PHYSIOLOGY

The AP2/ERF Domain Transcription Factor ORA59 Integrates Jasmonic Acid and Ethylene Signals in Plant Defense

(2008) M. Pre et al.   PLANT PHYSIOLOGY