Phytophthora Have Distinct Endogenous Small RNA Populations That Include Short Interfering and microRNAs

Classification and Comparison of Small RNAs from Plants

(2013) Michael J. Axtell   Annual Review of Plant Biology

Physiological stressors and invasive plant infections alter the small RNA transcriptome of the rice blast fungus, Magnaporthe oryzae

(2013) Vidhyavathi Raman et al.   BMC GENOMICS

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

Lessons on RNA Silencing Mechanisms in Plants from Eukaryotic Argonaute Structures

(2013) Christian Poulsen et al.   PLANT CELL

ShortStack: Comprehensive annotation and quantification of small RNA genes

(2013) M. J. Axtell   RNA

Transgenerational gene silencing causes gain of virulence in a plant pathogen

(2013) Dinah Qutob et al.   Nature Communications

RNA Interference Pathways in Fungi: Mechanisms and Functions

(2012) Shwu-Shin Chang et al.   Annual Review of Microbiology

The Structure of Human Argonaute-2 in Complex with miR-20a

(2012) Elad Elkayam et al.   CELL

Regulation of small RNA stability: methylation and beyond

(2012) Lijuan Ji et al.   CELL RESEARCH

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 Crystal Structure of Human Argonaute2

(2012) N. T. Schirle et al.   SCIENCE

Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks

(2012) Daniel H. Huson et al.   SYSTEMATIC BIOLOGY

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

(2011) Cristiano C Nunes et al.   BMC GENOMICS

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

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

Evidence for involvement of Dicer-like, Argonaute and histone deacetylase proteins in gene silencing in Phytophthora infestans

(2011) RAMESH R. VETUKURI et al.   MOLECULAR PLANT PATHOLOGY

The Genome Portal of the Department of Energy Joint Genome Institute

(2011) I. V. Grigoriev et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Sequence Variants of the Phytophthora sojae RXLR Effector Avr3a/5 Are Differentially Recognized by Rps3a and Rps5 in Soybean

(2011) Suomeng Dong et al.   PLoS One

UniProt Knowledgebase: a hub of integrated protein data

(2011) M. Magrane et al.   Database-The Journal of Biological Databases and Curation

Profiles of Small Non-Coding RNAs in Schistosoma japonicum during Development

(2011) Pengfei Cai et al.   PLoS Neglected Tropical Diseases

Vive la différence: biogenesis and evolution of microRNAs in plants and animals

(2011) Michael J Axtell et al.   GENOME BIOLOGY

Genome-wide identification of Phytophthora sojae SNARE genes and functional characterization of the conserved SNARE PsYKT6

(2010) Wei Zhao et al.   FUNGAL GENETICS AND BIOLOGY

Different Domains of Phytophthora sojae Effector Avr4/6 Are Recognized by Soybean Resistance Genes Rps4 and Rps6

(2010) Daolong Dou et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Sudden larch death

(2010) Clive Brasier et al.   NATURE

Small RNA sorting: matchmaking for Argonautes

(2010) Benjamin Czech et al.   NATURE REVIEWS GENETICS

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

(2010) Julie A. Law et al.   NATURE REVIEWS GENETICS

ParameciumDB in 2011: new tools and new data for functional and comparative genomics of the model ciliate Paramecium tetraurelia

(2010) O. Arnaiz et al.   NUCLEIC ACIDS RESEARCH

A Molecular Genetic Timescale for the Diversification of Autotrophic Stramenopiles (Ochrophyta): Substantive Underestimation of Putative Fossil Ages

(2010) Joseph W. Brown et al.   PLoS One

Genome Evolution Following Host Jumps in the Irish Potato Famine Pathogen Lineage

(2010) S. Raffaele et al.   SCIENCE

A Small-RNA Perspective on Gametogenesis, Fertilization, and Early Zygotic Development

(2010) Déborah Bourc’his et al.   SCIENCE

A Complex Small RNA Repertoire Is Generated by a Plant/Fungal-Like Machinery and Effected by a Metazoan-Like Argonaute in the Single-Cell Human Parasite Toxoplasma gondii

(2010) Laurence Braun et al.   PLoS Pathogens

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

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

A three-dimensional view of the molecular machinery of RNA interference

(2009) Martin Jinek et al.   NATURE

Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans

(2009) Brian J. Haas et al.   NATURE

Many roads to maturity: microRNA biogenesis pathways and their regulation

(2009) Julia Winter et al.   NATURE CELL BIOLOGY

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

Biogenesis of small RNAs in animals

(2009) V. Narry Kim et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Computational and analytical framework for small RNA profiling by high-throughput sequencing

(2009) N. Fahlgren et al.   RNA

Population Genetic Analysis Infers Migration Pathways of Phytophthora ramorum in US Nurseries

(2009) Erica M. Goss et al.   PLoS Pathogens

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

A novelPhytophthora infestanshaustorium-specific membrane protein is required for infection of potato

(2008) Anna O. Avrova et al.   CELLULAR MICROBIOLOGY

A putative DEAD-box RNA-helicase is required for normal zoospore development in the late blight pathogen Phytophthora infestans

(2008) Claire A. Walker et al.   FUNGAL GENETICS AND BIOLOGY

Internuclear gene silencing in Phytophthora infestans is established through chromatin remodelling

(2008) P. van West et al.   MICROBIOLOGY-SGM

Phytophthora ramorum: a pathogen with a remarkably wide host range causing sudden oak death on oaks and ramorum blight on woody ornamentals

(2008) NIKLAUS J. GRÜNWALD et al.   MOLECULAR PLANT PATHOLOGY

Phytophthora infestans: the plant (and R gene) destroyer

(2008) WILLIAM FRY   MOLECULAR PLANT PATHOLOGY

The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs

(2008) Katsutomo Okamura et al.   NATURE

Structure of the guide-strand-containing argonaute silencing complex

(2008) Yanli Wang et al.   NATURE

Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes

(2008) Toshiaki Watanabe et al.   NATURE

Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes

(2008) Oliver H. Tam et al.   NATURE

An endogenous small interfering RNA pathway in Drosophila

(2008) Benjamin Czech et al.   NATURE

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH

Cellulose Synthesis in Phytophthora infestans Is Required for Normal Appressorium Formation and Successful Infection of Potato

(2008) L. J. Grenville-Briggs et al.   PLANT CELL

Endogenous siRNAs Derived from Transposons and mRNAs in Drosophila Somatic Cells

(2008) M. Ghildiyal et al.   SCIENCE

Origins and evolution of eukaryotic RNA interference

(2008) S SHABALINA et al.   TRENDS IN ECOLOGY & EVOLUTION

Evolution of plant microRNAs and their targets

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

A multi-locus phylogeny for Phytophthora utilizing markers derived from complete genome sequences

(2007) Jaime E. Blair et al.   FUNGAL GENETICS AND BIOLOGY