Evolutionarily Dynamic, but Robust, Targeting of Resistance Genes by the miR482/2118 Gene Family in the Solanaceae

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

Evolution of NBS-LRR Gene Copies among Dicot Plants and its Regulation by Members of the miR482/2118 Superfamily of miRNAs

(2015) Víctor M. González et al.   Molecular Plant

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

The Diversity, Biogenesis, and Activities of Endogenous Silencing Small RNAs inArabidopsis

(2014) Nicolas G. Bologna et al.   Annual Review of Plant Biology

Assessing the State of Substitution Models Describing Noncoding RNA Evolution

(2014) James E. Allen et al.   Genome Biology and Evolution

Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species

(2014) Seungill Kim et al.   NATURE GENETICS

Tomato Genomic Resources Database: An Integrated Repository of Useful Tomato Genomic Information for Basic and Applied Research

(2014) B. Venkata Suresh et al.   PLoS One

A phylogenetic framework for evolutionary study of the nightshades (Solanaceae): a dated 1000-tip tree

(2013) Tiina Särkinen et al.   BMC EVOLUTIONARY BIOLOGY

Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)

(2013) Chunming Wang et al.   International Journal of Biological Sciences

Cloning and Characterization of miRNAs and Their Targets, Including a Novel miRNA-Targeted NBS–LRR Protein Class Gene in Apple (Golden Delicious)

(2013) Chao Ma et al.   Molecular Plant

Bidirectional processing of pri-miRNAs with branched terminal loops by Arabidopsis Dicer-like1

(2013) Hongliang Zhu et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks

(2013) Q. Fei et al.   PLANT CELL

Biogenesis, Turnover, and Mode of Action of Plant MicroRNAs

(2013) K. Rogers et al.   PLANT CELL

Fine-scale variation in meiotic recombination in Mimulus inferred from population shotgun sequencing

(2013) U. Hellsten et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

clusterMaker: a multi-algorithm clustering plugin for Cytoscape

(2012) John H Morris et al.   BMC BIOINFORMATICS

The Physalis peruviana leaf transcriptome: assembly, annotation and gene model prediction

(2012) Gina A Garzón-Martínez et al.   BMC GENOMICS

Origins and Evolution of MicroRNA Genes in Plant Species

(2012) Masafumi Nozawa et al.   Genome Biology and Evolution

Birth and expression evolution of mammalian microRNA genes

(2012) J. Meunier et al.   GENOME RESEARCH

A Draft Genome Sequence of Nicotiana benthamiana to Enhance Molecular Plant-Microbe Biology Research

(2012) Aureliano Bombarely et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Morphological evolution in land plants: new designs with old genes

(2012) N. D. Pires et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

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

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

Genome-Wide Identification and Mapping of NBS-Encoding Resistance Genes in Solanum tuberosum Group Phureja

(2012) Roberto Lozano 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

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Natural Variation in Biogenesis Efficiency of Individual Arabidopsis thaliana MicroRNAs

(2011) Marco Todesco et al.   CURRENT 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

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

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

Phytozome: a comparative platform for green plant genomics

(2011) David M. Goodstein et al.   NUCLEIC ACIDS RESEARCH

psRNATarget: a plant small RNA target analysis server

(2011) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

Identification of Reference Genes for RT–qPCR Expression Analysis in Arabidopsis and Tomato Seeds

(2011) Bas J. W. Dekkers et al.   PLANT AND CELL PHYSIOLOGY

Ralstonia solanacearum Extracellular Polysaccharide Is a Specific Elicitor of Defense Responses in Wilt-Resistant Tomato Plants

(2011) Annett Milling et al.   PLoS One

Chromosomal evolution in the plant family Solanaceae

(2010) Feinan Wu et al.   BMC GENOMICS

Cell signalling by microRNA165/6 directs gene dose-dependent root cell fate

(2010) Annelie Carlsbecker et al.   NATURE

Genome sequencing and analysis of the model grass Brachypodium distachyon

(2010) John P. Vogel et al.   NATURE

miRBase: integrating microRNA annotation and deep-sequencing data

(2010) A. Kozomara et al.   NUCLEIC ACIDS RESEARCH

MicroRNA Gene Evolution inArabidopsis lyrataandArabidopsis thaliana

(2010) Noah Fahlgren et al.   PLANT CELL

The Arabidopsis Resistance-Like Gene SNC1 Is Activated by Mutations in SRFR1 and Contributes to Resistance to the Bacterial Effector AvrRps4

(2010) Sang Hee Kim et al.   PLoS Pathogens

Correlation Between Transcript Abundance of the RB Gene and the Level of the RB-Mediated Late Blight Resistance in Potato

(2009) Lara C. Kramer et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Higher Copy Numbers of the Potato RB Transgene Correspond to Enhanced Transcript and Late Blight Resistance Levels

(2009) James M. Bradeen et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

PatMaN: rapid alignment of short sequences to large databases

(2008) Kay Prüfer et al.   BIOINFORMATICS

RNAalifold: improved consensus structure prediction for RNA alignments

(2008) Stephan H Bernhart et al.   BMC BIOINFORMATICS

Selection of internal control genes for quantitative real-time RT-PCR studies during tomato development process

(2008) Marino Expósito-Rodríguez et al.   BMC PLANT BIOLOGY

Genome Structure of the Legume, Lotus japonicus

(2008) S. Sato et al.   DNA RESEARCH

Sequence Level Analysis of Recently Duplicated Regions in Soybean [Glycine max (L.) Merr.] Genome

(2008) K. Van et al.   DNA RESEARCH

The Vienna RNA Websuite

(2008) A. R. Gruber et al.   NUCLEIC ACIDS RESEARCH

Pre-miRNA Loop Nucleotides Control the Distinct Activities of mir-181a-1 and mir-181c in Early T Cell Development

(2008) Gwen Liu et al.   PLoS One