Angiosperms Are Unique among Land Plant Lineages in the Occurrence of Key Genes in the RNA-Directed DNA Methylation (RdDM) Pathway

RNA-Directed DNA Methylation: The Evolution of a Complex Epigenetic Pathway in Flowering Plants

(2015) Marjori A. Matzke et al.   Annual Review of Plant Biology

Analysis of the giant genomes ofFritillaria(Liliaceae) indicates that a lack of DNA removal characterizes extreme expansions in genome size

(2015) Laura J. Kelly et al.   NEW PHYTOLOGIST

TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction: Figure 1.

(2015) Jia-Ming Chang et al.   NUCLEIC ACIDS RESEARCH

Differential contributions of plant Dicer-like proteins to antiviral defences against potato virus X in leaves and roots

(2015) Ida Bagus Andika et al.   PLANT JOURNAL

The Contributions of Transposable Elements to the Structure, Function, and Evolution of Plant Genomes

(2014) Jeffrey L. Bennetzen et al.   Annual Review of Plant Biology

RNA-directed DNA methylation: an epigenetic pathway of increasing complexity

(2014) Marjori A. Matzke et al.   NATURE REVIEWS GENETICS

Endogenous pararetrovirus sequences associated with 24 nt small RNAs at the centromeres ofFritillaria imperialisL. (Liliaceae), a species with a giant genome

(2014) Hannes Becher et al.   PLANT JOURNAL

The Ability to Form Homodimers Is Essential for RDM1 to Function in RNA-Directed DNA Methylation

(2014) Taku Sasaki et al.   PLoS One

Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns

(2014) F.-W. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive Analysis of Silencing Mutants Reveals Complex Regulation of the Arabidopsis Methylome

(2013) Hume Stroud et al.   CELL

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1

(2013) Julie A. Law et al.   NATURE

Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks

(2013) Q. Fei et al.   PLANT CELL

The Initiation of Epigenetic Silencing of Active Transposable Elements Is Triggered by RDR6 and 21-22 Nucleotide Small Interfering RNAs

(2013) S. Nuthikattu et al.   PLANT PHYSIOLOGY

DTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV

(2013) H. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification and characterization of small non-coding RNAs from Chinese fir by high throughput sequencing

(2012) Li-Chuan Wan et al.   BMC PLANT BIOLOGY

Ecological and genetic factors linked to contrasting genome dynamics in seed plants

(2012) A. R. Leitch et al.   NEW PHYTOLOGIST

Dynamic expression of small RNA populations in larch (Larix leptolepis)

(2012) Junhong Zhang et al.   PLANTA

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Roles of DCL4 and DCL3b in rice phased small RNA biogenesis

(2011) Xianwei Song et al.   PLANT JOURNAL

GMI1, a structural-maintenance-of-chromosomes-hinge domain-containing protein, is involved in somatic homologous recombination in Arabidopsis

(2011) Gudrun Böhmdorfer et al.   PLANT JOURNAL

Transcriptome sequencing in an ecologically important tree species: assembly, annotation, and marker discovery

(2010) Thomas L Parchman et al.   BMC GENOMICS

The Pinus taeda genome is characterized by diverse and highly diverged repetitive sequences

(2010) Allen Kovach et al.   BMC GENOMICS

A Protein Complex Required for Polymerase V Transcripts and RNA- Directed DNA Methylation in Arabidopsis

(2010) Julie A. Law et al.   CURRENT BIOLOGY

An RNA polymerase II- and AGO4-associated protein acts in RNA-directed DNA methylation

(2010) Zhihuan Gao et al.   NATURE

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

An Effector of RNA-Directed DNA Methylation in Arabidopsis Is an ARGONAUTE 4- and RNA-Binding Protein

(2009) Xin-Jian He et al.   CELL

Dicer-like (DCL) proteins in plants

(2009) Qingpo Liu et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

NRPD4, a protein related to the RPB4 subunit of RNA polymerase II, is a component of RNA polymerases IV and V and is required for RNA-directed DNA methylation

(2009) X.-J. He et al.   GENES & DEVELOPMENT

Evolution of Genome Size and Complexity in Pinus

(2009) Alison M. Morse et al.   PLoS One

Phylogenetic relationships among seed plants: Persistent questions and the limits of molecular data

(2008) Sarah Mathews   AMERICAN JOURNAL OF BOTANY

The chromosomal distribution of histone methylation marks in gymnosperms differs from that of angiosperms

(2008) Jörg Fuchs et al.   CHROMOSOME RESEARCH

Subunit Compositions of the RNA-Silencing Enzymes Pol IV and Pol V Reveal Their Origins as Specialized Forms of RNA Polymerase II

(2008) Thomas S. Ream et al.   MOLECULAR CELL

Conifers have a unique small RNA silencing signature

(2008) E. V. Dolgosheina et al.   RNA