Diversity, dynamics and effects of long terminal repeat retrotransposons in the model grass Brachypodium distachyon

Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification

(2019) Pavel Neumann et al.   Mobile DNA

Transposable elements drive rapid phenotypic variation in Capsella rubella

(2019) Xiao-Min Niu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

Retrotranspositional landscape of Asian rice revealed by 3000 genomes

(2018) Marie-Christine Carpentier et al.   Nature Communications

Recent Activity in Expanding Populations and Purifying Selection Have Shaped Transposable Element Landscapes across Natural Accessions of the Mediterranean Grass Brachypodium distachyon

(2017) Christoph Stritt et al.   Genome Biology and Evolution

Revisiting the Relationship between Transposable Elements and the Eukaryotic Stress Response

(2017) Vivien Horváth et al.   TRENDS IN GENETICS

The repetitive landscape of the 5100 Mbp barley genome

(2017) Thomas Wicker et al.   Mobile DNA

The industrial melanism mutation in British peppered moths is a transposable element

(2016) Arjen E. van’t Hof et al.   NATURE

Transposable Elements Contribute to Activation of Maize Genes in Response to Abiotic Stress

(2015) Irina Makarevitch et al.   PLoS Genetics

Transposable element detection from whole genome sequence data

(2015) Adam D. Ewing   Mobile DNA

Widespread and frequent horizontal transfers of transposable elements in plants

(2014) M. El Baidouri et al.   GENOME RESEARCH

Bursts of transposable elements as an evolutionary driving force

(2014) A. Belyayev   JOURNAL OF EVOLUTIONARY BIOLOGY

PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses in R

(2014) Bastian Pfeifer et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ecological and evolutionary significance of genomic GC content diversity in monocots

(2014) Petr Šmarda et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis

(2014) Sylvain Glémin et al.   TRENDS IN GENETICS

Distinguishing ecological from evolutionary approaches to transposable elements

(2013) Stefan Linquist et al.   BIOLOGICAL REVIEWS

Comparative Genomic Paleontology across Plant Kingdom Reveals the Dynamics of TE-Driven Genome Evolution

(2013) Moaine El Baidouri et al.   Genome Biology and Evolution

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

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

The impact of transposable elements in environmental adaptation

(2013) Elena Casacuberta et al.   MOLECULAR ECOLOGY

Retrotransposon replication in plants

(2013) Alan H Schulman   Current Opinion in Virology

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

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

Selfish genetic elements, genetic conflict, and evolutionary innovation

(2011) J. H. Werren   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparison of a high-density genetic linkage map to genome features in the model grass Brachypodium distachyon

(2011) Naxin Huo et al.   THEORETICAL AND APPLIED GENETICS

Plant centromeric retrotransposons: a structural and cytogenetic perspective

(2011) Pavel Neumann et al.   Mobile DNA

Genome sequencing and analysis of the model grass Brachypodium distachyon

(2010) John P. Vogel et al.   NATURE

Evolutionary conservation, diversity and specificity of LTR-retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison

(2010) Jianchang Du et al.   PLANT JOURNAL

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes

(2009) Laurent Duret et al.   Annual Review of Genomics and Human Genetics

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

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

Do genetic recombination and gene density shape the pattern of DNA elimination in rice long terminal repeat retrotransposons?

(2009) Z. Tian et al.   GENOME RESEARCH

Contrasting evolutionary dynamics between angiosperm and mammalian genomes

(2009) Eduard Kejnovsky et al.   TRENDS IN ECOLOGY & EVOLUTION

Dynamics of transposable elements: towards a community ecology of the genome

(2009) Samuel Venner et al.   TRENDS IN GENETICS

Epigenetic Regulation of Transposable Elements in Plants

(2008) Damon Lisch   Annual Review of Plant Biology

Quality assessment parameters for EST-derived SNPs from catfish

(2008) Shaolin Wang et al.   BMC GENOMICS