Evolutionary dynamics of retrotransposons following autopolyploidy in the Buckler Mustard species complex

Contrasting evolutionary trajectories of multiple retrotransposons following independent allopolyploidy in wild wheats

(2014) Natacha Senerchia et al.   NEW PHYTOLOGIST

Genetics of Cryptic Speciation within an Arctic Mustard, Draba nivalis

(2014) A. Lovisa S. Gustafsson et al.   PLoS One

Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome

(2014) B. Chalhoub et al.   SCIENCE

The Case for Junk DNA

(2014) Alexander F. Palazzo et al.   PLoS Genetics

Natural Pathways to Polyploidy in Plants and Consequences for Genome Reorganization

(2013) A. Tayalé et al.   CYTOGENETIC AND GENOME RESEARCH

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

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

Evolutionary Dynamics of Retrotransposons Assessed by High-Throughput Sequencing in Wild Relatives of Wheat

(2013) Natacha Senerchia et al.   Genome Biology and Evolution

The dynamics of LTR retrotransposon accumulation across 25 million years of panicoid grass evolution

(2013) M C Estep et al.   HEREDITY

Transposable elements and microevolutionary changes in natural populations

(2013) Georgi Bonchev et al.   Molecular Ecology Resources

The Capsella rubella genome and the genomic consequences of rapid mating system evolution

(2013) Tanja Slotte et al.   NATURE GENETICS

Is junk DNA bunk? A critique of ENCODE

(2013) W. F. Doolittle   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fractionation mutagenesis and similar consequences of mechanisms removing dispensable or less-expressed DNA in plants

(2012) Michael Freeling et al.   CURRENT OPINION IN PLANT BIOLOGY

Reconstructing the Evolutionary History of Transposable Elements

(2012) Arnaud Le Rouzic et al.   Genome Biology and Evolution

How important are transposons for plant evolution?

(2012) Damon Lisch   NATURE REVIEWS GENETICS

Comparative analysis of genome composition in Triticeae reveals strong variation in transposable element dynamics and nucleotide diversity

(2012) Christopher P. Middleton et al.   PLANT JOURNAL

Transposable Elements, Epigenetics, and Genome Evolution

(2012) N. V. Fedoroff   SCIENCE

The predominantly selfing plant Arabidopsis thaliana experienced a recent reduction in transposable element abundance compared to its outcrossing relative Arabidopsis lyrata

(2012) Nicole de la Chaux et al.   Mobile DNA

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

Families of transposable elements, population structure and the origin of species

(2011) Jerzy Jurka et al.   Biology Direct

The struggle for life of the genome's selfish architects

(2011) Aurélie Hua-Van et al.   Biology Direct

The Arabidopsis lyrata genome sequence and the basis of rapid genome size change

(2011) Tina T Hu et al.   NATURE GENETICS

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

Evolutionary consequences of autopolyploidy

(2010) Christian Parisod et al.   NEW PHYTOLOGIST

The Gypsy Database (GyDB) of mobile genetic elements: release 2.0

(2010) C. Llorens et al.   NUCLEIC ACIDS RESEARCH

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

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

(2010) Déborah Bourc’his et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Selection of reliable reference genes for gene expression studies in peach using real-time PCR

(2009) Zhaoguo Tong et al.   BMC MOLECULAR BIOLOGY

Systematic artifacts in metagenomes from complex microbial communities

(2009) Vicente Gomez-Alvarez et al.   ISME Journal

The Contribution of Transposable Elements to Expressed Coding Sequence in Arabidopsis thaliana

(2009) Steven Lockton et al.   JOURNAL OF MOLECULAR EVOLUTION

Molecular Phylogenetics, Temporal Diversification, and Principles of Evolution in the Mustard Family (Brassicaceae)

(2009) T. L. P. Couvreur et al.   MOLECULAR BIOLOGY AND EVOLUTION

Impact of transposable elements on the organization and function of allopolyploid genomes

(2009) Christian Parisod et al.   NEW PHYTOLOGIST

Small RNAs serve as a genetic buffer against genomic shock in Arabidopsis interspecific hybrids and allopolyploids

(2009) M. Ha et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid and Accurate Large-Scale Coestimation of Sequence Alignments and Phylogenetic Trees

(2009) K. Liu et al.   SCIENCE

Contrasting evolutionary dynamics between angiosperm and mammalian genomes

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

Evolutionary Genetics of Genome Merger and Doubling in Plants

(2008) Jeff J. Doyle et al.   Annual Review of Genetics

Discovery and assembly of repeat family pseudomolecules from sparse genomic sequence data using the Assisted Automated Assembler of Repeat Families (AAARF) algorithm

(2008) Jeremy D DeBarry et al.   BMC BIOINFORMATICS

How Athila retrotransposons survive in the Arabidopsis genome

(2008) Antonio Marco et al.   BMC GENOMICS

The Dynamic Ups and Downs of Genome Size Evolution in Brassicaceae

(2008) M. A. Lysak et al.   MOLECULAR BIOLOGY AND EVOLUTION

Selection on Major Components of Angiosperm Genomes

(2008) B. S. Gaut et al.   SCIENCE

Genomic Plasticity and the Diversity of Polyploid Plants

(2008) A. R. Leitch et al.   SCIENCE