The important contribution of transposable elements to phenotypic variation and evolution

The population genomics of adaptive loss of function

(2021) J. Grey Monroe et al.   HEREDITY

The current revolution in transposable element biology enabled by long reads

(2020) Saima Shahid et al.   CURRENT OPINION IN PLANT BIOLOGY

Transposable elements employ distinct integration strategies with respect to transcriptional landscapes in eukaryotic genomes

(2020) Xinyan Zhang et al.   NUCLEIC ACIDS RESEARCH

The impact of transposable elements on tomato diversity

(2020) Marisol Domínguez et al.   Nature Communications

Double-edged sword: The evolutionary consequences of the epigenetic silencing of transposable elements

(2020) Jae Young Choi et al.   PLoS Genetics

Tracking the origin of two genetic components associated with transposable element bursts in domesticated rice

(2019) Jinfeng Chen et al.   Nature Communications

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

Transposable Elements Are Important Contributors to Standing Variation in Gene Expression in Capsella Grandiflora

(2019) Jasmina Uzunović et al.   MOLECULAR BIOLOGY AND EVOLUTION

The tomato pan-genome uncovers new genes and a rare allele regulating fruit flavor

(2019) Lei Gao et al.   NATURE GENETICS

Transposition favors the generation of large effect mutations that may facilitate rapid adaption

(2019) Leandro Quadrana et al.   Nature Communications

Thinking About the Evolution of Complex Traits in the Era of Genome-Wide Association Studies

(2019) Guy Sella et al.   Annual Review of Genomics and Human Genetics

Transposable elements contribute to dynamic genome content in maize

(2019) Sarah N. Anderson et al.   PLANT JOURNAL

Relaxed purifying selection in autopolyploids drives transposable element over-accumulation which provides variants for local adaptation

(2019) Pierre Baduel et al.   Nature Communications

Adaptation in plant genomes: Bigger is different

(2018) Wenbin Mei et al.   AMERICAN JOURNAL OF BOTANY

Parallel altitudinal clines reveal trends in adaptive evolution of genome size in Zea mays

(2018) Paul Bilinski et al.   PLoS Genetics

Retrotransposon targeting to RNA polymerase III-transcribed genes

(2018) Stephanie Cheung et al.   Mobile DNA

The Role of Transposable Elements in Speciation

(2018) Antonio Serrato-Capuchina et al.   Genes

Transposable Elements Contribute to the Adaptation of Arabidopsis thaliana

(2018) Zi-Wen Li et al.   Genome Biology and Evolution

The maize W22 genome provides a foundation for functional genomics and transposon biology

(2018) Nathan M. Springer et al.   NATURE GENETICS

Phylogenetic trends and environmental correlates of nuclear genome size variation in Helianthus sunflowers

(2018) Fan Qiu et al.   NEW PHYTOLOGIST

Retrotranspositional landscape of Asian rice revealed by 3000 genomes

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

The Mobile Element Locator Tool (MELT): population-scale mobile element discovery and biology

(2017) Eugene J. Gardner et al.   GENOME RESEARCH

Evolutionary Epigenomics of Retrotransposon-Mediated Methylation Spreading in Rice

(2017) Jae Young Choi et al.   MOLECULAR BIOLOGY AND EVOLUTION

Integration site selection by retroviruses and transposable elements in eukaryotes

(2017) Tania Sultana et al.   NATURE REVIEWS GENETICS

Profiling of Accessible Chromatin Regions across Multiple Plant Species and Cell Types Reveals Common Gene Regulatory Principles and New Control Modules

(2017) Kelsey A. Maher et al.   PLANT CELL

Tracking the genome-wide outcomes of a transposable element burst over decades of amplification

(2017) Lu Lu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transposable element evolution in the allotetraploid Capsella bursa-pastoris

(2016) J. Arvid Ågren et al.   AMERICAN JOURNAL OF BOTANY

Horizontal Gene Acquisitions, Mobile Element Proliferation, and Genome Decay in the Host-Restricted Plant PathogenErwinia Tracheiphila

(2016) Lori R. Shapiro et al.   Genome Biology and Evolution

Open chromatin reveals the functional maize genome

(2016) Eli Rodgers-Melnick et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Adaptation to Global Change: A Transposable Element–Epigenetics Perspective

(2016) Olivier Rey et al.   TRENDS IN ECOLOGY & EVOLUTION

The Arabidopsis thaliana mobilome and its impact at the species level

(2016) Leandro Quadrana et al.   eLife

Population scale mapping of transposable element diversity reveals links to gene regulation and epigenomic variation

(2016) Tim Stuart et al.   eLife

Transposable elements as agents of rapid adaptation may explain the genetic paradox of invasive species

(2015) Jessica Stapley et al.   MOLECULAR ECOLOGY

Response of transposable elements to environmental stressors

(2015) Isabelle R. Miousse et al.   MUTATION RESEARCH-REVIEWS IN MUTATION RESEARCH

A long terminal repeat retrotransposon of Schizosaccharomyces japonicus integrates upstream of RNA pol III transcribed genes

(2015) Yabin Guo et al.   Mobile DNA

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

Differential Nuclease Sensitivity Profiling of Chromatin Reveals Biochemical Footprints Coupled to Gene Expression and Functional DNA Elements in Maize

(2014) D. L. Vera et al.   PLANT CELL

The impact of transposable elements in environmental adaptation

(2013) Elena Casacuberta et al.   MOLECULAR ECOLOGY

Nonallelic homologous recombination between retrotransposable elements is a driver of de novo unbalanced translocations

(2012) C. Robberecht et al.   GENOME RESEARCH

How important are transposons for plant evolution?

(2012) Damon Lisch   NATURE REVIEWS GENETICS

Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean

(2012) Z. Tian et al.   PLANT CELL

Epigenetic Remodeling of Meiotic Crossover Frequency in Arabidopsis thaliana DNA Methyltransferase Mutants

(2012) Nataliya E. Yelina et al.   PLoS Genetics

Co-evolution between transposable elements and their hosts: a major factor in genome size evolution?

(2011) J. Arvid Ågren et al.   CHROMOSOME RESEARCH

Identification of a functional transposon insertion in the maize domestication gene tb1

(2011) Anthony Studer et al.   NATURE GENETICS

Drosophila P elements preferentially transpose to replication origins

(2011) A. C. Spradling et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNAi and heterochromatin repress centromeric meiotic recombination

(2010) C. Ellermeier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A triptych of the evolution of plant transposable elements

(2010) Maud I. Tenaillon et al.   TRENDS IN PLANT SCIENCE

Proliferation of Ty3/gypsy-like retrotransposons in hybrid sunflower taxa inferred from phylogenetic data

(2009) Mark C Ungerer et al.   BMC BIOLOGY

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

Epigenetic silencing of transposable elements: A trade-off between reduced transposition and deleterious effects on neighboring gene expression

(2009) J. D. Hollister et al.   GENOME RESEARCH

Rapid DNA loss as a counterbalance to genome expansion through retrotransposon proliferation in plants

(2009) J. S. Hawkins et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Heterochromatic Genome Stability Requires Regulators of Histone H3 K9 Methylation

(2009) Jamy C. Peng et al.   PLoS Genetics

Mu Transposon Insertion Sites and Meiotic Recombination Events Co-Localize with Epigenetic Marks for Open Chromatin across the Maize Genome

(2009) Sanzhen Liu et al.   PLoS Genetics

Transposable elements and the evolution of regulatory networks

(2008) Cédric Feschotte   NATURE REVIEWS GENETICS

Maize Genome Structure Variation: Interplay between Retrotransposon Polymorphisms and Genic Recombination

(2008) H. K. Dooner et al.   PLANT CELL