The population genetic structure approach adds new insights into the evolution of plant LTR retrotransposon lineages

Genetic and morphological diversity and evidence of hybridization in the “sempre-vivas” ( Comanthera , Eriocaulaceae) endemic to the Chapada Diamantina, Bahia, Brazil

(2018) Patrícia Luz Ribeiro et al.   FLORA

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

Structure and Distribution of Centromeric Retrotransposons at Diploid and Allotetraploid Coffea Centromeric and Pericentromeric Regions

(2018) Renata de Castro Nunes et al.   Frontiers in Plant Science

A transposition-active Phyllostachys edulis long terminal repeat (LTR) retrotransposon

(2017) Mingbing Zhou et al.   JOURNAL OF PLANT RESEARCH

Distribution of Divo in Coffea genomes, a poorly described family of angiosperm LTR-Retrotransposons

(2017) Mathilde Dupeyron et al.   MOLECULAR GENETICS AND GENOMICS

Genome-wide characterization and evolution analysis of long terminal repeat retroelements in moso bamboo (Phyllostachys edulis)

(2017) Mingbing Zhou et al.   Tree Genetics & Genomes

High-frequency recombination between members of an LTR retrotransposon family during transposition bursts

(2017) Diego H. Sanchez et al.   Nature Communications

Rapid and Recent Evolution of LTR Retrotransposons Drives Rice Genome Evolution During the Speciation of AA- Genome Oryza Species

(2017) Qun-Jie Zhang et al.   G3-Genes Genomes Genetics

Phylogeography, genetic diversity and population structure in a Patagonian endemic plant

(2017) Alicia López et al.   AoB Plants

Genome-Wide Identification, Characterization, and Stress-Responsive Expression Profiling of Genes Encoding LEA (Late Embryogenesis Abundant) Proteins in Moso Bamboo (Phyllostachys edulis)

(2016) Zhuo Huang et al.   PLoS One

Virus-like attachment sites as structural landmarks of plants retrotransposons

(2016) Edgar Andres Ochoa Cruz et al.   Mobile DNA

Genetic structure and diversity of the selfing model grassBrachypodium stacei(Poaceae) in Western Mediterranean: out of the Iberian Peninsula and into the islands

(2016) Valeriia Shiposha et al.   PeerJ

Genome-wide analysis of LTR-retrotransposons in oil palm

(2015) Thierry Beulé et al.   BMC GENOMICS

Chromosomal distribution and evolution of abundant retrotransposons in plants: gypsy elements in diploid and polyploid Brachiaria forage grasses

(2015) Fabíola Carvalho Santos et al.   CHROMOSOME RESEARCH

Terminal-Repeat Retrotransposons with GAG Domain in Plant Genomes: A New Testimony on the Complex World of Transposable Elements

(2015) Cristian Chaparro et al.   Genome Biology and Evolution

Clumpak : a program for identifying clustering modes and packaging population structure inferences across K

(2015) Naama M. Kopelman et al.   Molecular Ecology Resources

Genetic Structure and Molecular Diversity of Cacao Plants Established as Local Varieties for More than Two Centuries: The Genetic History of Cacao Plantations in Bahia, Brazil

(2015) Elisa S. L. Santos et al.   PLoS One

Building the sugarcane genome for biotechnology and identifying evolutionary trends

(2014) Nathalia de Setta et al.   BMC GENOMICS

Genome-wide development of transposable elements-based markers in foxtail millet and construction of an integrated database

(2014) C. B. Yadav et al.   DNA RESEARCH

Genome sequence of the cultivated cotton Gossypium arboreum

(2014) Fuguang Li et al.   NATURE GENETICS

Young but not relatively old retrotransposons are preferentially located in gene-rich euchromatic regions in tomato (Solanum lycopersicum) plants

(2014) Yingxiu Xu et al.   PLANT JOURNAL

Virus-Like Attachment Sites and Plastic CpG Islands: Landmarks of Diversity in Plant Del Retrotransposons

(2014) Guilherme M. Q. Cruz et al.   PLoS One

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

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

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Drivers of population genetic differentiation in the wild: isolation by dispersal limitation, isolation by adaptation and isolation by colonization

(2013) Luisa Orsini et al.   MOLECULAR ECOLOGY

Isolation and characterization of reverse transcriptase fragments of LTR retrotransposons from the genome of Chenopodium quinoa (Amaranthaceae)

(2013) Bozena Kolano et al.   PLANT CELL REPORTS

Co-evolution of plant LTR-retrotransposons and their host genomes

(2013) Meixia Zhao et al.   Protein & Cell

An overview of STRUCTURE: applications, parameter settings, and supporting software

(2013) Liliana Porras-Hurtado et al.   Frontiers in Genetics

Analysis of plant LTR-retrotransposons at the fine-scale family level reveals individual molecular patterns

(2012) Douglas S Domingues et al.   BMC GENOMICS

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

(2012) Alexei J. Drummond et al.   MOLECULAR BIOLOGY AND EVOLUTION

Reference genome sequence of the model plant Setaria

(2012) Jeffrey L Bennetzen et al.   NATURE BIOTECHNOLOGY

Genome sequence of foxtail millet (Setaria italica) provides insights into grass evolution and biofuel potential

(2012) Gengyun Zhang et al.   NATURE BIOTECHNOLOGY

A Snapshot of Histone Modifications within Transposable Elements in Drosophila Wild Type Strains

(2012) Rita Rebollo et al.   PLoS One

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

(2011) Jerzy Jurka et al.   Biology Direct

Fragmentation and comparative genetic structure of four mediterranean woody species: complex interactions between life history traits and the landscape context

(2011) Abelardo Aparicio et al.   DIVERSITY AND DISTRIBUTIONS

STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method

(2011) Dent A. Earl et al.   Conservation Genetics Resources

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing

(2010) Eva Hřibová et al.   BMC PLANT BIOLOGY

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

Genetic Structure Among 50 Species of the Northeastern Pacific Rocky Intertidal Community

(2010) Ryan P. Kelly et al.   PLoS One

The Sorghum bicolor genome and the diversification of grasses

(2009) Andrew H. Paterson et al.   NATURE

Foxtail Millet: A Sequence-Driven Grass Model System

(2009) A. N. Doust et al.   PLANT PHYSIOLOGY

The B73 Maize Genome: Complexity, Diversity, and Dynamics

(2009) P. S. Schnable et al.   SCIENCE

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

(2009) Samuel Venner et al.   TRENDS IN GENETICS

Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome

(2008) R. S. Baucom et al.   GENOME RESEARCH