Partial sequencing reveals the transposable element composition of Coffea genomes and provides evidence for distinct evolutionary stories

Methods for accurate quantification of LTR-retrotransposon copy number using short-read sequence data: a case study in Sorghum

(2016) Dhanushya Ramachandran et al.   MOLECULAR GENETICS AND GENOMICS

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

Large distribution and high sequence identity of a Copia-type retrotransposon in angiosperm families

(2015) Elaine Silva Dias et al.   PLANT MOLECULAR BIOLOGY

Small RNAs and regulation of transposons in plants

(2015) Hidetaka Ito   GENES & GENETIC SYSTEMS

Control of transposable elements in Arabidopsis thaliana

(2014) Hidetaka Ito et al.   CHROMOSOME RESEARCH

Environmental stress activation of plant long-terminal repeat retrotransposons

(2014) Ahmed M. Alzohairy et al.   FUNCTIONAL PLANT BIOLOGY

Epigenetic Memory for Stress Response and Adaptation in Plants

(2014) Tetsu Kinoshita et al.   PLANT AND CELL PHYSIOLOGY

The coffee genome provides insight into the convergent evolution of caffeine biosynthesis

(2014) F. Denoeud et al.   SCIENCE

Common Wheat Chromosome 5B Composition Analysis Using Low-Coverage 454 Sequencing

(2014) E. M. Sergeeva et al.   Plant Genome

Evolutionary history of the Afro-Madagascan Ixora species (Rubiaceae): species diversification and distribution of key morphological traits inferred from dated molecular phylogenetic trees

(2013) J. Tosh et al.   ANNALS OF BOTANY

The impact of transposable elements in environmental adaptation

(2013) Elena Casacuberta et al.   MOLECULAR ECOLOGY

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

Architecture and evolution of a minute plant genome

(2013) Enrique Ibarra-Laclette et al.   NATURE

BAC-end sequences analysis provides first insights into coffee (Coffea canephora P.) genome composition and evolution

(2013) Alexis Dereeper et al.   PLANT MOLECULAR BIOLOGY

The First 50 Plant Genomes

(2013) Todd P. Michael et al.   Plant Genome

Genetic structure and diversity of coffee (Coffea) across Africa and the Indian Ocean islands revealed using microsatellites

(2012) Norosoa J. Razafinarivo et al.   ANNALS OF BOTANY

Epigenetic control of transposon transcription and mobility in Arabidopsis

(2012) Etienne Bucher et al.   CURRENT OPINION IN PLANT BIOLOGY

Survey Sequencing Reveals Elevated DNA Transposon Activity, Novel Elements, and Variation in Repetitive Landscapes among Vesper Bats

(2012) H. J. T. Pagan 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

Geographical gradients in the genome size variation of wild coffee trees (Coffea) native to Africa and Indian Ocean islands

(2012) Norosoa J. Razafinarivo et al.   Tree Genetics & Genomes

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

Growing coffee: Psilanthus (Rubiaceae) subsumed on the basis of molecular and morphological data; implications for the size, morphology, distribution and evolutionary history of Coffea

(2011) AARON P. DAVIS et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Next Generation Sequencing Reveals Genome Downsizing in Allotetraploid Nicotiana tabacum, Predominantly through the Elimination of Paternally Derived Repetitive DNAs

(2011) S. Renny-Byfield et al.   MOLECULAR BIOLOGY AND EVOLUTION

An efficient and rapid protocol for plant nuclear DNA preparation suitable for next generation sequencing methods

(2010) G. Carrier et al.   AMERICAN JOURNAL OF BOTANY

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

(2010) Eva Hřibová et al.   BMC PLANT BIOLOGY

Network dynamics of eukaryotic LTR retroelements beyond phylogenetic trees

(2009) Carlos Llorens et al.   Biology Direct

Time Tree of Rubiaceae: Phylogeny and Dating the Family, Subfamilies, and Tribes

(2009) Birgitta Bremer et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

Complex pattern of genome size variation in a polymorphic member of the Asteraceae

(2009) Marek Slovák et al.   JOURNAL OF BIOGEOGRAPHY

A whole-genome snapshot of 454 sequences exposes the composition of the barley genome and provides evidence for parallel evolution of genome size in wheat and barley

(2009) Thomas Wicker et al.   PLANT JOURNAL

Evolution of Genome Size and Complexity in Pinus

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

Genome Size Scaling through Phenotype Space

(2008) C. A. Knight et al.   ANNALS OF BOTANY

A new caffeine-free coffee from Cameroon

(2008) PIET STOFFELEN et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY