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Open AccessPopulation-scale long-read sequencing uncovers transposable elements associated with gene expression variation and adaptive signatures in Drosophila
High quality reference genomes are crucial to understanding genome function, structure and evolution. The availability of reference genomes has allowed us to start inferring the role of genetic variation in bi...
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Open AccessTE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation
Transposable elements (TEs) play powerful and varied evolutionary and functional roles, and are widespread in most eukaryotic genomes. Research into their unique biology has driven the creation of a large coll...
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Open AccessTwenty years of transposable element analysis in the Arabidopsis thaliana genome
Transposable elements (TEs) are mobile repetitive DNA sequences shown to be major drivers of genome evolution. As the first plant to have its genome sequenced and analyzed at the genomic scale, Arabidopsis thalia...
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Open AccessRepetDB: a unified resource for transposable element references
Thanks to their ability to move around and replicate within genomes, transposable elements (TEs) are perhaps the most important contributors to genome plasticity and evolution. Their detection and annotation a...
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Open AccessLinking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data
The Wheat@URGI portal has been developed to provide the international community of researchers and breeders with access to the bread wheat reference genome sequence produced by the International Wheat Genome S...
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Article
Open AccessOak genome reveals facets of long lifespan
Oaks are an important part of our natural and cultural heritage. Not only are they ubiquitous in our most common landscapes1 but they have also supplied human societies with invaluable services, including food an...
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Open AccessThe Rosa genome provides new insights into the domestication of modern roses
Roses have high cultural and economic importance as ornamental plants and in the perfume industry. We report the rose whole-genome sequencing and assembly and resequencing of major genotypes that contributed t...
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Open AccessTwo genomes of highly polyphagous lepidopteran pests (Spodoptera frugiperda, Noctuidae) with different host-plant ranges
Emergence of polyphagous herbivorous insects entails significant adaptation to recognize, detoxify and digest a variety of host-plants. Despite of its biological and practical importance - since insects eat 20...
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Open AccessHigh-quality de novo assembly of the apple genome and methylome dynamics of early fruit development
Etienne Bucher and colleagues use a combination of short- and long-read sequencing, along with optical map** technologies, to produce the high-quality de novo assembly of the apple genome. They identify a new r...
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Open AccessEvolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus
The genome of the Southern Ocean phytoplankton Fragilariopsis cylindrus differs markedly from the genomes of its more temperate relatives, with divergent alleles being differentially expressed in environmentally ...
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Open AccessInternational Congress on Transposable elements (ICTE 2016) in Saint Malo: mobile elements under the sun of Brittany
The third international conference on Transposable Elements (ICTE) was held 16–19 April 2016 in Saint Malo, France. Organized by the French Transposition Community (Research group of the CNRS: “Mobile genetic ...
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Open AccessComprehensive repeatome annotation reveals strong potential impact of repetitive elements on tomato ripening
Plant genomes are populated by different types of repetitive elements including transposable elements (TEs) and simple sequence repeats (SSRs) that can have a strong impact on genome size and dynamic as well a...
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Open AccessErratum to: Understanding Brassicaceae evolution through ancestral genome reconstruction
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Open AccessUnderstanding Brassicaceae evolution through ancestral genome reconstruction
Brassicaceae is a family of green plants of high scientific and economic interest, including thale cress (Arabidopsis thaliana), cruciferous vegetables (cabbages) and rapeseed.
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Open AccessEvolution of the EKA family of powdery mildew avirulence-effector genes from the ORF 1 of a LINE retrotransposon
The Avrk1 and Avra10 avirulence (AVR) genes encode effectors that increase the pathogenicity of the fungus Blumeria graminis f.sp. hordei (Bgh), the powdery mildew pathogen, in susceptible barley plants. In resis...
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Open AccessA call for benchmarking transposable element annotation methods
DNA derived from transposable elements (TEs) constitutes large parts of the genomes of complex eukaryotes, with major impacts not only on genomic research but also on how organisms evolve and function. Althoug...
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Open AccessSex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus
The genus Microbotryum includes plant pathogenic fungi afflicting a wide variety of hosts with anther smut disease. Microbotryum lychnidis-dioicae infects Silene latifolia and replaces host pollen with fungal spo...
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Open AccessWhole genome comparative analysis of transposable elements provides new insight into mechanisms of their inactivation in fungal genomes
Transposable Elements (TEs) are key components that shape the organization and evolution of genomes. Fungi have developed defense mechanisms against TE invasion such as RIP (Repeat-Induced Point mutation), MIP...
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Open AccessThe oak gene expression atlas: insights into Fagaceae genome evolution and the discovery of genes regulated during bud dormancy release
Many northern-hemisphere forests are dominated by oaks. These species extend over diverse environmental conditions and are thus interesting models for studies of plant adaptation and speciation. The genomic to...
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Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation
Despite evolutionary conserved mechanisms to silence transposable element activity, there are drastic differences in the abundance of transposable elements even among closely related plant species. We conducte...
