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Alioto, T.

Publications and source records attributed to Alioto, T..

2 recordsLinked to original sources

De novo assembly and annotation of the larval transcriptome of two spadefoot toads widely divergent in developmental rate

Introduction Introduction Methods Results and Discussion Conclusion Data and materials References Most amphibian species exhibit a complex life-cycle including two or more life stages separated by an ontogenetic switch point such as hatching or metamorphosis. Adaptations to divergent environments can require the modification of the timing of such switch points and the relative investment in growth and differentiation between subsequent stages [1]. Such alterations of developmental trajectories, however, often have substantial repercussions at several organismal levels, from physiology to morphology and even genomic structure. Adaptive divergence in developmental rate tracking aquatic habitats of different duration in spadefoot toads is a well-known example of this. Spadefoot toads from Europe and ...

genomics

Selective single molecule sequencing and assembly of a human Y chromosome of African origin

Mammalian Y chromosomes are often neglected from genomic analysis. Due to their inherent assembly difficulties, high repeat content, and large ampliconic regions1, only a handful of species have their Y chromosome properly characterized. To date, just a single human reference quality Y chromosome, of European ancestry, is available due to a lack of accessible methodology2-5. To facilitate the assembly of such complicated genomic territory, we developed a novel strategy to sequence native, unamplified flow sorted DNA on a MinION nanopore sequencing device. Our approach yields a highly continuous and complete assembly of the first human Y chromosome of African origin. It constitutes a significant improvement over comparable previous methods, increasing continuity by more than 800%6, thus allowing a chromosome scale analysis of human Y chromosomes. Sequencing native DNA also allows to take advantage of the nanopore signal data to detect epigenetic modifications in situ7. This approach is in theory generalizable to any species simplifying the assembly of extremely large and repetitive genomes.

genomics