Consulta: creatorFacets:"Aliaga, Benoit"
Registros recuperados: 4
Data/hora: 07/06/2024 05:39:54

Notos - a galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types
Provedor de dados: 5
Autores: Bulla, Ingo; Aliaga, Benoit; Lacal, Virginia; Bulla, Jan; Grunau, Christoph; Chaparro, Cristian.
Background: DNA methylation patterns store epigenetic information in the vast majority of eukaryotic species. The relatively high costs and technical challenges associated with the detection of DNA methylation however have created a bias in the number of methylation studies towards model organisms. Consequently, it remains challenging to infer kingdom-wide general rules about the functions and evolutionary conservation of DNA methylation. Methylated cytosine is often found in specific CpN dinucleotides, and the frequency distributions of, for instance, CpG observed/expected (CpG o/e) ratios have been used to infer DNA methylation types based on higher mutability of methylated CpG. Results: Predominantly model-based approaches essentially founded on...
Tipo: Text
Palavras-chave: Epigenetics; DNA methylation; Kernel density estimation; CpG o/e ratio; CpN o/e ratio.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00437/54816/71790.pdf

Histone methylation changes are required for life cycle progression in the human parasite Schistosoma mansoni
Provedor de dados: 5
Autores: Roquis, David; Taudt, Aaron; Geyer, Kathrin K.; Padalino, Gilda; Hoffmann, Karl F.; Holroyd, Nancy; Berriman, Matt; Aliaga, Benoit; Chaparro, Cristian; Grunau, Christoph; De Carvalho Augusto, Ronaldo.
Epigenetic mechanisms and chromatin structure play an important role in development. Their impact is therefore expected to be strong in parasites with complex life cycles and multiple, strikingly different, developmental stages, i.e. developmental plasticity. Some studies have already described how the chromatin structure, through histone modifications, varies from a developmental stage to another in a few unicellular parasites. While H3K4me3 profiles remain relatively constant, H3K27 trimethylation and bivalent methylation show strong variation. Inhibitors (A366 and GSK343) of H3K27 histone methyltransferase activity in S. mansoni efficiently blocked miracidium to sporocyst transition indicating that H3K27 trimethylation is required for life cycle...
Tipo: Text
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00445/55690/71773.s001

Universality of the DNA methylation codes in Eucaryotes
Provedor de dados: 5
Autores: Aliaga, Benoit; Bulla, Ingo; Mouahid, Gabriel; Duval, David; Grunau, Christoph.
provides just a set of environment dependent instructions, or whether it is integral part of an inheritance system. We argued that in the latter case the epigenetic code should share the universality quality of the genetic code. We focused on DNA methylation. Since availability of DNA methylation data is biased towards model organisms we developed a method that uses kernel density estimations of CpG observed/expected ratios to infer DNA methylation types in any genome. We show here that our method allows for robust prediction of mosaic and full gene body methylation with a PPV of 1 and 0.87, respectively. We used this prediction to complement experimental data, and applied hierarchical clustering to identify methylation types in similar to 150 eucaryotic...
Tipo: Text
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00479/59040/61671.pdf

Epigenetic origin of adaptive phenotypic variants in the human blood fluke Schistosoma mansoni
Provedor de dados: 5
Autores: Fneich, Sara; Theron, Andre; Cosseau, Celine; Rognon, Anne; Aliaga, Benoit; Buard, Jerome; Duval, David; Arancibia, Nathalie; Boissier, Jerome; Roquis, David; Mitta, Guillaume; Grunau, Christoph.
Background: Adaptive evolution is not possible without the generation of phenotypic variants. The origin of these variations has been a central topic in evolutionary biology. Up to now, it was commonly accepted that standing genetic variation is the only cause of phenotypic variants. However, epigenetic information is emerging as a complementary source of heritable phenotypic variation that contributes to evolution. The relative importance of genetics and epigenetics in generating heritable phenotypic variation is nevertheless a matter of debate. Results: We used a host-parasite system to address this question. The human blood fluke Schistosoma mansoni can adapt rapidly to new intermediate snail hosts. The interaction between parasite and mollusk is...
Tipo: Text
Palavras-chave: Epigenetics; Adaptive evolution; Compatibility polymorphism; Schistosoma mansoni.
Ano: 2016
URL: https://archimer.ifremer.fr/doc/00615/72708/71730.pdf