Nanopore Community Meeting 2017
Metropolitan Pavilion, 125 W 18th St, New York City
30th November - 1st December
Pre-meeting workshop 29th November
At the sequencing core facility of Toulouse (Get-PlaGe - France), we started to work with 3rd generation sequencers in 2015 with the installation of a PacBio RSII machine. Since almost three years, we have gained experience in library preparation for this type of sequencing, which is largely different from the library preparation for 2nd sequencing generation technologies (Illumina). In particular, because the native molecules are directly sequenced, a very high quality DNA is required. In addition, we assessed several optional steps in the library preparation process such as DNA reparations, fragmentation and size selection. In line with this, preliminary results for de novo sequencing obtained with the Nanopore technology and assembly of several strains of the phytopathogenic bacterial species Xanthomonas campestris isolated from natural populations of Arabidopsis thaliana will be presented. Finally, the results on the assembly of a new reference genome of A. thaliana will also be introduced.
Baptiste obtained a Master degree in Biotechnology from the University of Limoges (France) in 2010. Then, he spent 2 years at the seed company Limagrain Europe (France) to study Copy Number Variations in maize and to develop molecular markers in various crops. In 2012, he joined the Laboratory of Plant-Microbe Interactions (French National Institute for Agricultural Research) in Toulouse (France) to work on the genetics and genomics of sunflower. He especially produced the PacBio data for the sunflower reference genome that has been released in 2017. Since September 2015, he has a position in the group of Fabrice Roux to work on the ecological genomics of adaptation in plant communities. He now uses the Nanopore technology to sequence bacterial strains and different genetic lines of the model plant Arabidopsis thaliana to answer different ecological questions related to the adaptation of A. thaliana to its microbiota and plant communities.