Genome sequences are key resources to understand functional processes and divergent trait evolution within and between different species. Within http://ceplas.eu, many high-quality genome assemblies of closely related species of the Brassicaceae and other plant families are being generated. This makes it possible, in principle, to reveal intra-family similarities and structural variations from pairwise whole-genome alignments (WGA) as a major step towards family pangenome representations. However, even though efficient whole-genome alignment solutions exist there are no computational approaches that would annotate all genomic differences including the obvious hierarchy ranging from small single nucleotide changes to large complex rearrangements. The project will therefore extend SyRI, an existing algorithm for genome-wide structural rearrangement identification to solve this efficiently.
Qualifications needed: good algorithmic background, programming skills, basic knowledge in bioinformatics, Plus: experience with genomic data and/or plant genomics
Contact persons: Gunnar Klau (HHU), Korbinian Schneeberger (MPI)