Next-generation sequencing bioinformatics
Genome-wide SNPs and structural genome variation in Brassica napus
I am working on the two crops Brassica napus and Sorghum bicolor.
Sorghum is a promising alternative to maize for bioenergy production in Europe; however its use is still limited by poor adaption to low temperature during and after germination. Within the multinational European project ERANET-GAS we are developing and applying genomic tools for bio-energy sorghum breeding. A major aim is utilization of genomic prediction strategies to identify and implement genetic variation associated with key adaptive and energy-related traits for European energy sorghum. Among the main target traits are early-stage chilling tolerance and dry matter yield.
In Brassica napus we investigate polyploidization-associated genome-wide sequence polymorphisms and structural genome variations, particularly homeologous nonreciprocal translocations (HNRT). Therefore we re-sequenced 27 adapted and 17 resynthesized Brassica napus lines with diverse parental background. As genomes of allopolyploid species have, due to their high rate of redundancy, special requirements for high throughput data analysis we developed adapted pipelines for the bioinformatics analysis of the sequencing data. On one hand we use these data for evolutionary studies on the origins and consequences in allopolyploidisation and on the other hand for analyzing the putative impact of these exchanges on agronomic important traits.
Additionally we establish bioinformatics pipelines for the analysis of SNP microarrays in polyploid species including the array-based prediction of copy number variations.
Bioinformatics analysis of polyploid species
Homeologous nonreciprocal translocation
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