Big genomes & Assembly
Team leader: Peixiang Ni, Jianguo Zhang, Dongyuan Liu
Many organisms have very complex genomes. How to assemble short sequencing reads to an entire and accurate reference genome is big challenge in the field of bioinformatics. Our group is working on de novo showing accurate assembly at an acceptable computational cost, basing on short sequencing reads generated by the next-generation sequencer. The latest revolution in the DNA sequencing field has been brought about by the development of automated sequencers, but applications of such technologies seem to be limited to resequencing and transcript discovery. Employing several algorithms have been post with different assemblers recently, we'll demonstrate the feasibility of de nove assembly using Solexa reads during illustration. A compromise strategy is applied for the highly repetitive genome, other than sequencing errors and the assembly of reads containing mismatches. We use tools developed by Dr. Zhu Hongmei's group to assemble novel genomes according to their different characters.
1. Cucumber genome project: The assembly of cucumber genome by a compromise strategy
2. Potato genome project: The assembly of potato genome