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TIGP -- A Systematic Approach to Profile Duplicate Genes in Plant Evolution

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TIGP -- A Systematic Approach to Profile Duplicate Genes in Plant Evolution

  • 講者施純傑 博士 (中研院資訊所)
    邀請人:TIGP Bioinformatics Program
  • 時間2012-10-25 (Thu.) 14:00 ~ 15:30
  • 地點資訊所新館106演講廳
摘要

C4 plants evolved from C3 plants through a series of complex evolutionary steps. The evolution of C4 photosynthesis has been  considered a story of gene/whole genome  duplications and subsequent modifications of gene function. If whole-genome duplication has  contributed to the evolution of C4 photosynthesis, many other genes  should have been duplicated together with these C4 genes. However,  which genes were co-duplicated with C4 genes and whether they have  also played a role in C4 evolution are largely unknown. In this talk,  we developed a simple method to characterize the historical profile of  the paralogs of a gene by tracing back to the most recent common  ancestor (MRCA) of the gene and the paralog and then counting the number of paralogs at each MRCA. We clustered the genes into clusters with similar duplication profiles and inferred their functional  enrichments. Applying our method to maize, a familiar C4 plant, we  identified many genes that show similar duplication profiles with  those of the key C4 genes and studied the functional preferences of  the identified genes. Our results indicate that the duplication events of some key C4 genes and their related genes had occurred during  similar time periods. Some of these genes might have co-evolved with  the key C4 genes to increase the strength of C4 photosynthesis.