We aim at finding all the mobile elements in a genome and understanding their dynamic behavior. Comparative genomics of closely related organisms can provide the data for this kind of investigation. The comparison task requires a huge amount of computational resources, which in our approach we alleviate by exploiting the high similarity between homologous chromosomes of different strains of the same species. Our case study is for Ref Seq and two other strains of S. cerevisiæ. Our fast algorithm, called REGENDER, is driven by data analysis. We found that almost all the chromosomes are composed by resident genome (more than 90% is conserved). Most importantly, the inspection of the non-conserved regions revealed that these are putative mobile elements, thus confirming that our method is useful to quickly find mobile elements. The software tool REGENDER is available online.
INFERRING MOBILE ELEMENTS IN S. CEREVISIAE STRAINS
GROSSI, ROBERTO;PISANTI, NADIA;MARANGONI, ROBERTO
2011-01-01
Abstract
We aim at finding all the mobile elements in a genome and understanding their dynamic behavior. Comparative genomics of closely related organisms can provide the data for this kind of investigation. The comparison task requires a huge amount of computational resources, which in our approach we alleviate by exploiting the high similarity between homologous chromosomes of different strains of the same species. Our case study is for Ref Seq and two other strains of S. cerevisiæ. Our fast algorithm, called REGENDER, is driven by data analysis. We found that almost all the chromosomes are composed by resident genome (more than 90% is conserved). Most importantly, the inspection of the non-conserved regions revealed that these are putative mobile elements, thus confirming that our method is useful to quickly find mobile elements. The software tool REGENDER is available online.I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.
