0 avis
Unraveling the Retrotranspositional Landscape of Rice at Species Level using 3000 Genomes
Archive ouverte
Edité par CCSD -
International audience. Rice, Oryza sativa, is the staple food for half the world population. It is the first crop the genome of which was sequenced ten years ago (IRGSP 2005). The availability of large genomic datasets made possible by the cost-effectiveness of next generation sequencing (NGS) provides the opportunity to study genome evolution at the species level at an unprecedented scale. In rice, the release of such data for 3,000 varieties is a breakthrough in crop genomics, giving access to the genetic diversity of the whole cultivated gene pool in a single dataset. We took advantage of this resource to unravel the retrotranspositional landscape of rice.We developed a new software, TRACKPOSON, specifically designed for the detection of transposable elements insertion polymorphisms (TIPs) from large datasets and applied it to 31 families of retrotransposons. Our results show that most polymorphisms are found at very low frequencies in rice germplasm, which suggests that they occurred recently, in agro. Using a genome-wide association studies, we also show that the activation of transposition in rice is probably triggered by an external stimulus, rather than by the impediment of a silencing pathway. We also used the TIPs dataset to trace the origin of rice domestication and confirm that rice originated from two distinct domestication events.
Consulter en ligne
Suggestions
Du même auteur
