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Model-based Identification of Helitrons Results in a New Classification of Their Families in Arabidopsis thaliana
Abstract : Helitrons are a class of prolific transposable elements in the Arabidopsis thaliana genome. Although 37 families were identified after the recent discovery of helitrons, no systematic classification is available, because of the high variability of helitronic sequences. Since transposition proteins are supposed to interact with helitron termini, we have formalized a model of helitron based on the characterization of termini in order to carry out an exhaustive analysis of the presence of all the possible combinations of couples of these termini. This combinatorics approach resulted in the discovery of a number of novel helitron elements corresponding to associations of termini from distinct previously-described helitron families. The matrix of occurrences of termini combinations yielded a structure that revealed clusters of helitron families. This sheds light on the history of their invasion of the Arabidopsis thaliana genome.
Cited literature [30 references]
https://hal.inria.fr/inria-00180376
Contributor : Jacques Nicolas Connect in order to contact the contributor
Submitted on : Thursday, October 18, 2007 - 8:14:54 PM
Last modification on : Wednesday, May 11, 2022 - 4:03:50 AM
Long-term archiving on: : Sunday, April 11, 2010 - 11:17:24 PM
Contributor : Jacques Nicolas Connect in order to contact the contributor
Submitted on : Thursday, October 18, 2007 - 8:14:54 PM
Last modification on : Wednesday, May 11, 2022 - 4:03:50 AM
Long-term archiving on: : Sunday, April 11, 2010 - 11:17:24 PM
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