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18 décembre 2023
- doi: 10.57745/TOO1JS
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Joëlle Amselem et al., « Transposable element annotation of Colletotrichum destructivum Cd709 », Recherche Data Gouv, ID : 10.57745/TOO1JS
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Transposable elements (TEs) were annotated on genome assembly of Colletotrichum destructivum Cd709 (accession numbers CP080979-CP080996), using the REPET package ( Amselem et al., 2015 ). Briefly, the TEDENOVO pipeline ( Flutre et al., 201) was used to detect repeated elements in the genome and to provide a consensus sequence for each family. Consensus sequences were then classified using the PASTEC tool ( Hoede et al., 2014), based on the Wicker hierarchical TE classification system ( Wicker et al., 2007). After manual correction, the resulting library of consensus sequences was used to annotate TE copies in the whole genome using the TEANNOT pipeline ( Quesneville et al., 2005). The TE annotation allowed to identification of 49 subfamily elements according to the Wicker classification, covering 6.2% of the genome of Cd709. More information on Colletotrichum destructivum genome CD709 can be retrieved at