BRINGAUD, Frederic; ROGERS, Matthew; GHEDIN, Elodie

doi:10.1007/978-1-4939-1438-8_6

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BRINGAUD, Frederic
Centre de résonance magnétique des systèmes biologiques [CRMSB]

ROGERS, Matthew

GHEDIN, Elodie

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Ce document a été publié dans

Methods in Molecular Biology. 2015-01-01, vol. 1201, p. 109-22

Résumé en anglais

Transposable elements (TE), defined as discrete pieces of DNA that can move from one site to another site in genomes, represent significant components of eukaryotic genomes, including trypanosomatids. Up to 5% of the trypanosomatid genome content is composed of retroposons of the ingi clade, further divided into subclades and subfamilies ranging from short extinct truncated elements (SIDER) to long active elements (ingi). Important differences in ingi-related retroposon content have been reported between trypanosomatid species. For instance, Leishmania spp. have expanded and recycled a whole SIDER family to fulfill an important biological pathway, i.e., regulation of gene expression, while trypanosome genomes are primarily composed of active elements. Here, we present an overview of the computational methods used to identify, annotate, and analyze ingi-related retroposons for providing a comprehensive picture of all these TE families in newly available trypanosomatid genome sequences.< Réduire

Mots clés en anglais

Algorithms

DNA Transposable Elements

Evolution

Molecular

Genome

Protozoan

Genomics

Molecular Sequence Annotation

Phylogeny

Retroelements

Software

Trypanosomatina