Please use this identifier to cite or link to this item: https://www.arca.fiocruz.br/handle/icict/20997
Title: VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
Authors: Wallau, Gabriel Luz
Capy, Pierre
Loreto, Elgion
Le Rouzic, Arnaud
Hua-Van, Aurélie
Affilliation: Fundação Oswaldo Cruz. Instituto Aggeu Magalhães. Recife, PE, Brasil
Abstract: Transposable elements (TEs) are genomic repeated sequences that display complex evolutionary patterns. They are usually inherited vertically, but can occasionally be transmitted between sexually independent species, through so-called horizontal transposon transfers (HTTs). Recurrent HTTs are supposed to be essential in life cycle of TEs, which are otherwise destined for eventual decay. HTTs also impact the host genome evolution. However, the extent of HTTs in eukaryotes is largely unknown, due to the lack of efficient, statistically supported methods that can be applied to multiple species sequence data sets. Here, we developed a new automated method available as a R package "vhica" that discriminates whether a given TE family was vertically or horizontally transferred, and potentially infers donor and receptor species. The method is well suited for TE sequences extracted from complete genomes, and applicable to multiple TEs and species at the same time. We first validated our method using Drosophila TE families with well-known evolutionary histories, displaying both HTTs and vertical transmission. We then tested 26 different lineages of mariner elements recently characterized in 20 Drosophila genomes, and found HTTs in 24 of them. Furthermore, several independent HTT events could often be detected within the same mariner lineage. The VHICA (Vertical and Horizontal Inheritance Consistence Analysis) method thus appears as a valuable tool to analyze the evolutionary history of TEs across a large range of species.
Keywords: DNA Transposable Elements
DNA-Binding Proteins
Drosophila
genetics
Gene Transfer, Horizontal
Animals
Evolution, Molecular
Genomics
Genetic Variation
Phylogeny
Species Specificity
Transposases
keywords: Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
DeCS: Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
Evolução Molecular
Animais
Genômica
Variação Genética
Filogenia
Especificidade da Espécie
Transposases
Issue Date: 2016
Citation: WALLAU, G. L. et al. VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila. Molecular Biology and Evolution, v. 33, n. 4, p. 1094–1109, abr. 2016.
DOI: 10.1093/molbev/msv341
ISSN: 1537-1719
Copyright: open access
Appears in Collections:IAM - Artigos de Periódicos

Files in This Item:
File Description SizeFormat 
1537-1719 2015 wal-vhi.oa.pdf1.64 MBAdobe PDFView/Open


FacebookTwitterDeliciousLinkedInGoogle BookmarksBibTex Format mendeley Endnote DiggMySpace

Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.