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Analyzing Horizontal Transfer of Transposable Elements on a Large Scale: Challenges and Prospects
Author(s) -
Peccoud Jean,
Cordaux Richard,
Gilbert Clément
Publication year - 2018
Publication title -
bioessays
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.175
H-Index - 184
eISSN - 1521-1878
pISSN - 0265-9247
DOI - 10.1002/bies.201700177
Subject(s) - genome , evolutionary biology , transposable element , biology , multicellular organism , horizontal gene transfer , workaround , range (aeronautics) , scale (ratio) , mobile genetic elements , genetics , computational biology , computer science , geography , gene , materials science , composite material , programming language , cartography
Whoever compares the genomes of distantly related species might find aberrantly high sequence similarity at certain loci. Such anomaly can only be explained by genetic material being transferred through other means than reproduction, that is, a horizontal transfer (HT). Between multicellular organisms, the transferred material will likely turn out to be a transposable element (TE). Because TEs can move between loci and invade chromosomes by replicating themselves, HT of TEs (HTT) profoundly impacts genome evolution. Yet, very few studies have quantified HTT at large taxonomic scales. Indeed, this task currently faces difficulties that range from the variable quality of available genome sequences to limitations of analytical procedures, some of which have been overlooked. Here we review the many challenges that an extensive analysis of HTT must overcome, we expose biases and limits of current methods, suggest solutions or workarounds, and reflect upon approaches that could be developed to better quantify this phenomenon.