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Ghost lineages invalidate or reverse several results on gene flow

Abstract : Abstract Introgression, endosymbiosis and gene transfer, i.e . Horizontal Gene Flow (HGF), are primordial sources of innovation in all domains of life. Our knowledge on HGF relies on detection methods that exploit some of its signatures left on extant genomes. One of them is the effect of HGF on branch lengths of constructed phylogenies. This signature has been formalized in statistical tests for HGF detection, and used for example to detect massive adaptive gene flows in malaria vectors or to order evolutionary events involved in eukaryogenesis. However these studies rely on the assumption that ghost lineages (all unsampled extant and extinct taxa) have little influence. We demonstrate here with simulations and data re-analysis, that when considering the more realistic condition that unsampled taxa are legion compared to sampled ones, the conclusion of these studies become unfounded or even reversed. This illustrates the necessity to recognize the existence of ghosts in evolutionary studies.
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Preprints, Working Papers, ...
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Contributor : Eric Tannier Connect in order to contact the contributor
Submitted on : Monday, March 21, 2022 - 9:12:30 AM
Last modification on : Wednesday, March 23, 2022 - 3:32:11 AM

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Théo Tricou, Eric Tannier, Damien de Vienne. Ghost lineages invalidate or reverse several results on gene flow. 2022. ⟨hal-03614686⟩



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