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Genome-scale phylogenetic analysis finds extensive gene transfer among fungi

G.J. Szollosi 1 Adrián Davin 2 Eric Tannier 3, 4 Vincent Daubin 3 Bastien Boussau 3
4 BEAGLE - Artificial Evolution and Computational Biology
LIRIS - Laboratoire d'InfoRmatique en Image et Systèmes d'information, Inria Grenoble - Rhône-Alpes, LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558
Abstract : Although the role of lateral gene transfer is well recognized in the evolution ofbacteria, it is generally assumed that it has had less influence among eukaryotes.To explore this hypothesis, we compare the dynamics of genome evolution intwo groups of organisms: cyanobacteria and fungi. Ancestral genomes areinferred in both clades using two types of methods: first, Count, a gene tree unawaremethod that models gene duplications, gains and losses to explain theobserved numbers of genes present in a genome; second, ALE, a more recentgene tree-aware method that reconciles gene trees with a species tree using amodel of gene duplication, loss and transfer. We compare their merits andtheir ability to quantify the role of transfers, and assess the impact of taxonomicsampling on their inferences. We present what we believe is compellingevidence that gene transfer plays a significant role in the evolution of fungi.
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https://hal.archives-ouvertes.fr/hal-01218565
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Submitted on : Wednesday, October 21, 2015 - 1:34:45 PM
Last modification on : Tuesday, July 20, 2021 - 5:20:05 PM

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G.J. Szollosi, Adrián Davin, Eric Tannier, Vincent Daubin, Bastien Boussau. Genome-scale phylogenetic analysis finds extensive gene transfer among fungi. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences (1934–1990), Royal Society, The, 2015, 370, 20140335 (11 p.). ⟨10.1098/rstb.2014.0335⟩. ⟨hal-01218565⟩

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