bioRxiv preprint doi: https://doi.org/10.1101/844175; this version posted November 16, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. A complete time-calibrated multi-gene phylogeny of the European butterflies Martin Wiemers1,2*, Nicolas Chazot3,4,5, Christopher W. Wheat6, Oliver Schweiger2, Niklas Wahlberg3 1Senckenberg Deutsches Entomologisches Institut, Eberswalder Straße 90, 15374 Müncheberg, Germany 2UFZ – Helmholtz Centre for Environmental Research, Department of Community Ecology, Theodor- Lieser-Str. 4, 06120 Halle, Germany 3Department of Biology, Lund University, 22362 Lund, Sweden 4Department of Biological and Environmental Sciences, University of Gothenburg, Box 461, 405 30 Gothenburg, Sweden. 5Gothenburg Global Biodiversity Centre, Box 461, 405 30 Gothenburg, Sweden. 6Department of Zoology, Stockholm University, 10691 Stockholm, Sweden *corresponding author: e-mail:
[email protected] Abstract With the aim of supporting ecological analyses in butterflies, the third most species-rich superfamily of Lepidoptera, this paper presents the first time-calibrated phylogeny of all 496 extant butterfly species in Europe, including 18 very localized endemics for which no public DNA sequences had been available previously. It is based on a concatenated alignment of the mitochondrial gene COI and up to 11 nuclear gene fragments, using Bayesian inference of phylogeny. To avoid analytical biases that could result from our region-focus sampling, our European tree was grafted upon a global genus- level backbone butterfly phylogeny for analyses. In addition to a consensus tree, we provide the posterior distribution of trees and the fully-concatenated alignment for future analyses.