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Inconsistent estimates of hybridization frequency in newts revealed by SNPs and microsatellites

View ORCID ProfileAurélien Miralles, View ORCID ProfileJean Secondi, View ORCID ProfileMaciej Pabijan, View ORCID ProfileWiesław Babik, View ORCID ProfileChristophe Lemaire, View ORCID ProfilePierre-André Crochet
doi: https://doi.org/10.1101/2023.01.21.525005
Aurélien Miralles
1Zoological Institute, Braunschweig University of Technology, Mendelssohnstr. 4, Braunschweig, 38106, Germany
2Institut de Systématique, Evolution, Biodiversité, (UMR 7205 Muséum National d’Histoire Naturelle, CNRS UPMC EPHE, Sorbonne Universités), CP30, 25 Rue Cuvier, 75005, Paris, France
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  • For correspondence: miralles.skink@gmail.com
Jean Secondi
3Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR 5023 LEHNA, F-69622, Villeurbanne, France
4Faculté des Sciences, Université d’Angers, 2 Bd de Lavoisier, 49000 Angers, France
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Maciej Pabijan
5Institute of Zoology and Biomedical Research, Faculty of Biology, Jagiellonian University, Gronostajowa 9, 30-387 Kraków, Poland
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Wiesław Babik
6Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, Gronostajowa 7, 30-387 Kraków, Poland
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Christophe Lemaire
7Université d’Angers, Institut Agronomique Rennes-Angers, INRAE, IRHS, SFR, QUASAV, 49000 Angers, France
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Pierre-André Crochet
8CEFE, CNRS, Univ Montpellier, EPHE, IRD, Montpellier, France
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Abstract

Hybridization between the European smooth and palmate newts has recurrently been mentioned in the literature. The only two studies that attempted to quantify the frequency of hybridization and gene admixture between these two species came to strikingly opposite conclusions. According to Arntzen et al (1998, 42 allozymes), hybrids are rare in nature and introgression negligible, while according to Johanet et al (2011, 6 microsatellites), introgressive hybridization is significant and widespread across the shared distribution range. To clarify this question, we implemented high-throughput SNP genotyping with diagnostic biallelic SNPs on 965 specimens sampled across Europe. Our results are in line with Arntzen et al, since only two F1 hybrids were identified in two distinct French localities, and no further hybrid generations or backcrosses. Moreover, reanalysis of 78 of the samples previously studied by Johanet et al. (2011) using our SNPs panel could not reproduce their results, suggesting that microsatellite-based inference overestimated the hybridization frequency between these two species. Since we did not detect methodological issues with the analyses of Johanet et al., our results suggest that SNP approaches outperform microsatellite-based assessments of hybridization frequency, and that conclusions previously published on this topic with a small number of microsatellite loci should be taken with caution, and ideally be repeated with an increased genomic coverage.

Competing Interest Statement

The authors have declared no competing interest.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted January 21, 2023.
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Inconsistent estimates of hybridization frequency in newts revealed by SNPs and microsatellites
Aurélien Miralles, Jean Secondi, Maciej Pabijan, Wiesław Babik, Christophe Lemaire, Pierre-André Crochet
bioRxiv 2023.01.21.525005; doi: https://doi.org/10.1101/2023.01.21.525005
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Inconsistent estimates of hybridization frequency in newts revealed by SNPs and microsatellites
Aurélien Miralles, Jean Secondi, Maciej Pabijan, Wiesław Babik, Christophe Lemaire, Pierre-André Crochet
bioRxiv 2023.01.21.525005; doi: https://doi.org/10.1101/2023.01.21.525005

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