Looking for Local Adaptation: Convergent Microevolution in Aleppo Pine ( Pinus halepensis ).

Autor: Ruiz Daniels R; Department of Forest Ecology and Genetics, Forest Research Centre, INIA, Carretera A Coruña km 7.5, 28040 Madrid, Spain. rose.daniels@roslin.ed.ac.uk.; The Roslin Institute, The University of Edinburgh, Easter Bush Campus, Midlothian, EH25 9RG Scotland, UK. rose.daniels@roslin.ed.ac.uk., Taylor RS; The Roslin Institute, The University of Edinburgh, Easter Bush Campus, Midlothian, EH25 9RG Scotland, UK. r.taylor@ed.ac.uk.; School of Earth Science, University of Bristol, Bristol Life Sciences Building 24 Tyndall Avenue, Bristol BS8 1TQ, UK. r.taylor@ed.ac.uk., González-Martínez SC; BIOGECO, INRA, Univ. Bordeaux, 33610 Cestas, France. santiago.gonzalez-martinez@inra.fr., Vendramin GG; Institute of Biosciences and Bioresources, National Research Council, I-50019 Sesto Fiorentino, Florence, Italy. giovanni.vendramin@ibbr.cnr.it., Fady B; INRA, URFM, Ecologie des Forêts Méditerranéennes, 84914 Avignon, France. bruno.fady@inra.fr., Oddou-Muratorio S; INRA, URFM, Ecologie des Forêts Méditerranéennes, 84914 Avignon, France. sylvie.muratorio@inra.fr., Piotti A; Institute of Biosciences and Bioresources, National Research Council, I-50019 Sesto Fiorentino, Florence, Italy. rea.piotti@ibbr.cnr.it., Simioni G; INRA, URFM, Ecologie des Forêts Méditerranéennes, 84914 Avignon, France. guillaume.simioni@inra.fr., Grivet D; Department of Forest Ecology and Genetics, Forest Research Centre, INIA, Carretera A Coruña km 7.5, 28040 Madrid, Spain. dgrivet@inia.es., Beaumont MA; School of Earth Science, University of Bristol, Bristol Life Sciences Building 24 Tyndall Avenue, Bristol BS8 1TQ, UK. m.beaumont@bristol.ac.uk.
Jazyk: angličtina
Zdroj: Genes [Genes (Basel)] 2019 Sep 04; Vol. 10 (9). Date of Electronic Publication: 2019 Sep 04.
DOI: 10.3390/genes10090673
Abstrakt: Finding outlier loci underlying local adaptation is challenging and is best approached by suitable sampling design and rigorous method selection. In this study, we aimed to detect outlier loci (single nucleotide polymorphisms, SNPs) at the local scale by using Aleppo pine ( Pinus halepensis ), a drought resistant conifer that has colonized many habitats in the Mediterranean Basin, as the model species. We used a nested sampling approach that considered replicated altitudinal gradients for three contrasting sites. We genotyped samples at 294 SNPs located in genomic regions selected to maximize outlier detection. We then applied three different statistical methodologies-Two Bayesian outlier methods and one latent factor principal component method-To identify outlier loci. No SNP was an outlier for all three methods, while eight SNPs were detected by at least two methods and 17 were detected only by one method. From the intersection of outlier SNPs, only one presented an allelic frequency pattern associated with the elevational gradient across the three sites. In a context of multiple populations under similar selective pressures, our results underline the need for careful examination of outliers detected in genomic scans before considering them as candidates for convergent adaptation.
Databáze: MEDLINE
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