Genome-wide patterns of differentiation and spatially varying selection between postglacial recolonization lineages of Populus alba (Salicaceae), a widespread forest tree
| Autor: | Stefano Castiglione, Christian Lexer, Dénes Bartha, Cécile Meier, Berthold Heinze, Margot Paris, Kai N. Stölting |
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| Rok vydání: | 2014 |
| Předmět: |
Divergence continuum
Physiology Plant Science Biology Forests Adaptation Divergent selection Population genomics Populus Postglacial recolonization Selective sweep Whole-genome sequencing Genes Plant Genome Polymorphism Single Nucleotide Trees symbols.namesake Genetic variation Ice Cover Selection Genetic Genetic Association Studies Phylogeny Sanger sequencing Genetics Whole genome sequencing Genetic diversity Hungary Genetic Variation Reproducibility of Results Sequence Analysis DNA 15. Life on land Gene Ontology Italy symbols Microsatellite Genome Plant Microsatellite Repeats |
| Zdroj: | The New phytologist. 207(3) |
| ISSN: | 1469-8137 |
| Popis: | Summary Studying the divergence continuum in plants is relevant to fundamental and applied biology because of the potential to reveal functionally important genetic variation. In this context, whole-genome sequencing (WGS) provides the necessary rigour for uncovering footprints of selection. We resequenced populations of two divergent phylogeographic lineages of Populus alba (n = 48), thoroughly characterized by microsatellites (n = 317), and scanned their genomes for regions of unusually high allelic differentiation and reduced diversity using > 1.7 million single nucleotide polymorphisms (SNPs) from WGS. Results were confirmed by Sanger sequencing. On average, 9134 high-differentiation (≥ 4 standard deviations) outlier SNPs were uncovered between populations, 848 of which were shared by ≥ three replicate comparisons. Annotation revealed that 545 of these were located in 437 predicted genes. Twelve percent of differentiation outlier genome regions exhibited significantly reduced genetic diversity. Gene ontology (GO) searches were successful for 327 high-differentiation genes, and these were enriched for 63 GO terms. Our results provide a snapshot of the roles of ‘hard selective sweeps’ vs divergent selection of standing genetic variation in distinct postglacial recolonization lineages of P. alba. Thus, this study adds to our understanding of the mechanisms responsible for the origin of functionally relevant variation in temperate trees. |
| Databáze: | OpenAIRE |
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