title: Population genomics of Populus trichocarpa identifies signatures of selection and adaptive trait associations.
abstract: Forest trees are dominant components of terrestrial ecosystems that have global ecological and economic importance. Despite distributions that span wide environmental gradients, many tree populations are locally adapted, and mechanisms underlying this adaptation are poorly understood. Here we use a combination of whole-genome selection scans and association analyses of 544 Populus trichocarpa trees to reveal genomic bases of adaptive variation across a wide latitudinal range. Three hundred ninety-seven genomic regions showed evidence of recent positive and/or divergent selection and enrichment for associations with adaptive traits that also displayed patterns consistent with natural selection. These regions also provide unexpected insights into the evolutionary dynamics of duplicated genes and their roles in adaptive trait variation.
authors.affiliation: Department of Biology, West Virginia University, Morgantown, West Virginia, USA.
authors.forename: Luke M
authors.initials: LM
authors.lastname: Evans
authors.affiliation: Institute of Biological, Environmental and Rural Sciences, Aberystwyth University, Aberystwyth, UK.
authors.forename: Gancho T
authors.initials: GT
authors.lastname: Slavov
authors.affiliation: Department of Biology, West Virginia University, Morgantown, West Virginia, USA.
authors.forename: Eli
authors.initials: E
authors.lastname: Rodgers-Melnick
authors.affiliation: The Joint Genome Institute, Walnut Creek, California, USA.
authors.forename: Joel
authors.initials: J
authors.lastname: Martin
authors.affiliation: Plant Systems Biology Group, BioSciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
authors.forename: Priya
authors.initials: P
authors.lastname: Ranjan
authors.affiliation: Plant Systems Biology Group, BioSciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
authors.forename: Wellington
authors.initials: W
authors.lastname: Muchero
authors.affiliation: Department of Forest Resources and Environmental Conservation, Virginia Tech, Blacksburg, Virginia, USA.
authors.forename: Amy M
authors.initials: AM
authors.lastname: Brunner
authors.affiliation: The Joint Genome Institute, Walnut Creek, California, USA.
authors.forename: Wendy
authors.initials: W
authors.lastname: Schackwitz
authors.affiliation: Plant Systems Biology Group, BioSciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
authors.forename: Lee
authors.initials: L
authors.lastname: Gunter
authors.affiliation: Plant Systems Biology Group, BioSciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
authors.forename: Jin-Gui
authors.initials: JG
authors.lastname: Chen
authors.affiliation: 1] The Joint Genome Institute, Walnut Creek, California, USA. [2] Plant Systems Biology Group, BioSciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
authors.forename: Gerald A
authors.initials: GA
authors.lastname: Tuskan
authors.affiliation: Department of Biology, West Virginia University, Morgantown, West Virginia, USA.
authors.forename: Stephen P
authors.initials: SP
authors.lastname: DiFazio
mesh_terms: D000222:Adaptation, Physiological / Q000235:genetics*; D001955:British Columbia; D002874:Chromosome Mapping; D032461:Chromosomes, Plant / Q000235:genetics; D019143:Evolution, Molecular; D020440:Gene Duplication; D017343:Genes, Plant / Q000235:genetics; D014644:Genetic Variation; D005828:Genetics, Population; D018745:Genome, Plant / Q000235:genetics; D023281:Genomics / Q000379:methods*; D005838:Genotype; D005843:Geography; D015810:Linkage Disequilibrium; D010940:Plant Proteins / Q000235:genetics; D020641:Polymorphism, Single Nucleotide; D032107:Populus / Q000145:classification / Q000235:genetics*; D012641:Selection, Genetic; D014861:Washington
chemical_list: D010940:Plant Proteins