1. Exome resequencing and GWAS for growth, ecophysiology, and chemical and metabolomic composition of wood of Populus trichocarpa.
- Author
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Guerra, Fernando P, Suren, Haktan, Holliday, Jason, Richards, James H, Fiehn, Oliver, Famula, Randi, Stanton, Brian J, Shuren, Richard, Sykes, Robert, Davis, Mark F, and Neale, David B
- Subjects
Populus ,Plant Leaves ,Carbon ,Nitrogen ,Lignin ,Genetic Markers ,Quantitative Trait ,Heritable ,Polymorphism ,Single Nucleotide ,Genome ,Plant ,Wood ,California ,Metabolic Networks and Pathways ,Genome-Wide Association Study ,Metabolome ,Whole Exome Sequencing ,Cellulose ,GWAS ,Growth ,Sequence capture ,Stable isotopes ,Wood metabolome ,Quantitative Trait ,Heritable ,Polymorphism ,Single Nucleotide ,Genome ,Plant ,Human Genome ,Genetics ,Biological Sciences ,Medical and Health Sciences ,Information and Computing Sciences ,Bioinformatics - Abstract
BackgroundPopulus trichocarpa is an important forest tree species for the generation of lignocellulosic ethanol. Understanding the genomic basis of biomass production and chemical composition of wood is fundamental in supporting genetic improvement programs. Considerable variation has been observed in this species for complex traits related to growth, phenology, ecophysiology and wood chemistry. Those traits are influenced by both polygenic control and environmental effects, and their genome architecture and regulation are only partially understood. Genome wide association studies (GWAS) represent an approach to advance that aim using thousands of single nucleotide polymorphisms (SNPs). Genotyping using exome capture methodologies represent an efficient approach to identify specific functional regions of genomes underlying phenotypic variation.ResultsWe identified 813 K SNPs, which were utilized for genotyping 461 P. trichocarpa clones, representing 101 provenances collected from Oregon and Washington, and established in California. A GWAS performed on 20 traits, considering single SNP-marker tests identified a variable number of significant SNPs (p-value
- Published
- 2019