Hierarchical Canonical Correlation Analysis Reveals Phenotype, Genotype, and Geoclimate Associations in Plants.

ABSTRACT: The local environment of the geographical origin of plants shaped their genetic variations through environmental adaptation. While the characteristics of the local environment correlate with the genotypes and other genomic features of the plants, they can also be indicative of genotype-phenotype associations providing additional information relevant to environmental dependence. In this study, we investigate how the geoclimatic features from the geographical origin of the Arabidopsis thaliana accessions can be integrated with genomic features for phenotype prediction and association analysis using advanced canonical correlation analysis (CCA). In particular, we propose a novel method called hierarchical canonical correlation analysis (HCCA) to combine mutations, gene expressions, and

SUBMITTER: Petegrosso R 

PROVIDER: S-EPMC7706319 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature