Data for the Populus tremula v2.2. genome project and associated genome-wide association study

We conducted whole-genome resequencing of the Umeå Aspen (UmAsp) collection comprising 227 aspen individuals. We utilised the assembly and existing whole genome re-sequencing data to perform genome-wide association analyses (GWAS) using Single Nucleotide Polymorphisms (SNPs) in the UmAsp, Swedish Aspen (SwAsp) and Scottish Aspen (ScotAsp) collections for leaf physiognomy phenotypes.

We conducted Assay of Transposase Accessible Chromatin sequencing (ATAC-Seq) and identified genomic regions of accessible chromatin, and subset SNPs to these regions, which improved the GWAS detection rate. We identified candidate long non-coding RNAs in leaf samples and quantified their expression in an updated co-expression network, which we used to explore the functions of candidate genes identified from the GWAS. This data set comprises: the ATAC-Seq peaks from the ATAC-Sequencing of aspen leaves, 'Aspen leaf ATAC_Seq peaks.zip'; and the gene expression matrix of mean values per aspen genotype from the SwAsp collection, 'Gene_Expression_matrix_genotype_mean.tsv'.