Gene expression of the 182 Danish ash accessions (Harper et al., 2016, ENA PRJEB10202) using the new long-read F.excelsior genome (PRJNA865134, SAMN30100368)

A new genome of Fraxinus excelsior (PRJNA865134) was assembled using a hybrid approach combining Nanopore and Illumina data. The gene expression of a 182 Danish tree panel (Harper et al. 2016) was assessed using the new genome as reference (BioProject PRJNA865134, SAMN30100368, genome JANJPF000000000 ).Manuscript title: Fraxinus excelsior updated long-read genome reveals the importance of MADS-box genes in tolerance mechanisms against ash dieback, G3:Genes|Genomes|Genetics Sequence reads for the 182 Danish ash accessions (Harper et al., 2016, European Nucleotide Archive accession number PRJEB10202, Please check Harper et al., 2016, https://doi.org/10.1038/srep19335) were trimmed with trimmomatic, mapped against the CDS models of the new genome using salmon (version 0.8) (Patro et al., 2017). Salmon counts were inputted into R-studio with tximport to obtain TPMs table. Please note that PRJNA865134 is still being processed by GenBank and it is not publicly available yet.