The raw contigs FASTA file, the GTF annotations and the peptide sequences were downloaded from:

http://beechgenome.net

As mentioned in the paper describing them (https://doi.org/10.3389/fgene.2021.691058), the assembly is also
available at https://www.ebi.ac.uk/ena/browser/view/GCA_907173295

Repeats were hard-masked with https://github.com/Ensembl/plant-scripts/tree/master/repeats as follows:

plant-scripts/repeats/Red2Ensembl.py --msk_file Fagus_sylvatica.Bhaga_Chr.v2.SBiKF.dna_rm.genome.fa \
    Fagus_sylvatica.Bhaga_Chr.v2.SBiKF/genome/Fagus_sylvatica.Bhaga_Chr.v2.SBiKF.dna.genome.fa mask

perl -lne 'if(!/^>/){ s/[a-z]/N/g; $_=uc($_) } print'


The rest of files were produced by RSAT-Tools to install this genome.