Methylation Fraxinus excelsior 2451S ONT genome

A new genome of Fraxinus excelsior was assembled using a hybrid approach combining Nanopore and Illumina data (BioProject PRJNA865134, SAMN30100368, genome JANJPF000000000 ). Methylation was also assessed in the genome. 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 Ash leaf samples taken from a graft of the F.excelsior 2451S tree growing in Paradise Wood. DNA was extacted following the High molecular weight gDNA extraction from plant leaves protocol, Oxford Nanopore Technologies [ONT]), which utilised Carlson buffer and further purification using QIAGEN genomic-tip, see preprint Vaillancourt and Buell (2019) for details.The libraries were prepared using the SQK-LSK109 ligation sequencing kit and run with PromethION R9.4.1 (FLO-PRO002) flow cells. Base calling was obtained onboard with Guppy. Nanopolish (v 0.13.2) (Simpson et al., 2017) was used to identify the methylated regions as well as the frequency of methylation (using the script calculate_methylation_frequency.py) in the whole genome by using the new genome as reference.