Epigenetic patterns within the haplotype phased fig (Ficus carica L.) genome

• DOI: 10.1111/tpj.14635
• Publication Date: 2019-12-06T04:25:34Z
• Authors: Gabriele Usai; Flavia Mascagni; Tommaso Giordani; Alberto Vangelisti; Emanuele Bosi; Andrea Zuccolo; Marilena Ceccarelli; Robert King; Keywan Hassani‐Pak; Liceth S. Zambrano; Andrea Cavallini; Lucia Natali
• Keywords: Ficus; Carica; Retrotransposon; Genome size

Due to DNA heterozygosity and repeat content, assembly of non-model plant genomes is challenging. Herein, we report a high-quality genome reference one the oldest known domesticated species, fig (Ficus carica L.), using Pacific Biosciences single-molecule, real-time sequencing. The ~333 Mbp in size, which 80% has been anchored 13 chromosomes. Genome-wide analysis N6 -methyladenine N4 -methylcytosine revealed high methylation levels both genes transposable elements, prevalence methylated over non-methylated genes. Furthermore, characterization sites led identification ANHGA, species-specific motif, prevalent for elements. Finally, exploiting contiguity pseudomolecules, identified putative centromeric regions. profiles, provides an important resource breeding fundamental research into relationship between epigenetic changes phenotype, as model species.