ETD

Archivio digitale delle tesi discusse presso l'Università di Pisa

Tesi etd-12062019-090208


Tipo di tesi
Tesi di dottorato di ricerca
Autore
USAI, GABRIELE
URN
etd-12062019-090208
Titolo
Genomica strutturale per la selezione vegetale: il fico (Ficus carica L.), una coltura antica con prospettive promettenti
Settore scientifico disciplinare
AGR/07
Corso di studi
SCIENZE AGRARIE, ALIMENTARI E AGRO-AMBIENTALI
Relatori
tutor Prof.ssa Natali, Lucia
correlatore Dott.ssa Mascagni, Flavia
Parole chiave
  • metilazione
  • Ficus carica
  • assemblaggio
  • PacBio
Data inizio appello
26/12/2019
Consultabilità
Completa
Riassunto
Due to DNA heterozygosity and repeat content, assembly of non-model plant genomes is challenging. Herein, we report a high-quality genome reference of one of the oldest known domesticated species, fig (Ficus carica L.), using Pacific Biosciences single-molecule, real-time sequencing. The fig genome is ~333 Mbp in size, of which 80% has been anchored to 13 chromosomes. Genome-wide analysis of N6‐methyladenine and N4‐methylcytosine revealed high methylation levels in both genes and transposable elements, and a prevalence of methylated over non-methylated genes. Furthermore, the characterization of N6-methyladenine sites led to the identification of ANHGA, a species-specific motif, which is prevalent for both genes and transposable elements. Finally, exploiting the contiguity of the 13 pseudomolecules, we identified 13 putative centromeric regions. The high-quality reference genome and the characterization of methylation profiles, provides an important resource for both fig breeding and for fundamental research into the relationship between epigenetic changes and phenotype, using fig as a model species.
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