An improved assembly and annotation of the melon (Cucumis melo L.) reference genome
Alexiou, Konstantinos G.
Aiese Cigliano, Riccardo
Casacuberta, Josep M.
We report an improved assembly (v3.6.1) of the melon (Cucumis melo L.) genome and a new genome annotation (v4.0). The optical mapping approach allowed correcting the order and the orientation of 21 previous scaffolds and permitted to correctly define the gap-size extension along the 12 pseudomolecules. A new comprehensive annotation was also built in order to update the previous annotation v3.5.1, released more than six years ago. Using an integrative annotation pipeline, based on exhaustive RNA-Seq collections and ad-hoc transposable element annotation, we identified 29,980 protein-coding loci. Compared to the previous version, the v4.0 annotation improved gene models in terms of completeness of gene structure, UTR regions definition, intron-exon junctions and reduction of fragmented genes. More than 8,000 new genes were identified, one third of them being well supported by RNA-Seq data. To make all the new resources easily exploitable and completely available for the scientific community, a redesigned Melonomics genomic platform was released at http://melonomics.net. The resources produced in this work considerably increase the reliability of the melon genome assembly and resolution of the gene models paving the way for further studies in melon and related species.
633 - Cultius i produccions
Is part of
Ruggieri, Valentino, Konstantinos G. Alexiou, Jordi Morata, Jason Argyris, Marta Pujol, Ryoichi Yano, and Satoko Nonaka et al. 2018. "An Improved Assembly And Annotation Of The Melon (Cucumis Melo L.) Reference Genome". Scientific Reports 8 (1). Springer Nature. doi:10.1038/s41598-018-26416-2.
Grant agreement number
MINECO/Programa Estatal de I+D+I orientada a los retos de la sociedad/AGL2015-64625-C2-1-R/ES/DISECCION GENETICA DE DOS CARACTERES DE INTERES AGRONOMICO EN MELON: RESISTENCIA A CUCUMBER MOSAIC VIRUS Y MADURACION CLIMATERICA DE FRUTO/RESMELORIP
MINECO/ /SEV-2015-0533/ES/ /
EC/H2020/665919/EU/Opening Sphere UAB-CEI to PostDoctoral Fellows/P-SPHERE
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