Genome-wide exploration of oil biosynthesis genes in cultivated olive tree varieties (Olea europaea): insights into regulation of oil biosynthesis
- 8 January 2022
- journal article
- research article
- Published by Springer Science and Business Media LLC in Functional & Integrative Genomics
- Vol. 22 (2), 171-178
- https://doi.org/10.1007/s10142-021-00824-6
Abstract
Genome-wide oil biosynthesis was explored by de novo sequencing two cultivated olive tree (Olea europaea) varieties (cv. Ayvalik and Picual). This is the first report of the former variety sequencing. As outgroups, raw reads of cv. Leccino and scaffold-level assembly of cv. Farga were also retrieved. Each of these four cultivars was chromosome-scale assembled into 23 pseudochromosomes, with 1.31 Gbp (Farga), 0.93 Gbp (Ayvalik), 0.7 Gbp (Picual), and 0.54 Gbp (Leccino) in size. Ab initio gene finding was performed on these assemblies, using wild olive tree (oleaster)-trained parameters. High numbers of gene models were predicted and anchored to the pseudochromosomes: 69,028 (Ayvalik), 55,073 (Picual), 63,785 (Farga), and 40,449 (Leccino). Using previously reported oil biosynthesis genes from wild olive tree genome project, the following homologous sequences were identified: 1,355 (Ayvalik), 1,269 (Farga), 812 (Leccino), and 774 (Picual). Of these, 358 sequences were commonly shared by all cultivars. Besides, some sequences were cultivar unique: Ayvalik (126), Farga (118), Leccino (46), and Picual (52). These putative sequences were assigned to various GO terms, ranging from lipid metabolism to stress tolerance, from signal transactions to development, and to many others, implicating that oil biosynthesis is synergistically regulated with involvement of various other pathways.Keywords
Funding Information
- Ministerio de Economía y Competitividad (BIO2015-64737-R)
- Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (MINECO, INIA RF 2012-00002-C2-02)
- consejería de agricultura y pesca (041/C/2007, 75/C/2009, 56/C/2010)
- consejería de economía, innovación y ciencia (P11-AGR-7322)
- grupo pai” (agr-248) of “junta de andalucía (AGR-248)
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