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First draft genome assembly of the Argane tree (Argania spinosa)

المسودة الأولى لتجميع الجينوم لشجرة الأرغان (Argania spinosa)
Authors: Meriem Alaoui Mdarhi; Rabha Abdelwahd; Mohamed Khalfaoui; Noureddine Boukhatem; Matika Ganoudi; Rachid Dahan; Stacy Pirro; +28 Authors

First draft genome assembly of the Argane tree (Argania spinosa)

Abstract

Background: The Argane tree ( Argania spinosa L. Skeels) is an endemic tree of mid-western Morocco that plays an important socioeconomic and ecologic role for a dense human population in an arid zone. Several studies confirmed the importance of this species as a food and feed source and as a resource for both pharmaceutical and cosmetic compounds. Unfortunately, the argane tree ecosystem is facing significant threats from environmental changes (global warming, over-population) and over-exploitation. Limited research has been conducted, however, on argane tree genetics and genomics, which hinders its conservation and genetic improvement. Methods: Here, we present a draft genome assembly of A. spinosa. A reliable reference genome of A. spinosa was created using a hybrid de novo assembly approach combining short and long sequencing reads. Results: In total, 144 Gb Illumina HiSeq reads and 7.6 Gb PacBio reads were produced and assembled. The final draft genome comprises 75 327 scaffolds totaling 671 Mb with an N50 of 49 916 kb. The draft assembly is close to the genome size estimated by k-mers distribution and covers 89% of complete and 4.3 % of partial Arabidopsis orthologous groups in BUSCO. Conclusion: The A. spinosa genome will be useful for assessing biodiversity leading to efficient conservation of this endangered endemic tree. Furthermore, the genome may enable genome-assisted cultivar breeding, and provide a better understanding of important metabolic pathways and their underlying genes for both cosmetic and pharmacological.

Countries
Spain, Belgium
Keywords

Argania spinosa, Compositional and Nutritional Aspects of Camel Milk, genome annotation, Assembly, Population, Gene, International Argane Genome Consortium, Agricultural and Biological Sciences, Evolution and Nutritional Properties of Lupin Seeds, Endemic, Argane, Biochemistry, Genetics and Molecular Biology, Genetics, phylogenetic tree, RNA Sequencing Data Analysis, Molecular Biology, Biology, Ecology, Evolution, Behavior and Systematics, Genome, Nutritional, Biology and Life Sciences, Life Sciences, Phylogenetic Analysis, Morocco, Environmental health, FOS: Biological sciences, Formation and Application of Food Nanoemulsions, Medicine, metagenomics assembly, Research Article, Food Science

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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
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