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Abstract
Background: The Argane tree (Argania spinosa L. Skeels) is an endemic tree of southwestern 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 7.2 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 purposes.
Keywords
Argane, Argania spinosa, Endemic, Genome, Assembly, Morocco, International Argane Genome Consortium

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Please use this url to cite or link to this publication:

Chicago
Khayi, Slimane, Nour Elhouda Azza, Fatima Gaboun, Stacy Pirro, Oussama Badad, M Gonzalo Claros, David A Lightfoot, et al. 2018. “First Draft Genome Assembly of the Argane Tree (Argania Spinosa).” F1000RESEARCH 7.
APA
Khayi, S., Azza, N. E., Gaboun, F., Pirro, S., Badad, O., Claros, M. G., Lightfoot, D. A., et al. (2018). First draft genome assembly of the Argane tree (Argania spinosa). F1000RESEARCH, 7.
Vancouver
1.
Khayi S, Azza NE, Gaboun F, Pirro S, Badad O, Claros MG, et al. First draft genome assembly of the Argane tree (Argania spinosa). F1000RESEARCH. 2018;7.
MLA
Khayi, Slimane, Nour Elhouda Azza, Fatima Gaboun, et al. “First Draft Genome Assembly of the Argane Tree (Argania Spinosa).” F1000RESEARCH 7 (2018): n. pag. Print.
@article{8577912,
  abstract     = {Background: The Argane tree (Argania spinosa L. Skeels) is an endemic tree of southwestern 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 7.2 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 purposes.},
  articleno    = {1310},
  author       = {Khayi, Slimane and Azza, Nour Elhouda and Gaboun, Fatima and Pirro, Stacy and Badad, Oussama and Claros, M Gonzalo and Lightfoot, David A and Unver, Turgay and Chaouni, Bouchra and Merrouch, Redouane and Rahim, Bouchra and Essayeh, Soumaya and Ganoudi, Matika and Abdelwahd, Rabha and Diria, Ghizlane and Mdarhi, Meriem Alaoui and Labhilili, Mustapha and Iraqi, Driss and Mouhaddab, Jamila and Sedrati, Hayat and Memari, Majid and Hamamouch, Noureddine and Alch{\'e}, Juan de Dios and Boukhatem, Noureddine and Mrabet, Rachid and Dahan, Rachid and Legssyer, Adelkhaleq and Khalfaoui, Mohamed and Badraoui, Mohamed and Van de Peer, Yves and Tatusova, Tatiana and El Mousadik, Abdelhamid and Mentag, Rachid and Ghazal, Hassan},
  issn         = {2046-1402},
  journal      = {F1000RESEARCH},
  language     = {eng},
  pages        = {11},
  title        = {First draft genome assembly of the Argane tree~(Argania spinosa)},
  url          = {http://dx.doi.org/10.12688/f1000research.15719.1},
  volume       = {7},
  year         = {2018},
}

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