First draft genome assembly of the Argane tree (Argania spinosa) [version 2; peer review: 2 approved]

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dc.contributor.author Khayi, Slimane
dc.contributor.author Azza, Nour Elhouda
dc.contributor.author Gaboun, Fatima
dc.contributor.author Pirro, Stacy
dc.contributor.author Badad, Oussama
dc.contributor.author Lightfoot, David A.
dc.contributor.author Unver, Turgay
dc.contributor.author Chaouni, Bouchra
dc.contributor.author Merrouch, Redouane
dc.contributor.author Rahim, Bouchra
dc.contributor.author Essayeh, Soumaya
dc.contributor.author Ganoudi, Matika
dc.contributor.author Abdelwahd, Rabha
dc.contributor.author Diria, Ghizlane
dc.contributor.author Mdarhi, Meriem Alaoui
dc.contributor.author Labhilili, Mustapha
dc.contributor.author Iraqi, Driss
dc.contributor.author Claros, M Gonzalo
dc.contributor.author Mouhaddab, Jamila
dc.contributor.author Sedrati, Hayat
dc.contributor.author Memari, Majid
dc.contributor.author Hamamouch, Noureddine
dc.contributor.author De Dios Alche, Juan
dc.contributor.author Alche, Juan de Dios
dc.contributor.author Boukhatem, Noureddine
dc.contributor.author Mrabet, Rachid
dc.contributor.author Dahan, Rachid
dc.contributor.author Legssyer, Adelkhaleq
dc.contributor.author Khalfaoui, Mohamed
dc.contributor.author Badraoui, Mohamed
dc.contributor.author Van de Peer, Yves
dc.contributor.author Tatusova, Tatiana
dc.contributor.author El Mousadik, Abdelhamid
dc.contributor.author Mentag, Rachid
dc.contributor.author Ghazal, Hassan
dc.date.accessioned 2021-10-25T11:25:41Z
dc.date.available 2021-10-25T11:25:41Z
dc.date.issued 2020
dc.description DATA AVAILABILITY: All of the A. spinosa datasets can be retrieved under BioProject accession number PRJNA294096: http://identifiers.org/ bioproject:PRJNA294096. The raw reads are available at NCBI Sequence Reads Archive under accession number SRP077839: http://identifiers.org/insdc.sra:SRP077839. The complete genome sequence assembly project has been deposited at GenBank under accession number QLOD00000000: http://identifiers. org/ncbigi/GI:1408199612. Data can also be retrieved via the International Argane Genome Consortium (IAGC) website: http://www.arganome.org. en_ZA
dc.description.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. en_ZA
dc.description.department Biochemistry en_ZA
dc.description.department Genetics en_ZA
dc.description.department Microbiology and Plant Pathology en_ZA
dc.description.librarian pm2021 en_ZA
dc.description.uri https://f1000research.com en_ZA
dc.identifier.citation Khayi, S., Azza, N.E., Gaboun, F. et al. First draft genome assembly of the Argane tree (Argania spinosa) [version 2; peer review: 2 approved]. F1000Research 2020, 7:1310 https://doi.org/10.12688/f1000research.15719.2 en_ZA
dc.identifier.issn 2046-1402 (online)
dc.identifier.other 10.12688/f1000research.15719.2
dc.identifier.uri http://hdl.handle.net/2263/82238
dc.language.iso en en_ZA
dc.publisher F1000 Research en_ZA
dc.rights © 2020 Khayi S et al. This is an open access article distributed under the terms of the Creative Commons Attribution License. en_ZA
dc.subject Argane tree (Argania spinosa) en_ZA
dc.subject Genetics en_ZA
dc.subject Genomics en_ZA
dc.subject Conservation en_ZA
dc.subject Endangered endemic tree en_ZA
dc.subject Argane en_ZA
dc.subject Argania spinosa en_ZA
dc.subject Endemic en_ZA
dc.subject Genome en_ZA
dc.subject Assembly en_ZA
dc.subject Morocco en_ZA
dc.subject International Argane Genome Consortium en_ZA
dc.title First draft genome assembly of the Argane tree (Argania spinosa) [version 2; peer review: 2 approved] en_ZA
dc.type Article en_ZA


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