4 research outputs found
Descriptive Epidemiological study of COVID-19 in Maghreb and European countries
An outbreak of 2019 novel coronavirus diseases (COVID-19) has spread quickly world wide. We performed a descriptive epidemiological study of COVID-19 in Mediterranean North African countries and South European countries. Cases data were collected through May 3, 2020 from WHO. Data analysis included: 1) geo-temporal analysis of viral spread in 6 countries (Morocco, Algeria, Tunisia, Spain, France and Italy), 2) epidemiological curve construction, 3)mortality and cured rates, 4) study factors that led to differences of the spread of the virus in these 6 countries, and 5) comparison between Morocco and three European countries. The number of infected cases between North African and Southern European countries were different, which might be related to restriction conditions, age, geographic location, and lifestyle. We observed that The COVID-19 epidemic has spread very quickly in Southern European compared to North African countrie
First draft genome assembly of the Argane tree (Argania spinosa)
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
First draft genome assembly of the Argane tree (Argania spinosa) [version 2; peer review: 2 approved]
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.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.https://f1000research.compm2021BiochemistryGeneticsMicrobiology and Plant Patholog
First draft genome assembly of the Argane tree (Argania spinosa)
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.This work was supported by the Iridian Genome Foundation (MD, USA). H.G. is supported by a Grant from the NIH (MD, USA)
for H3ABioNet/H3Africa (grant numbers U41HG006941 and U24 HG006941). O.B. and B.C. are Fulbright JSD (USA) grant recipients. This work
also benefited from support of Midterm Research Program of INRA-Morocco through the use of its bioinformatics platform.https://f1000research.comam2019Genetic