TY - JOUR
T1 - An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples
AU - MalariaGEN
AU - Ahouidi, Ambroise
AU - Ali, Mozam
AU - Almagro-Garcia, Jacob
AU - Amambua-Ngwa, Alfred
AU - Amaratunga, Chanaki
AU - Amato, Roberto
AU - Amenga-Etego, Lucas
AU - Andagalu, Ben
AU - Anderson, Tim J.C.
AU - Andrianaranjaka, Voahangy
AU - Apinjoh, Tobias
AU - Ariani, Cristina
AU - Ashley, Elizabeth A.
AU - Auburn, Sarah
AU - Awandare, Gordon
AU - Ba, Hampate
AU - Baraka, Vito
AU - Barry, Alyssa E.
AU - Bejon, Philip
AU - Bertin, Gwladys I.
AU - Boni, Maciej F.
AU - Borrmann, Steffen
AU - Bousema, Teun
AU - Branch, Oralee
AU - Bull, Peter C.
AU - Busby, George B.J.
AU - Chookajorn, Thanat
AU - Chotivanich, Kesinee
AU - Claessens, Antoine
AU - Conway, David
AU - Craig, Alister
AU - D'Alessandro, Umberto
AU - Dama, Souleymane
AU - Day, Nicholas P.J.
AU - Denis, Brigitte
AU - Diakite, Mahamadou
AU - Djimdé, Abdoulaye
AU - Dolecek, Christiane
AU - Dondorp, Arjen M.
AU - Drakeley, Chris
AU - Drury, Eleanor
AU - Duffy, Patrick
AU - Echeverry, Diego F.
AU - Egwang, Thomas G.
AU - Erko, Berhanu
AU - Fairhurst, Rick M.
AU - Faiz, Abdul
AU - Fanello, Caterina A.
AU - Gamboa, Dionicia
AU - Vinetz, Joseph
N1 - Publisher Copyright:
© 2021 MalariaGEN et al.
PY - 2021
Y1 - 2021
N2 - MalariaGEN is a data-sharing network that enables groups around the world to work together on the genomic epidemiology of malaria. Here we describe a new release of curated genome variation data on 7,000 Plasmodium falciparum samples from MalariaGEN partner studies in 28 malaria-endemic countries. High-quality genotype calls on 3 million single nucleotide polymorphisms (SNPs) and short indels were produced using a standardised analysis pipeline. Copy number variants associated with drug resistance and structural variants that cause failure of rapid diagnostic tests were also analysed. Almost all samples showed genetic evidence of resistance to at least one antimalarial drug, and some samples from Southeast Asia carried markers of resistance to six commonly-used drugs. Genes expressed during the mosquito stage of the parasite life-cycle are prominent among loci that show strong geographic differentiation. By continuing to enlarge this open data resource we aim to facilitate research into the evolutionary processes affecting malaria control and to accelerate development of the surveillance toolkit required for malaria elimination.
AB - MalariaGEN is a data-sharing network that enables groups around the world to work together on the genomic epidemiology of malaria. Here we describe a new release of curated genome variation data on 7,000 Plasmodium falciparum samples from MalariaGEN partner studies in 28 malaria-endemic countries. High-quality genotype calls on 3 million single nucleotide polymorphisms (SNPs) and short indels were produced using a standardised analysis pipeline. Copy number variants associated with drug resistance and structural variants that cause failure of rapid diagnostic tests were also analysed. Almost all samples showed genetic evidence of resistance to at least one antimalarial drug, and some samples from Southeast Asia carried markers of resistance to six commonly-used drugs. Genes expressed during the mosquito stage of the parasite life-cycle are prominent among loci that show strong geographic differentiation. By continuing to enlarge this open data resource we aim to facilitate research into the evolutionary processes affecting malaria control and to accelerate development of the surveillance toolkit required for malaria elimination.
KW - Data resource
KW - Drug resistance
KW - Evolution
KW - Genomic epidemiology
KW - Genomics
KW - Malaria
KW - Plasmodium falciparum
KW - Population genetics
KW - Rapid diagnostic test failure
UR - https://www.scopus.com/pages/publications/85103577104
U2 - 10.12688/wellcomeopenres.16168.1
DO - 10.12688/wellcomeopenres.16168.1
M3 - Artículo
AN - SCOPUS:85103577104
SN - 2398-502X
VL - 6
JO - Wellcome Open Research
JF - Wellcome Open Research
M1 - 42
ER -
ODS 3: Salud y bienestar