29 results on '"Andrianaranjaka, Voahangy"'
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2. DNA recovery from used malaria RDT to detect Plasmodium species and to assess Plasmodium falciparum genetic diversity: a pilot study in Madagascar
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Andrianaranjaka, Voahangy Hanitriniaina I., Ravaoarisoa, Elisabeth, Rakotomanga, Tovonahary A., Ralinoro, Fanomezantsoa, Rakoto, Danielle A. Doll, Randrianarivo, Ranjàna H., Jeannoda, Victor, and Ratsimbasoa, Arsène
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- 2022
- Full Text
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3. Comparative effect of artemether-lumefantrine and artesunate-amodiaquine on gametocyte clearance in children with uncomplicated Plasmodium falciparum malaria in Madagascar
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Rakotoarisoa, Malalanandrianina A., Fenomanana, Jocia, Dodoson, Bronislaw Tchesterico, Andrianaranjaka, Voahangy Hanitriniaina I., and Ratsimbasoa, Arsène
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- 2022
- Full Text
- View/download PDF
4. Pf7: an open dataset of Plasmodium falciparum genome variation in 20,000 worldwide samples
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Abdel Hamid, Muzamil Mahdi, Abdelraheem, Mohamed Hassan, Acheampong, Desmond Omane, Ahouidi, Ambroise, Ali, Mozam, Almagro-Garcia, Jacob, Amambua-Ngwa, Alfred, Amaratunga, Chanaki, Amenga-Etego, Lucas, Andagalu, Ben, Anderson, Tim, Andrianaranjaka, Voahangy, Aniebo, Ifeyinwa, Aninagyei, Enoch, Ansah, Felix, Ansah, Patrick, Apinjoh, Tobias, Arnaldo, Paulo, Ashley, Elizabeth, Auburn, Sarah, Awandare, Gordon, Ba, Hampate, Baraka, Vito, Barry, Alyssa, Bejon, Philip, Bertin, Gwladys, Boni, Maciej, Borrmann, Steffen, Bousema, Teun, Bouyou-Akotet, Marielle, Branch, Oralee, Bull, Peter, Cheah, Huch, Chindavongsa, Keobouphaphone, Chookajorn, Thanat, Chotivanich, Kesinee, Claessens, Antoine, Conway, David, Corredor, Vladimir, Courtier, Erin, Craig, Alister, d'Alessandro, Umberto, Dama, Souleymane, Day, Nicholas, Denis, Brigitte, Dhorda, Mehul, Diakite, Mahamadou, Djimde, Abdoulaye, Dolecek, Christiane, Dondorp, Arjen, Doumbia, Seydou, Drakeley, Chris, Drury, Eleanor, Duffy, Patrick, Echeverry, Diego, Egwang, Thomas, Enosse, Sonia Maria Mauricio, Erko, Berhanu, Fairhurst, Rick, Faiz, Abdul, Fanello, Caterina, Fleharty, Mark, Forbes, Matthew, Fukuda, Mark, Gamboa, Dionicia, Ghansah, Anita, Golassa, Lemu, Goncalves, Sonia, Harrison, G, Healy, Sara Anne, Hendry, Jason, Hernandez-Koutoucheva, Anastasia, Hien, Tran Tinh, Hill, Catherine, Hombhanje, Francis, Hott, Amanda, Htut, Ye, Hussein, Mazza, Imwong, Mallika, Ishengoma, Deus, Jackson, Scott, Jacob, Chris, Jeans, Julia, Johnson, Kimberly, Kamaliddin, Claire, Kamau, Edwin, Keatley, Jon, Kochakarn, Theerarat, Konate, Drissa, Konaté, Abibatou, Kone, Aminatou, Kwiatkowski, Dominic, Kyaw, Myat, Kyle, Dennis, Lawniczak, Mara, Lee, Samuel, Lemnge, Martha, Lim, Pharath, Lon, Chanthap, Loua, Kovana, Mandara, Celine, Marfurt, Jutta, Marsh, Kevin, Maude, Richard James, Mayxay, Mayfong, Maïga-Ascofaré, Oumou, Miotto, Olivo, Mita, Toshihiro, Mobegi, Victor, Mohamed, Abdelrahim Osman, Mokuolu, Olugbenga, Montgomery, Jaqui, Morang'A, Collins Misita, Mueller, Ivo, Murie, Kathryn, Newton, Paul, Ngo Duc, Thang, Nguyen, Thuy, Nguyen, Thuy-Nhien, Nguyen Thi Kim, Tuyen, Nguyen Van, Hong, Noedl, Harald, Nosten, François, Noviyanti, Rintis, Ntui, Vincent Ntui-Njock, Nzila, Alexis, Ochola-Oyier, Lynette Isabella, Ocholla, Harold, Oduro, Abraham, Omedo, Irene, Onyamboko, Marie, Ouedraogo, Jean-Bosco, Oyebola, Kolapo, Oyibo, Wellington Aghoghovwia, Pearson, Richard, Peshu, Norbert, Phyo, Aung, Plowe, Christopher, Price, Ric, Pukrittayakamee, Sasithon, Quang, Huynh Hong, Randrianarivelojosia, Milijaona, Rayner, Julian, Ringwald, Pascal, Rosanas-Urgell, Anna, Rovira-Vallbona, Eduard, Ruano-Rubio, Valentin, Ruiz, Lastenia, Saunders, David, Shayo, Alex, Siba, Peter, Simpson, Victoria, Sissoko, Mahamadou, Smith, Christen, Su, Xin-Zhuan, Sutherland, Colin, Takala-Harrison, Shannon, Talman, Arthur, Tavul, Livingstone, Thanh, Ngo Viet, Thathy, Vandana, Thu, Aung Myint, Toure, Mahamoudou, Tshefu, Antoinette, Verra, Federica, Vinetz, Joseph, Wellems, Thomas, Wendler, Jason, White, Nicholas, Whitton, Georgia, Yavo, William, van der Pluijm, Rob, MalariaGEN, University of Khartoum, University of Cape Coast [Ghana], Université Cheikh Anta Diop [Dakar, Sénégal] (UCAD), The Wellcome Trust Sanger Institute [Cambridge], London School of Hygiene and Tropical Medicine [Fajara, Gambia], London School of Hygiene and Tropical Medicine (LSHTM), National Institute of Allergy and Infectious Diseases [Bethesda] (NIAID-NIH), National Institutes of Health [Bethesda] (NIH), West African Centre for Cell Biology of Infectious Pathogens [Legon, Ghana] (WACCBIP), University of Ghana, Navrongo Health Research Centre [Navrongo, Ghana] (NHRC), Kenya Medical Research Institute (KEMRI), Texas Biomedical Research Institute [San Antonio, TX], Université d'Antananarivo, University of Buéa, Instituto Nacional de Saude [Maputo, Mozambique] (INS), Centre for Tropical Medicine and Global Health [Oxford, UK], Nuffield Department of Medicine [Oxford, UK] (Big Data Institute), University of Oxford-University of Oxford, Mahidol Oxford Tropical Medicine Research Unit (MORU), University of Oxford-Mahidol University [Bangkok]-Wellcome Trust, Menzies School of Health Research [Australia], Charles Darwin University [Australia], Nuffield Department of Clinical Medicine [Oxford], University of Oxford, Institut de Recherche pour le Développement (IRD), Laboratory of Pathogen and Host Immunity [Montpellier] (LPHI), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Maladies infectieuses et vecteurs : écologie, génétique, évolution et contrôle (MIVEGEC), and Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)
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data resource ,lnfectious Diseases and Global Health Radboud Institute for Health Sciences [Radboudumc 4] ,plasmodium falciparum ,genomics ,malaria ,Medicine (miscellaneous) ,genomic epidemiology ,General Biochemistry, Genetics and Molecular Biology ,[SDV.MHEP]Life Sciences [q-bio]/Human health and pathology - Abstract
Contains fulltext : 291985.pdf (Publisher’s version ) (Open Access) We describe the MalariaGEN Pf7 data resource, the seventh release of Plasmodium falciparum genome variation data from the MalariaGEN network. It comprises over 20,000 samples from 82 partner studies in 33 countries, including several malaria endemic regions that were previously underrepresented. For the first time we include dried blood spot samples that were sequenced after selective whole genome amplification, necessitating new methods to genotype copy number variations. We identify a large number of newly emerging crt mutations in parts of Southeast Asia, and show examples of heterogeneities in patterns of drug resistance within Africa and within the Indian subcontinent. We describe the profile of variations in the C-terminal of the csp gene and relate this to the sequence used in the RTS,S and R21 malaria vaccines. Pf7 provides high-quality data on genotype calls for 6 million SNPs and short indels, analysis of large deletions that cause failure of rapid diagnostic tests, and systematic characterisation of six major drug resistance loci, all of which can be freely downloaded from the MalariaGEN website.
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- 2023
5. Pf7: an open dataset of Plasmodium falciparum genome variation in 20,000 worldwide samples
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MalariaGEN, Abdel Hamid, Muzamil Mahdi, Abdelraheem, Mohamed Hassan, Acheampong, Desmond Omane, Ahouidi, Ambroise, Ali, Mozam, Almagro-Garcia, Jacob, Amambua-Ngwa, Alfred, Amaratunga, Chanaki, Amenga-Etego, Lucas, Andagalu, Ben, Anderson, Tim, Andrianaranjaka, Voahangy, Aniebo, Ifeyinwa, Aninagyei, Enoch, Ansah, Felix, Ansah, Patrick O, Apinjoh, Tobias, Arnaldo, Paulo, Ashley, Elizabeth, Auburn, Sarah, Awandare, Gordon A, Ba, Hampate, Baraka, Vito, Barry, Alyssa, Bejon, Philip, Bertin, Gwladys I, Boni, Maciej F, Borrmann, Steffen, Bousema, Teun, Bouyou-Akotet, Marielle, Branch, Oralee, Bull, Peter C, Cheah, Huch, Chindavongsa, Keobouphaphone, Chookajorn, Thanat, Chotivanich, Kesinee, Claessens, Antoine, Conway, David J, Corredor, Vladimir, Courtier, Erin, Craig, Alister, D'Alessandro, Umberto, Dama, Souleymane, Day, Nicholas, Denis, Brigitte, Dhorda, Mehul, Diakite, Mahamadou, Djimde, Abdoulaye, Dolecek, Christiane, Dondorp, Arjen, Doumbia, Seydou, Drakeley, Chris, Drury, Eleanor, Duffy, Patrick, Echeverry, Diego F, Egwang, Thomas G, Enosse, Sonia Maria Mauricio, Erko, Berhanu, Fairhurst, Rick M, Faiz, Abdul, Fanello, Caterina A, Fleharty, Mark, Forbes, Matthew, Fukuda, Mark, Gamboa, Dionicia, Ghansah, Anita, Golassa, Lemu, Goncalves, Sonia, Harrison, GL Abby, Healy, Sara Anne, Hendry, Jason A, Hernandez-Koutoucheva, Anastasia, Hien, Tran Tinh, Hill, Catherine A, Hombhanje, Francis, Hott, Amanda, Htut, Ye, Hussein, Mazza, Imwong, Mallika, Ishengoma, Deus, Jackson, Scott A, Jacob, Chris G, Jeans, Julia, Johnson, Kimberly J, Kamaliddin, Claire, Kamau, Edwin, Keatley, Jon, Kochakarn, Theerarat, Konate, Drissa S, Konaté, Abibatou, Kone, Aminatou, Kwiatkowski, Dominic P, Kyaw, Myat P, Kyle, Dennis, Lawniczak, Mara, Lee, Samuel K, Lemnge, Martha, Lim, Pharath, Lon, Chanthap, Loua, Kovana M, Mandara, Celine I, Marfurt, Jutta, Marsh, Kevin, Maude, Richard James, Mayxay, Mayfong, Maïga-Ascofaré, Oumou, Miotto, Olivo, Mita, Toshihiro, Mobegi, Victor, Mohamed, Abdelrahim Osman, Mokuolu, Olugbenga A, Montgomery, Jaqui, Morang'a, Collins Misita, Mueller, Ivo, Murie, Kathryn, Newton, Paul N, Ngo Duc, Thang, Nguyen, Thuy, Nguyen, Thuy-Nhien, Nguyen Thi Kim, Tuyen, Nguyen Van, Hong, Noedl, Harald, Nosten, Francois, Noviyanti, Rintis, Ntui, Vincent Ntui-Njock, Nzila, Alexis, Ochola-Oyier, Lynette Isabella, Ocholla, Harold, Oduro, Abraham, Omedo, Irene, Onyamboko, Marie A, Ouedraogo, Jean-Bosco, Oyebola, Kolapo, Oyibo, Wellington Aghoghovwia, Pearson, Richard, Peshu, Norbert, Phyo, Aung P, Plowe, Christopher V, Price, Ric N, Pukrittayakamee, Sasithon, Quang, Huynh Hong, Randrianarivelojosia, Milijaona, Rayner, Julian C, Ringwald, Pascal, Rosanas-Urgell, Anna, Rovira-Vallbona, Eduard, Ruano-Rubio, Valentin, Ruiz, Lastenia, Saunders, David, Shayo, Alex, Siba, Peter, Simpson, Victoria J, Sissoko, Mahamadou S, Smith, Christen, Su, Xin-Zhuan, Sutherland, Colin, Takala-Harrison, Shannon, Talman, Arthur, Tavul, Livingstone, Thanh, Ngo Viet, Thathy, Vandana, Thu, Aung Myint, Toure, Mahamoudou, Tshefu, Antoinette, Verra, Federica, Vinetz, Joseph, Wellems, Thomas E, Wendler, Jason, White, Nicholas J, Whitton, Georgia, Yavo, William, Van Der Pluijm, Rob W, Amenga-Etego, Lucas [0000-0003-4468-0506], Anderson, Tim [0000-0002-0191-0204], Ansah, Patrick O [0000-0002-3214-5621], Ashley, Elizabeth [0000-0002-7620-4822], Ba, Hampate [0000-0002-9299-5775], Baraka, Vito [0000-0001-9694-9293], Bejon, Philip [0000-0002-2135-7549], Bertin, Gwladys I [0000-0002-2218-9591], Boni, Maciej F [0000-0002-0830-9630], Bousema, Teun [0000-0003-2666-094X], Chookajorn, Thanat [0000-0003-2876-6203], Claessens, Antoine [0000-0002-4277-0914], Conway, David J [0000-0002-8711-3037], Craig, Alister [0000-0003-0914-6164], D'Alessandro, Umberto [0000-0001-6341-5009], Day, Nicholas [0000-0003-2309-1171], Diakite, Mahamadou [0000-0002-4268-8857], Djimde, Abdoulaye [0000-0003-0062-2283], Dondorp, Arjen [0000-0001-5190-2395], Drakeley, Chris [0000-0003-4863-075X], Echeverry, Diego F [0000-0003-0301-4478], Erko, Berhanu [0000-0003-1685-752X], Faiz, Abdul [0000-0002-3460-7535], Fanello, Caterina A [0000-0003-1932-9562], Gamboa, Dionicia [0000-0002-1420-7729], Golassa, Lemu [0000-0002-1216-8711], Healy, Sara Anne [0000-0003-3078-6094], Ishengoma, Deus [0000-0003-2040-3416], Jackson, Scott A [0000-0002-3172-1607], Kamaliddin, Claire [0000-0001-8198-6235], Kamau, Edwin [0000-0002-5761-7883], Konate, Drissa S [0000-0002-4177-9642], Kwiatkowski, Dominic P [0000-0002-5023-0176], Kyle, Dennis [0000-0002-0238-965X], Lawniczak, Mara [0000-0002-3006-2080], Loua, Kovana M [0000-0003-0571-0944], Marsh, Kevin [0000-0001-8377-5466], Mayxay, Mayfong [0000-0002-6056-4516], Miotto, Olivo [0000-0001-8060-6771], Mita, Toshihiro [0000-0001-8180-2344], Mobegi, Victor [0000-0002-1962-5583], Morang'a, Collins Misita [0000-0002-6988-150X], Nguyen, Thuy-Nhien [0000-0002-4101-5706], Nosten, Francois [0000-0002-7951-0745], Ntui, Vincent Ntui-Njock [0000-0002-7532-9930], Oduro, Abraham [0000-0002-4191-7419], Onyamboko, Marie A [0000-0002-7501-5931], Ouedraogo, Jean-Bosco [0000-0003-0412-8733], Oyebola, Kolapo [0000-0002-1003-2570], Pearson, Richard [0000-0002-7386-3566], Phyo, Aung P [0000-0002-0383-9624], Price, Ric N [0000-0003-2000-2874], Rayner, Julian C [0000-0002-9835-1014], Rosanas-Urgell, Anna [0000-0002-0432-5203], Shayo, Alex [0000-0002-7099-8537], Su, Xin-Zhuan [0000-0003-3246-3248], Vinetz, Joseph [0000-0001-8344-2004], Wellems, Thomas E [0000-0003-3899-8454], and Apollo - University of Cambridge Repository
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data resource ,plasmodium falciparum ,genomics ,malaria ,genomic epidemiology - Abstract
We describe the MalariaGEN Pf7 data resource, the seventh release of Plasmodium falciparum genome variation data from the MalariaGEN network. It comprises over 20,000 samples from 82 partner studies in 33 countries, including several malaria endemic regions that were previously underrepresented. For the first time we include dried blood spot samples that were sequenced after selective whole genome amplification, necessitating new methods to genotype copy number variations. We identify a large number of newly emerging crt mutations in parts of Southeast Asia, and show examples of heterogeneities in patterns of drug resistance within Africa and within the Indian subcontinent. We describe the profile of variations in the C-terminal of the csp gene and relate this to the sequence used in the RTS,S and R21 malaria vaccines. Pf7 provides high-quality data on genotype calls for 6 million SNPs and short indels, analysis of large deletions that cause failure of rapid diagnostic tests, and systematic characterisation of six major drug resistance loci, all of which can be freely downloaded from the MalariaGEN website.
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- 2023
6. Monitoring parasite diversity for malaria elimination in sub-Saharan Africa
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Ghansah, Anita, Amenga-Etego, Lucas, Amambua-Ngwa, Alfred, Andagalu, Ben, Apinjoh, Tobias, Bouyou-Akotet, Marielle, Cornelius, Victoria, Golassa, Lemu, Andrianaranjaka, Voahangy Hanitriniaina, Ishengoma, Deus, Johnson, Kimberly, Kamau, Edwin, Maïga-Ascofaré, Oumou, Mumba, Dieudonne, Tindana, Paulina, Tshefu-Kitoto, Antoinette, Randrianarivelojosia, Milijaona, William, Yavo, Kwiatkowski, Dominic P., and Djimde, Abdoulaye A.
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- 2014
7. Génotypage par PCR-RFLP de Pfcrt et Pfmdr1 sur des isolats de Plasmodium falciparum collectés chez des enfants de Vatomandry, Madagascar
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RAVAOARISOA, Elisabeth, ANDRIANARANJAKA, Voahangy Hanitriniaina Isabelle, RAMANANTSAHALA, Aina David, RAKOTOMANGA, Tovonahary Angelo, RALINORO, Fanomezantsoa, RAKOTOSAONA, Rianasoambolanoro, RANDRIANARIVO, Ranjàna Hanitra, RAKOTO, Danielle Aurore Doll, JEANNODA, Victor, and RATSIMBASOA, Arsène
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parasitic diseases - Abstract
Contexte. La surveillance de l’efficacité thérapeutique et des marqueurs génétiques de la résistance aux antipaludiques est primordiale afin de détecter le plus tôt possible l’émergence des parasites potentiellement résistants. Dans ce contexte, notre étude a pour objectif de réaliser le typage du gène Plasmodium falciparum chloroquine resistance transporter ou Pfcrt et Plasmodium falciparum multidrug resistant gene 1 ou Pfmdr1 sur des isolats provenant des enfants du district de Vatomandry. Méthodologies. Au total, 142 isolats de P. falciparum collectés lors d’un dépistage actif du paludisme chez des enfants âgés de moins de 15 ans, entre février et mars des années 2016 et 2017 à Vatomandry, ont été analysés. Le typage du codon K76T du gène Pfcrt et du codon N86Y du gène Pfmdr1 a été ensuite effectué par la technique de polymérisation en chaîne suivie de digestion enzymatique (restriction fragment length polymorphism) ou PCR-RFLP. Résultats. Le taux de succès d’amplification des gènes Pfcrt et Pfmdr1 était faible, de l’ordre de 27 % et 39 % respectivement. La prévalence des isolats mutants pour le codon K76T de Pfcrt était de 2,6 % [intervalle de confiance à 95 % (IC95%) : 0,1 - 15,0 %] et de 36 % [IC95% : 23,7 - 49,7 %] pour le codon N86Y du gène Pfmdr1. Conclusion. Notre étude a mis en évidence la présence d’isolats portant à la fois la mutation au niveau du codon K76T de Pfcrt et N86Y de Pfmdr1. Bien que le taux de mutation que nous avons observé soit faible, d’autres études méritent d’être effectuées afin de suivre l’évolution de ces marqueurs dans le temps et dans l’espace à Madagascar. PCR-RFLP genotyping of Pfcrt and Pfmdr1 in Plasmodium falciparum isolates from children Background. Malaria is a parasitic disease caused by a hematozoan of the genus Plasmodium. Early diagnosis followed by effective treatment is one of the keys to control this disease. In Madagascar, after more than 60 years of use for the treatment of uncomplicated malaria, chloroquine (CQ) was abandoned in favor of artesunate + amodiaquine (ASAQ) combination because of high prevalence of CQ treatment failure. Surveillance based on the assessment of therapeutic efficacy and genetic markers of resistance to antimalarials is therefore essential in order to detect the emergence of potentially resistant parasites as early as possible. In this context, our study aimed to genotype the Plasmodium falciparum chloroquine resistance transporter gene or Pfcrt and Plasmodium falciparum multidrug resistance gene 1 or Pfmdr1 in isolates collected from children in the district of Vatomandry. Methods. A total of 142 P. falciparum isolates collected during active case detection of malaria in children under 15 years old, between February and March of 2016 and 2017 in Vatomandry district, were analyzed. Pfcrt (K76T codon) and Pfmdr1 (N86Y codon) genotyping was carried out by polymerase chain reaction followed by enzymatic digestion (restriction fragment length polymorphism) or PCR-RFLP. Results. The successful rates of amplification of Pfcrt and Pfmdr1 genes were low, around 27% and 39% respectively. The prevalence of isolates carrying the mutant Pfcrt K76T codon and the mutant Pfmdr1 N86Y codon was 2.6% [95% confidence interval (95% CI): 0.1 - 15.0%] and 36% [95% CI: 23.7 - 49.7%] respectively. Conclusion. Despite the limited number of samples analyzed, our study highlighted the circulation of isolates carrying both the mutant Pfcrt K76T and Pfmdr1 N86Y alleles. Although the prevalence of mutations in Pfcrt and Pfmdr1 genes that we observed was low, other studies should be carried out in order to follow the evolution of these markers in time and space. The use of more sensitive methods will better characterize P. falciparum strains circulating in Madagascar. Artesunate-amodiaquine is used as a first-line treatment for uncomplicated malaria in the country; it is also crucial to monitor the other codons, i.e. 184 and 1246 of the Pfmdr1 gene, implicated in the resistance of P. falciparum to amodiaquine in Africa., MTSI, Vol. 2 No 2 (2022): MTSI-Revue
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- 2022
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8. An open dataset of Plasmodium vivax genome variation in 1,895 worldwide samples
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Adam, Ishag, Alam, Mohammad Shafiul, Alemu, Sisay, Amaratunga, Chanaki, Amato, Roberto, Andrianaranjaka, Voahangy, Anstey, Nicholas M, Aseffa, Abraham, Ashley, Elizabeth, Assefa, Ashenafi, Auburn, Sarah, Barber, Bridget E, Barry, Alyssa, Batista Pereira, Dhelio, Cao, Jun, Chau, Nguyen Hoang, Chotivanich, Kesinee, Chu, Cindy, Dondorp, Arjen M, Drury, Eleanor, Echeverry, Diego F, Erko, Berhanu, Espino, Fe, Fairhurst, Rick, Faiz, Abdul, Fernanda Villegas, María, Gao, Qi, Golassa, Lemu, Goncalves, Sonia, Grigg, Matthew J, Hamedi, Yaghoob, Hien, Tran Tinh, Htut, Ye, Johnson, Kimberly J, Karunaweera, Nadira, Khan, Wasif, Krudsood, Srivicha, Kwiatkowski, Dominic P, Lacerda, Marcus, Ley, Benedikt, Lim, Pharath, Liu, Yaobao, Llanos-Cuentas, Alejandro, Lon, Chanthap, Lopera-Mesa, Tatiana, Marfurt, Jutta, Michon, Pascal, Miotto, Olivo, Mohammed, Rezika, Mueller, Ivo, Namaik-Larp, Chayadol, Newton, Paul N, Nguyen, Thuy-Nhien, Nosten, Francois, Noviyanti, Rintis, Pava, Zuleima, Pearson, Richard D, Petros, Beyene, Phyo, Aung P, Price, Ric N, Pukrittayakamee, Sasithon, Rahim, Awab Ghulam, Randrianarivelojosia, Milijaona, Rayner, Julian C, Rumaseb, Angela, Siegel, Sasha V, Simpson, Victoria J, Thriemer, Kamala, Tobon-Castano, Alberto, Trimarsanto, Hidayat, Urbano Ferreira, Marcelo, Vélez, Ivan D, Wangchuk, Sonam, Wellems, Thomas E, White, Nicholas J, William, Timothy, Yasnot, Maria F, Yilma, Daniel, Alam, Mohammad Shafiul [0000-0001-8330-5499], Ashley, Elizabeth [0000-0002-7620-4822], Barber, Bridget E [0000-0003-1066-7960], Batista Pereira, Dhelio [0000-0002-7761-5498], Chu, Cindy [0000-0001-9465-8214], Dondorp, Arjen M [0000-0001-5190-2395], Echeverry, Diego F [0000-0003-0301-4478], Espino, Fe [0000-0003-1690-1711], Faiz, Abdul [0000-0002-3460-7535], Golassa, Lemu [0000-0002-1216-8711], Grigg, Matthew J [0000-0001-9914-8352], Karunaweera, Nadira [0000-0003-3985-1817], Kwiatkowski, Dominic P [0000-0002-5023-0176], Ley, Benedikt [0000-0002-5734-0845], Miotto, Olivo [0000-0001-8060-6771], Nguyen, Thuy-Nhien [0000-0002-4101-5706], Nosten, Francois [0000-0002-7951-0745], Pearson, Richard D [0000-0002-7386-3566], Phyo, Aung P [0000-0002-0383-9624], Price, Ric N [0000-0003-2000-2874], Rayner, Julian C [0000-0002-9835-1014], Urbano Ferreira, Marcelo [0000-0002-5293-9090], Wellems, Thomas E [0000-0003-3899-8454], Yasnot, Maria F [0000-0001-8081-4212], Yilma, Daniel [0000-0001-6058-2696], and Apollo - University of Cambridge Repository
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parasitic diseases ,Genomics ,Genomic Epidemiology ,Plasmodium vivax ,Malaria ,Data Resource - Abstract
This report describes the MalariaGEN Pv4 dataset, a new release of curated genome variation data on 1,895 samples of Plasmodium vivax collected at 88 worldwide locations between 2001 and 2017. It includes 1,370 new samples contributed by MalariaGEN and VivaxGEN partner studies in addition to previously published samples from these and other sources. We provide genotype calls at over 4.5 million variable positions including over 3 million single nucleotide polymorphisms (SNPs), as well as short indels and tandem duplications. This enlarged dataset highlights major compartments of parasite population structure, with clear differentiation between Africa, Latin America, Oceania, Western Asia and different parts of Southeast Asia. Each sample has been classified for drug resistance to sulfadoxine, pyrimethamine and mefloquine based on known markers at the dhfr, dhps and mdr1 loci. The prevalence of all of these resistance markers was much higher in Southeast Asia and Oceania than elsewhere. This open resource of analysis-ready genome variation data from the MalariaGEN and VivaxGEN networks is driven by our collective goal to advance research into the complex biology of P. vivax and to accelerate genomic surveillance for malaria control and elimination.
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- 2022
9. Additional file 2 of Comparative effect of artemether-lumefantrine and artesunate-amodiaquine on gametocyte clearance in children with uncomplicated Plasmodium falciparum malaria in Madagascar
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Rakotoarisoa, Malalanandrianina A., Fenomanana, Jocia, Dodoson, Bronislaw Tchesterico, Andrianaranjaka, Voahangy Hanitriniaina I., and Ratsimbasoa, Arsène
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Additional file 2: AL dosage.
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- 2022
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10. Additional file 3 of Proactive community case management decreased malaria prevalence in rural Madagascar: results from a cluster randomized trial
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Ratovoson, Rila, Garchitorena, Andres, Kassie, Daouda, Ravelonarivo, Jemima A., Andrianaranjaka, Voahangy, Razanatsiorimalala, Seheno, Razafimandimby, Avotra, Rakotomanana, Fanjasoa, Ohlstein, Laurie, Mangahasimbola, Reziky, Randrianirisoa, Sandro A. N., Razafindrakoto, Jocelyn, Dentinger, Catherine M., Williamson, John, Kapesa, Laurent, Piola, Patrice, Randrianarivelojosia, Milijaona, Thwing, Julie, Steinhardt, Laura C., and Baril, Laurence
- Abstract
Additional file 3. Analyses and findings on anemia and PRO-CCM. Table S5. Prevalence of anemia among all women of reproductive age at baseline and endline, by study arm. Table S6. Unadjusted analyses of prevalence of anemia among all women of reproductive age at baseline, using logistic regression models. Table S7. Adjusted analyses of prevalence of anemia among all women of reproductive age at baseline, using logistic regression models.
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- 2022
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11. Additional file 2 of Proactive community case management decreased malaria prevalence in rural Madagascar: results from a cluster randomized trial
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Ratovoson, Rila, Garchitorena, Andres, Kassie, Daouda, Ravelonarivo, Jemima A., Andrianaranjaka, Voahangy, Razanatsiorimalala, Seheno, Razafimandimby, Avotra, Rakotomanana, Fanjasoa, Ohlstein, Laurie, Mangahasimbola, Reziky, Randrianirisoa, Sandro A. N., Razafindrakoto, Jocelyn, Dentinger, Catherine M., Williamson, John, Kapesa, Laurent, Piola, Patrice, Randrianarivelojosia, Milijaona, Thwing, Julie, Steinhardt, Laura C., and Baril, Laurence
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Additional file 2. Table S1. Distribution of positive RDT results in the 22 fokontany. Table S2. Impact of Pro-CCM and IRS on malaria prevalence, per-protocol analyses. Table S3. Comparison of observed proportion of parasite prevalence by RDT by age group between intervention and control arms. Table S4. Comparison of reported bed net use (LLIN) by age group between baseline and endline surveys.
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- 2022
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12. Additional file 1 of Comparative effect of artemether-lumefantrine and artesunate-amodiaquine on gametocyte clearance in children with uncomplicated Plasmodium falciparum malaria in Madagascar
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Rakotoarisoa, Malalanandrianina A., Fenomanana, Jocia, Dodoson, Bronislaw Tchesterico, Andrianaranjaka, Voahangy Hanitriniaina I., and Ratsimbasoa, Arsène
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Additional file 1: ASAQ dosage.
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- 2022
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13. An open dataset of Plasmodium vivax genome variation in 1,895 worldwide samples
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MalariaGEN, Adam, Ishag, Alam, Mohammad Shafiul, Alemu, Sisay, Amaratunga, Chanaki, Amato, Roberto, Andrianaranjaka, Voahangy, Anstey, Nicholas M, Aseffa, Abraham, Ashley, Elizabeth, Assefa, Ashenafi, Auburn, Sarah, Barber, Bridget E, Barry, Alyssa, Batista Pereira, Dhelio, Cao, Jun, Chau, Nguyen Hoang, Chotivanich, Kesinee, Chu, Cindy, Dondorp, Arjen M, Drury, Eleanor, Echeverry, Diego F, Erko, Berhanu, Espino, Fe, Fairhurst, Rick, Faiz, Abdul, Fernanda Villegas, María, Gao, Qi, Golassa, Lemu, Goncalves, Sonia, Grigg, Matthew J, Hamedi, Yaghoob, Hien, Tran Tinh, Htut, Ye, Johnson, Kimberly J, Karunaweera, Nadira, Khan, Wasif, Krudsood, Srivicha, Kwiatkowski, Dominic P, Lacerda, Marcus, Ley, Benedikt, Lim, Pharath, Liu, Yaobao, Llanos-Cuentas, Alejandro, Lon, Chanthap, Lopera-Mesa, Tatiana, Marfurt, Jutta, Michon, Pascal, Miotto, Olivo, Mohammed, Rezika, Mueller, Ivo, Namaik-Larp, Chayadol, Newton, Paul N, Nguyen, Thuy-Nhien, Nosten, Francois, Noviyanti, Rintis, Pava, Zuleima, Pearson, Richard D, Petros, Beyene, Phyo, Aung P, Price, Ric N, Pukrittayakamee, Sasithon, Rahim, Awab Ghulam, Randrianarivelojosia, Milijaona, Rayner, Julian C, Rumaseb, Angela, Siegel, Sasha V, Simpson, Victoria J, Thriemer, Kamala, Tobon-Castano, Alberto, Trimarsanto, Hidayat, Urbano Ferreira, Marcelo, Vélez, Ivan D, Wangchuk, Sonam, Wellems, Thomas E, White, Nicholas J, William, Timothy, Yasnot, Maria F, Yilma, Daniel, AII - Infectious diseases, Intensive Care Medicine, MalariaGEN, Alam, Mohammad Shafiul [0000-0001-8330-5499], Ashley, Elizabeth [0000-0002-7620-4822], Barber, Bridget E [0000-0003-1066-7960], Batista Pereira, Dhelio [0000-0002-7761-5498], Chu, Cindy [0000-0001-9465-8214], Dondorp, Arjen M [0000-0001-5190-2395], Echeverry, Diego F [0000-0003-0301-4478], Espino, Fe [0000-0003-1690-1711], Faiz, Abdul [0000-0002-3460-7535], Golassa, Lemu [0000-0002-1216-8711], Karunaweera, Nadira [0000-0003-3985-1817], Kwiatkowski, Dominic P [0000-0002-5023-0176], Ley, Benedikt [0000-0002-5734-0845], Miotto, Olivo [0000-0001-8060-6771], Nguyen, Thuy-Nhien [0000-0002-4101-5706], Nosten, Francois [0000-0002-7951-0745], Pearson, Richard D [0000-0002-7386-3566], Phyo, Aung P [0000-0002-0383-9624], Price, Ric N [0000-0003-2000-2874], Rayner, Julian C [0000-0002-9835-1014], Urbano Ferreira, Marcelo [0000-0002-5293-9090], Wellems, Thomas E [0000-0003-3899-8454], Yasnot, Maria F [0000-0001-8081-4212], Yilma, Daniel [0000-0001-6058-2696], and Apollo - University of Cambridge Repository
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Data resource ,parasitic diseases ,Medicine (miscellaneous) ,Genomics ,Genomic epidemiology ,Plasmodium vivax ,General Biochemistry, Genetics and Molecular Biology ,Malaria - Abstract
This report describes the MalariaGEN Pv4 dataset, a new release of curated genome variation data on 1,895 samples of Plasmodium vivax collected at 88 worldwide locations between 2001 and 2017. It includes 1,370 new samples contributed by MalariaGEN and VivaxGEN partner studies in addition to previously published samples from these and other sources. We provide genotype calls at over 4.5 million variable positions including over 3 million single nucleotide polymorphisms (SNPs), as well as short indels and tandem duplications. This enlarged dataset highlights major compartments of parasite population structure, with clear differentiation between Africa, Latin America, Oceania, Western Asia and different parts of Southeast Asia. Each sample has been classified for drug resistance to sulfadoxine, pyrimethamine and mefloquine based on known markers at the dhfr, dhps and mdr1 loci. The prevalence of all of these resistance markers was much higher in Southeast Asia and Oceania than elsewhere. This open resource of analysis-ready genome variation data from the MalariaGEN and VivaxGEN networks is driven by our collective goal to advance research into the complex biology of P. vivax and to accelerate genomic surveillance for malaria control and elimination.
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- 2022
14. Additional file 1 of Proactive community case management decreased malaria prevalence in rural Madagascar: results from a cluster randomized trial
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Ratovoson, Rila, Garchitorena, Andres, Kassie, Daouda, Ravelonarivo, Jemima A., Andrianaranjaka, Voahangy, Razanatsiorimalala, Seheno, Razafimandimby, Avotra, Rakotomanana, Fanjasoa, Ohlstein, Laurie, Mangahasimbola, Reziky, Randrianirisoa, Sandro A. N., Razafindrakoto, Jocelyn, Dentinger, Catherine M., Williamson, John, Kapesa, Laurent, Piola, Patrice, Randrianarivelojosia, Milijaona, Thwing, Julie, Steinhardt, Laura C., and Baril, Laurence
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Additional file 1: Figure S1. Flowchart of the households and individuals included on the survey from the baseline. Figure S2. Comparison of malaria incidence and positivity in the intervention area during March-October 2017 with average values for Mananjary District. Figure S3. Comparison of malaria community case management in the intervention and control arms during pro-CCM implementation and during the two years prior. Figure S4. Map of Mananjary district and the fokontany included in the intervention and control arms.
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- 2022
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15. Effects of mefloquine use on Pasmodium vivax multidrug resistance
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Khim, Nimol, Andrianaranjaka, Voahangy, Popovici, Jean, Kim, Saorin, Ratsimbasoa, Arsene, Benedet, Christophe, Barnadas, Celine, Durand, Remy, Thellier, Marc, Legrand, Eric, Musset, Lise, Menegon, Michela, Severini, Carlo, Nour, Bakri Y.M., Tichit, Magali, Bouchier, Christiane, Mercereau-Puijalon, Odile, and Menard, Didier
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Drug resistance in microorganisms -- Analysis -- Health aspects ,Infection -- Analysis -- Health aspects ,Malaria -- Analysis -- Health aspects ,Plasmodium falciparum -- Analysis -- Health aspects ,Health - Abstract
Since World War II, antimalarial drugs have been intensively used to prevent or treat malaria (1). As observed with other antimicrobial agents, their use (or frequent misuse, when malaria diagnosis [...]
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- 2014
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16. DNA recovery from used malaria RDT to detect Plasmodium species and to assess Plasmodium falciparum genetic diversity: A pilot study in Madagascar
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ANDRIANARANJAKA, Voahangy Hanitriniaina Isabelle, primary, Ravaoarisoa, Elisabeth, additional, Rakotomanga, Tovonanahary Angelo, additional, Ralinoro, Fanomezantsoa, additional, Rakoto, Danielle A Doll, additional, Randrianarivo, Hanitra, additional, Jeannoda, Victor, additional, and Ratsimbasoa, Arsène, additional
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- 2022
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17. PERSPECTIVE: Monitoring parasite diversity for malaria elimination in sub-Saharan Africa
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Ghansah, Anita, Amenga-Etego, Lucas, Amambua-Ngwa, Alfred, Andagalu, Ben, Apinjoh, Tobias, Bouyou-Akotet, Marielle, Cornelius, Victoria, Golassa, Lemu, Andrianaranjaka, Voahangy Hanitriniaina, Ishengoma, Deus, Johnson, Kimberly, Kamau, Edwin, Maïga-Ascofaré, Oumou, Mumba, Dieudonne, Tindana, Paulina, Tshefu-Kitoto, Antoinette, Randrianarivelojosia, Milijaona, William, Yavo, Kwiatkowski, Dominic P., and Djimde, Abdoulaye A.
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- 2014
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18. Association of mutations in the Plasmodium falciparum Kelch13 gene (Pf3D7_1343700) with parasite clearance rates after artemisinin-based treatments : a WWARN individual patient data meta-analysis
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Amaratunga, Chanaki, Andrianaranjaka, Voahangy Hanitriniaina, Ashley, Elizabeth, Bethell, Delia, Bjorkman, Anders, Bonnington, Craig A., Cooper, Roland A., Dhorda, Mehul, Dondorp, Arjen, Erhart, Annette, Fairhurst, Rick M., Faiz, Abul, Fanello, Caterina, Fukuda, Mark M., Guerin, Philippe, van Huijsduijnen, Rob Hooft, Hien, Tran Tinh, Hong, N. V., Htut, Ye, Huang, Fang, Humphreys, Georgina, Imwong, Mallika, Kennon, Kalynn, Lim, Pharath, Lin, Khin, Lon, Chanthap, Mårtensson, Andreas, Mayxay, Mayfong, Mokuolu, Olugbenga, Morris, Ulrika, Ngasala, Billy E., Amambua-Ngwa, Alfred, Noedl, Harald, Nosten, Francois, Onyamboko, Marie, Phyo, Aung Pyae, Plowe, Christopher V., Pukrittayakamee, Sasithon, Randrianarivelojosia, Milijaona, Rosenthal, Philip J., Saunders, David L., Sibley, Carol Hopkins, Smithuis, Frank, Spring, Michele D., Sondo, Paul, Sreng, Sokunthea, Starzengruber, Peter, Stepniewska, Kasia, Suon, Seila, Takala-Harrison, Shannon, Thriemer, Kamala, Thuy-Nhien, Nguyen, Tun, Kyaw Myo, White, Nicholas J., and Woodrow, Charles
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Infectious Medicine ,Infektionsmedicin - Abstract
Background: Plasmodium falciparum infections with slow parasite clearance following artemisinin-based therapies are widespread in the Greater Mekong Subregion. A molecular marker of the slow clearance phenotype has been identified: single genetic changes within the propeller region of the Kelch13 protein (pfk13; Pf3D7_1343700). Global searches have identified almost 200 different non-synonymous mutant pfk13 genotypes. Most mutations occur at low prevalence and have uncertain functional significance. To characterize the impact of different pfk13 mutations on parasite clearance, we conducted an individual patient data meta-analysis of the associations between parasite clearance half-life (PC1/2) and pfk13 genotype based on a large set of individual patient records from Asia and Africa. Methods: A systematic literature review following the PRISMA protocol was conducted to identify studies published between 2000 and 2017 which included frequent parasite counts and pfk13 genotyping. Four databases (Ovid Medline, PubMed, Ovid Embase, and Web of Science Core Collection) were searched. Eighteen studies (15 from Asia, 2 from Africa, and one multicenter study with sites on both continents) met inclusion criteria and were shared. Associations between the log transformed PC1/2 values and pfk13 genotype were assessed using multivariable regression models with random effects for study site. Results: Both the pfk13 genotypes and the PC1/2 were available from 3250 (95%) patients (n=3012 from Asia (93%), n=238 from Africa (7%)). Among Asian isolates, all pfk13 propeller region mutant alleles observed in five or more specific isolates were associated with a 1.5- to 2.7-fold longer geometric mean PC1/2 compared to the PC1/2 of wild type isolates (all p≤0.002). In addition, mutant allele E252Q located in the P. falciparum region of pfk13 was associated with 1.5-fold (95%CI 1.4-1.6) longer PC1/2. None of the isolates from four countries in Africa showed a significant difference between the PC1/2 of parasites with or without pfk13 propeller region mutations.Previously, the association of six pfk13 propeller mutant alleles with delayed parasite clearance had been confirmed. This analysis demonstrates that 15 additional pfk13 alleles are associated strongly with the slow-clearing phenotype in Southeast Asia. Conclusion: Pooled analysis associated 20 pfk13 propeller region mutant alleles with the slow clearance phenotype, including 15 mutations not confirmed previously.
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- 2019
19. Genomic epidemiology of artemisinin resistant malaria
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Amato, Roberto, Miotto, Olivo, Woodrow, Charles J, Almagro-Garcia, Jacob, Sinha, Ipsita, Campino, Susana, Mead, Daniel, Drury, Eleanor, Kekre, Mihir, Sanders, Mandy, Amambua-Ngwa, Alfred, Amaratunga, Chanaki, Amenga-Etego, Lucas, Andrianaranjaka, Voahangy, Apinjoh, Tobias, Ashley, Elizabeth, Auburn, Sarah, Awandare, Gordon, Baraka, Vito, Barry, Alyssa, Boni, Maciej, Borrmann, Steffen, Bousema, Teun, Branch, Oralee, Bull, Peter, Chotivanich, Kesinee, Conway, David, Craig, Alister, Day, Nicholas, Djimde, Abdoulaye, Dolecek, Christiane, Dondorp, Arjen M, Drakeley, Chris, Duffy, Patrick, Echeverry, Diego F, Egwang, Thomas, Fairhurst, Rick, Faiz, Abul, Fanello, Caterina, Hien, Tran Tinh, Hodgson, Abraham, Imwong, Mallika, Ishengoma, Deus, Lim, Pharath, Lon, Chanthap, Marfurt, Jutta, Marsh, Kevin, Mayxay, Mayfong, Michon, Pascal, Mobegi, Victor, Mokuolu, Olugbenga, Montgomery, Jacqui, Mueller, Ivo, Kyaw, Myat Phone, Newton, Paul N, Nosten, François, Noviyanti, Rintis, Nzila, Alexis, Ocholla, Harold, Oduro, Abraham, Onyamboko, Marie, Ouédraogo, Jean-Bosco, Phyo, Aung, Plowe, Christopher, Price, Ric, Pukrittayakamee, Sasithon, Randrianarivelojosia, Milijaona, Ringwald, Pascal, Ruiz, Lastenia, Saunders, David, Shayo, Alex, Siba, Peter, Takala-Harrison, Shannon, Thanh, Thuy-Nhien, Thathy, Vandana, Verra, Federica, Wendler, Jason, White, Nicholas, Ye, Htut, Cornelius, Victoria, Giacomantonio, Rachel, Muddyman, Dawn, Henrichs, Christa, Malangone, Cinzia, Jyothi, Dushyanth, Pearson, Richard, Rayner, Julian, McVean, Gilean, Rockett, Kirk, Miles, Alistair, Vauterin, Paul, Jeffery, Ben, Manske, Magnus, Stalker, Jim, MacInnis, Bronwyn, Kwiatkowski, Dominic, The Wellcome Trust Sanger Institute [Cambridge], Mahidol Oxford Tropical Medicine Research Unit, University of Oxford [Oxford]-Mahidol University [Bangkok], The Wellcome Trust Centre for Human Genetics [Oxford], University of Oxford [Oxford], Medical Research Council Unit The Gambia (MRC), National Institute of Allergy and Infectious Diseases [Bethesda] (NIAID-NIH), National Institutes of Health [Bethesda] (NIH), Navrongo Health Research Centre [Navrongo, Ghana] (NHRC), G4 malaria group [Antananarivo, Madagascar] (IPM), Institut Pasteur de Madagascar, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), University of Buéa, Global and Tropical Health Division [Rocklands, Australia], Menzies School of Health Research [Australia], Charles Darwin University-Charles Darwin University, West African Centre for Cell Biology of Infectious Pathogens [Legon, Ghana] (WACCBIP), University of Ghana, National Institute for Medical Research [Tanzania] (NIMR), The Walter and Eliza Hall Institute of Medical Research (WEHI), Oxford University Clinical Research Unit [Ho Chi Minh City] (OUCRU), KEMRI-Wellcome Trust Research Programme (KWTRP), London School of Hygiene and Tropical Medicine (LSHTM), New York University School of Medicine, NYU System (NYU), Faculty of Tropical Medicine [Bangkok, Thailand], Mahidol University [Bangkok], Liverpool School of Tropical Medicine (LSTM), Faculté de Médecine, de pharmacie et d’Odonto-Stomatologie [Bamako, Mali] (FMPOS), Université de Bamako, Department of Entomology [West Lafayette], Purdue University [West Lafayette], Med Biotech Laboratories [Kampala, Ouganda] (MBL), Armed Forces Research Institute of Medical Sciences [Bangkok] (AFRIMS), Lao-Oxford-Mahosot Hospital-Wellcome Trust Research Unit (LOMWRU), Mahidol University [Bangkok]-Mahosot Hospital, Faculty of Medicine and Health Sciences [Madang, Papouasie-Nouvelle-Guinée], Divine Word University [Papouasie-Nouvelle-Guinée] (DWU), University of Ilorin, Department of Entomology [University Park], Pennsylvania State University (Penn State), Penn State System-Penn State System, University of Melbourne, Ministry of health and sport [Yangon, Myanmar] (MoHS), Eijkman Institute for Molecular Biology [Jakarta], King Fahd University of Petroleum and Minerals (KFUPM), Malawi Liverpool Wellcome Trust Clinical Research Programme (MLW), Liverpool School of Tropical Medicine (LSTM)-University of Liverpool-Wellcome Trust-University of Malawi, University of Kinshasa (UNIKIN), Institut de Recherche en Sciences de la Santé (IRSS) / Centre Muraz, Shoklo Malaria Research Unit [Mae Sot, Thailand] (SMRU), Mahidol Oxford Tropical Medicine Research Unit (MORU), Wellcome Trust-Mahidol University [Bangkok]-University of Oxford [Oxford]-Wellcome Trust-Mahidol University [Bangkok]-University of Oxford [Oxford], University of Maryland School of Medicine, University of Maryland System, Centre for Tropical Medicine and Global Health [Oxford, UK], Nuffield Department of Medicine [Oxford, UK] (Big Data Institute), University of Oxford [Oxford]-University of Oxford [Oxford], Department of Clinical Tropical Medicine [Bangkok, Thailand] (Faculty of Tropical Medicine), Global Malaria Programme, Organisation Mondiale de la Santé / World Health Organization Office (OMS / WHO), Universidad Nacional de la Amazonía Peruana [Loreto, Perou] (UNAP), University of Dodoma [Tanzanie] (UDOM), Papua New Guinea Institute of Medical Research (PNG-IMR), Wellcome Trust-Mahidol University [Bangkok]-University of Oxford [Oxford], The sequencing, analysis, informatics and management of the Community Project are supported by the Wellcome Trust through Sanger Institute core funding (098051) and a Strategic Award (090770/Z/09/Z) and by the MRC Centre for Genomics and Global Health which is jointly funded by the Medical Research Council and the Department for International Development (DFID) (G0600718, M006212). AEB and IM acknowledge the Victorian State Government Operational Infrastructure Support and Australian Government NHMRC IRIISS., This study was conducted by the MalariaGEN Plasmodium falciparum Community Project, and was made possible by clinical parasite samples contributed by partner studies, whose investigators are represented in the author list. RA and OM contributed equally. In addition, the authors would like to thank the following individuals, who contributed to partner studies or to the MalariaGEN Resource Centre, making this study possible: James Abugri, Nicholas Amoako, Steven M Kiara, John Okombo, Rogelin Raherinjafy, Seheno Razanatsiorimalala, Hongying Jiang, Xin-zhuan Su., and MalariaGEN Plasmodium Falciparum C
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0301 basic medicine ,Drug resistance ,Pharmacology ,MESH: Asia, Southeastern/epidemiology ,MESH: Malaria, Falciparum/epidemiology ,Malaria, Falciparum ,Artemisinin ,Biology (General) ,GeneralLiterature_REFERENCE(e.g.,dictionaries,encyclopedias,glossaries) ,Asia, Southeastern ,Genetics ,Molecular Epidemiology ,Microbiology and Infectious Disease ,education.field_of_study ,MESH: Plasmodium falciparum/genetics ,General Neuroscience ,General Medicine ,MESH: Artemisinins/pharmacology ,Artemisinins ,3. Good health ,Genomics and Evolutionary Biology ,kelch13 ,Medicine ,MESH: Plasmodium falciparum/drug effects ,Research Article ,medicine.drug ,Combination therapy ,plasmodium falciparum ,QH301-705.5 ,infectious disease ,MESH: Antimalarials/pharmacology ,Science ,030106 microbiology ,Population ,malaria ,MESH: Plasmodium falciparum/classification ,MESH: Malaria, Falciparum/parasitology ,Biology ,General Biochemistry, Genetics and Molecular Biology ,Antimalarials ,03 medical and health sciences ,parasitic diseases ,medicine ,genomics ,MESH: Molecular Epidemiology ,education ,MESH: Drug Resistance ,[SDV.GEN]Life Sciences [q-bio]/Genetics ,drug resistance ,General Immunology and Microbiology ,Molecular epidemiology ,evolutionary biology ,microbiology ,Plasmodium falciparum ,medicine.disease ,biology.organism_classification ,MESH: Africa/epidemiology ,lnfectious Diseases and Global Health Radboud Institute for Health Sciences [Radboudumc 4] ,030104 developmental biology ,artemisinin ,Infectious disease (medical specialty) ,Africa ,Other ,Human medicine ,MESH: Plasmodium falciparum/isolation & purification ,Malaria - Abstract
The current epidemic of artemisinin resistant Plasmodium falciparum in Southeast Asia is the result of a soft selective sweep involving at least 20 independent kelch13 mutations. In a large global survey, we find that kelch13 mutations which cause resistance in Southeast Asia are present at low frequency in Africa. We show that African kelch13 mutations have originated locally, and that kelch13 shows a normal variation pattern relative to other genes in Africa, whereas in Southeast Asia there is a great excess of non-synonymous mutations, many of which cause radical amino-acid changes. Thus, kelch13 is not currently undergoing strong selection in Africa, despite a deep reservoir of variations that could potentially allow resistance to emerge rapidly. The practical implications are that public health surveillance for artemisinin resistance should not rely on kelch13 data alone, and interventions to prevent resistance must account for local evolutionary conditions, shown by genomic epidemiology to differ greatly between geographical regions. DOI: http://dx.doi.org/10.7554/eLife.08714.001, eLife digest Malaria is an infectious disease caused by a microscopic parasite called Plasmodium, which is transferred between humans by mosquitos. One species of malaria parasite called Plasmodium falciparum can cause particularly severe and life-threatening forms of the disease. Currently, the most widely used treatment for P. falciparum infections is artemisinin combination therapy, a treatment that combines the drug artemisinin (or a closely related molecule) with another antimalarial drug. However, resistance to artemisinin has started to spread throughout Southeast Asia. Artemisinin resistance is caused by mutations in a parasite gene called kelch13, and researchers have identified over 20 different mutations in P. falciparum that confer artemisinin resistance. The diversity of mutations involved, and the fact that the same mutation can arise independently in different locations, make it difficult to track the spread of resistance using conventional molecular marker approaches. Here, Amato, Miotto et al. sequenced the entire genomes of more than 3,000 clinical samples of P. falciparum from Southeast Asia and Africa, collected as part of a global network of research groups called the MalariaGEN Plasmodium falciparum Community Project. Amato, Miotto et al. found that African parasites had independently acquired many of the same kelch13 mutations that are known to cause resistance to artemisinin in Southeast Asia. However the kelch13 mutations seen in Africa remained at low levels in the parasite population, and appeared to be under much less pressure for evolutionary selection than those found in Southeast Asia. These findings demonstrate that the emergence and spread of resistance to antimalarial drugs does not depend solely on the mutational process, but also on other factors that influence whether the mutations will spread in the population. Understanding how this is affected by different patterns of drug treatments and other environmental conditions will be important in developing more effective strategies for combating malaria. DOI: http://dx.doi.org/10.7554/eLife.08714.002
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- 2016
20. Genomic epidemiology of the current wave of artemisinin resistant malaria
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Amato, Roberto, Miotto, Olivo, Woodrow, Charles, Almagro-Garcia, Jacob, Sinha, Ipsita, Campino, Susana, Mead, Daniel, Drury, Eleanor, Kekre, Mihir, Sanders, Mandy, Amambua-Ngwa, Alfred, Amaratunga, Chanaki, Amenga-Etego, Lucas, Anderson, Tim JC, Andrianaranjaka, Voahangy, Apinjoh, Tobias, Ashley, Elizabeth, Auburn, Sarah, Awandare, Gordon A, Baraka, Vito, Barry, Alyssa, Boni, Maciej F, Borrmann, Steffen, Bousema, Teun, Branch, Oralee, Bull, Peter C, Chotivanich, Kesinee, Conway, David J, Craig, Alister, Day, Nicholas P, Djimdé, Abdoulaye, Dolecek, Christiane, Dondorp, Arjen M, Drakeley, Chris, Duffy, Patrick, Echeverri-Garcia, Diego F, Egwang, Thomas G, Fairhurst, Rick M, Faiz, Md. Abul, Fanello, Caterina I, Hien, Tran Tinh, Hodgson, Abraham, Imwong, Mallika, Ishengoma, Deus, Lim, Pharath, Lon, Chanthap, Marfurt, Jutta, Marsh, Kevin, Mayxay, Mayfong, Mobegi, Victor, Mokuolu, Olugbenga, Montgomery, Jacqui, Mueller, Ivo, Kyaw, Myat Phone, Newton, Paul N, Nosten, Francois, Noviyanti, Rintis, Nzila, Alexis, Ocholla, Harold, Oduro, Abraham, Onyamboko, Marie, Ouedraogo, Jean-Bosco, Phyo, Aung Pyae, Plowe, Christopher V, Price, Ric N, Pukrittayakamee, Sasithon, Randrianarivelojosia, Milijaona, Ringwald, Pascal, Ruiz, Lastenia, Saunders, David, Shayo, Alex, Siba, Peter, Takala-Harrison, Shannon, Thanh, Thuy-Nhien Nguyen, Thathy, Vandana, Verra, Federica, White, Nicholas J, Htut, Ye, Cornelius, Victoria J, Giacomantonio, Rachel, Muddyman, Dawn, Henrichs, Christa, Malangone, Cinzia, Jyothi, Dushyanth, Pearson, Richard D, Rayner, Julian C, McVean, Gilean, Rockett, Kirk, Miles, Alistair, Vauterin, Paul, Jeffery, Ben, Manske, Magnus, Stalker, Jim, MacInnis, Bronwyn, and Kwiatkowski, Dominic P
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0303 health sciences ,medicine.medical_specialty ,biology ,Resistance (ecology) ,business.industry ,030231 tropical medicine ,Plasmodium falciparum ,medicine.disease ,biology.organism_classification ,3. Good health ,Biotechnology ,03 medical and health sciences ,0302 clinical medicine ,Public health surveillance ,Evolutionary biology ,parasitic diseases ,Epidemiology ,medicine ,Artemisinin ,Current wave ,Selective sweep ,business ,Malaria ,030304 developmental biology ,medicine.drug - Abstract
Artemisinin resistant Plasmodium falciparum is advancing across Southeast Asia in a soft selective sweep involving at least 20 independent kelch13 mutations. In a large global survey, we find that kelch13 mutations which cause resistance in Southeast Asia are present at low frequency in Africa. We show that African kelch13 mutations have originated locally, and that kelch13 shows a normal variation pattern relative to other genes in Africa, whereas in Southeast Asia there is a great excess of non‐synonymous mutations, many of which cause radical amino‐acid changes. Thus, kelch13 is not currently undergoing strong selection in Africa, despite a deep reservoir of standing variation that could potentially allow resistance to emerge rapidly. The practical implications are that public health surveillance for artemisinin resistance should not rely on kelch13 data alone, and interventions to prevent resistance must account for local evolutionary conditions, shown by genomic epidemiology to differ greatly between geographical regions.
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- 2015
21. Effects of Mefloquine Use onPlasmodium vivaxMultidrug Resistance
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Khim, Nimol, primary, Andrianaranjaka, Voahangy, additional, Popovici, Jean, additional, Kim, Saorin, additional, Ratsimbasoa, Arsene, additional, Benedet, Christophe, additional, Barnadas, Celine, additional, Durand, Remy, additional, Thellier, Marc, additional, Legrand, Eric, additional, Musset, Lise, additional, Menegon, Michela, additional, Severini, Carlo, additional, Nour, Bakri Y.M., additional, Tichit, Magali, additional, Bouchier, Christiane, additional, Mercereau-Puijalon, Odile, additional, and Ménard, Didier, additional
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- 2014
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22. Activation of minority-variant Plasmodium vivax hypnozoites following artesunate + amodiaquine treatment in a 23-year old man with relapsing malaria in Antananarivo, Madagascar
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Andrianaranjaka, Voahangy, primary, Lin, Jessica T, additional, Golden, Christopher, additional, Juliano, Jonathan J, additional, and Randrianarivelojosia, Milijaona, additional
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- 2013
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23. The Origins of African Plasmodium vivax; Insights from Mitochondrial Genome Sequencing
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Culleton, Richard, primary, Coban, Cevayir, additional, Zeyrek, Fadile Yildiz, additional, Cravo, Pedro, additional, Kaneko, Akira, additional, Randrianarivelojosia, Milijaona, additional, Andrianaranjaka, Voahangy, additional, Kano, Shigeyuki, additional, Farnert, Anna, additional, Arez, Ana Paula, additional, Sharp, Paul M., additional, Carter, Richard, additional, and Tanabe, Kazuyuki, additional
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- 2011
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24. Further evidence for malaria elimination failutre on the island of Sainte Marie (Madagascar)
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Andrianaranjaka, Voahangy, primary, Ranarivelo, Lanto Alisoa, additional, Dadare, Anatole, additional, Raherinjafy, Rogelin, additional, Rabearimanana, Stephane, additional, Ramarosandratana, Benjamin, additional, Tafangy, Philémon, additional, and Randrianarivelojosia, Milijaona, additional
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- 2011
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25. Plasmodium falciparum Drug Resistance in Madagascar: Facing the Spread of Unusual pfdhfr and pfmdr-1 Haplotypes and the Decrease of Dihydroartemisinin Susceptibility
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Andriantsoanirina, Valérie, primary, Ratsimbasoa, Arsène, additional, Bouchier, Christiane, additional, Jahevitra, Martial, additional, Rabearimanana, Stéphane, additional, Radrianjafy, Rogelin, additional, Andrianaranjaka, Voahangy, additional, Randriantsoa, Tantely, additional, Rason, Marie Ange, additional, Tichit, Magali, additional, Rabarijaona, Léon Paul, additional, Mercereau-Puijalon, Odile, additional, Durand, Rémy, additional, and Ménard, Didier, additional
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- 2009
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26. Plasmodium falciparumDrug Resistance in Madagascar: Facing the Spread of Unusual pfdhfrand pfmdr-1Haplotypes and the Decrease of Dihydroartemisinin Susceptibility
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Andriantsoanirina, Valérie, Ratsimbasoa, Arsène, Bouchier, Christiane, Jahevitra, Martial, Rabearimanana, Stéphane, Radrianjafy, Rogelin, Andrianaranjaka, Voahangy, Randriantsoa, Tantely, Rason, Marie Ange, Tichit, Magali, Rabarijaona, Léon Paul, Mercereau-Puijalon, Odile, Durand, Rémy, and Ménard, Didier
- Abstract
ABSTRACTThe aim of this study was to provide the first comprehensive spatiotemporal picture of Plasmodium falciparumresistance in various geographic areas in Madagascar. Additional data about the antimalarial resistance in the neighboring islands of the Comoros archipelago were also collected. We assessed the prevalence of pfcrt, pfmdr-1, pfdhfr, and pfdhpsmutations and the pfmdr-1gene copy number in 1,596 P. falciparumisolates collected in 26 health centers (20 in Madagascar and 6 in the Comoros Islands) from 2006 to 2008. The in vitro responses to a panel of drugs by 373 of the parasite isolates were determined. The results showed (i) unusual profiles of chloroquine susceptibility in Madagascar, (ii) a rapid rise in the frequency of parasites with both the pfdhfrand the pfdhpsmutations, (iii) the alarming emergence of the single pfdhfr164L genotype, and (iv) the progressive loss of the most susceptible isolates to artemisinin derivatives. In the context of the implementation of the new national policy for the fight against malaria, continued surveillance for the detection of P. falciparumresistance in the future is required.
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- 2009
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27. [Pcr-rflp genotyping of pfcrt and pfmdr1 in plasmodium falciparum isolates from children in Vatomandry, Madagascar].
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Ravaoarisoa É, Andrianaranjaka VHI, Ramanantsahala AD, Rakotomanga TA, Ralinoro F, Rakotosaona R, Randrianarivo RH, Rakoto DAD, Jeannoda V, and Ratsimbasoa A
- Subjects
- Amodiaquine pharmacology, Artesunate pharmacology, Child, Chloroquine pharmacology, Drug Resistance genetics, Genotype, Humans, Madagascar epidemiology, Polymerase Chain Reaction, Polymorphism, Restriction Fragment Length, Malaria, Falciparum, Membrane Transport Proteins, Multidrug Resistance-Associated Proteins genetics, Plasmodium falciparum genetics, Protozoan Proteins
- Abstract
Background: Malaria is a parasitic disease caused by a hematozoan of the genus Plasmodium. Early diagnosis followed by effective treatment is one of the keys to control this disease. In Madagascar, after more than 60 years of use for the treatment of uncomplicated malaria, chloroquine (CQ) was abandoned in favor of artesunate + amodiaquine (ASAQ) combination because of high prevalence of CQ treatment failure. Surveillance based on the assessment of therapeutic efficacy and genetic markers of resistance to antimalarials is therefore essential in order to detect the emergence of potentially resistant parasites as early as possible. In this context, our study aimed to genotype the Plasmodium falciparum chloroquine resistance transporter gene or Pfcrt and Plasmodium falciparum multidrug resistance gene 1 or Pfmdr1 in isolates collected from children in the district of Vatomandry., Methods: A total of 142 P. falciparum isolates collected during active case detection of malaria in children under 15 years old, between February and March of 2016 and 2017 in Vatomandry district, were analyzed. Pfcrt (K76T codon) and Pfmdr1 (N86Y codon) genotyping was carried out by polymerase chain reaction followed by enzymatic digestion (restriction fragment length polymorphism) or PCR-RFLP., Results: The successful rates of amplification of Pfcrt and Pfmdr1 genes were low, around 27% and 39% respectively. The prevalence of isolates carrying the mutant Pfcrt K76T codon and the mutant Pfmdr1 N86Y codon was 2.6% [95% confidence interval (95% CI): 0.1 - 15.0%] and 36% [95% CI: 23.7 - 49.7%] respectively., Conclusion: Despite the limited number of samples analyzed, our study highlighted the circulation of isolates carrying both the mutant Pfcrt K76T and Pfmdr1 N86Y alleles. Although the prevalence of mutations in Pfcrt and Pfmdr1 genes that we observed was low, other studies should be carried out in order to follow the evolution of these markers in time and space. The use of more sensitive methods will better characterize P. falciparum strains circulating in Madagascar. Artesunate-amodiaquine is used as a first-line treatment for uncomplicated malaria in the country; it is also crucial to monitor the other codons, i.e. 184 and 1246 of the Pfmdr1 gene, implicated in the resistance of P. falciparum to amodiaquine in Africa., (Copyright © 2022 SFMTSI.)
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- 2022
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28. An open dataset of Plasmodium vivax genome variation in 1,895 worldwide samples.
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Adam I, Alam MS, Alemu S, Amaratunga C, Amato R, Andrianaranjaka V, Anstey NM, Aseffa A, Ashley E, Assefa A, Auburn S, Barber BE, Barry A, Batista Pereira D, Cao J, Chau NH, Chotivanich K, Chu C, Dondorp AM, Drury E, Echeverry DF, Erko B, Espino F, Fairhurst R, Faiz A, Fernanda Villegas M, Gao Q, Golassa L, Goncalves S, Grigg MJ, Hamedi Y, Hien TT, Htut Y, Johnson KJ, Karunaweera N, Khan W, Krudsood S, Kwiatkowski DP, Lacerda M, Ley B, Lim P, Liu Y, Llanos-Cuentas A, Lon C, Lopera-Mesa T, Marfurt J, Michon P, Miotto O, Mohammed R, Mueller I, Namaik-Larp C, Newton PN, Nguyen TN, Nosten F, Noviyanti R, Pava Z, Pearson RD, Petros B, Phyo AP, Price RN, Pukrittayakamee S, Rahim AG, Randrianarivelojosia M, Rayner JC, Rumaseb A, Siegel SV, Simpson VJ, Thriemer K, Tobon-Castano A, Trimarsanto H, Urbano Ferreira M, Vélez ID, Wangchuk S, Wellems TE, White NJ, William T, Yasnot MF, and Yilma D
- Abstract
This report describes the MalariaGEN Pv4 dataset, a new release of curated genome variation data on 1,895 samples of Plasmodium vivax collected at 88 worldwide locations between 2001 and 2017. It includes 1,370 new samples contributed by MalariaGEN and VivaxGEN partner studies in addition to previously published samples from these and other sources. We provide genotype calls at over 4.5 million variable positions including over 3 million single nucleotide polymorphisms (SNPs), as well as short indels and tandem duplications. This enlarged dataset highlights major compartments of parasite population structure, with clear differentiation between Africa, Latin America, Oceania, Western Asia and different parts of Southeast Asia. Each sample has been classified for drug resistance to sulfadoxine, pyrimethamine and mefloquine based on known markers at the dhfr , dhps and mdr1 loci. The prevalence of all of these resistance markers was much higher in Southeast Asia and Oceania than elsewhere. This open resource of analysis-ready genome variation data from the MalariaGEN and VivaxGEN networks is driven by our collective goal to advance research into the complex biology of P. vivax and to accelerate genomic surveillance for malaria control and elimination., Competing Interests: No competing interests were disclosed., (Copyright: © 2022 MalariaGEN et al.)
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- 2022
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29. An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples.
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Ahouidi A, Ali M, Almagro-Garcia J, Amambua-Ngwa A, Amaratunga C, Amato R, Amenga-Etego L, Andagalu B, Anderson TJC, Andrianaranjaka V, Apinjoh T, Ariani C, Ashley EA, Auburn S, Awandare GA, Ba H, Baraka V, Barry AE, Bejon P, Bertin GI, Boni MF, Borrmann S, Bousema T, Branch O, Bull PC, Busby GBJ, Chookajorn T, Chotivanich K, Claessens A, Conway D, Craig A, D'Alessandro U, Dama S, Day NP, Denis B, Diakite M, Djimdé A, Dolecek C, Dondorp AM, Drakeley C, Drury E, Duffy P, Echeverry DF, Egwang TG, Erko B, Fairhurst RM, Faiz A, Fanello CA, Fukuda MM, Gamboa D, Ghansah A, Golassa L, Goncalves S, Hamilton WL, Harrison GLA, Hart L, Henrichs C, Hien TT, Hill CA, Hodgson A, Hubbart C, Imwong M, Ishengoma DS, Jackson SA, Jacob CG, Jeffery B, Jeffreys AE, Johnson KJ, Jyothi D, Kamaliddin C, Kamau E, Kekre M, Kluczynski K, Kochakarn T, Konaté A, Kwiatkowski DP, Kyaw MP, Lim P, Lon C, Loua KM, Maïga-Ascofaré O, Malangone C, Manske M, Marfurt J, Marsh K, Mayxay M, Miles A, Miotto O, Mobegi V, Mokuolu OA, Montgomery J, Mueller I, Newton PN, Nguyen T, Nguyen TN, Noedl H, Nosten F, Noviyanti R, Nzila A, Ochola-Oyier LI, Ocholla H, Oduro A, Omedo I, Onyamboko MA, Ouedraogo JB, Oyebola K, Pearson RD, Peshu N, Phyo AP, Plowe CV, Price RN, Pukrittayakamee S, Randrianarivelojosia M, Rayner JC, Ringwald P, Rockett KA, Rowlands K, Ruiz L, Saunders D, Shayo A, Siba P, Simpson VJ, Stalker J, Su XZ, Sutherland C, Takala-Harrison S, Tavul L, Thathy V, Tshefu A, Verra F, Vinetz J, Wellems TE, Wendler J, White NJ, Wright I, Yavo W, and Ye H
- Abstract
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., Competing Interests: No competing interests were disclosed., (Copyright: © 2021 MalariaGEN et al.)
- Published
- 2021
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