Genomic epidemiology of SARS-CoV-2 during the first four waves in Mozambique

Autor: Nalia Ismael, Stephanie van Wyk, Houriiyah Tegally, Jennifer Giandhari, James Emmanuel San, Monika Moir, Sureshnee Pillay, Christian Utpatel, Lavanya Singh, Yeshnee Naidoo, Upasana Ramphal, Nédio Mabunda, Nuro Abílio, Paulo Arnaldo, Joicymara Xavier, Daniel Gyamfi Amoako, Josie Everatt, Yajna Ramphal, Arisha Maharaj, Leonardo de Araujo, Ugochukwu J. Anyaneji, Derek Tshiabuila, Sofia Viegas, Richard Lessells, Susan Engelbrecht, Eduardo Gudo, Ilesh Jani, Stefan Niemann, Eduan Wilkinson, Túlio de Oliveira

Publikováno v: PLOS Global Public Health, Vol 3, Iss 3 (2023)

Mozambique reported the first case of coronavirus disease 2019 (COVID-19) in March 2020 and it has since spread to all provinces in the country. To investigate the introductions and spread of SARS-CoV-2 in Mozambique, 1 142 whole genome sequences sam

Externí odkaz: https://doaj.org/article/dd8dafe86f93489d98cca9fa84ee2865

Multiplex qPCR discriminates variants of concern to enhance global surveillance of SARS-CoV-2.

Autor: Chantal B F Vogels, Mallery I Breban, Isabel M Ott, Tara Alpert, Mary E Petrone, Anne E Watkins, Chaney C Kalinich, Rebecca Earnest, Jessica E Rothman, Jaqueline Goes de Jesus, Ingra Morales Claro, Giulia Magalhães Ferreira, Myuki A E Crispim, Brazil-UK CADDE Genomic Network, Lavanya Singh, Houriiyah Tegally, Ugochukwu J Anyaneji, Network for Genomic Surveillance in South Africa, Emma B Hodcroft, Christopher E Mason, Gaurav Khullar, Jessica Metti, Joel T Dudley, Matthew J MacKay, Megan Nash, Jianhui Wang, Chen Liu, Pei Hui, Steven Murphy, Caleb Neal, Eva Laszlo, Marie L Landry, Anthony Muyombwe, Randy Downing, Jafar Razeq, Tulio de Oliveira, Nuno R Faria, Ester C Sabino, Richard A Neher, Joseph R Fauver, Nathan D Grubaugh

Publikováno v: PLoS Biology, Vol 19, Iss 5, p e3001236 (2021)

With the emergence of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) variants that may increase transmissibility and/or cause escape from immune responses, there is an urgent need for the targeted surveillance of circulating lineages. I

Externí odkaz: https://doaj.org/article/df6ae3b174fb4117b9adacb18f55fee4

Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa

Autor: Raquel Viana, Sikhulile Moyo, Daniel G. Amoako, Houriiyah Tegally, Cathrine Scheepers, Christian L. Althaus, Ugochukwu J. Anyaneji, Phillip A. Bester, Maciej F. Boni, Mohammed Chand, Wonderful T. Choga, Rachel Colquhoun, Michaela Davids, Koen Deforche, Deelan Doolabh, Louis du Plessis, Susan Engelbrecht, Josie Everatt, Jennifer Giandhari, Marta Giovanetti, Diana Hardie, Verity Hill, Nei-Yuan Hsiao, Arash Iranzadeh, Arshad Ismail, Charity Joseph, Rageema Joseph, Legodile Koopile, Sergei L. Kosakovsky Pond, Moritz U. G. Kraemer, Lesego Kuate-Lere, Oluwakemi Laguda-Akingba, Onalethatha Lesetedi-Mafoko, Richard J. Lessells, Shahin Lockman, Alexander G. Lucaci, Arisha Maharaj, Boitshoko Mahlangu, Tongai Maponga, Kamela Mahlakwane, Zinhle Makatini, Gert Marais, Dorcas Maruapula, Kereng Masupu, Mogomotsi Matshaba, Simnikiwe Mayaphi, Nokuzola Mbhele, Mpaphi B. Mbulawa, Adriano Mendes, Koleka Mlisana, Anele Mnguni, Thabo Mohale, Monika Moir, Kgomotso Moruisi, Mosepele Mosepele, Gerald Motsatsi, Modisa S. Motswaledi, Thongbotho Mphoyakgosi, Nokukhanya Msomi, Peter N. Mwangi, Yeshnee Naidoo, Noxolo Ntuli, Martin Nyaga, Lucier Olubayo, Sureshnee Pillay, Botshelo Radibe, Yajna Ramphal, Upasana Ramphal, James E. San, Lesley Scott, Roger Shapiro, Lavanya Singh, Pamela Smith-Lawrence, Wendy Stevens, Amy Strydom, Kathleen Subramoney, Naume Tebeila, Derek Tshiabuila, Joseph Tsui, Stephanie van Wyk, Steven Weaver, Constantinos K. Wibmer, Eduan Wilkinson, Nicole Wolter, Alexander E. Zarebski, Boitumelo Zuze, Dominique Goedhals, Wolfgang Preiser, Florette Treurnicht, Marietje Venter, Carolyn Williamson, Oliver G. Pybus, Jinal Bhiman, Allison Glass, Darren P. Martin, Andrew Rambaut, Simani Gaseitsiwe, Anne von Gottberg, Tulio de Oliveira

Publikováno v: Viana, R, Moyo, S, Amoako, D G, Tegally, H, Scheepers, C, Althaus, C L, Anyaneji, U J, Bester, P A, Boni, M F, Chand, M, Choga, W T, Colquhoun, R, Davids, M, Deforche, K, Doolabh, D, du Plessis, L, Engelbrecht, S, Everatt, J, Giandhari, J, Giovanetti, M, Hardie, D, Hill, V, Hsiao, N Y, Iranzadeh, A, Ismail, A, Joseph, C, Joseph, R, Koopile, L, Kosakovsky Pond, S L, Kraemer, M U G, Kuate-Lere, L, Laguda-Akingba, O, Lesetedi-Mafoko, O, Lessells, R J, Lockman, S, Lucaci, A G, Maharaj, A, Mahlangu, B, Maponga, T, Mahlakwane, K, Makatini, Z, Marais, G, Maruapula, D, Masupu, K, Matshaba, M, Mayaphi, S, Mbhele, N, Mbulawa, M B, Mendes, A, Mlisana, K, Mnguni, A, Mohale, T, Moir, M, Moruisi, K, Mosepele, M, Motsatsi, G, Motswaledi, M S, Mphoyakgosi, T, Msomi, N, Mwangi, P N, Naidoo, Y, Ntuli, N, Nyaga, M, Olubayo, L, Pillay, S, Radibe, B, Ramphal, Y, Ramphal, U, San, J E, Scott, L, Shapiro, R, Singh, L, Smith-Lawrence, P, Stevens, W, Strydom, A, Subramoney, K, Tebeila, N, Tshiabuila, D, Tsui, J, van Wyk, S, Weaver, S, Wibmer, C K, Wilkinson, E, Wolter, N, Zarebski, A E, Zuze, B, Goedhals, D, Preiser, W, Treurnicht, F, Venter, M, Williamson, C, Pybus, O G, Bhiman, J, Glass, A, Martin, D P, Rambaut, A, Gaseitsiwe, S, von Gottberg, A & de Oliveira, T 2022, ' Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa ', Nature, vol. 603, pp. 679-686 . https://doi.org/10.1038/s41586-022-04411-y
Viana, Raquel; Moyo, Sikhulile; Amoako, Daniel G; Tegally, Houriiyah; Scheepers, Cathrine; Althaus, Christian L.; Anyaneji, Ugochukwu J; Bester, Phillip A; Boni, Maciej F; Chand, Mohammed; Choga, Wonderful T; Colquhoun, Rachel; Davids, Michaela; Deforche, Koen; Doolabh, Deelan; du Plessis, Louis; Engelbrecht, Susan; Everatt, Josie; Giandhari, Jennifer; Giovanetti, Marta; ... (2022). Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa. Nature, 603(7902), pp. 679-686. Macmillan Journals Ltd. 10.1038/s41586-022-04411-y

The SARS-CoV-2 epidemic in southern Africa has been characterized by three distinct waves. The first was associated with a mix of SARS-CoV-2 lineages, while the second and third waves were driven by the Beta (B.1.351) and Delta (B.1.617.2) variants,

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5c6c563423c1f4fc3d81e94434f6612c
https://www.pure.ed.ac.uk/ws/files/257854234/s41586_022_04411_y.pdf

A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa

Autor: Aida Elargoubi, John M. Morobe, Jiro Yasuda, Madisa Mine, Faustinos T. Takawira, Jean-Jacques Muyembe Tamfum, Amal Souissi, Hela Karray, Dominique Goedhals, Michael Owusu, Mitoha O. Ayekaba, Pascale Ondoa, Bryan Fulbert Nkengfack Tegomoh, Daniel G. Amoako, Mathabo Mareka, Sameh Trabelsi, Dorcas Maruapula, Magalutcheemee Ramuth, Danny S. Park, Bamidele Soji Oderinde, Maitshwarelo I. Matsheka, Robert A. Kingsley, Philippe Dussart, Matthew Cotten, Hesham A. Elgahzaly, Oyewale Tomori, Arash Iranzadeh, Nicksy Gumede, Marta Giovanetti, Folarin Onikepe, Omoruyi E. Chukwuma, Nnaemeka Ndodo, Mba Nwando, Oladiji Femi, Sylvie L. Budiaki, Gemma L. Kay, Johnson C. Okolie, Saber Masmoudi, Okokhere Peter, Hlanai Gumbo, Sara H.A. Agwa, Mooko Sekhele, Imed Gaaloul, Sheila M. Mandanda, Enatha Mukantwari, Ngonda Saasa, Sanaâ Lemriss, Hellen Nansumba, Akano Kazeem, Upasana Ramphal, Carolyn Williamson, Belinda Louise Herring, Vagner Fonseca, Edidah M. Ong'era, Joana Q. Mends, Ahmed E Ogwell Ouma, Anika Vinze, Ahmad Sayed, Richard Phillips, Adewunmi M. Olubusuyi, Bourema Kouriba, Vivianne Gorova, John O. Gyapong, Tulio de Oliveira, Arnold W. Lambisia, Najla Kharrat, Wolfgang Preiser, Ojide Chiedozie Kingsley, Yenew K. Tebeje, Sherihane Aryeetey, Yaw Bediako, David A. Rasmussen, Wael H. Roshdy, Norosoa Harline Razanajatovo, Siham Elhamoumi, Sylvie van der Werf, Moussa Moïse Diagne, Claudia Daubenberger, Oshomah Cyril, Andrew J. Page, Uwanibe Jessica, Matoke-Muhia Damaris, Daniel J. Bridges, Sumir Panji, Mahjoub Aouni, Adnene Hammami, Simani Gaseitsiwe, Daniel Lule Bugembe, Gugu Maphalala, Kim Hae-Young, Mohamed K. Khalifa, Safietou Sankhe, Fabian H. Leendertz, Richard Njouom, Ousmane Faye, Kwabena O. Duedu, Jeffrey G. Shaffer, Tobias Schindler, Bankole Bolajoko, Cathrine Scheepers, Francisca M. Muyembe, Ajogbasile F. Victoria, Mirabeau T. Youtchou, Ayoade Femi, Amel Chtourou, Kefentse A. Tumedi, Adrienne A. Amuri, Joyce M. Ngoi, Etile Anoh, Richmond Gorman, Mohamed Abouelhoda, Ali Ahmed Yahaya, Paulo Arnaldo, Alexander J. Trotter, Lahcen Belyamani, Isaac Ssewanyana, Susan Nabadda, Arshad Ismail, Julia C. Andeko, James Emmanuel San, Susan Engelbrecht, Sikhulile Moyo, Jinal N. Bhiman, Jean-Michel Heraud, Julius J. Lutwama, Samar Metha, Amadou Diallo, Soa-Fy Andriamandimby, Rosina A. A. Carr, Edgar Simulundu, Steve A. Mundeke, Nelson B. Silochi, Shymaa S. Ahmed, Nadia Touil, Ihekweazu Chikwe, Deogratius Ssemwanga, Ilhem Boutiba-Ben Boubaker, Houriiyah Tegally, Okogbenin Sylvanus, Abdoul K. Sangare, Mulenga Mwenda, Fausta Shakiwa Mosha, Amadou A. Sall, Derek Tshiabuila, D. James Nokes, Yvan Butera, Maximillian Mpina, Adedotun-Sulaiman Kemi, Onwe E. Ogah, Jean B. Lekana-Douk, Stephen F. Schaffner, Vincent Enouf, Chantal Akoua-Koffi, Diarra Bassirou, Edwin Shumba, Deelan Doolabh, Saba Gargouri, Kayode T. Adeyemi, Wonderful T. Choga, Nicola Mulder, Inbal Gazy, Mushal Allam, Saâd El Kabbaj, Christian T. Happi, Frank Tanser, Sobajo Tope, Michael R. Wiley, Katherine J. Siddle, Charles N. Agoti, John Kayiwa, George Githinji, Diego F. Cuadros, Abdoul-Salam Ouédraogo, Fowotade Adeola, Sonia Lekana-Douki, Edith N. Ngabana, William Ampofo, U George, Elmostafa El Fahime, Jean-Claude C Makangara, Nalia Ismael, Ebenezer Foster-Nyarko, Samar K. Kassim, Nedio Mabunda, Hafaliana Christian Ranaivoson, Tapfumanei Mashe, Sylvie Behillil, Etienne Simon-Loriere, Donwilliams O. Omuoyo, Darren P. Martin, Azeddine Ibrahimi, Paul E. Oluniyi, Richard J Lessells, My V. T. Phan, Feriel Bouzid, Salako B. Lawal, Gert U. van Zyl, Fares Wasfi, Christophe Peyrefitte, Joyce Namulondo, Ugochukwu J. Anyaneji, Mariétou Faye Paye, Augustina Sylverken, Sébastien Calvignac-Spencer, Malebogo Kebabonye, Sophie J Prosolek, Mahmoud el Hefnawi, Adeyemi O. O. Oluwapelumi, Fakayode O. Enoch, Eddy Kinganda Lusamaki, Gaetan Thilliez, Beatrice Dhaala, Gabriel K. Mbunsu, Lavanya Singh, Nnennaya A. Ajayi, Justin O'Grady, Olawoye Idowu, Ngoy Nsenga, Baba Marycelin, Ndongo Dia, Abdul Karim Sesay, Ikponmwosa Odia, Chika K. Onwuamah, Pardis C. Sabeti, Collins M. Morang’a, Hajar Lemriss, Dominic S. Y. Amuzu, Jones Gyamfi, Sofonias K. Tessema, Iyaloo Konstantinus, Pontiano Kaleebu, Patrick Semanda, Fawzi Derrar, Alpha Kabinet Keita, Joweria Nakaseegu, Ibtihel Smeti, Jocelyn Kiconco, Audu Rosemary, K Said, Bronwyn Kleinhans, Fatma Abdelmoula, Sureshnee Pillay, Abechi Priscilla, Manel Turki, Fred A. Dratibi, Berthe-Marie Njanpop-Lafourcade, Zaydah R. de Laurent, David Baker, Nadine Rujeni, Oguzie Judith, Peter K. Quashie, Phillip Armand Bester, Emmanuel Lokilo, Catherine Pratt, Nabil Abid, Mamadou Diop, Placide Mbala, Eduan Wilkinson, Johnathan A. Edwards, Ahmed Rebai, Haruka Abe, Ana Victoria Gutierrez, Thanh Le-Viet, Essia Belarbi, Steven Rudder, Jouali Farah, Maha Mastouri, Nei-yuan Hsiao, Happi Anise, Cara E. Brook, Lamia Fki-Berrajah, Gordon A. Awandare, Ugwu Chinedu, Abdel-Rahman N. Zekri, Sami Kammoun, Leonardo de Oliveira Martins, Martin M. Nyaga, Lynn Tyers, Jingjing Li, Ikhlas Ben Ayed, Mouna Ouadghiri, Amadou Koné, Reuben Ayivor-Djanie, Innocent Mudau, Thabo Mohale, Olumade Testimony, Eromon Philomena, Yeshnee Naidoo, Patrice Combe, Seydou Doumbia, Anne von Gottberg, Akpede George, Nosamiefan Iguosadolo, Mohamed G. Seadawy, Bronwyn McInnis, Faida Ajili, Grit Schubert, Tarik Aanniz, Maureen W. Mburu, Soumeya Ouangraoua, John N. Nkengasong, Jennifer Giandhari

Publikováno v: University of Cape Town
Science
Science, 2021, 374 (6566), pp.423-431. ⟨10.1126/science.abj4336⟩

The progression of the SARS-CoV-2 pandemic in Africa has so far been heterogeneous and the full impact is not yet well understood. Here, we describe the genomic epidemiology using a dataset of 8746 genomes from 33 African countries and two overseas t

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f4c96485ee85bc439996bcf1741dd5a8
https://ueaeprints.uea.ac.uk/id/eprint/89616/

Multiplex qPCR discriminates variants of concern to enhance global surveillance of SARS-CoV-2

Autor: Ingra Morales Claro, Anthony Muyombwe, Jianhui Wang, Steven Murphy, Megan Nash, Caleb Neal, Jafar Razeq, Chen Liu, Jessica E. Rothman, Emma B. Hodcroft, Houriiyah Tegally, Christopher E. Mason, Jaqueline Goes de Jesus, Richard A. Neher, Mary E. Petrone, Nuno R. Faria, Isabel M. Ott, Anne E. Watkins, Lavanya Singh, Matthew MacKay, Pei Hui, Joseph R. Fauver, Chantal B.F. Vogels, Gaurav Khullar, Ester Cerdeira Sabino, Chaney C. Kalinich, Ugochukwu J. Anyaneji, Nathan D. Grubaugh, Tara Alpert, Myuki A E Crispim, Rebecca Earnest, Tulio de Oliveira, Giulia M. Ferreira, Randy Downing, Mallery I. Breban, Marie L. Landry, Eva Laszlo, Jessica Metti, Joel T. Dudley

Publikováno v: Vogels, Chantal B F; Breban, Mallery I; Ott, Isabel M; Alpert, Tara; Petrone, Mary E; Watkins, Anne E; Kalinich, Chaney C; Earnest, Rebecca; Rothman, Jessica E; Goes de Jesus, Jaqueline; Morales Claro, Ingra; Magalhães Ferreira, Giulia; Crispim, Myuki A E; Singh, Lavanya; Tegally, Houriiyah; Anyaneji, Ugochukwu J; Hodcroft, Emma B.; Mason, Christopher E; Khullar, Gaurav; Metti, Jessica; ... (2021). Multiplex qPCR discriminates variants of concern to enhance global surveillance of SARS-CoV-2. PLoS biology, 19(5), e3001236. Public Library of Science 10.1371/journal.pbio.3001236
medRxiv
article-version (status) pre
article-version (number) 2
PLoS Biology, Vol 19, Iss 5, p e3001236 (2021)

With the emergence of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) variants that may increase transmissibility and/or cause escape from immune responses, there is an urgent need for the targeted surveillance of circulating lineages. I

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a2d1ac59263cd70a6b85db8d62d4b7bf