Our official English website, www.x-mol.net, welcomes your feedback! (Note: you will need to create a separate account there.)
A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa
Science ( IF 56.9 ) Pub Date : 2021-09-09 , DOI: 10.1126/science.abj4336 Eduan Wilkinson 1, 2 , Marta Giovanetti 3, 4 , Houriiyah Tegally 1 , James E San 1 , Richard Lessells 1 , Diego Cuadros 5 , Darren P Martin 6, 7 , David A Rasmussen 8, 9 , Abdel-Rahman N Zekri 10 , Abdoul K Sangare 11 , Abdoul-Salam Ouedraogo 12 , Abdul K Sesay 13 , Abechi Priscilla 14 , Adedotun-Sulaiman Kemi 14 , Adewunmi M Olubusuyi 15 , Adeyemi O O Oluwapelumi 16 , Adnène Hammami 17 , Adrienne A Amuri 18, 19 , Ahmad Sayed 20 , Ahmed E O Ouma 21 , Aida Elargoubi 22, 23 , Nnennaya A Ajayi 24 , Ajogbasile F Victoria 14 , Akano Kazeem 14 , Akpede George 25 , Alexander J Trotter 26 , Ali A Yahaya 27 , Alpha K Keita 28, 29 , Amadou Diallo 30 , Amadou Kone 31 , Amal Souissi 32 , Amel Chtourou 17 , Ana V Gutierrez 26 , Andrew J Page 26 , Anika Vinze 33 , Arash Iranzadeh 6, 7 , Arnold Lambisia 34 , Arshad Ismail 35 , Audu Rosemary 36 , Augustina Sylverken 37 , Ayoade Femi 14 , Azeddine Ibrahimi 38 , Baba Marycelin 39 , Bamidele S Oderinde 39 , Bankole Bolajoko 14 , Beatrice Dhaala 40 , Belinda L Herring 27 , Berthe-Marie Njanpop-Lafourcade 27 , Bronwyn Kleinhans 41 , Bronwyn McInnis 10 , Bryan Tegomoh 42 , Cara Brook 43, 44 , Catherine B Pratt 45 , Cathrine Scheepers 35, 46 , Chantal G Akoua-Koffi 47 , Charles N Agoti 34, 48 , Christophe Peyrefitte 30 , Claudia Daubenberger 49 , Collins M Morang'a 50 , D James Nokes 34, 51 , Daniel G Amoako 35 , Daniel L Bugembe 40 , Danny Park 33 , David Baker 26 , Deelan Doolabh 7 , Deogratius Ssemwanga 40, 52 , Derek Tshiabuila 1 , Diarra Bassirou 30 , Dominic S Y Amuzu 50 , Dominique Goedhals 53 , Donwilliams O Omuoyo 34 , Dorcas Maruapula 54 , Ebenezer Foster-Nyarko 26 , Eddy K Lusamaki 18, 19 , Edgar Simulundu 55 , Edidah M Ong'era 34 , Edith N Ngabana 18, 19 , Edwin Shumba 56 , Elmostafa El Fahime 57 , Emmanuel Lokilo 18 , Enatha Mukantwari 58 , Eromon Philomena 14 , Essia Belarbi 59 , Etienne Simon-Loriere 60 , Etilé A Anoh 47 , Fabian Leendertz 59 , Faida Ajili 61 , Fakayode O Enoch 62 , Fares Wasfi 63 , Fatma Abdelmoula 32, 64 , Fausta S Mosha 27 , Faustinos T Takawira 65 , Fawzi Derrar 66 , Feriel Bouzid 32 , Folarin Onikepe 14 , Fowotade Adeola 67 , Francisca M Muyembe 18, 19 , Frank Tanser 68, 69, 70 , Fred A Dratibi 27 , Gabriel K Mbunsu 19 , Gaetan Thilliez 26 , Gemma L Kay 26 , George Githinji 34, 71 , Gert van Zyl 41, 72 , Gordon A Awandare 50 , Grit Schubert 59 , Gugu P Maphalala 73 , Hafaliana C Ranaivoson 44 , Hajar Lemriss 74 , Happi Anise 14 , Haruka Abe 75 , Hela H Karray 17 , Hellen Nansumba 76 , Hesham A Elgahzaly 77 , Hlanai Gumbo 65 , Ibtihel Smeti 32 , Ikhlas B Ayed 32 , Ikponmwosa Odia 25 , Ilhem Boutiba Ben Boubaker 78, 79 , Imed Gaaloul 22 , Inbal Gazy 80 , Innocent Mudau 7 , Isaac Ssewanyana 76 , Iyaloo Konstantinus 81 , Jean B Lekana-Douk 82 , Jean-Claude C Makangara 18, 19 , Jean-Jacques M Tamfum 18, 19 , Jean-Michel Heraud 30, 44 , Jeffrey G Shaffer 83 , Jennifer Giandhari 1 , Jingjing Li 84 , Jiro Yasuda 75 , Joana Q Mends 85 , Jocelyn Kiconco 52 , John M Morobe 34 , John O Gyapong 85 , Johnson C Okolie 14 , John T Kayiwa 40 , Johnathan A Edwards 68, 86 , Jones Gyamfi 85 , Jouali Farah 87 , Joweria Nakaseegu 52 , Joyce M Ngoi 50 , Joyce Namulondo 52 , Julia C Andeko 82 , Julius J Lutwama 40 , Justin O'Grady 26 , Katherine Siddle 33 , Kayode T Adeyemi 14 , Kefentse A Tumedi 88 , Khadija M Said 34 , Kim Hae-Young 89 , Kwabena O Duedu 85 , Lahcen Belyamani 38 , Lamia Fki-Berrajah 17 , Lavanya Singh 1 , Leonardo de O Martins 26 , Lynn Tyers 7 , Magalutcheemee Ramuth 90 , Maha Mastouri 22, 23 , Mahjoub Aouni 22 , Mahmoud El Hefnawi 91 , Maitshwarelo I Matsheka 88 , Malebogo Kebabonye 92 , Mamadou Diop 30 , Manel Turki 32 , Marietou Paye 33 , Martin M Nyaga 93 , Mathabo Mareka 94 , Matoke-Muhia Damaris 95 , Maureen W Mburu 34 , Maximillian Mpina 49, 96, 97 , Mba Nwando 98 , Michael Owusu 99 , Michael R Wiley 45 , Mirabeau T Youtchou 100 , Mitoha O Ayekaba 96 , Mohamed Abouelhoda 101, 102 , Mohamed G Seadawy 103 , Mohamed K Khalifa 20 , Mooko Sekhele 94 , Mouna Ouadghiri 38 , Moussa M Diagne 30 , Mulenga Mwenda 104 , Mushal Allam 35 , My V T Phan 40 , Nabil Abid 79, 105 , Nadia Touil 106 , Nadine Rujeni 107, 108 , Najla Kharrat 32 , Nalia Ismael 109 , Ndongo Dia 30 , Nedio Mabunda 109 , Nei-Yuan Hsiao 7, 110 , Nelson B Silochi 96 , Ngoy Nsenga 27 , Nicksy Gumede 27 , Nicola Mulder 111 , Nnaemeka Ndodo 98 , Norosoa H Razanajatovo 44 , Nosamiefan Iguosadolo 14 , Oguzie Judith 14 , Ojide C Kingsley 112 , Okogbenin Sylvanus 25 , Okokhere Peter 25 , Oladiji Femi 113 , Olawoye Idowu 14 , Olumade Testimony 14 , Omoruyi E Chukwuma 67 , Onwe E Ogah 114 , Chika K Onwuamah 36, 115 , Oshomah Cyril 25 , Ousmane Faye 30 , Oyewale Tomori 14 , Pascale Ondoa 56 , Patrice Combe 116 , Patrick Semanda 76 , Paul E Oluniyi 14 , Paulo Arnaldo 109 , Peter K Quashie 50 , Philippe Dussart 44 , Phillip A Bester 53 , Placide K Mbala 18, 19 , Reuben Ayivor-Djanie 85 , Richard Njouom 117 , Richard O Phillips 118 , Richmond Gorman 118 , Robert A Kingsley 26 , Rosina A A Carr 85 , Saâd El Kabbaj 119 , Saba Gargouri 17 , Saber Masmoudi 32 , Safietou Sankhe 30 , Salako B Lawal 36 , Samar Kassim 77 , Sameh Trabelsi 120 , Samar Metha 33 , Sami Kammoun 121 , Sanaâ Lemriss 119 , Sara H A Agwa 77 , Sébastien Calvignac-Spencer 59 , Stephen F Schaffner 33 , Seydou Doumbia 31 , Sheila M Mandanda 18, 19 , Sherihane Aryeetey 122 , Shymaa S Ahmed 122 , Siham Elhamoumi 33 , Soafy Andriamandimby 44 , Sobajo Tope 14 , Sonia Lekana-Douki 82 , Sophie Prosolek 26 , Soumeya Ouangraoua 123, 124 , Steve A Mundeke 18, 19 , Steven Rudder 26 , Sumir Panji 111 , Sureshnee Pillay 1 , Susan Engelbrecht 41, 72 , Susan Nabadda 76 , Sylvie Behillil 125 , Sylvie L Budiaki 94 , Sylvie van der Werf 125 , Tapfumanei Mashe 65 , Tarik Aanniz 38 , Thabo Mohale 35 , Thanh Le-Viet 26 , Tobias Schindler 49, 96 , Ugochukwu J Anyaneji 1 , Ugwu Chinedu 14 , Upasana Ramphal 1, 69, 126 , Uwanibe Jessica 14 , Uwem George 14 , Vagner Fonseca 1, 4, 127 , Vincent Enouf 125 , Vivianne Gorova 128, 129 , Wael H Roshdy 122 , William K Ampofo 50 , Wolfgang Preiser 41, 72 , Wonderful T Choga 54, 130 , Yaw Bediako 50 , Yeshnee Naidoo 1 , Yvan Butera 107, 131, 132 , Zaydah R de Laurent 34 , Amadou A Sall 30 , Ahmed Rebai 32 , Anne von Gottberg 35, 133 , Bourema Kouriba 12 , Carolyn Williamson 7, 69, 110 , Daniel J Bridges 104 , Ihekweazu Chikwe 98 , Jinal N Bhiman 35, 133 , Madisa Mine 134 , Matthew Cotten 40, 135 , Sikhulile Moyo 54, 136 , Simani Gaseitsiwe 54, 136 , Ngonda Saasa 55 , Pardis C Sabeti 33 , Pontiano Kaleebu 40 , Yenew K Tebeje 21 , Sofonias K Tessema 21 , Christian Happi 14 , John Nkengasong 21 , Tulio de Oliveira 1, 2, 69, 137
Science ( IF 56.9 ) Pub Date : 2021-09-09 , DOI: 10.1126/science.abj4336 Eduan Wilkinson 1, 2 , Marta Giovanetti 3, 4 , Houriiyah Tegally 1 , James E San 1 , Richard Lessells 1 , Diego Cuadros 5 , Darren P Martin 6, 7 , David A Rasmussen 8, 9 , Abdel-Rahman N Zekri 10 , Abdoul K Sangare 11 , Abdoul-Salam Ouedraogo 12 , Abdul K Sesay 13 , Abechi Priscilla 14 , Adedotun-Sulaiman Kemi 14 , Adewunmi M Olubusuyi 15 , Adeyemi O O Oluwapelumi 16 , Adnène Hammami 17 , Adrienne A Amuri 18, 19 , Ahmad Sayed 20 , Ahmed E O Ouma 21 , Aida Elargoubi 22, 23 , Nnennaya A Ajayi 24 , Ajogbasile F Victoria 14 , Akano Kazeem 14 , Akpede George 25 , Alexander J Trotter 26 , Ali A Yahaya 27 , Alpha K Keita 28, 29 , Amadou Diallo 30 , Amadou Kone 31 , Amal Souissi 32 , Amel Chtourou 17 , Ana V Gutierrez 26 , Andrew J Page 26 , Anika Vinze 33 , Arash Iranzadeh 6, 7 , Arnold Lambisia 34 , Arshad Ismail 35 , Audu Rosemary 36 , Augustina Sylverken 37 , Ayoade Femi 14 , Azeddine Ibrahimi 38 , Baba Marycelin 39 , Bamidele S Oderinde 39 , Bankole Bolajoko 14 , Beatrice Dhaala 40 , Belinda L Herring 27 , Berthe-Marie Njanpop-Lafourcade 27 , Bronwyn Kleinhans 41 , Bronwyn McInnis 10 , Bryan Tegomoh 42 , Cara Brook 43, 44 , Catherine B Pratt 45 , Cathrine Scheepers 35, 46 , Chantal G Akoua-Koffi 47 , Charles N Agoti 34, 48 , Christophe Peyrefitte 30 , Claudia Daubenberger 49 , Collins M Morang'a 50 , D James Nokes 34, 51 , Daniel G Amoako 35 , Daniel L Bugembe 40 , Danny Park 33 , David Baker 26 , Deelan Doolabh 7 , Deogratius Ssemwanga 40, 52 , Derek Tshiabuila 1 , Diarra Bassirou 30 , Dominic S Y Amuzu 50 , Dominique Goedhals 53 , Donwilliams O Omuoyo 34 , Dorcas Maruapula 54 , Ebenezer Foster-Nyarko 26 , Eddy K Lusamaki 18, 19 , Edgar Simulundu 55 , Edidah M Ong'era 34 , Edith N Ngabana 18, 19 , Edwin Shumba 56 , Elmostafa El Fahime 57 , Emmanuel Lokilo 18 , Enatha Mukantwari 58 , Eromon Philomena 14 , Essia Belarbi 59 , Etienne Simon-Loriere 60 , Etilé A Anoh 47 , Fabian Leendertz 59 , Faida Ajili 61 , Fakayode O Enoch 62 , Fares Wasfi 63 , Fatma Abdelmoula 32, 64 , Fausta S Mosha 27 , Faustinos T Takawira 65 , Fawzi Derrar 66 , Feriel Bouzid 32 , Folarin Onikepe 14 , Fowotade Adeola 67 , Francisca M Muyembe 18, 19 , Frank Tanser 68, 69, 70 , Fred A Dratibi 27 , Gabriel K Mbunsu 19 , Gaetan Thilliez 26 , Gemma L Kay 26 , George Githinji 34, 71 , Gert van Zyl 41, 72 , Gordon A Awandare 50 , Grit Schubert 59 , Gugu P Maphalala 73 , Hafaliana C Ranaivoson 44 , Hajar Lemriss 74 , Happi Anise 14 , Haruka Abe 75 , Hela H Karray 17 , Hellen Nansumba 76 , Hesham A Elgahzaly 77 , Hlanai Gumbo 65 , Ibtihel Smeti 32 , Ikhlas B Ayed 32 , Ikponmwosa Odia 25 , Ilhem Boutiba Ben Boubaker 78, 79 , Imed Gaaloul 22 , Inbal Gazy 80 , Innocent Mudau 7 , Isaac Ssewanyana 76 , Iyaloo Konstantinus 81 , Jean B Lekana-Douk 82 , Jean-Claude C Makangara 18, 19 , Jean-Jacques M Tamfum 18, 19 , Jean-Michel Heraud 30, 44 , Jeffrey G Shaffer 83 , Jennifer Giandhari 1 , Jingjing Li 84 , Jiro Yasuda 75 , Joana Q Mends 85 , Jocelyn Kiconco 52 , John M Morobe 34 , John O Gyapong 85 , Johnson C Okolie 14 , John T Kayiwa 40 , Johnathan A Edwards 68, 86 , Jones Gyamfi 85 , Jouali Farah 87 , Joweria Nakaseegu 52 , Joyce M Ngoi 50 , Joyce Namulondo 52 , Julia C Andeko 82 , Julius J Lutwama 40 , Justin O'Grady 26 , Katherine Siddle 33 , Kayode T Adeyemi 14 , Kefentse A Tumedi 88 , Khadija M Said 34 , Kim Hae-Young 89 , Kwabena O Duedu 85 , Lahcen Belyamani 38 , Lamia Fki-Berrajah 17 , Lavanya Singh 1 , Leonardo de O Martins 26 , Lynn Tyers 7 , Magalutcheemee Ramuth 90 , Maha Mastouri 22, 23 , Mahjoub Aouni 22 , Mahmoud El Hefnawi 91 , Maitshwarelo I Matsheka 88 , Malebogo Kebabonye 92 , Mamadou Diop 30 , Manel Turki 32 , Marietou Paye 33 , Martin M Nyaga 93 , Mathabo Mareka 94 , Matoke-Muhia Damaris 95 , Maureen W Mburu 34 , Maximillian Mpina 49, 96, 97 , Mba Nwando 98 , Michael Owusu 99 , Michael R Wiley 45 , Mirabeau T Youtchou 100 , Mitoha O Ayekaba 96 , Mohamed Abouelhoda 101, 102 , Mohamed G Seadawy 103 , Mohamed K Khalifa 20 , Mooko Sekhele 94 , Mouna Ouadghiri 38 , Moussa M Diagne 30 , Mulenga Mwenda 104 , Mushal Allam 35 , My V T Phan 40 , Nabil Abid 79, 105 , Nadia Touil 106 , Nadine Rujeni 107, 108 , Najla Kharrat 32 , Nalia Ismael 109 , Ndongo Dia 30 , Nedio Mabunda 109 , Nei-Yuan Hsiao 7, 110 , Nelson B Silochi 96 , Ngoy Nsenga 27 , Nicksy Gumede 27 , Nicola Mulder 111 , Nnaemeka Ndodo 98 , Norosoa H Razanajatovo 44 , Nosamiefan Iguosadolo 14 , Oguzie Judith 14 , Ojide C Kingsley 112 , Okogbenin Sylvanus 25 , Okokhere Peter 25 , Oladiji Femi 113 , Olawoye Idowu 14 , Olumade Testimony 14 , Omoruyi E Chukwuma 67 , Onwe E Ogah 114 , Chika K Onwuamah 36, 115 , Oshomah Cyril 25 , Ousmane Faye 30 , Oyewale Tomori 14 , Pascale Ondoa 56 , Patrice Combe 116 , Patrick Semanda 76 , Paul E Oluniyi 14 , Paulo Arnaldo 109 , Peter K Quashie 50 , Philippe Dussart 44 , Phillip A Bester 53 , Placide K Mbala 18, 19 , Reuben Ayivor-Djanie 85 , Richard Njouom 117 , Richard O Phillips 118 , Richmond Gorman 118 , Robert A Kingsley 26 , Rosina A A Carr 85 , Saâd El Kabbaj 119 , Saba Gargouri 17 , Saber Masmoudi 32 , Safietou Sankhe 30 , Salako B Lawal 36 , Samar Kassim 77 , Sameh Trabelsi 120 , Samar Metha 33 , Sami Kammoun 121 , Sanaâ Lemriss 119 , Sara H A Agwa 77 , Sébastien Calvignac-Spencer 59 , Stephen F Schaffner 33 , Seydou Doumbia 31 , Sheila M Mandanda 18, 19 , Sherihane Aryeetey 122 , Shymaa S Ahmed 122 , Siham Elhamoumi 33 , Soafy Andriamandimby 44 , Sobajo Tope 14 , Sonia Lekana-Douki 82 , Sophie Prosolek 26 , Soumeya Ouangraoua 123, 124 , Steve A Mundeke 18, 19 , Steven Rudder 26 , Sumir Panji 111 , Sureshnee Pillay 1 , Susan Engelbrecht 41, 72 , Susan Nabadda 76 , Sylvie Behillil 125 , Sylvie L Budiaki 94 , Sylvie van der Werf 125 , Tapfumanei Mashe 65 , Tarik Aanniz 38 , Thabo Mohale 35 , Thanh Le-Viet 26 , Tobias Schindler 49, 96 , Ugochukwu J Anyaneji 1 , Ugwu Chinedu 14 , Upasana Ramphal 1, 69, 126 , Uwanibe Jessica 14 , Uwem George 14 , Vagner Fonseca 1, 4, 127 , Vincent Enouf 125 , Vivianne Gorova 128, 129 , Wael H Roshdy 122 , William K Ampofo 50 , Wolfgang Preiser 41, 72 , Wonderful T Choga 54, 130 , Yaw Bediako 50 , Yeshnee Naidoo 1 , Yvan Butera 107, 131, 132 , Zaydah R de Laurent 34 , Amadou A Sall 30 , Ahmed Rebai 32 , Anne von Gottberg 35, 133 , Bourema Kouriba 12 , Carolyn Williamson 7, 69, 110 , Daniel J Bridges 104 , Ihekweazu Chikwe 98 , Jinal N Bhiman 35, 133 , Madisa Mine 134 , Matthew Cotten 40, 135 , Sikhulile Moyo 54, 136 , Simani Gaseitsiwe 54, 136 , Ngonda Saasa 55 , Pardis C Sabeti 33 , Pontiano Kaleebu 40 , Yenew K Tebeje 21 , Sofonias K Tessema 21 , Christian Happi 14 , John Nkengasong 21 , Tulio de Oliveira 1, 2, 69, 137
Affiliation
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 territories. We show that the epidemics in most countries were initiated by importations predominantly from Europe, which diminished following the early introduction of international travel restrictions. As the pandemic progressed, ongoing transmission in many countries and increasing mobility led to the emergence and spread within the continent of many variants of concern and interest, such as B.1.351, B.1.525, A.23.1 and C.1.1. Although distorted by low sampling numbers and blind spots, the findings highlight that Africa must not be left behind in the global pandemic response, otherwise it could become a source for new variants.
中文翻译：
一年的基因组监测揭示了 SARS-CoV-2 大流行如何在非洲展开
迄今为止，非洲 SARS-CoV-2 大流行的进展情况各不相同，其全面影响尚未得到充分了解。在这里，我们使用来自 33 个非洲国家和两个海外领土的 8746 个基因组的数据集描述了基因组流行病学。我们表明，大多数国家的流行病都是由主要来自欧洲的输入引发的，随着国际旅行限制的早期实施，这种输入有所减少。随着疫情的发展，许多国家的持续传播和流动性的增加导致许多令人关注和感兴趣的变种在非洲大陆出现和传播，例如 B.1.351、B.1.525、A.23.1 和 C.1.1。尽管因采样数量低和盲点而被扭曲，但研究结果强调，非洲在全球大流行应对中决不能落后，否则它可能成为新变种的来源。
更新日期：2021-09-10
中文翻译：
一年的基因组监测揭示了 SARS-CoV-2 大流行如何在非洲展开
迄今为止，非洲 SARS-CoV-2 大流行的进展情况各不相同，其全面影响尚未得到充分了解。在这里，我们使用来自 33 个非洲国家和两个海外领土的 8746 个基因组的数据集描述了基因组流行病学。我们表明，大多数国家的流行病都是由主要来自欧洲的输入引发的，随着国际旅行限制的早期实施，这种输入有所减少。随着疫情的发展，许多国家的持续传播和流动性的增加导致许多令人关注和感兴趣的变种在非洲大陆出现和传播，例如 B.1.351、B.1.525、A.23.1 和 C.1.1。尽管因采样数量低和盲点而被扭曲，但研究结果强调，非洲在全球大流行应对中决不能落后，否则它可能成为新变种的来源。
京公网安备 11010802027423号