Emergence and spread of two SARS-CoV-2 variants of interest in Nigeria

被引：16

作者：

Olawoye, Idowu. B. B. ^{[1
,2
]}

Oluniyi, Paul. E. E. ^{[1
,2
]}

Oguzie, Judith. U. U. ^{[1
,2
]}

Uwanibe, Jessica. N. N. ^{[1
,2
]}

Kayode, Tolulope. A. A. ^{[1
,2
]}

Olumade, Testimony. J. J. ^{[1
,2
]}

Ajogbasile, Fehintola. V. V. ^{[1
,2
]}

Parker, Edyth ^{[3
]}

Eromon, Philomena. E. E. ^{[2
]}

Abechi, Priscilla ^{[1
,2
]}

Sobajo, Tope. A. A. ^{[1
,2
]}

Ugwu, Chinedu. A. A. ^{[1
,2
]}

George, Uwem. E. E. ^{[1
,2
]}

Ayoade, Femi ^{[1
,2
]}

Akano, Kazeem ^{[1
,2
]}

Oyejide, Nicholas. E. E. ^{[2
]}

Nosamiefan, Iguosadolo ^{[2
]}

Fred-Akintunwa, Iyanuoluwa ^{[2
]}

Adedotun-Sulaiman, Kemi ^{[2
]}

Brimmo, Farida. B. B. ^{[2
]}

Adegboyega, Babatunde. B. B. ^{[2
]}

Philip, Courage ^{[2
]}

Adeleke, Richard. A. A. ^{[2
]}

Chukwu, Grace. C. C. ^{[2
]}

Ahmed, Muhammad. I. I. ^{[2
]}

Ope-Ewe, Oludayo. O. O. ^{[2
]}

Otitoola, Shobi. G. G. ^{[2
]}

Ogunsanya, Olusola. A. A. ^{[2
]}

Saibu, Mudasiru. F. F. ^{[2
]}

Sijuwola, Ayotunde. E. E. ^{[2
]}

Ezekiel, Grace. O. O. ^{[2
]}

John, Oluwagboadurami. G. G. ^{[1
,2
]}

Akin-John, Julie. O. O. ^{[1
,2
]}

Akinlo, Oluwasemilogo. O. O. ^{[2
]}

Fayemi, Olanrewaju. O. O. ^{[2
]}

Ipaye, Testimony. O. O. ^{[2
]}

Nwodo, Deborah. C. C. ^{[2
]}

Omoniyi, Abolade. E. E. ^{[2
]}

Omwanghe, Iyobosa. B. B. ^{[2
]}

Terkuma, Christabel. A. A. ^{[2
]}

Okolie, Johnson ^{[2
]}

Ayo-Ale, Olubukola ^{[2
]}

Ikponmwosa, Odia ^{[4
]}

Benevolence, Ebo ^{[4
]}

Naregose, Grace. O. O. ^{[4
]}

Patience, Akhilomen. E. E. ^{[4
]}

Blessing, Osiemi ^{[4
]}

Micheal, Airende ^{[4
]}

Jacqueline, Agbukor ^{[4
]}

Aiyepada, John. O. O. ^{[4
]}

机构：

[1] Redeemers Univ, Fac Nat Sci, Dept Biol Sci, Ede, Osun, Nigeria

[2] Redeemers Univ, African Ctr Excellence Genom Infect Dis ACEGID, Ede, Osun, Nigeria

[3] Scripps Res Inst, Dept Immunol & Microbiol, La Jolla, CA USA

[4] Irrua Specialist Teaching Hosp, Irrua, Edo, Nigeria

[5] Niger Delta Univ, Dept Med Lab Sci, Amassoma, Bayelsa, Nigeria

[6] Rivers State Univ, Teaching Hosp, Satellite Mol Lab, Port Harcourt, Rivers, Nigeria

[7] Nigerian Inst Med Res, Yaba, Lagos, Nigeria

[8] Univ Port Harcourt, Reg Ctr Biotechnol & Bioresources Res, Mol Lab, Port Harcourt, Rivers, Nigeria

[9] SPDC, Port Harcourt, Rivers, Nigeria

[10] SPDC, Clin Hlth, Port Harcourt, Rivers, Nigeria

[11] SPDC, Reg Community Hlth, Port Harcourt, Rivers, Nigeria

[12] SPDC, Occupat Hlth, Port Harcourt, Rivers, Nigeria

[13] Univ Uyo, Dept Med Microbiol & Parasitol, Uyo, Akwa Ibom, Nigeria

[14] Rivers State Univ, Port Harcourt, Rivers, Nigeria

[15] Minist Hlth, Dept Publ Hlth, Ilorin, Kwara, Nigeria

[16] Univ Maiduguri Teaching Hosp, WHO Polio Lab, Maiduguri, Borno, Nigeria

[17] Univ Maiduguri Teaching Hosp, Dept Immunol, Maiduguri, Nigeria

[18] Univ Maiduguri Teaching Hosp, Dept Community Med, Maiduguri, Borno, Nigeria

[19] Univ Ilorin, Coll Hlth Sci, Parasitol Fac Basic Clin Sci, Dept Med Microbiol, Kwara, Nigeria

[20] Nigeria Ctr Dis Control, Abuja, Nigeria

[21] Univ Ibadan, Coll Med, Med Microbiol & Parasitol Dept, Ibadan, Nigeria

[22] Univ Ibadan, Biorepository Clin Virol Lab, Ibadan, Nigeria

[23] Alex Ekwueme Fed Univ, Teaching Hosp, Virol Lab, Abakaliki, Ebonyi, Nigeria

[24] Alex Ekwueme Fed Univ, Teaching Hosp, Abakaliki, Nigeria

[25] Univ Toronto, Dept Med, Toronto, ON, Canada

[26] BlueDot, Toronto, ON, Canada

[27] Alex Ekwueme Fed Univ, Teaching Hosp, Internal Med Dept, Abakaliki, Nigeria

[28] Alex Ekwueme Fed Univ, Teaching Hosp, Haematol Dept, Abakaliki, Nigeria

[29] Fed Med Ctr, Owo, Ondo, Nigeria

[30] Minist Hlth, Osogbo, Osun, Nigeria

[31] Univ Maiduguri, Teaching Hosp, Dept Med Microbiol, Maiduguri, Borno, Nigeria

[32] Broad Inst Harvard & MIT, Cambridge, MA USA

[33] Univ Ilorin, Coll Hlth Sci, Fac Clin Sci, Dept Epidemiol & Community Hlth, Ilorin, Nigeria

[34] Harvard TH Chan Sch Publ Hlth, Dept Immunol & Infect Dis, Boston, MA 02115 USA

来源：

NATURE COMMUNICATIONS | 2023年 / 14卷 / 01期

基金：

英国惠康基金;

关键词：

B.1.1.7; LINEAGE; DYNAMICS;

D O I：

10.1038/s41467-023-36449-5

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Identifying the dissemination patterns and impacts of a virus of economic or health importance during a pandemic is crucial, as it informs the public on policies for containment in order to reduce the spread of the virus. In this study, we integrated genomic and travel data to investigate the emergence and spread of the SARS-CoV-2 B.1.1.318 and B.1.525 (Eta) variants of interest in Nigeria and the wider Africa region. By integrating travel data and phylogeographic reconstructions, we find that these two variants that arose during the second wave in Nigeria emerged from within Africa, with the B.1.525 from Nigeria, and then spread to other parts of the world. Data from this study show how regional connectivity of Nigeria drove the spread of these variants of interest to surrounding countries and those connected by air-traffic. Our findings demonstrate the power of genomic analysis when combined with mobility and epidemiological data to identify the drivers of transmission, as bidirectional transmission within and between African nations are grossly underestimated as seen in our import risk index estimates. Data on geographically restricted SARS-CoV-2 variants is lacking in some regions. In this nationwide effort including 18 public health labs, the authors used genomic epidemiology and travel data to understand the origin and spread of 2 variants of interest that predominated during the second wave of the pandemic in Nigeria.

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