The Arrival and Spread of SARS-CoV-2 in Colombia

Overview

Journal J Med Virol

Specialty Microbiology

Date 2020 Aug 8

PMID 32761908

Citations 25

Authors

Juan David Ramirez

Carolina Florez

Marina Munoz

Carolina Hernandez

Adriana Castillo

Sergio Gomez

Angelica Rico

Lisseth Pardo

Esther C Barros

Sergio Castaneda

Nathalia Ballesteros

David Martinez

Laura Vega

Jesus E Jaimes

Lissa Cruz-Saavedra

Giovanny Herrera

Luz H Patino

Anibal A Teheran

Ana S Gonzalez-Reiche

Matthew M Hernandez

Emilia Mia Sordillo

Viviana Simon

Harm van Bakel

Alberto Paniz-Mondolfi

Affiliations

Soon will be listed here.

Abstract

We performed phylogenomic analysis of severe acute respiratory syndrome coronavirus-2 from 88 infected individuals across different regions of Colombia. Eleven different lineages were detected, suggesting multiple introduction events. Pangolin lineages B.1 and B.1.5 were the most frequent, with B.1 being associated with prior travel to high-risk areas.

Citing Articles

Cognitive reserve, depressive symptoms, obesity, and change in employment status predict mental processing speed and executive function after COVID-19.

Ariza M, Bejar J, Barrue C, Cano N, Segura B, Cortes C Eur Arch Psychiatry Clin Neurosci. 2024; .

PMID: 38285245 DOI: 10.1007/s00406-023-01748-x.

Nucleocapsid single point-mutation associated with drop-out on RT-PCR assay for SARS-CoV-2 detection.

de Mello Malta F, Amgarten D, Marra A, Petroni R, Nali L, Siqueira R BMC Infect Dis. 2023; 23(1):714.

PMID: 37872472 PMC: 10591358. DOI: 10.1186/s12879-023-08707-w.

Coinfections and Superinfections Associated with COVID-19 in Colombia: A Narrative Review.

Duenas D, Daza J, Liscano Y Medicina (Kaunas). 2023; 59(7).

PMID: 37512147 PMC: 10385172. DOI: 10.3390/medicina59071336.

Genomic epidemiology of SARS-CoV-2 variants during the first two years of the pandemic in Colombia.

Jimenez-Silva C, Rivero R, Douglas J, Bouckaert R, Villabona-Arenas C, Atkins K Commun Med (Lond). 2023; 3(1):97.

PMID: 37443390 PMC: 10344885. DOI: 10.1038/s43856-023-00328-3.

COVID-19 severity is related to poor executive function in people with post-COVID conditions.

Ariza M, Cano N, Segura B, Adan A, Bargallo N, Caldu X J Neurol. 2023; 270(5):2392-2408.

PMID: 36939932 PMC: 10026205. DOI: 10.1007/s00415-023-11587-4.

References

Benvenuto D, Giovanetti M, Ciccozzi A, Spoto S, Angeletti S, Ciccozzi M . The 2019-new coronavirus epidemic: Evidence for virus evolution. J Med Virol. 2020; 92(4):455-459. PMC: 7166400. DOI: 10.1002/jmv.25688. View

Miller M, Loaiza J, Takyar A, Gilman R . COVID-19 in Latin America: Novel transmission dynamics for a global pandemic?. PLoS Negl Trop Dis. 2020; 14(5):e0008265. PMC: 7205198. DOI: 10.1371/journal.pntd.0008265. View

Corman V, Landt O, Kaiser M, Molenkamp R, Meijer A, Chu D . Detection of 2019 novel coronavirus (2019-nCoV) by real-time RT-PCR. Euro Surveill. 2020; 25(3). PMC: 6988269. DOI: 10.2807/1560-7917.ES.2020.25.3.2000045. View

Ramirez J, Florez C, Munoz M, Hernandez C, Castillo A, Gomez S . The arrival and spread of SARS-CoV-2 in Colombia. J Med Virol. 2020; 93(2):1158-1163. PMC: 7436700. DOI: 10.1002/jmv.26393. View

Baric R, Yount B, Hensley L, Peel S, Chen W . Episodic evolution mediates interspecies transfer of a murine coronavirus. J Virol. 1997; 71(3):1946-55. PMC: 191277. DOI: 10.1128/JVI.71.3.1946-1955.1997. View

Candido D, Claro I, de Jesus J, Souza W, Moreira F, Dellicour S . Evolution and epidemic spread of SARS-CoV-2 in Brazil. Science. 2020; 369(6508):1255-1260. PMC: 7402630. DOI: 10.1126/science.abd2161. View

Rodriguez-Morales A, Rodriguez-Morales A, Mendez C, Hernandez-Botero S . Tracing New Clinical Manifestations in Patients with COVID-19 in Chile and Its Potential Relationship with the SARS-CoV-2 Divergence. Curr Trop Med Rep. 2020; 7(3):75-78. PMC: 7165999. DOI: 10.1007/s40475-020-00205-2. View

Rodriguez-Morales A, Gallego V, Escalera-Antezana J, Mendez C, Zambrano L, Franco-Paredes C . COVID-19 in Latin America: The implications of the first confirmed case in Brazil. Travel Med Infect Dis. 2020; 35:101613. PMC: 7129040. DOI: 10.1016/j.tmaid.2020.101613. View

Okonechnikov K, Golosova O, Fursov M . Unipro UGENE: a unified bioinformatics toolkit. Bioinformatics. 2012; 28(8):1166-7. DOI: 10.1093/bioinformatics/bts091. View

10.

Korber B, Fischer W, Gnanakaran S, Yoon H, Theiler J, Abfalterer W . Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus. Cell. 2020; 182(4):812-827.e19. PMC: 7332439. DOI: 10.1016/j.cell.2020.06.043. View

11.

Gonzalez-Reiche A, Hernandez M, Sullivan M, Ciferri B, Alshammary H, Obla A . Introductions and early spread of SARS-CoV-2 in the New York City area. Science. 2020; 369(6501):297-301. PMC: 7259823. DOI: 10.1126/science.abc1917. View

12.

Rambaut A, Lam T, Carvalho L, Pybus O . Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen). Virus Evol. 2016; 2(1):vew007. PMC: 4989882. DOI: 10.1093/ve/vew007. View

13.

Katoh K, Rozewicki J, Yamada K . MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization. Brief Bioinform. 2017; 20(4):1160-1166. PMC: 6781576. DOI: 10.1093/bib/bbx108. View

14.

Rambaut A, Holmes E, OToole A, Hill V, McCrone J, Ruis C . A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology. Nat Microbiol. 2020; 5(11):1403-1407. PMC: 7610519. DOI: 10.1038/s41564-020-0770-5. View

15.

Chu H, Chan J, Yuen T, Shuai H, Yuan S, Wang Y . Comparative tropism, replication kinetics, and cell damage profiling of SARS-CoV-2 and SARS-CoV with implications for clinical manifestations, transmissibility, and laboratory studies of COVID-19: an observational study. Lancet Microbe. 2020; 1(1):e14-e23. PMC: 7173822. DOI: 10.1016/S2666-5247(20)30004-5. View

16.

Zhang X, Tan Y, Ling Y, Lu G, Liu F, Yi Z . Viral and host factors related to the clinical outcome of COVID-19. Nature. 2020; 583(7816):437-440. DOI: 10.1038/s41586-020-2355-0. View